genome.fa.s223.2.7.7.80.10.50.1000.8.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  8  of  26  ( 3021 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)
1383284--1383363	40	2.0	42	83	14	105	56	0	1	42	1.07
1386648--1386738	38	2.4	38	88	3	130	38	18	18	24	1.93
1391395--1391475	39	2.1	39	92	0	135	34	19	22	23	1.96
1391405--1391486	39	2.1	39	90	4	130	39	18	19	23	1.93
1392441--1392476	2	18.0	2	100	0	72	50	0	0	50	1.00
1396141--1396167	2	13.5	2	100	0	54	48	0	51	0	1.00
1399611--1399676	22	3.1	21	75	16	57	51	3	0	45	1.16
1400042--1400109	28	2.5	27	86	11	95	42	0	0	57	0.98
1400042--1400083	19	2.3	19	84	16	61	40	0	0	59	0.97
1405150--1405184	3	11.7	3	93	0	61	31	31	2	34	1.73
1406708--1406766	6	10.0	6	94	3	84	0	10	50	38	1.36
1406708--1406764	2	29.0	2	78	3	62	0	8	50	40	1.33
1407293--1407335	14	3.1	14	82	0	50	25	0	0	74	0.82
1407318--1407374	25	2.3	25	87	6	80	43	0	1	54	1.10
1407365--1407429	14	4.3	15	72	18	55	35	0	0	64	0.94
1407352--1407424	36	2.0	36	86	0	101	36	0	0	63	0.95
1407541--1407591	21	2.4	21	83	0	57	39	9	0	50	1.35
1409388--1409419	2	16.0	2	100	0	64	50	0	0	50	1.00
1414598--1414627	12	2.5	12	88	0	51	46	10	3	40	1.54
1415192--1415336	10	15.1	10	67	19	60	37	1	1	60	1.14
1415257--1415303	19	2.6	18	87	9	69	31	4	0	63	1.13
1415257--1415340	18	4.6	19	78	17	81	32	2	1	64	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1415264--1415323	19	3.3	18	86	9	70	30	3	1	65	1.19
1417504--1417538	14	2.4	14	85	4	52	51	0	8	40	1.33
1417504--1417546	13	3.1	14	86	6	52	55	0	6	37	1.27
1417524--1417578	22	2.5	20	78	18	56	58	3	5	32	1.38
1417580--1417657	32	2.6	30	80	17	92	53	6	1	38	1.35
1417581--1417656	26	2.6	28	86	12	93	53	6	1	38	1.35
1419993--1420018	13	2.0	13	100	0	52	46	15	7	30	1.74
1423135--1423185	9	5.8	9	75	11	52	45	0	0	54	0.99
1423641--1423705	18	3.7	18	76	19	66	50	1	0	47	1.10
1423996--1424036	8	5.2	8	80	16	50	53	0	0	46	1.00
1424959--1425064	10	10.8	10	70	14	69	39	0	0	58	1.11
1425026--1425075	9	5.2	10	81	13	61	30	2	0	68	1.01
1425019--1425078	21	2.9	21	80	14	72	31	1	0	66	1.01
1425019--1425081	10	6.0	11	78	12	62	31	1	0	66	1.01
1425009--1425104	40	2.3	43	77	15	103	35	1	1	62	1.09
1426013--1426055	22	2.0	21	81	4	50	44	6	4	44	1.52
1428181--1428252	6	12.5	6	72	19	64	61	0	0	38	0.96
1428174--1428279	29	3.5	30	76	17	85	57	0	0	42	0.98
1428249--1428298	14	3.5	14	78	5	55	46	2	0	52	1.12
1428234--1428281	24	2.0	24	92	8	80	54	0	0	45	0.99
1430417--1430467	23	2.1	25	92	7	88	60	0	0	39	0.97
1430462--1430510	16	3.1	17	80	11	52	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)
1430466--1430510	19	2.4	19	85	3	56	33	0	0	66	0.92
1433444--1433526	27	3.0	27	66	16	62	45	0	0	54	0.99
1433491--1433546	18	3.4	17	72	20	55	50	1	1	46	1.22
1433445--1433526	20	4.3	20	68	20	68	46	0	0	53	1.00
1433467--1433558	32	2.7	34	83	11	102	48	1	1	48	1.15
1437118--1437164	22	2.1	22	84	4	58	63	8	4	23	1.40
1437523--1437556	16	2.1	17	88	5	52	61	0	0	38	0.96
1438585--1438647	6	10.5	6	73	21	53	61	0	1	36	1.05
1438639--1438705	23	3.1	22	75	12	68	41	4	1	52	1.31
1438773--1438803	14	2.2	14	94	0	53	54	16	3	25	1.56
1441311--1441361	6	8.0	6	77	18	50	62	0	0	37	0.95
1441296--1441361	19	3.4	19	76	15	64	60	0	0	39	0.97
1441296--1441361	20	3.4	19	76	19	66	60	0	0	39	0.97
1441894--1441937	7	6.1	7	89	2	61	34	2	0	63	1.07
1444387--1444444	18	2.9	20	80	10	66	46	0	3	50	1.18
