genome.fa.s258.2.7.7.80.10.50.1000.6.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  6  of  25  ( 2900 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)
1167045--1167073	9	3.2	9	100	0	58	44	0	31	24	1.54
1167348--1167660	107	3.0	107	86	4	426	48	11	23	15	1.79
1167561--1167594	3	11.3	3	100	0	68	67	0	32	0	0.91
1167969--1168021	16	3.4	15	82	15	63	45	0	0	54	0.99
1168258--1168314	14	4.0	15	77	13	59	33	0	1	64	1.04
1168353--1168409	25	2.3	24	79	8	60	35	5	1	57	1.31
1169567--1169604	13	2.9	14	88	11	62	55	0	0	44	0.99
1169564--1169621	29	2.0	29	86	0	80	50	1	1	46	1.22
1171961--1171994	17	1.9	18	94	5	61	0	14	0	85	0.60
1174375--1174400	8	3.2	8	100	0	52	57	0	0	42	0.98
1174478--1174531	23	2.3	23	84	9	74	51	0	3	44	1.19
1174497--1174562	30	2.2	30	88	0	96	57	3	1	37	1.23
1174519--1174613	23	3.9	22	76	15	82	58	3	0	37	1.14
1174519--1174613	24	3.9	24	75	13	79	58	3	0	37	1.14
1174497--1174601	49	2.1	53	84	10	139	57	2	0	39	1.20
1174700--1174754	23	2.4	22	79	11	58	49	0	1	49	1.11
1174745--1174801	14	3.8	14	77	22	62	59	0	0	40	0.97
1174806--1174836	16	1.9	16	93	0	53	58	0	0	41	0.98
1175609--1175679	6	11.8	6	80	5	72	50	35	8	5	1.56
1175612--1175676	18	3.6	18	87	0	85	52	35	6	6	1.51
1175613--1175679	24	2.8	25	88	4	93	52	34	7	5	1.54
1184815--1184841	2	13.5	2	100	0	54	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185963--1186019	24	2.3	24	82	11	71	54	0	1	43	1.10
1185977--1186029	11	4.8	11	80	15	56	49	0	0	50	1.00
1185945--1186017	13	5.9	13	69	23	50	57	0	1	41	1.07
1185963--1186033	23	3.0	24	82	12	76	52	0	1	46	1.09
1193002--1193049	21	2.3	21	85	0	60	52	8	4	35	1.51
1193948--1193981	7	4.9	7	92	0	59	85	11	2	0	0.71
1194097--1194134	12	3.2	12	81	7	51	68	2	0	28	1.03
1194114--1194152	19	1.9	19	85	10	51	69	0	0	30	0.89
1195360--1195396	18	2.0	19	94	5	67	59	2	0	37	1.12
1195445--1195477	16	2.0	17	94	5	59	33	0	0	66	0.92
1195810--1195834	12	2.1	12	100	0	50	68	0	0	32	0.90
1195974--1196022	19	2.6	18	84	12	62	40	0	2	57	1.10
1196072--1196122	12	4.1	13	77	10	61	35	0	0	64	0.94
1196075--1196122	25	1.9	25	83	8	62	35	0	0	64	0.94
1196633--1196684	25	2.2	24	89	6	79	55	3	3	36	1.36
1197045--1197101	22	2.6	22	83	8	64	43	0	0	56	0.99
1197195--1197236	21	2.0	21	86	9	59	54	0	2	42	1.13
1198306--1198383	29	2.7	28	74	16	70	41	1	0	57	1.07
1198382--1198422	17	2.4	17	88	12	66	65	0	0	34	0.93
1198413--1198471	5	10.7	6	73	26	51	66	1	0	32	1.02
1198399--1198486	21	4.1	21	69	22	58	64	1	0	34	1.01
1206724--1206760	12	3.0	12	84	7	56	21	16	37	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206724--1206758	13	2.8	12	91	4	52	22	14	37	25	1.92
1210351--1210387	19	2.0	19	89	5	58	45	0	0	54	1.00
1210354--1210432	29	2.7	30	90	5	126	51	0	0	48	1.00
1210865--1210904	17	2.4	16	83	4	53	32	0	2	65	1.06
1212671--1212715	21	2.1	22	91	4	74	51	0	0	48	1.00
1214190--1214224	2	17.5	2	100	0	70	48	0	0	51	1.00
1222131--1222175	5	9.0	5	90	0	72	0	20	0	80	0.72
1222306--1222338	17	2.0	16	94	5	57	66	0	0	33	0.92
1223461--1223526	32	2.0	34	85	8	91	42	0	1	56	1.08
1223430--1223590	49	3.5	45	72	17	125	37	1	0	60	1.09
1223509--1223579	19	3.8	19	73	16	67	32	2	0	64	1.08
1224065--1224129	28	2.3	28	82	10	71	35	1	1	61	1.15
1224592--1224626	3	11.7	3	100	0	70	68	0	0	31	0.90
1225168--1225200	15	2.1	16	88	5	50	60	0	0	39	0.97
1225172--1225226	21	2.6	21	79	2	65	54	0	0	45	0.99
