sallet_3.scaffold.fasta.s59.2.7.7.80.10.50.500.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: scaffold36
Parameters: 2 7 7 80 10 50 500
Length:  449455

Tables:   1   2   3   

This is table  1  of  3  ( 336 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15792--15827	17	2.1	17	90	10	56	8	13	27	50	1.71
24580--24626	19	2.5	19	96	0	85	38	8	46	6	1.60
28143--28183	12	3.6	11	87	12	57	21	17	34	26	1.95
28143--28176	10	3.2	10	91	8	50	23	17	32	26	1.97
43786--43822	16	2.3	16	100	0	74	32	5	40	21	1.76
53134--53207	27	2.9	27	84	6	82	8	12	51	28	1.67
53152--53207	24	2.3	24	90	0	85	7	12	50	30	1.67
53200--53438	42	5.7	42	84	0	307	14	21	34	29	1.93
53188--53447	84	3.1	84	89	0	349	15	21	34	28	1.94
53200--53441	126	1.9	126	86	0	340	14	21	34	29	1.93
53647--53780	27	5.0	27	78	0	115	14	15	41	29	1.86
53653--53780	54	2.4	54	90	0	202	14	16	39	28	1.88
53948--54040	15	5.8	15	71	11	60	16	16	43	24	1.87
53980--54040	18	3.6	18	78	13	74	19	13	40	26	1.88
53950--54047	33	3.1	33	86	4	139	17	15	42	24	1.87
53968--54050	18	4.9	18	74	12	70	18	15	42	24	1.89
54032--54083	24	2.2	24	85	0	68	17	17	38	26	1.92
54128--54219	15	5.8	14	69	23	58	18	21	34	25	1.96
54121--54236	33	3.5	33	91	0	178	20	19	35	24	1.96
54124--54239	18	7.0	17	67	24	70	19	20	35	24	1.96
54129--54257	33	3.8	35	79	14	130	17	21	35	24	1.95
54118--54258	66	2.1	65	82	7	169	18	20	36	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54300--54388	33	2.7	33	87	0	133	15	23	38	22	1.93
54370--54491	27	4.5	26	74	6	82	18	16	42	22	1.89
54444--54623	27	6.7	27	91	0	234	16	15	40	27	1.88
54390--54623	54	4.3	53	84	3	227	17	14	41	26	1.88
54391--54623	81	2.9	81	79	1	216	18	14	40	26	1.89
54481--54640	27	5.9	27	93	0	230	17	13	41	28	1.87
58046--58084	11	3.3	12	82	17	55	15	0	56	28	1.40
61087--61140	20	2.8	20	74	2	56	25	18	37	18	1.94
63829--63858	15	2.0	15	100	0	60	33	20	26	20	1.97
64131--64156	13	2.0	13	100	0	52	23	23	7	46	1.78
64224--64292	23	3.0	23	78	0	75	23	39	14	23	1.91
65979--66008	14	2.1	14	93	0	51	30	36	16	16	1.91
68252--68284	13	2.5	13	100	0	66	15	21	39	24	1.91
68559--68615	18	3.2	18	74	0	60	19	24	28	28	1.98
70260--70292	12	2.8	12	100	0	66	33	27	33	6	1.81
72226--72289	30	2.1	30	88	0	92	35	1	50	12	1.50
77032--77078	22	2.1	22	84	0	58	21	17	27	34	1.95
77062--77105	19	2.3	19	92	0	70	15	20	27	36	1.93
77075--77116	19	2.2	19	87	8	59	19	19	26	35	1.95
77846--77896	8	6.0	8	86	13	75	25	0	47	27	1.53
77847--77911	19	3.6	18	86	10	80	30	0	41	27	1.56
81752--81832	22	3.6	23	89	1	112	29	3	46	19	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
81971--82113	46	3.1	46	63	16	107	25	9	31	33	1.88
82570--82617	24	2.0	24	92	4	80	6	50	18	25	1.70
82960--83008	10	4.9	10	89	0	80	40	46	0	12	1.41
85867--85897	15	2.1	15	100	0	62	12	25	41	19	1.87
87602--87642	15	2.7	15	96	0	73	24	46	24	4	1.72
87764--87824	16	3.9	16	85	6	81	0	45	14	39	1.45
88597--88633	18	2.1	18	94	0	65	18	54	27	0	1.44
91867--91916	13	3.8	13	89	2	64	34	14	40	12	1.82
92682--92740	31	1.9	31	82	6	75	16	22	16	44	1.87
93008--93045	14	2.6	15	83	4	51	15	44	7	31	1.75
94040--94081	11	3.8	11	96	0	75	28	38	9	23	1.86
94078--94112	13	2.7	13	100	0	70	31	40	20	8	1.82
94138--94182	20	2.4	18	79	13	54	28	46	0	24	1.53
94146--94218	20	3.7	20	78	7	85	23	47	1	27	1.59