1445456--1445493	20	1.9	20	88	0	58	39	5	42	13	1.66
1445455--1445500	20	2.3	20	80	0	56	36	4	47	10	1.58
1445582--1445647	27	2.4	27	85	7	89	46	21	6	25	1.74
1449744--1449807	27	2.3	28	86	2	85	48	14	4	32	1.64
1450122--1450146	3	8.3	3	100	0	50	32	0	0	68	0.90
1451978--1452019	22	1.9	22	85	9	59	50	0	2	47	1.14
1452176--1452219	18	2.4	18	85	7	54	29	0	4	65	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1457383--1457429	21	2.3	21	85	10	62	38	0	0	61	0.96
1457791--1457860	22	3.2	21	76	6	77	55	0	0	44	0.99
1457791--1457885	43	2.2	42	83	10	113	55	1	2	41	1.18
1458305--1458347	20	2.2	20	82	0	50	39	6	9	44	1.64
1458523--1458561	12	3.2	12	92	0	60	38	2	10	48	1.51
1465348--1465449	39	2.6	40	81	7	129	13	11	46	28	1.79
1465420--1465497	18	4.2	18	65	20	52	14	8	47	29	1.74
1465471--1466102	39	16.1	39	73	9	217	15	12	43	28	1.82
1465550--1465655	21	5.3	21	64	17	64	12	9	45	33	1.74
1465551--1466102	78	7.1	78	79	4	610	15	12	44	28	1.82
1465903--1465967	21	3.2	20	69	20	55	12	10	49	27	1.73
1465984--1466045	21	3.1	20	75	13	65	12	9	50	27	1.72
1465549--1466102	156	3.6	156	88	1	774	15	12	44	28	1.82
1467706--1467740	11	3.1	11	88	8	52	42	0	0	57	0.99
1474185--1474252	33	2.0	34	81	13	79	47	0	4	48	1.22
1474546--1474595	21	2.4	21	83	9	68	50	8	2	40	1.43
1474707--1474787	42	2.0	40	83	11	103	46	4	3	44	1.42
1483080--1483149	19	3.8	18	77	15	72	31	0	5	62	1.18
1483073--1483148	40	2.0	37	82	12	91	30	0	5	64	1.15
1483096--1483157	15	4.1	15	74	15	65	29	0	4	66	1.12
1490798--1490882	33	2.6	32	76	14	84	35	1	3	60	1.22
1496067--1496221	79	1.9	81	83	5	199	44	9	3	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496460--1496495	17	2.1	18	89	5	56	41	2	0	55	1.14
1501771--1501804	14	2.4	14	90	0	50	64	0	0	35	0.94
1501776--1501829	20	2.7	20	85	8	65	68	0	0	31	0.90
1511123--1511186	27	2.2	30	81	13	80	45	0	0	54	0.99
1511141--1511187	13	3.4	14	82	8	60	46	0	0	53	1.00
1511425--1511485	13	5.2	12	75	20	58	63	0	0	36	0.94
1511450--1511489	12	3.2	13	83	16	50	65	0	0	35	0.93
1524797--1524866	9	7.8	9	73	10	54	61	0	0	38	0.96
1524829--1524869	15	2.6	16	92	7	66	63	0	0	36	0.95
1525006--1525047	17	2.4	18	76	11	52	57	0	0	42	0.99
1525074--1525130	18	3.0	19	78	14	64	57	0	0	42	0.98
1525794--1525844	26	1.9	27	88	4	77	52	0	0	47	1.00
1526691--1526725	2	17.5	2	93	0	61	51	2	0	45	1.16
1527219--1527250	16	1.9	17	93	6	57	28	0	0	71	0.86
1527566--1527642	22	3.5	22	73	18	79	45	0	0	54	0.99
1527948--1527976	2	14.5	2	100	0	58	51	0	0	48	1.00
1528112--1528174	22	2.9	21	76	9	63	57	1	1	39	1.18
1528117--1528159	16	2.8	16	82	3	52	62	0	0	37	0.95
1528811--1528858	25	1.9	25	82	0	60	43	0	2	54	1.12
1528804--1528877	31	2.3	31	82	11	87	44	0	1	54	1.08
1528895--1528936	18	2.3	18	87	0	57	52	2	0	45	1.13
1529304--1529364	30	2.0	31	84	12	83	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534269--1534293	2	12.5	2	100	0	50	48	0	0	52	1.00
1535280--1535312	16	2.0	16	94	5	57	66	0	0	33	0.92
1535303--1535342	17	2.4	17	79	4	55	47	0	0	52	1.00
1536431--1536459	13	2.1	14	93	6	51	72	0	0	27	0.85
1543710--1543742	7	4.9	7	96	3	59	0	9	0	90	0.44
1549344--1549453	59	1.9	57	90	3	175	55	6	2	35	1.40
1551509--1551551	2	21.5	2	100	0	86	48	0	0	51	1.00
1551864--1551926	20	3.1	20	86	2	90	71	0	0	28	0.86
1551863--1551916	10	5.5	10	75	20	51	75	0	0	24	0.80
1552509--1552540	14	2.2	15	94	5	57	25	6	28	40	1.79

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