genome.fa.s412.2.7.7.80.10.50.1000.9.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  9  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)
1351463--1352002	109	5.0	109	78	8	454	37	16	14	32	1.89
1351463--1351914	216	2.1	217	81	6	515	37	16	13	32	1.87
1356788--1356918	67	1.9	68	83	4	167	38	7	16	37	1.78
1359944--1359990	21	2.1	23	81	14	55	55	0	0	44	0.99
1359944--1360020	24	3.4	22	75	8	57	49	1	0	49	1.09
1365070--1365113	2	22.0	2	95	0	79	47	50	0	2	1.13
1365113--1365138	2	13.0	2	100	0	52	50	0	0	50	1.00
1366405--1366436	14	2.2	15	94	5	57	78	0	0	21	0.76
1366405--1366437	10	3.1	11	86	8	50	75	0	0	24	0.80
1368408--1368454	15	3.2	15	84	6	69	65	4	2	27	1.22
1368406--1368450	14	3.1	14	84	6	63	62	2	2	33	1.20
1368925--1368968	23	1.9	23	90	9	72	59	2	0	38	1.10
1372177--1372302	11	12.3	11	68	25	64	53	0	1	45	1.10
1372182--1372264	43	1.9	43	80	9	98	51	0	2	45	1.14
1372181--1372296	27	4.3	27	73	12	80	52	0	1	45	1.10
1372257--1372304	21	2.3	20	82	7	60	60	0	0	39	0.97
1372573--1372648	17	4.6	17	70	20	54	61	1	0	36	1.04
1372581--1372688	9	12.0	9	70	16	64	56	0	0	42	1.05
1372639--1372688	19	2.5	20	84	12	68	50	0	0	50	1.00
1372639--1372697	23	2.7	22	80	17	61	49	1	0	49	1.11
1372695--1372724	14	2.1	14	93	6	51	26	0	0	73	0.84
1372638--1372735	20	4.8	20	65	20	60	41	1	0	57	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1373727--1373777	21	2.4	22	80	9	61	45	1	0	52	1.12
1373737--1373768	17	1.9	16	93	6	55	43	0	0	56	0.99
1373740--1373790	22	2.4	21	84	9	68	37	0	0	62	0.95
1374384--1374438	25	2.2	25	87	3	76	34	1	0	63	1.05
1375499--1375584	43	2.0	43	84	8	113	36	1	0	62	1.03
1376108--1376158	22	2.5	22	84	9	63	37	0	0	62	0.95
1376105--1376136	17	1.9	16	93	6	55	43	0	0	56	0.99
1376450--1376474	9	2.8	9	100	0	50	20	0	0	80	0.72
1376571--1376819	121	2.1	121	86	3	349	40	8	6	44	1.60
1377528--1378459	464	2.0	461	93	3	1595	43	9	6	40	1.62
1378413--1378482	28	2.5	28	75	11	74	57	2	0	40	1.14
1378469--1378498	15	1.9	16	93	6	53	40	0	0	60	0.97
1379481--1379521	20	2.0	20	86	9	57	46	0	0	53	1.00
1380178--1380207	2	15.0	2	100	0	60	50	0	0	50	1.00
1382903--1382944	21	2.0	21	85	0	57	54	0	0	45	0.99
1384069--1384099	2	15.5	2	100	0	62	0	0	48	51	1.00
1387415--1387472	19	3.0	21	79	18	65	74	0	0	25	0.82
1387423--1387472	19	2.6	20	84	15	70	76	0	0	24	0.80
1387405--1387474	8	7.8	9	74	16	65	72	0	0	27	0.84
1387427--1387490	28	2.2	29	83	5	85	73	0	1	25	0.92
1387423--1387493	13	5.7	13	73	17	62	70	0	1	28	0.96
1388073--1388113	15	2.6	15	84	7	55	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388071--1388144	31	2.4	31	78	14	82	35	0	0	64	0.94
1388073--1388134	17	3.8	17	79	14	67	33	0	0	66	0.92
1388088--1388143	17	3.2	19	78	14	66	30	0	0	69	0.89
1388104--1388143	19	2.1	20	90	9	66	27	0	0	72	0.85
1389765--1389983	50	4.4	50	85	2	280	36	12	15	35	1.86
1389761--1389983	100	2.2	99	88	1	338	37	12	15	34	1.86
1392609--1392670	2	31.0	2	100	0	124	50	0	0	50	1.00
1393895--1393941	15	2.9	16	78	12	51	48	0	0	51	1.00
1394982--1395098	14	8.5	13	76	15	94	49	0	2	47	1.15
1394970--1395044	26	2.8	26	78	11	82	45	0	0	54	0.99
1395008--1395065	2	28.5	2	82	3	71	46	0	1	51	1.11
1394982--1395053	12	5.5	12	84	14	81	47	0	0	52	1.00
1395657--1395695	15	2.7	14	84	7	51	46	0	0	53	1.00
1396874--1396919	25	2.0	23	84	16	60	45	0	0	54	0.99
1397053--1397134	21	3.9	21	69	7	67	39	0	0	60	0.96