1225925--1225959	16	2.3	15	90	5	52	51	0	0	48	1.00
1231758--1231963	50	4.2	50	86	3	294	31	16	20	32	1.94
1231779--1231963	98	1.9	100	90	2	302	29	16	20	32	1.95
1231769--1231988	98	2.2	100	82	1	300	32	15	20	31	1.94
1232491--1232516	13	2.0	13	100	0	52	38	7	0	53	1.30
1232658--1232755	49	2.0	48	86	2	133	42	9	3	44	1.51
1233956--1234243	97	3.0	97	100	0	576	39	15	12	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241013--1241345	167	2.0	167	95	1	605	32	18	18	29	1.96
1243829--1243860	1	32.0	1	93	0	55	0	3	0	96	0.20
1256208--1256233	4	6.5	4	100	0	52	23	0	0	76	0.78
1256318--1256353	3	12.0	3	93	0	63	63	0	2	33	1.08
1257503--1257545	2	21.5	2	90	0	68	48	4	0	46	1.22
1261373--1261407	2	17.5	2	100	0	70	0	0	48	51	1.00
1263107--1263138	13	2.5	13	94	0	55	68	15	3	12	1.32
1264872--1264910	20	2.0	20	85	10	53	38	2	2	56	1.27
1265175--1265200	2	13.0	2	100	0	52	50	0	50	0	1.00
1265428--1265475	6	7.7	6	83	6	60	33	0	2	64	1.05
1265703--1265732	6	5.0	6	91	0	51	66	0	3	30	1.07
1266246--1266283	1	38.0	1	100	0	76	0	100	0	0	0.00
1268091--1268131	19	2.2	19	95	0	73	39	17	12	31	1.86
1270004--1270049	21	2.2	21	84	0	56	80	0	19	0	0.71
1273699--1273838	68	2.1	68	94	0	244	45	11	16	26	1.81
1276642--1276673	3	10.7	3	100	0	64	31	0	0	68	0.90
1281243--1281278	12	3.1	12	88	8	56	55	0	0	44	0.99
1281892--1281922	2	15.5	2	100	0	62	51	0	0	48	1.00
1282371--1282469	42	2.2	45	82	12	125	55	1	1	42	1.13
1282881--1282930	18	2.7	18	75	6	55	36	0	2	62	1.07
1282889--1282940	22	2.4	22	78	12	54	36	0	0	63	0.95
1283545--1283614	11	5.6	13	74	16	51	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283545--1283600	26	2.3	26	84	9	73	55	0	0	44	0.99
1283555--1283615	24	2.5	23	75	15	61	52	0	0	47	1.00
1291183--1291212	6	5.0	6	100	0	60	83	0	0	16	0.65
1291728--1291769	2	21.0	2	100	0	84	0	50	0	50	1.00
1298635--1298767	69	1.9	69	89	3	205	45	7	26	20	1.77
1313195--1313225	2	15.5	2	93	0	53	48	0	3	48	1.17
1313611--1313655	12	3.9	12	78	18	51	53	0	0	46	1.00
1313602--1313664	32	1.9	32	84	15	85	53	0	0	46	1.00
1313759--1314001	125	2.0	123	85	4	330	34	11	14	38	1.83
1324218--1324275	30	1.9	30	83	13	75	24	6	1	67	1.25
1324731--1324760	2	15.0	2	100	0	60	50	0	50	0	1.00
1330225--1330256	1	32.0	1	93	0	55	0	3	0	96	0.20
1331108--1331147	6	7.0	6	97	2	66	82	0	0	17	0.67
1331142--1331199	19	2.8	18	76	20	53	53	1	3	41	1.28
1344184--1344253	26	2.6	26	81	6	68	47	0	0	52	1.00
1344221--1344254	16	2.2	15	89	5	50	47	0	0	52	1.00
1344245--1344304	17	3.2	17	76	17	57	30	0	0	70	0.88
1351846--1351878	15	2.2	15	94	0	57	54	6	18	21	1.64
1352508--1352558	26	2.0	26	84	7	68	45	1	0	52	1.12
1352568--1352638	35	2.0	35	81	5	81	38	0	0	61	0.96
1352576--1352618	22	1.9	23	85	4	61	34	0	0	65	0.93
1352590--1352661	19	4.0	17	76	16	65	40	1	0	58	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352620--1352658	20	2.0	20	85	10	53	43	2	0	53	1.14
1353088--1353135	25	1.9	25	83	8	62	45	0	0	54	0.99
1357005--1357029	2	12.5	2	100	0	50	48	0	0	52	1.00
1358447--1358511	30	2.1	32	86	11	91	60	12	4	23	1.51
1358616--1358677	21	3.0	20	75	9	63	58	3	3	35	1.31
1358866--1358930	34	1.9	34	84	12	89	49	0	0	50	1.00
1358866--1358930	33	1.9	34	87	9	98	49	0	0	50	1.00
1359276--1359315	19	2.0	20	85	4	55	12	77	2	7	1.07
1359815--1359858	21	2.1	21	87	8	63	50	0	0	50	1.00
1359972--1359999	2	14.0	2	100	0	56	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25