genome.fa.s27.2.7.7.80.10.50.1000.8.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: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Length:  2789374

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  8  of  16  ( 1898 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)
1318383--1318723	94	3.6	94	83	6	393	26	28	17	28	1.98
1318641--1319047	62	6.6	62	83	4	475	24	25	19	30	1.98
1319075--1319402	41	7.9	41	72	13	190	20	25	11	42	1.86
1319992--1320016	13	1.9	13	100	0	50	32	16	12	40	1.84
1322343--1322473	50	2.6	50	80	7	140	28	22	11	37	1.89
1322459--1322873	79	5.2	78	78	9	358	25	25	15	33	1.95
1322483--1322873	158	2.5	158	88	2	563	25	25	16	33	1.96
1324616--1324685	28	2.4	31	83	9	92	38	8	21	31	1.83
1324646--1324729	44	1.9	43	85	2	114	34	5	22	36	1.79
1324684--1324796	29	3.9	29	76	4	120	35	3	24	36	1.73
1332400--1332528	52	2.5	52	97	0	240	29	17	17	35	1.93
1332571--1332635	32	2.0	33	90	3	105	40	16	10	32	1.84
1333265--1333451	49	3.6	52	84	5	211	35	15	24	25	1.94
1333302--1333497	49	4.0	48	82	11	213	34	15	24	25	1.95
1333356--1333491	43	3.0	43	87	7	182	31	16	24	27	1.97
1333405--1333473	21	3.2	20	67	25	52	28	17	26	27	1.97
1333554--1333944	29	13.4	29	91	2	570	22	15	32	29	1.95
1333554--1333944	117	3.3	118	92	2	619	22	15	32	29	1.95
1335373--1335451	1	79.0	1	71	0	59	1	0	12	86	0.64
1335364--1335451	21	4.3	19	79	14	95	1	0	13	85	0.66
1335364--1335451	30	3.1	28	79	15	92	1	0	13	85	0.66
1335364--1335449	45	1.9	45	88	9	131	1	0	13	84	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349272--1349402	52	2.5	52	91	4	219	29	15	18	36	1.91
1349445--1349497	20	2.7	20	85	2	81	39	15	11	33	1.83
1356304--1356448	50	2.9	50	88	5	220	28	20	8	42	1.82
1358519--1358588	33	2.1	33	86	0	95	34	10	14	41	1.79
1358629--1358653	13	1.9	13	100	0	50	32	16	16	36	1.90
1358662--1358786	52	2.4	52	95	0	223	36	18	17	28	1.94
1365975--1366026	1	52.0	1	76	0	50	88	5	5	0	0.63
1365975--1366026	14	3.6	14	84	7	59	88	5	5	0	0.63
1365976--1366021	24	1.9	24	90	0	74	89	4	6	0	0.60
1365975--1366033	13	4.2	14	81	12	68	86	6	6	0	0.71
1367029--1367113	30	2.8	31	87	3	118	24	27	17	30	1.97
1367090--1367557	34	13.9	34	83	8	414	20	33	12	33	1.90
1367093--1367577	68	7.1	69	81	12	472	20	34	12	32	1.90
1367561--1367731	33	5.2	33	90	7	267	27	35	17	19	1.95
1367559--1367731	67	2.6	67	91	5	289	27	35	17	19	1.94
1367731--1368792	49	21.7	49	76	11	932	24	25	17	31	1.97
1368025--1368395	92	4.0	91	92	3	593	24	25	18	31	1.98
1368182--1368243	22	3.0	21	65	27	51	24	25	22	27	2.00
1368470--1368748	43	6.1	43	82	11	324	25	26	18	29	1.98
1369576--1369600	13	1.9	13	100	0	50	36	16	16	32	1.90
1369556--1369625	33	2.1	33	89	0	104	34	11	14	40	1.82
1369666--1369690	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369699--1369823	52	2.4	52	94	0	214	36	17	16	28	1.92
1374088--1374135	20	2.5	20	86	3	62	31	16	12	39	1.86
1382424--1382478	20	2.7	21	85	2	76	30	20	12	36	1.90
1384925--1384963	13	3.0	13	96	0	69	35	15	17	30	1.91
1387041--1387071	15	2.1	15	93	0	53	12	22	16	48	1.80
1391140--1391165	13	2.0	13	100	0	52	30	15	15	38	1.88
1391213--1391267	21	2.7	21	88	2	76	32	20	12	34	1.90
1392925--1392975	20	2.5	20	96	0	93	29	15	11	43	1.82
1393238--1393268	14	2.2	14	100	0	62	38	35	0	25	1.56
1395346--1395398	20	2.7	20	91	5	81	33	18	11	35	1.87
1395427--1395481	19	2.8	20	77	5	76	40	14	16	29	1.88
1395427--1395473	20	2.4	20	82	3	60	38	14	17	29	1.89
1396696--1397161	79	5.9	79	75	4	424	35	13	24	27	1.93
1396678--1397163	157	3.1	152	78	8	384	35	13	24	27	1.92
