genome.fa.s412.2.7.7.80.10.50.1000.8.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   26   27   28   29   30   31   32   

This is table  8  of  32  ( 3728 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)
1188742--1188810	21	3.2	21	69	20	61	47	0	0	52	1.00
1189471--1189531	18	3.4	18	71	8	61	52	0	0	47	1.00
1189448--1189532	36	2.2	39	85	8	113	52	0	0	47	1.00
1189467--1189525	12	4.9	12	70	15	50	49	0	0	50	1.00
1194103--1194177	14	5.2	14	69	6	51	33	0	4	62	1.14
1194090--1194180	44	2.1	44	89	4	139	30	1	5	62	1.25
1194798--1194863	30	2.2	30	89	5	98	37	9	0	53	1.33
1195340--1195374	2	17.5	2	87	0	52	51	0	5	42	1.25
1195702--1195740	3	12.3	3	91	5	60	33	0	2	64	1.08
1202172--1202205	8	4.4	8	85	7	52	23	0	0	76	0.79
1202176--1202205	15	2.0	15	93	0	51	23	0	0	76	0.78
1202369--1202432	33	1.9	33	100	0	128	53	9	18	18	1.71
1202473--1202531	19	3.1	19	83	16	77	47	1	0	50	1.11
1202587--1202622	18	1.9	19	88	5	56	61	0	0	38	0.96
1202703--1202735	4	8.5	4	86	6	50	24	24	24	27	2.00
1203002--1203046	16	2.8	15	87	12	63	53	0	2	44	1.13
1203006--1203123	37	3.2	38	74	14	113	50	0	0	49	1.06
1203084--1203121	17	2.2	17	86	9	51	52	0	0	47	1.00
1204122--1204160	12	3.0	13	85	7	53	43	0	0	56	0.99
1204356--1204400	2	22.5	2	90	0	72	46	0	4	48	1.22
1205700--1205726	3	9.0	3	100	0	54	33	33	0	33	1.58
1207609--1207643	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207643--1207690	2	24.0	2	95	0	87	47	0	52	0	1.00
1213682--1213720	19	2.2	18	86	9	53	46	0	2	51	1.14
1214584--1214615	15	2.1	15	100	0	64	37	21	12	28	1.90
1214914--1214946	2	16.5	2	100	0	66	51	0	0	48	1.00
1214952--1215008	2	28.5	2	81	0	69	1	7	49	42	1.40
1214952--1215008	16	3.6	16	90	0	87	1	7	49	42	1.40
1218971--1219038	19	3.8	19	68	28	51	51	0	0	48	1.00
1219144--1219179	11	3.4	11	88	3	56	47	0	0	52	1.00
1222780--1222865	29	3.0	28	73	11	75	44	2	0	53	1.13
1223055--1223081	2	13.5	2	100	0	54	48	0	0	51	1.00
1223390--1223574	5	36.2	5	67	20	82	57	0	1	41	1.05
1223378--1223465	27	3.2	27	83	12	108	64	0	1	34	1.01
1223395--1223456	22	2.7	22	87	5	79	66	0	0	33	0.92
1223395--1223574	28	6.2	28	72	22	108	58	0	0	41	1.02
1223457--1223521	17	4.0	16	75	13	53	52	0	0	47	1.00
1223499--1223538	16	2.6	15	85	14	55	47	0	0	52	1.00
1223981--1224021	19	2.2	19	91	8	66	34	0	0	65	0.93
1224690--1224721	17	1.9	16	93	6	55	50	0	0	50	1.00
1225994--1226047	11	5.1	11	76	10	51	53	0	0	46	1.00
1226013--1226060	18	2.5	21	77	19	59	58	0	0	41	0.98
1226015--1226062	20	2.5	21	80	12	59	58	0	0	41	0.98
1235977--1236036	21	2.8	21	78	19	61	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236658--1236706	20	2.3	22	86	10	75	36	0	0	63	0.95
1236658--1236712	20	2.6	21	80	8	67	38	0	0	61	0.96
1236929--1236973	2	22.5	2	100	0	90	51	0	0	48	1.00
1237334--1237359	13	2.0	13	100	0	52	46	0	0	53	1.00
1237723--1237762	21	1.9	21	90	10	64	60	0	0	40	0.97
1237703--1237765	32	2.0	32	81	6	74	55	0	0	44	0.99
1238030--1238057	2	14.0	2	100	0	56	50	0	0	50	1.00
1241050--1241079	13	2.3	13	94	0	51	10	3	0	86	0.67
1246635--1246667	6	5.5	6	100	0	66	0	81	0	18	0.68
1250598--1250635	19	2.0	20	89	5	60	52	0	7	39	1.31
1250979--1251018	16	2.3	18	87	8	57	30	0	2	67	1.04
1251009--1251038	14	2.2	13	94	5	51	50	0	0	50	1.00
1251299--1251438	73	1.9	72	88	4	210	37	3	4	55	1.37
1251460--1251494	17	2.1	17	88	0	52	40	0	0	60	0.97
1253444--1253735	144	2.0	144	95	0	521	27	8	19	44	1.80
1255582--1255607	2	13.0	2	100	0	52	50	0	0	50	1.00
