genome.fa.s43.2.7.7.80.10.50.1000.11.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  11  of  19  ( 2200 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)
1260559--1260612	21	2.8	20	75	11	58	42	0	5	51	1.25
1261246--1261317	26	2.8	25	74	15	67	40	0	1	58	1.07
1261268--1261315	16	3.1	16	76	5	55	35	0	0	64	0.94
1261528--1261628	16	6.4	16	81	2	114	57	3	0	37	1.24
1261687--1261725	19	2.1	19	90	0	60	33	17	10	38	1.84
1262707--1262746	22	1.9	20	85	10	53	45	0	0	55	0.99
1262723--1262762	19	2.1	20	86	9	57	42	0	0	57	0.98
1263478--1263524	20	2.3	20	86	13	62	48	2	0	48	1.13
1266844--1266877	11	3.1	11	87	12	52	29	0	0	70	0.87
1267559--1267610	24	2.2	25	80	16	67	71	7	0	21	1.11
1269231--1269258	2	14.0	2	100	0	56	50	0	0	50	1.00
1269768--1269792	2	12.5	2	100	0	50	48	0	0	52	1.00
1270091--1270133	2	21.5	2	100	0	86	48	0	0	51	1.00
1270791--1270826	19	1.9	19	88	5	56	61	0	0	38	0.96
1272428--1272457	2	15.0	2	100	0	60	50	0	0	50	1.00
1273890--1273933	9	4.9	9	82	0	61	59	0	0	40	0.98
1273882--1273962	27	2.9	27	87	12	119	58	0	0	41	0.98
1274459--1274537	39	2.1	38	81	11	90	43	0	0	56	0.99
1277740--1277782	21	2.0	21	86	0	59	32	0	0	67	0.91
1277825--1277883	26	2.2	27	85	8	77	37	5	0	57	1.21
1280396--1280433	11	3.5	11	85	7	51	68	0	0	31	0.90
1280396--1280433	16	2.3	17	86	4	51	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280418--1280535	31	3.7	32	75	13	100	56	1	0	40	1.15
1281236--1281269	17	2.0	17	94	0	59	47	2	0	50	1.16
1281380--1281420	15	2.6	16	80	7	57	29	9	0	60	1.28
1281403--1281441	19	2.0	19	85	5	51	43	7	0	48	1.31
1281433--1281473	21	2.0	20	85	4	55	46	0	0	53	1.00
1283696--1283735	2	20.0	2	100	0	80	50	0	0	50	1.00
1284584--1284911	181	1.8	181	81	4	410	35	16	19	28	1.93
1285737--1285807	27	2.6	27	84	6	90	23	7	22	46	1.76
1285884--1285929	20	2.3	20	88	0	65	10	50	4	34	1.57
1288381--1288426	21	2.1	22	84	4	58	30	17	30	21	1.96
1290310--1290380	27	2.6	27	88	6	99	22	7	23	46	1.76
1290457--1290502	20	2.3	20	88	0	65	10	50	4	34	1.57
1291584--1291654	37	1.9	36	85	2	97	57	4	1	36	1.27
1291390--1291771	196	2.0	190	87	4	541	52	5	5	36	1.48
1296735--1296786	20	2.6	20	84	0	68	34	13	11	40	1.81
1310793--1310835	5	8.8	5	87	5	52	88	9	2	0	0.60
1310793--1310847	10	5.6	10	82	4	67	85	9	3	1	0.79
1310794--1310847	19	2.8	19	88	2	72	85	9	3	1	0.80
1310794--1310847	9	5.7	9	83	16	65	85	9	3	1	0.80
1312071--1312664	32	19.2	32	91	3	782	30	34	17	16	1.92
1313191--1313265	20	3.8	20	78	0	87	34	13	12	40	1.81
1313191--1313268	40	2.0	39	87	2	111	34	12	12	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319112--1319158	17	2.5	19	80	20	62	53	0	0	46	1.00
1319117--1319165	17	2.9	17	87	0	71	53	0	0	46	1.00
1319586--1319770	34	5.5	34	87	3	257	40	26	7	25	1.82
1323836--1323897	19	3.3	19	86	0	79	33	17	19	29	1.95
1324203--1324385	34	5.4	34	87	3	253	39	26	7	25	1.83
1324678--1324735	29	2.0	29	82	0	71	32	1	3	62	1.22
1324952--1325023	29	2.5	28	86	4	90	59	1	0	38	1.06
1330007--1330037	15	2.1	15	93	0	53	12	41	0	45	1.42
1330050--1330095	18	2.6	18	89	0	65	19	36	4	39	1.72
1330125--1330165	15	2.7	15	88	0	55	17	29	9	43	1.80
1333320--1333355	18	2.0	18	89	10	56	30	0	0	69	0.89
1333628--1333716	35	2.5	35	82	5	117	47	1	4	47	1.30
1334255--1334297	7	5.9	7	78	10	50	55	0	2	41	1.12
1334255--1334297	15	2.9	15	82	0	59	55	0	2	41	1.12
1334692--1334761	26	2.8	26	80	4	63	45	0	0	54	0.99
