genome.fa.s170.2.7.7.80.10.50.1000.8.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: Scaffold170
Parameters: 2 7 7 80 10 50 1000
Length:  1632119

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1308 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)
1169068--1169102	2	17.5	2	100	0	70	51	0	0	48	1.00
1169780--1169838	15	3.8	16	70	18	52	54	1	0	44	1.10
1171638--1171686	23	2.1	23	85	14	66	44	2	0	53	1.12
1172285--1172316	2	16.0	2	100	0	64	50	0	0	50	1.00
1173417--1173455	15	2.4	16	87	8	53	38	0	0	61	0.96
1173417--1173463	16	2.9	17	75	12	53	44	0	0	55	0.99
1174091--1174131	13	3.3	13	76	13	50	58	0	0	41	0.98
1174463--1174589	29	4.7	28	70	15	97	40	0	2	56	1.12
1174466--1174553	18	4.7	20	72	13	62	39	0	1	59	1.05
1174533--1174594	32	1.9	33	93	3	108	40	1	3	54	1.26
1174603--1174659	24	2.4	24	76	8	62	33	1	1	63	1.15
1174857--1174888	16	2.0	16	93	0	55	46	0	0	53	1.00
1174929--1174981	21	2.5	21	84	9	72	35	0	0	64	0.94
1174936--1174989	26	2.1	26	82	6	65	37	0	0	62	0.95
1177316--1177341	2	13.0	2	100	0	52	0	50	0	50	1.00
1178952--1178985	18	1.9	17	94	5	59	47	0	2	50	1.16
1179117--1179170	21	2.6	20	81	16	65	37	0	1	61	1.07
1179984--1180015	6	4.9	7	92	7	50	46	0	0	53	1.00
1180061--1180101	18	2.2	20	78	13	50	39	0	0	60	0.96
1180232--1180346	2	58.0	2	77	11	96	49	3	5	41	1.42
1180221--1180276	27	2.1	26	93	3	94	46	5	10	37	1.62
1180232--1180328	41	2.3	42	94	3	178	49	4	6	40	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180239--1180310	23	3.3	23	72	18	82	50	5	8	36	1.56
1181695--1181786	43	2.4	37	76	20	89	50	0	0	50	1.00
1181775--1181799	10	2.5	10	100	0	50	48	0	0	52	1.00
1181764--1181818	28	1.9	28	82	10	67	56	0	0	43	0.99
1181883--1181923	22	1.9	22	90	5	66	51	19	0	29	1.47
1182089--1182132	18	2.5	17	82	10	52	56	0	2	40	1.11
1182063--1182155	38	2.5	37	75	14	93	50	0	2	47	1.13
1182279--1182336	15	3.6	16	80	17	59	65	1	1	31	1.13
1182279--1182320	17	2.5	16	82	17	50	66	2	2	28	1.16
1182815--1182858	13	2.9	16	81	18	51	43	0	0	56	0.99
1182832--1182864	13	2.4	14	90	10	59	42	0	0	57	0.98
1183478--1183515	15	2.5	15	83	12	51	60	0	2	36	1.11
1184436--1184484	26	2.0	24	84	8	62	51	2	6	40	1.38
1184930--1184960	4	8.0	4	92	7	55	22	0	0	77	0.77
1185410--1185448	6	6.8	6	85	8	55	33	2	0	64	1.08
1189592--1190408	271	3.0	271	97	0	1535	30	27	16	25	1.97
1191657--1191740	33	2.5	33	83	14	100	52	0	1	46	1.08
1191725--1191770	17	2.8	17	83	6	51	56	0	0	43	0.99
1191744--1191780	15	2.4	16	82	13	51	56	0	0	43	0.99
1192436--1192491	16	3.2	19	67	30	52	39	1	0	58	1.08
1193858--1194002	52	2.7	52	76	12	141	51	2	0	44	1.20
1193945--1193973	15	2.0	15	93	6	51	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194244--1194349	23	4.4	25	73	17	84	42	0	0	56	1.05
1194332--1194398	18	3.7	19	69	25	56	37	0	1	61	1.05
1194267--1194415	32	5.0	29	70	19	94	39	0	1	59	1.06
1194263--1194410	13	11.2	13	66	20	76	39	0	1	59	1.06
1194262--1194392	17	8.2	16	66	18	60	38	0	1	59	1.07
1194539--1194601	27	2.4	27	81	2	74	61	0	0	38	0.96
1194563--1194614	15	3.3	15	80	20	54	51	0	0	48	1.00
1194600--1194646	18	2.7	17	80	12	51	61	2	0	36	1.08
1195036--1195096	12	5.5	11	73	11	54	39	0	1	59	1.08
1195049--1195095	17	2.8	17	78	18	53	40	0	2	57	1.11
1195146--1195184	18	2.2	18	95	0	69	38	0	7	53	1.30
1196479--1196514	2	18.0	2	88	0	54	47	2	2	47	1.31
1197611--1197635	2	12.5	2	100	0	50	52	0	48	0	1.00
1197872--1197904	2	16.5	2	100	0	66	0	48	0	51	1.00
