genome.fa.s4401.2.7.7.80.10.50.1000.5.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: scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2008648

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 759 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)
1260946--1261046	37	2.7	39	74	17	99	48	3	3	43	1.40
1264262--1264305	23	2.0	22	86	4	61	25	0	9	65	1.21
1264598--1264717	38	3.1	38	62	19	95	40	10	8	41	1.69
1264586--1264747	77	2.1	78	97	2	310	41	9	7	40	1.66
1272075--1272139	9	6.9	9	77	10	51	58	1	0	40	1.07
1272132--1272174	10	4.4	9	80	13	50	30	2	2	65	1.18
1273810--1273843	18	1.9	17	88	5	50	67	2	0	29	1.05
1275272--1275313	19	2.3	19	80	15	52	50	2	2	45	1.27
1277843--1277909	34	1.9	35	87	3	100	44	14	8	31	1.76
1281029--1281284	68	3.8	68	83	1	289	23	22	17	36	1.95
1281189--1281459	122	2.2	122	88	1	400	26	25	16	32	1.96
1281880--1281960	38	2.1	38	93	0	135	46	25	12	14	1.80
1283159--1283260	49	2.1	50	87	9	147	47	13	9	29	1.75
1284494--1284518	12	2.1	12	100	0	50	16	0	16	68	1.22
1297253--1297788	93	5.8	93	93	0	874	40	18	13	27	1.89
1298410--1298506	28	3.5	28	84	0	113	29	25	12	31	1.92
1312309--1312333	13	1.9	13	100	0	50	60	0	0	40	0.97
1313572--1313897	165	2.0	160	84	7	426	38	13	13	34	1.83
1315301--1315364	21	2.8	23	73	23	64	37	21	37	3	1.70
1315328--1315353	7	3.7	7	100	0	52	42	15	42	0	1.47
1316093--1316283	98	2.0	96	89	6	296	48	16	7	28	1.72
1320856--1320911	25	2.2	25	87	0	76	42	16	21	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320868--1320915	25	1.9	25	100	0	96	37	18	22	20	1.94
1321820--1322113	50	5.9	50	84	3	344	21	29	22	27	1.99
1321820--1322113	150	2.0	149	84	2	392	21	29	22	27	1.99
1323286--1323356	24	2.9	24	77	4	70	40	19	22	16	1.91
1326442--1326496	27	2.0	28	96	3	103	47	21	3	27	1.68
1329269--1329325	22	2.7	21	89	5	87	31	0	38	29	1.58
1329642--1329700	5	12.0	5	76	16	61	74	0	0	25	0.82
1338768--1338868	38	2.7	38	87	6	134	15	14	30	38	1.88
1338848--1338899	22	2.3	23	80	9	63	23	15	21	40	1.91
1344524--1344651	50	2.6	50	83	2	141	39	14	14	32	1.85
1349912--1350040	50	2.6	50	83	0	150	26	21	28	23	1.99
1353034--1353352	175	1.8	175	91	0	530	32	8	27	31	1.87
1353322--1353685	194	1.9	194	83	4	475	28	14	20	35	1.92
1355600--1355694	10	9.5	10	71	6	68	34	1	3	61	1.19
1355600--1355700	19	5.1	19	68	19	64	34	0	2	61	1.18
1358424--1358462	21	1.9	20	89	5	60	46	2	10	41	1.51
1359701--1359734	16	2.1	16	88	0	50	44	38	5	11	1.65
1365753--1365857	51	2.1	51	83	3	131	26	32	0	40	1.63
1365799--1365909	55	2.0	55	87	6	163	23	27	1	46	1.62
1365872--1365936	27	2.4	26	82	12	78	30	30	3	35	1.73
1366055--1366329	146	1.9	146	100	0	550	36	8	5	50	1.56
1366436--1366473	19	2.0	19	94	0	67	26	7	31	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367367--1367403	9	4.1	9	92	0	65	45	13	10	29	1.77
1367462--1367524	30	2.1	30	82	11	76	20	50	0	28	1.48
1372517--1372602	31	2.8	31	78	3	93	41	22	15	20	1.89
1379226--1379312	31	2.8	30	74	8	86	43	22	12	20	1.86
1379295--1379371	31	2.6	30	77	10	77	37	15	16	29	1.90
1380136--1380197	26	2.4	26	88	0	97	54	3	19	22	1.58
1380461--1380585	30	4.2	30	84	0	151	36	11	25	26	1.89
1390821--1390935	35	3.2	35	62	24	85	42	9	13	34	1.76
1390816--1390937	40	3.2	40	67	19	125	43	9	12	35	1.74
1390791--1390939	73	2.0	74	98	1	291	44	8	12	35	1.71
1409836--1409919	9	9.4	9	79	7	100	42	21	9	26	1.83
1411253--1411324	29	2.5	29	83	0	90	23	36	19	20	1.95
1411253--1411346	29	3.2	28	80	5	89	24	34	20	21	1.97
1413884--1413916	16	2.1	16	94	0	57	27	0	0	72	0.85