1334683--1334779	33	3.0	33	83	7	103	46	0	1	52	1.07
1335202--1335246	23	2.0	23	86	8	65	42	0	0	57	0.98
1335268--1335305	19	2.0	20	84	5	51	47	5	2	44	1.39
1335808--1335855	24	2.0	25	87	4	71	35	0	0	64	0.94
1336133--1336196	19	3.3	18	72	12	56	34	1	1	62	1.14
1336975--1337023	24	2.0	24	100	0	98	22	28	8	40	1.82
1337118--1337161	23	1.9	23	86	9	63	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1337092--1337197	41	2.6	40	77	15	103	42	0	0	55	1.12
1338265--1338304	15	2.6	16	84	11	57	27	0	0	72	0.85
1338312--1338370	19	3.2	18	88	7	82	47	0	0	52	1.00
1338363--1338399	10	3.6	10	88	3	56	54	0	0	45	1.00
1338349--1338404	20	2.6	22	80	13	71	50	0	0	50	1.00
1338486--1338735	125	2.0	125	85	2	342	37	16	22	23	1.93
1339519--1339567	25	2.0	24	88	4	71	44	18	10	26	1.81
1340382--1340590	104	2.0	104	94	0	366	43	2	3	49	1.35
1340688--1340735	21	2.3	22	79	17	57	43	0	0	56	0.99
1341969--1341996	2	14.0	2	100	0	56	50	50	0	0	1.00
1341996--1342021	2	13.0	2	100	0	52	50	0	0	50	1.00
1343001--1343035	2	17.5	2	100	0	70	51	0	0	48	1.00
1348671--1348709	19	2.1	19	100	0	78	61	23	5	10	1.48
1353425--1353458	18	1.9	17	88	5	50	67	0	0	32	0.91
1354274--1354327	22	2.4	23	76	14	60	44	1	1	51	1.22
1355853--1355918	33	2.0	33	96	0	123	34	18	21	25	1.96
1365623--1365661	18	2.2	18	100	0	78	56	15	23	5	1.59
1367686--1367716	11	2.9	11	95	4	55	93	0	6	0	0.35
1370707--1370773	28	2.4	28	82	12	84	55	0	0	44	0.99
1370660--1370773	32	3.8	29	76	15	92	53	0	0	46	1.00
1371032--1371070	20	2.0	19	85	5	51	48	0	0	51	1.00
1371884--1371935	11	4.5	11	76	11	50	32	1	0	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371870--1371928	24	2.3	25	82	11	75	30	1	0	67	1.00
1371880--1371930	24	2.1	24	92	0	84	33	1	0	64	1.05
1372057--1372115	30	2.0	29	86	3	82	59	0	0	40	0.97
1372355--1372415	24	2.5	24	84	10	72	57	0	0	42	0.98
1372365--1372415	23	2.2	24	86	10	70	58	0	0	41	0.98
1372348--1372446	16	6.4	15	69	22	71	56	0	2	41	1.11
1372445--1372487	21	2.0	23	86	9	63	53	0	0	46	1.00
1372572--1372660	23	3.4	27	72	18	82	40	0	0	59	0.97
1372596--1372642	16	2.9	16	81	9	51	42	0	0	57	0.98
1372563--1372660	51	1.9	50	83	6	126	41	0	0	58	0.98
1372572--1372685	50	2.3	51	80	7	126	42	0	0	57	1.05
1373015--1373057	9	4.7	9	80	5	50	39	0	0	60	0.97
1373012--1373058	5	9.8	5	81	9	53	40	0	0	59	0.97
1373012--1373058	24	2.0	24	91	8	78	40	0	0	59	0.97
1373302--1373335	18	1.9	18	88	5	52	47	2	2	47	1.32
1373324--1373353	15	1.9	16	93	6	53	26	0	3	70	1.03
1373717--1373753	19	1.9	19	89	10	58	51	0	0	48	1.00
1374175--1374207	15	2.3	15	89	5	50	42	0	0	57	0.98
1374168--1374218	23	2.2	22	82	10	57	47	0	0	52	1.00
1377143--1377197	6	10.3	6	77	18	52	52	0	0	47	1.00
1377144--1377181	15	2.5	15	91	4	58	47	0	0	52	1.00
1377143--1377176	10	3.1	11	87	12	52	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1378112--1378140	14	2.0	15	93	6	51	72	0	0	27	0.85
1378337--1378375	3	13.0	3	100	0	78	33	0	0	66	0.92
1379219--1379254	17	2.1	17	89	0	54	41	0	0	58	0.98
1381937--1381992	28	2.0	28	82	0	67	42	1	0	55	1.10
1381949--1381983	17	2.1	16	89	5	52	40	2	0	57	1.14
1382262--1382301	2	20.0	2	94	0	71	47	0	2	50	1.14
1383976--1384047	33	2.2	33	82	12	85	45	4	0	50	1.21
1386861--1386903	17	2.5	17	84	0	50	46	0	0	53	1.00
1388214--1388271	29	2.0	30	83	10	75	32	1	5	60	1.29
1388510--1388555	20	2.3	20	85	10	67	58	0	0	41	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19