genome.fa.s140.2.7.7.80.10.50.1000.9.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  9  of  20  ( 2326 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)
1357326--1357391	27	2.4	27	82	7	80	28	6	16	48	1.70
1361900--1361970	27	2.6	27	86	6	90	22	7	22	47	1.75
1362964--1363004	21	1.9	22	90	5	66	31	0	2	65	1.05
1363163--1363205	15	2.9	15	76	13	52	53	0	0	46	1.00
1363201--1363236	17	2.1	17	89	0	54	44	2	0	52	1.15
1365056--1365083	2	14.0	2	100	0	56	50	0	0	50	1.00
1365468--1365508	13	3.2	13	83	13	57	70	2	0	26	0.99
1365932--1365984	23	2.4	22	78	12	54	54	1	3	39	1.29
1366522--1366564	18	2.4	17	84	7	50	69	4	2	23	1.18
1369091--1369116	2	13.0	2	100	0	52	0	50	0	50	1.00
1370415--1370473	28	2.1	28	84	3	75	49	0	3	47	1.18
1370654--1370769	47	2.5	47	81	15	120	48	2	0	48	1.21
1370892--1370952	22	2.7	22	70	12	52	34	1	3	60	1.23
1371083--1371132	23	2.2	22	80	13	57	36	2	0	62	1.07
1371083--1371135	24	2.2	25	81	15	60	35	1	0	62	1.06
1374612--1374656	22	2.1	21	84	12	56	31	0	0	68	0.89
1374676--1374726	24	2.2	22	86	13	68	62	0	1	35	1.06
1374676--1374726	23	2.2	23	89	6	77	62	0	1	35	1.06
1375527--1375557	13	2.3	14	94	5	55	51	0	0	48	1.00
1377301--1377387	4	20.2	4	82	11	86	52	1	1	44	1.15
1378023--1378340	170	1.9	165	90	4	503	51	8	4	36	1.51
1379259--1379290	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381594--1381620	14	1.9	14	100	0	54	66	0	0	33	0.92
1385479--1385541	20	3.0	21	74	21	67	58	0	0	41	0.98
1385473--1385547	32	2.3	33	84	13	95	56	0	0	44	0.99
1385473--1385538	11	6.0	11	75	18	57	56	0	0	43	0.99
1385491--1385535	13	3.7	13	77	17	51	60	0	0	40	0.97
1386202--1386279	23	3.5	23	73	13	65	58	0	0	41	0.98
1387512--1387541	14	2.1	14	93	0	51	73	0	3	23	0.98
1387895--1387960	27	2.4	28	92	2	107	22	6	22	48	1.72
1392458--1392528	27	2.6	27	82	6	81	23	7	21	47	1.75
1393368--1393420	19	2.8	19	75	11	63	43	1	0	54	1.11
1393729--1393755	2	13.5	2	100	0	54	48	0	0	51	1.00
1394554--1394597	9	5.3	9	74	20	51	47	0	0	52	1.00
1394554--1394602	17	3.0	17	85	8	66	46	0	0	53	1.00
1394520--1394603	16	5.4	16	75	13	77	53	0	1	45	1.08
1394812--1394892	11	8.0	10	69	17	51	43	0	0	56	0.99
1394844--1394909	32	2.0	33	91	2	107	40	3	0	56	1.15
1395450--1395509	28	2.1	28	82	11	70	40	0	0	60	0.97
1395570--1395619	22	2.2	22	79	10	57	54	0	0	46	1.00
1395578--1395630	22	2.6	21	77	19	58	49	0	0	50	1.00
1396115--1396144	2	15.0	2	100	0	60	50	0	0	50	1.00
1396178--1396213	19	1.9	19	88	5	56	44	2	0	52	1.15
1396494--1396542	22	2.3	21	85	3	62	59	2	2	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396972--1397001	15	2.0	15	100	0	60	46	20	0	33	1.51
1397200--1397261	27	2.3	27	83	8	74	58	0	0	41	0.98
1397781--1397829	19	2.7	18	84	6	71	44	0	2	53	1.12
1399938--1399970	12	2.8	12	95	0	57	57	0	0	42	0.98
1400436--1400509	25	2.7	27	76	18	64	58	0	0	41	0.98
1400436--1400521	42	2.0	42	81	4	100	59	0	0	40	0.97
1400493--1400542	26	1.9	26	84	15	68	70	4	0	26	1.05
1401355--1401425	18	3.9	18	77	14	74	59	0	2	38	1.12
1401350--1401405	16	3.3	15	77	22	58	60	0	1	37	1.07
1401357--1401455	31	3.4	28	82	13	121	57	0	2	40	1.10
1401348--1401454	18	5.7	18	67	26	55	57	0	1	41	1.10
1401351--1401491	59	2.5	57	76	19	143	58	0	1	40	1.07
1402247--1402276	6	5.0	6	100	0	60	0	0	83	16	0.65
1402526--1402569	22	2.0	22	82	8	54	59	0	0	40	0.98
1402749--1402792	22	2.0	22	86	8	63	40	4	0	54	1.21