1414335--1414368	16	2.1	16	88	0	50	64	8	0	26	1.22
1419125--1419149	2	12.5	2	100	0	50	52	0	48	0	1.00
1419967--1420025	24	2.4	25	80	8	68	33	3	5	57	1.37
1429998--1430047	13	3.8	13	74	10	57	64	0	0	36	0.94
1436776--1436986	104	2.0	105	99	0	415	39	19	11	28	1.88
1437471--1437504	15	2.2	16	94	5	61	44	0	11	44	1.40
1439002--1439042	18	2.3	18	95	0	73	17	21	12	48	1.79
1439202--1439393	44	4.5	44	70	15	139	28	20	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439160--1439447	128	2.2	128	91	1	452	27	21	21	30	1.98
1439253--1439432	44	4.2	44	70	14	133	27	20	22	30	1.98
1439449--1440051	88	6.9	88	93	0	1010	28	26	18	26	1.98
1439517--1439834	44	7.2	44	62	8	153	29	25	20	25	1.99
1444780--1444851	25	3.0	24	80	9	67	55	2	19	22	1.56
1444792--1444841	25	2.0	25	88	4	73	60	4	16	20	1.52
1444884--1444913	15	2.0	15	100	0	60	40	6	6	46	1.56
1446082--1446723	325	2.0	326	98	0	1232	24	26	14	34	1.94
1452344--1452377	15	2.2	16	94	5	61	44	0	11	44	1.40
1463939--1463983	16	2.8	17	75	18	51	0	37	0	62	0.96
1464420--1464541	61	2.0	61	85	3	167	32	15	22	29	1.95
1469747--1469782	18	2.0	18	100	0	72	44	5	11	38	1.63
1469749--1469788	18	2.3	18	91	4	64	47	5	10	37	1.59
1469911--1469949	20	1.9	20	84	5	51	76	5	2	15	1.06
1477826--1478188	186	1.9	187	91	1	595	33	19	15	30	1.94
1484696--1484741	17	2.8	17	86	3	67	45	13	19	21	1.84
1487826--1488617	394	2.0	394	92	0	1323	31	22	14	31	1.94
1497610--1497697	37	2.4	38	88	3	135	9	11	36	43	1.72
1507797--1507856	26	2.3	26	85	2	77	35	18	25	21	1.96
1516188--1516750	31	18.4	31	71	13	272	43	18	7	31	1.77
1516201--1516752	61	9.0	60	75	10	397	43	18	7	30	1.77
1516220--1516761	92	5.9	92	87	1	694	43	18	6	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516780--1516842	30	2.1	30	90	0	99	46	14	6	33	1.70
1525986--1526014	15	1.9	15	100	0	58	31	20	20	27	1.98
1533431--1533609	66	2.7	65	81	5	182	27	25	16	30	1.96
1533545--1533610	30	2.2	30	83	0	87	28	22	18	30	1.97
1537542--1537610	31	2.2	31	86	0	93	20	18	14	46	1.84
1537993--1538036	22	2.0	23	90	4	72	65	0	2	31	1.05
1537988--1538054	31	2.3	29	85	14	93	65	0	2	31	1.07
1538015--1538062	18	2.7	18	81	12	62	70	0	2	27	0.98
1538285--1538311	12	2.2	12	100	0	54	44	0	22	33	1.53
1538593--1538687	49	1.9	49	86	0	136	25	13	30	30	1.94
1552620--1552664	9	5.1	9	79	15	58	44	0	28	26	1.55
1553458--1553517	31	1.9	31	89	0	93	51	15	13	20	1.75
1554306--1554364	30	2.0	30	87	12	86	35	0	47	16	1.47
1554551--1554727	44	4.0	44	100	0	354	31	27	6	33	1.83
1557752--1557806	26	2.1	27	82	3	67	25	1	5	67	1.22
1557752--1557803	27	1.9	27	84	0	68	25	1	5	67	1.23
1567200--1567251	24	2.1	25	85	3	70	53	5	0	40	1.25
1574860--1574884	11	2.3	11	100	0	50	32	0	28	40	1.57
1580883--1580921	20	2.0	20	94	0	69	56	0	12	30	1.37
1587828--1587869	16	2.6	16	92	0	66	42	7	2	47	1.43
1587843--1587903	22	2.8	22	84	0	77	47	1	1	49	1.21
1589568--1589639	20	3.6	20	76	10	67	26	2	18	52	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1598308--1598368	32	1.9	32	83	12	81	49	1	4	44	1.33
1598327--1598368	20	2.1	20	86	0	57	47	0	7	45	1.30
1603347--1603391	14	3.1	14	75	12	54	17	6	8	66	1.40
1604273--1604505	114	2.1	113	95	1	414	33	9	29	27	1.88
1610478--1610628	74	2.0	74	97	0	284	23	19	15	41	1.89
1610664--1610774	35	3.0	34	75	20	107	48	21	5	24	1.71
1610974--1611008	16	2.2	16	90	10	54	57	5	31	5	1.46
1611063--1611166	51	2.1	50	85	10	142	49	5	30	14	1.67
1623992--1624028	3	12.3	3	88	0	56	32	2	2	62	1.23
1624406--1624666	130	2.0	131	99	0	515	43	12	9	35	1.74

Tables:   1   2   3   4   5   6   7