1397050--1397141	27	3.5	27	73	16	70	39	1	0	59	1.04
1397061--1397149	45	2.1	41	87	8	124	40	1	0	58	1.05
1397375--1397425	25	2.0	25	84	0	66	50	9	5	33	1.59
1397544--1397586	21	2.0	21	86	0	59	60	4	0	34	1.17
1397904--1397965	31	2.0	31	84	12	83	48	0	0	51	1.00
1398218--1398257	19	2.0	20	85	4	55	67	0	0	32	0.91
1398806--1398869	31	2.1	31	88	11	96	70	3	0	26	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399005--1399074	11	5.8	11	70	23	52	64	4	1	30	1.21
1399147--1399189	22	2.0	22	81	9	52	62	2	0	34	1.08
1399261--1399301	18	2.2	18	86	4	55	78	4	9	7	1.10
1399795--1399836	6	7.3	6	78	10	52	66	0	0	33	0.92
1399793--1399837	17	2.7	16	89	6	63	66	0	0	33	0.92
1399795--1399835	11	3.6	11	83	3	55	65	0	0	34	0.93
1399833--1399894	10	6.4	10	76	12	58	58	0	0	41	0.98
1399828--1399889	23	2.6	24	80	12	65	59	0	0	40	0.97
1399821--1399925	39	2.6	41	74	20	103	59	1	0	39	1.09
1400071--1400108	15	2.4	16	86	8	51	42	2	0	55	1.14
1400519--1400575	16	3.3	16	75	15	51	31	1	1	64	1.13
1400504--1400580	35	2.1	38	78	9	88	41	1	1	55	1.16
1401812--1401868	23	2.5	22	85	8	69	54	0	1	43	1.10
1403215--1403248	17	2.0	17	88	0	50	82	2	14	0	0.79
1403507--1403535	3	9.7	3	100	0	58	68	0	0	31	0.89
1404057--1404108	25	2.0	26	82	10	63	46	0	0	53	1.00
1410632--1410674	14	2.9	15	80	13	54	55	2	0	41	1.12
1410968--1411001	13	2.5	13	85	4	50	52	5	0	41	1.25
1411979--1412006	4	7.0	4	100	0	56	50	0	0	50	1.00
1412103--1412153	25	2.1	24	82	10	59	43	0	1	54	1.11
1419088--1419155	30	2.3	30	85	10	86	41	2	1	54	1.24
1419164--1419208	17	2.6	17	78	3	54	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425802--1425869	16	4.2	16	71	14	59	48	0	0	51	1.00
1425788--1425840	26	2.0	27	82	10	65	45	0	0	54	0.99
1425782--1425876	34	2.9	33	83	10	106	47	0	0	52	1.00
1425928--1426049	62	1.9	64	82	15	157	55	0	1	41	1.15
1425923--1426081	29	5.3	30	69	22	88	56	0	1	41	1.12
1425965--1426062	26	3.7	26	70	20	67	56	1	2	40	1.18
1425922--1426061	62	2.3	60	75	18	137	57	0	1	40	1.13
1426030--1426082	21	2.6	21	85	8	74	56	0	0	43	0.99
1426245--1426321	25	2.9	26	78	7	75	51	0	1	46	1.09
1426539--1426564	7	3.7	7	100	0	52	15	0	0	84	0.62
1427043--1427071	2	14.5	2	100	0	58	0	0	48	51	1.00
1431271--1431324	20	2.7	20	77	11	56	42	0	0	57	0.98
1431289--1431336	20	2.5	20	83	10	55	35	0	0	64	0.94
1431267--1431337	21	3.5	19	72	12	54	38	0	0	61	0.96
1431513--1431554	22	1.9	22	90	0	66	52	0	4	42	1.22
1431537--1431576	19	2.1	19	86	9	55	35	0	2	62	1.09
1431553--1431595	10	4.3	10	78	0	50	46	0	0	53	1.00
1431642--1431686	22	2.0	22	84	16	58	60	2	2	35	1.22
1431979--1432053	36	2.1	36	100	0	150	40	2	16	41	1.62
1433386--1433468	20	4.1	20	74	15	64	50	4	3	40	1.41
1432853--1433966	579	1.9	579	99	0	2210	45	8	9	36	1.67
1433998--1434028	15	2.0	16	93	6	55	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1434063--1434097	19	1.9	17	88	11	52	42	0	2	54	1.15
1434900--1434943	19	2.3	19	84	7	54	40	0	0	59	0.98
1434993--1435033	20	2.0	21	86	13	59	48	4	4	41	1.46
1435617--1435646	14	2.1	15	93	6	53	33	0	0	66	0.92
1436458--1436496	15	2.6	15	84	11	53	61	0	0	38	0.96
1437091--1437130	17	2.4	16	83	8	53	45	0	0	55	0.99
1437618--1437670	27	1.9	28	88	3	81	39	1	1	56	1.21
1437643--1437704	16	3.8	16	81	14	72	40	1	1	56	1.19
1438183--1438242	29	2.0	31	83	6	79	35	1	0	63	1.05
1438213--1438281	26	2.6	25	82	11	68	42	0	0	57	0.98

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