1396697--1397163	155	3.0	157	78	5	401	35	13	23	27	1.93
1399510--1399604	50	1.9	49	82	2	118	40	10	17	31	1.84
1400137--1400300	77	2.1	77	83	0	202	45	14	21	18	1.85
1400367--1400750	42	9.1	42	79	10	365	40	12	25	21	1.88
1400436--1400716	85	3.3	86	79	9	299	38	12	25	23	1.90
1400378--1400728	127	2.7	126	87	6	458	41	11	25	21	1.86
1400720--1400854	62	2.2	62	86	1	182	37	17	21	22	1.94
1400752--1400953	100	2.0	100	88	0	296	36	18	22	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400819--1400891	38	1.9	38	91	0	119	38	20	23	17	1.93
1400857--1401198	62	5.5	62	85	2	438	32	19	23	24	1.97
1400857--1401198	123	2.8	124	85	2	465	32	19	23	24	1.97
1404992--1405459	79	5.9	78	79	5	417	35	12	23	29	1.91
1404995--1405459	158	2.9	154	78	8	468	35	12	23	29	1.91
1405016--1405459	237	1.9	237	82	4	565	34	12	24	28	1.91
1407769--1407823	20	2.8	20	97	0	101	41	10	16	30	1.83
1407837--1407894	20	2.8	20	79	10	64	44	10	15	29	1.79
1407839--1407902	21	3.1	21	75	6	60	45	9	14	31	1.76
1409643--1409804	52	3.1	52	83	3	209	32	23	6	37	1.81
1410954--1411266	97	3.2	97	84	4	409	29	21	11	37	1.89
1410957--1411295	96	3.5	96	84	2	385	28	21	12	37	1.90
1413970--1414122	70	2.2	70	84	3	193	37	9	20	32	1.86
1413988--1414122	70	1.9	69	87	1	198	40	8	20	31	1.81
1416316--1416374	20	2.9	19	82	12	64	38	11	11	37	1.79
1416415--1416447	11	3.0	11	100	0	66	54	18	9	18	1.69
1419285--1419338	20	2.7	20	100	0	108	46	18	11	24	1.81
1419419--1419444	13	2.0	13	100	0	52	38	15	15	30	1.88
1419401--1419464	32	2.0	33	87	3	94	40	17	14	28	1.88
1421660--1421704	21	2.1	21	84	8	56	53	4	20	22	1.63
1425552--1425630	20	3.7	20	73	18	70	26	15	15	43	1.86
1425616--1425641	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425762--1425807	21	2.2	20	81	11	58	32	19	4	43	1.71
1428079--1428132	20	2.7	20	100	0	108	46	18	11	24	1.81
1428213--1428238	13	2.0	13	100	0	52	38	15	15	30	1.88
1428195--1428258	32	2.0	33	87	3	94	40	17	14	28	1.88
1429787--1429837	20	2.7	19	87	6	68	33	11	9	45	1.74
1431176--1431210	17	2.0	18	88	5	54	34	2	0	62	1.10
1431182--1431221	20	2.1	19	90	4	62	30	7	0	62	1.23
1431261--1431287	5	5.4	5	100	0	54	18	18	0	62	1.32
1438883--1438932	26	2.0	26	88	7	77	24	44	16	16	1.86
1441360--1441419	25	2.4	25	83	5	68	48	0	1	50	1.11
1441627--1441685	16	3.4	17	79	15	59	67	0	0	32	0.91
1441626--1441684	17	3.6	16	82	11	66	66	0	0	33	0.92
1441739--1441805	24	2.7	24	79	11	64	50	1	1	46	1.19
1447753--1447815	22	2.9	21	76	4	63	44	12	11	31	1.78
1448230--1448255	2	13.0	2	100	0	52	50	0	0	50	1.00
1448394--1448446	22	2.5	22	78	9	56	35	13	11	39	1.80
1448591--1448639	22	2.2	22	77	0	53	40	12	8	38	1.72
1449208--1449250	22	2.0	22	86	9	61	41	9	9	39	1.69
1449327--1449481	50	3.4	45	75	14	131	37	0	5	56	1.23
1449328--1449433	50	2.1	51	87	1	151	33	0	6	59	1.23
1449378--1449480	44	2.4	43	87	6	138	38	0	4	56	1.21
1450320--1450376	19	2.9	19	86	2	78	31	14	17	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450422--1450451	13	2.3	13	94	0	51	36	16	10	36	1.82
1450408--1450473	33	2.0	33	90	0	105	36	15	13	34	1.87
1450432--1450471	20	2.0	20	90	0	62	40	12	12	35	1.81
1452063--1452093	3	10.3	3	92	0	53	35	0	35	29	1.58
1457123--1457172	21	2.4	22	83	9	61	32	20	0	48	1.50
1458909--1458955	22	2.0	22	84	15	60	31	6	14	46	1.70
1460076--1460102	13	2.1	13	100	0	54	29	14	14	40	1.86
1460088--1460142	19	2.8	20	86	5	76	29	14	21	34	1.93
1460172--1460223	17	2.8	18	85	11	70	32	15	17	34	1.91
1460171--1460229	17	3.3	18	79	15	61	30	15	16	37	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16