1404340--1404367	2	14.0	2	100	0	56	50	0	0	50	1.00
1411257--1411296	15	2.6	16	84	11	57	35	0	0	65	0.93
1411410--1411442	14	2.3	15	89	5	50	54	0	3	42	1.15
1411914--1411945	17	1.9	17	93	6	57	25	3	6	65	1.31
1414620--1414716	51	1.9	51	100	0	194	14	28	24	31	1.94
1416535--1416602	16	4.5	16	79	17	65	47	1	2	48	1.26
1416571--1416606	13	2.6	14	91	8	56	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)
1419524--1419577	19	2.7	19	74	5	54	55	0	0	44	0.99
1419599--1419639	22	1.9	21	85	5	55	41	0	0	58	0.98
1419934--1419976	13	3.2	13	78	21	52	46	0	0	53	1.00
1421199--1421228	15	2.0	15	93	0	51	43	0	0	56	0.99
1421279--1421335	16	3.4	16	75	13	53	50	0	0	49	1.00
1421254--1421348	34	2.7	36	78	16	101	48	0	1	50	1.07
1421308--1421358	21	2.4	22	80	6	61	45	0	1	52	1.12
1421742--1421790	24	2.1	24	85	7	66	30	6	0	63	1.19
1423490--1423559	33	2.2	33	84	2	88	25	22	22	28	1.99
1423874--1423919	20	2.3	21	75	17	53	47	2	0	50	1.13
1427386--1427418	16	2.1	16	100	0	66	30	12	24	33	1.91
1431690--1431755	22	3.1	21	77	16	73	59	0	0	40	0.98
1432231--1432273	7	5.9	7	78	10	50	65	0	0	34	0.93
1432228--1432293	18	3.9	17	76	21	59	62	0	0	37	0.96
1432194--1432280	23	4.3	20	73	18	74	59	0	1	39	1.05
1433928--1433977	16	3.1	17	70	21	52	54	8	0	38	1.30
1436303--1436340	2	19.5	2	89	5	60	50	2	0	47	1.15
1436761--1436859	24	4.0	25	74	13	71	57	0	3	39	1.14
1437890--1437930	9	4.6	9	90	0	55	24	36	0	39	1.56
1438090--1438119	2	15.0	2	100	0	60	50	0	0	50	1.00
1440876--1440911	3	12.0	3	100	0	72	66	0	0	33	0.92
1441479--1441561	19	4.1	19	73	14	76	62	1	0	36	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441522--1441551	15	1.9	16	93	6	53	63	0	0	36	0.95
1442237--1442297	18	3.4	18	73	13	54	44	0	0	55	0.99
1443385--1443424	19	2.0	21	85	9	57	50	27	10	12	1.72
1451717--1451788	17	4.4	16	71	20	60	38	0	0	61	0.96
1451723--1451767	17	2.6	17	85	0	63	37	0	0	62	0.96
1455335--1455388	25	2.1	27	82	6	67	29	1	3	64	1.21
1456684--1456725	17	2.5	17	84	3	50	42	2	0	54	1.13
1456690--1456741	24	2.1	25	82	10	63	42	7	1	48	1.43
1458090--1458121	2	16.0	2	100	0	64	50	0	0	50	1.00
1458121--1458146	2	13.0	2	100	0	52	50	0	50	0	1.00
1460148--1460177	2	15.5	2	93	6	53	50	0	0	50	1.00
1460177--1460207	2	16.0	2	93	6	55	48	0	51	0	1.00
1472395--1472467	23	3.3	22	73	9	67	72	0	26	1	0.93
1472395--1472492	44	2.3	43	82	8	110	71	1	25	2	1.03
1473104--1473141	18	2.1	18	100	0	76	44	10	5	39	1.61
1477389--1477445	28	2.1	27	83	9	71	43	0	0	56	0.99
1477395--1477445	14	3.8	13	75	12	50	43	0	0	56	0.99
1486248--1486274	2	13.5	2	100	0	54	48	0	0	51	1.00
1486974--1487017	14	3.4	14	74	25	51	50	0	2	47	1.13
1486966--1487046	21	3.7	22	78	15	87	55	0	1	43	1.07
1489900--1489929	14	2.1	15	93	6	53	3	0	20	76	0.92
1490715--1490778	24	2.7	24	90	2	94	43	0	1	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1490723--1490786	5	13.2	5	77	12	71	42	0	0	57	0.98
1490723--1490815	24	3.9	24	80	8	84	40	1	0	58	1.05
1490744--1490802	29	2.0	30	83	9	77	35	1	0	62	1.05
1490725--1490786	11	5.8	11	73	17	51	41	0	0	58	0.98
1492212--1492248	2	18.5	2	100	0	74	48	0	0	51	1.00
1496271--1496295	13	1.9	13	100	0	50	88	0	4	8	0.64
1496762--1496787	2	13.0	2	100	0	52	50	0	0	50	1.00
1498292--1498344	20	2.6	20	82	11	63	54	1	0	43	1.11
1498344--1498388	20	2.2	21	84	7	58	75	0	0	24	0.80
1498353--1498382	15	2.0	15	93	0	51	76	0	0	23	0.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20