94354--94400	13	3.6	13	86	11	53	10	53	4	31	1.55
94354--94409	14	4.2	14	86	8	73	8	51	5	33	1.56
94357--94409	27	2.0	25	85	7	70	9	50	5	33	1.58
94429--94463	18	1.9	18	88	11	54	0	71	0	28	0.86
94724--94756	8	4.0	8	96	4	57	36	60	0	3	1.12
95444--95484	12	3.4	12	93	0	73	24	39	29	7	1.82
95953--95993	12	3.4	12	93	0	64	29	31	26	12	1.92
96076--96105	9	3.3	9	90	0	51	23	53	20	3	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96180--96215	12	3.0	12	100	0	72	33	50	16	0	1.46
96457--96504	6	8.0	6	95	0	69	16	43	33	6	1.73
96458--96530	12	6.1	12	82	6	85	19	39	30	10	1.86
96457--96508	18	2.9	18	88	0	77	17	42	32	7	1.77
96585--96663	18	4.2	18	85	4	104	26	44	21	7	1.79
96690--96734	9	5.0	9	84	10	65	0	31	33	35	1.58
97576--97617	12	3.5	12	83	0	57	35	35	21	7	1.81
97707--97750	15	2.9	15	89	0	70	2	43	27	27	1.67
97803--97828	12	2.2	12	100	0	52	23	69	0	7	1.14
100605--100632	13	2.2	13	100	0	56	14	0	57	28	1.38
100629--100660	9	3.6	9	100	0	64	9	0	65	25	1.22
100695--100741	14	3.1	15	83	16	62	17	0	53	29	1.44
100694--100731	17	2.2	17	90	9	60	13	0	57	28	1.36
100712--100746	14	2.5	14	95	0	61	17	0	48	34	1.47
101128--101172	11	4.5	11	76	21	53	24	55	2	17	1.53
101525--101549	13	1.9	13	100	0	50	24	28	32	16	1.96
101555--101621	34	1.9	35	90	3	109	41	5	29	22	1.77
104313--104353	14	2.9	14	100	0	82	29	7	34	29	1.84
105483--105537	16	3.2	18	80	14	55	38	5	54	1	1.34
105494--105537	17	2.5	17	85	7	52	38	4	54	2	1.33
105494--105547	18	3.1	17	83	5	54	37	5	53	3	1.42
106674--106714	11	3.8	11	87	12	59	17	63	2	17	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106710--106734	10	2.5	10	100	0	50	20	64	0	16	1.30
108822--108846	12	2.1	12	100	0	50	52	16	8	24	1.70
110163--110197	11	3.1	11	91	4	52	51	8	28	11	1.67
110659--110689	12	2.6	12	100	0	62	38	61	0	0	0.96
111340--111382	12	3.6	12	87	9	61	53	18	18	9	1.70
111335--111394	24	2.7	21	79	20	68	51	21	18	8	1.72
113801--113832	15	2.1	15	100	0	64	40	6	28	25	1.79
113951--114035	12	7.5	12	81	9	99	16	2	50	30	1.58
113976--114027	21	2.5	21	93	0	86	15	1	51	30	1.54
114041--114143	23	4.5	23	82	2	127	26	8	42	22	1.82
114045--114143	45	2.2	46	81	1	119	25	9	43	22	1.82
114231--114266	11	3.3	11	96	0	63	22	30	25	22	1.99
118955--119002	14	3.6	14	83	11	73	16	12	33	37	1.86
119530--119577	16	3.1	16	74	17	55	8	50	0	41	1.33
120448--120495	23	2.1	23	92	0	78	14	0	45	39	1.45
125224--125250	12	2.2	12	100	0	54	18	7	74	0	1.05
125419--125445	10	2.7	10	100	0	54	25	0	62	11	1.28
127981--128061	8	10.1	8	84	5	110	39	22	0	38	1.54
128154--128225	22	3.3	22	86	5	92	31	45	5	16	1.70
130141--130175	13	2.7	13	95	0	61	34	0	42	22	1.54
130362--130422	18	3.4	18	73	13	63	21	13	40	24	1.88
130557--130605	17	2.9	17	93	0	89	18	40	12	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
130623--130658	10	3.6	10	96	0	63	8	33	22	36	1.84
131636--131681	15	2.8	17	80	12	69	19	39	0	41	1.52
131643--131693	13	3.8	13	76	19	50	11	43	0	45	1.40
133401--133506	44	2.4	43	75	10	115	13	17	26	42	1.86
136357--136418	15	4.2	15	82	8	56	3	9	54	32	1.49
136375--136420	15	3.0	15	81	15	58	4	6	52	36	1.47
137005--137036	15	2.1	15	100	0	64	18	25	43	12	1.85
138319--138384	22	3.0	22	75	14	73	21	53	7	18	1.69
138570--138637	24	2.8	24	86	0	91	17	33	22	26	1.96
138596--138636	12	3.4	12	86	0	55	17	34	21	26	1.95

Tables:   1   2   3