1202369--1202411	20	2.2	20	84	12	54	37	0	18	44	1.50
1203014--1203250	126	1.9	126	92	0	402	40	14	18	25	1.89
1203585--1203633	17	2.6	18	79	17	55	40	0	2	57	1.10
1207223--1207275	15	3.6	15	82	5	54	43	0	0	56	0.99
1216097--1216127	2	15.5	2	100	0	62	51	0	48	0	1.00
1216393--1216455	20	3.2	20	74	12	60	49	0	1	49	1.10
1216380--1216473	39	2.4	39	80	5	100	47	0	1	51	1.07
1216467--1216539	21	3.3	21	75	11	67	52	0	1	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216456--1216541	45	1.9	43	82	15	104	52	0	1	46	1.08
1218987--1219017	15	2.1	15	93	0	53	41	0	3	54	1.16
1219435--1219505	26	2.6	27	80	12	83	53	0	2	43	1.15
1219483--1219511	15	1.9	15	100	0	58	48	0	0	51	1.00
1219987--1220033	13	3.5	13	88	5	76	31	2	8	57	1.41
1219975--1220032	27	2.1	27	87	6	82	37	1	6	53	1.38
1219983--1220033	27	1.9	26	96	4	93	33	1	7	56	1.39
1226040--1226075	16	2.2	16	90	9	56	36	0	0	63	0.94
1226254--1226324	32	2.3	31	82	2	79	32	2	1	63	1.18
1226273--1226354	31	2.6	32	82	9	96	31	1	2	64	1.14
1226305--1226357	24	2.2	26	80	16	69	35	0	1	62	1.06
1226296--1226360	29	2.2	31	77	5	71	40	0	1	58	1.07
1227975--1228017	18	2.4	18	84	7	52	37	0	0	62	0.95
1228391--1228450	18	3.1	18	77	13	57	65	0	0	35	0.93
1228415--1228500	46	1.9	44	85	4	118	54	0	0	45	0.99
1228376--1228497	27	4.4	27	67	16	79	60	0	0	39	0.97
1229003--1229038	3	12.0	3	100	0	72	33	0	0	66	0.92
1229851--1229905	16	3.4	16	79	2	56	34	5	0	60	1.20
1230040--1230102	32	1.9	35	84	12	89	53	1	0	44	1.10
1230049--1230104	16	3.4	16	73	17	53	57	1	0	41	1.09
1230045--1230120	27	2.7	26	78	15	64	56	1	1	40	1.16
1230486--1230564	34	2.3	35	80	10	92	40	0	2	56	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230508--1230577	5	14.2	5	78	15	67	38	0	1	60	1.06
1230472--1230534	24	2.8	23	71	7	58	38	0	1	60	1.07
1230737--1230772	16	2.2	17	90	5	56	41	0	0	58	0.98
1230824--1230870	17	2.6	18	75	18	53	40	0	0	59	0.97
1230875--1230910	19	1.9	18	88	5	54	58	2	0	38	1.13
1231528--1231554	2	13.5	2	100	0	54	48	0	0	51	1.00
1231582--1231635	21	2.5	22	78	3	56	40	1	1	55	1.21
1231652--1231696	19	2.5	17	82	10	54	35	0	0	64	0.94
1232110--1232162	27	2.0	27	81	7	63	37	0	0	62	0.96
1232389--1232415	4	6.8	4	100	0	54	77	0	0	22	0.76
1232974--1233028	19	2.9	19	73	7	51	40	0	1	58	1.09
1233016--1233071	14	3.6	16	77	20	64	48	0	0	51	1.00
1233025--1233074	16	3.3	14	76	17	55	46	0	0	54	1.00
1233656--1233698	11	3.6	11	82	17	59	30	0	0	69	0.88
1233633--1233679	16	2.9	16	81	9	60	29	0	2	68	1.02
1233662--1233708	25	2.0	22	84	15	60	34	0	0	65	0.93
1234406--1234431	2	13.0	2	100	0	52	50	0	0	50	1.00
1234512--1234574	11	5.4	12	71	21	53	41	0	0	58	0.98
1234864--1234911	17	2.9	17	81	12	55	47	0	0	52	1.00
1234889--1234939	17	3.1	17	80	8	52	60	0	0	39	0.97
1234897--1234983	9	9.1	9	72	13	59	58	1	2	37	1.18
1234953--1235010	28	2.1	28	83	6	73	65	0	1	32	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236472--1236502	15	2.0	16	93	6	55	64	0	0	35	0.94
1236686--1236735	26	2.0	26	88	4	75	64	0	0	36	0.94
1236694--1236763	32	2.2	31	82	7	88	64	0	0	35	0.94
1238265--1238331	28	2.4	28	82	5	91	46	0	0	53	1.00
1238316--1238357	15	2.8	15	85	7	50	40	2	0	57	1.12
1238340--1238379	21	1.9	21	84	0	53	32	2	0	65	1.06
1239512--1239565	25	2.2	25	96	0	99	37	5	11	46	1.63
1239641--1239698	30	2.0	29	82	3	71	51	0	1	46	1.11
1243669--1243699	16	1.9	16	93	0	53	35	0	0	64	0.94
1243690--1243727	19	1.9	19	89	5	58	44	0	0	55	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11