1257936--1257961	2	13.0	2	100	0	52	50	0	0	50	1.00
1258067--1258102	18	1.9	19	88	5	56	41	2	0	55	1.14
1259154--1259185	2	16.0	2	100	0	64	50	0	0	50	1.00
1259185--1259218	2	17.0	2	100	0	68	50	0	50	0	1.00
1263582--1263621	21	2.0	20	85	5	53	20	0	10	70	1.16
1263840--1263883	2	22.0	2	100	0	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266314--1266360	12	3.8	13	81	13	55	38	0	0	61	0.96
1266844--1266882	21	1.9	21	89	5	62	51	10	2	35	1.50
1267518--1267562	13	3.2	14	84	9	65	64	0	0	35	0.94
1273605--1273635	2	15.5	2	100	0	62	51	0	0	48	1.00
1273635--1273664	2	15.0	2	100	0	60	50	0	50	0	1.00
1274398--1274432	14	2.4	15	85	9	54	62	0	2	34	1.10
1274382--1274446	11	5.2	12	75	21	55	63	0	1	35	1.04
1274430--1274472	19	2.2	20	84	12	54	67	0	0	32	0.91
1276108--1276149	16	2.6	17	77	11	52	40	0	0	59	0.97
1277769--1277877	49	2.3	45	84	12	137	52	0	0	46	1.06
1278051--1278097	21	2.2	21	96	0	85	55	12	4	27	1.56
1282920--1282957	20	1.9	20	84	10	51	47	0	0	52	1.00
1283868--1283938	32	2.3	31	78	9	81	63	0	2	33	1.09
1283894--1283937	18	2.5	17	77	3	52	59	0	2	38	1.10
1284081--1284159	32	2.4	34	77	16	85	53	0	2	44	1.14
1284124--1284177	22	2.3	23	78	9	56	46	0	1	51	1.11
1284753--1284798	16	3.0	16	82	14	53	56	0	0	43	0.99
1285167--1285212	17	3.0	15	85	14	67	50	0	2	47	1.13
1286888--1286940	24	2.2	24	89	0	79	45	3	1	49	1.31
1288295--1288327	15	2.2	15	89	10	50	36	3	0	60	1.12
1291927--1291964	18	2.1	19	85	5	51	44	2	0	52	1.14
1292090--1292144	27	2.1	26	83	10	67	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292326--1292369	2	22.5	2	95	4	81	50	0	0	50	1.00
1292699--1292732	3	11.3	3	100	0	68	32	0	0	67	0.91
1304900--1304925	8	3.2	8	100	0	52	26	11	23	38	1.89
1309065--1309166	30	3.4	30	78	10	111	47	0	0	51	1.07
1309296--1309361	16	3.9	16	69	18	53	42	3	0	54	1.15
1310219--1310257	15	2.4	16	87	8	53	48	0	5	46	1.24
1312463--1312491	4	7.2	4	100	0	58	24	51	0	24	1.48
1312990--1313042	25	2.1	25	82	6	63	47	0	1	50	1.12
1313235--1313362	51	2.5	51	77	16	129	50	0	0	49	1.06
1315548--1315581	2	16.5	2	87	6	50	50	2	2	44	1.32
1318973--1319017	18	2.3	21	85	11	60	62	0	2	35	1.08
1333885--1333909	5	5.0	5	100	0	50	20	0	0	80	0.72
1334400--1334446	16	2.9	16	84	6	60	38	23	14	23	1.92
1335263--1335346	16	5.2	16	79	0	87	45	30	11	11	1.77
1335263--1335356	32	2.9	32	83	1	116	46	29	10	12	1.76
1335274--1335356	16	5.1	16	78	7	51	48	28	9	13	1.74
1335365--1335403	15	2.6	15	83	0	51	46	25	10	17	1.80
1336450--1336500	23	2.2	22	86	6	66	37	3	0	58	1.16
1336644--1336698	25	2.2	24	84	9	67	61	1	0	36	1.06
1336650--1336950	118	2.5	119	82	10	371	53	1	2	41	1.25
1336756--1336816	23	2.7	21	76	14	59	55	3	1	39	1.26
1336629--1336983	123	3.0	118	82	11	409	53	1	2	42	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340022--1340083	32	1.9	33	87	9	92	51	3	0	45	1.17
1340729--1340778	24	2.2	22	82	13	57	62	2	4	32	1.25
1341268--1341320	13	4.0	13	75	22	56	52	1	0	45	1.11
1341265--1341320	28	2.0	28	86	6	78	53	1	0	44	1.11
1341260--1341313	14	3.7	15	78	9	58	55	3	0	40	1.17
1342630--1342695	33	2.0	33	100	0	132	27	27	15	30	1.96
1342829--1342902	27	2.7	27	82	0	94	47	20	6	25	1.74
1347388--1347460	27	2.7	27	82	4	85	47	12	1	38	1.50
1351174--1351200	2	13.5	2	100	0	54	48	0	0	51	1.00
1351002--1351311	156	2.0	154	90	3	489	33	3	11	50	1.56

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   26   27   28   29   30   31   32