genome.fa.s38.2.7.7.80.10.50.1000.10.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: Scaffold38
Parameters: 2 7 7 80 10 50 1000
Length:  2073527

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

This is table  10  of  15  ( 1750 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)
1359366--1359448	20	4.0	20	76	17	64	38	0	0	61	0.96
1359369--1359454	40	2.1	41	85	10	113	40	0	0	59	0.97
1359383--1359450	20	3.4	19	75	17	66	38	0	0	61	0.96
1362152--1362176	13	1.9	13	100	0	50	72	0	0	28	0.86
1362340--1362473	71	1.9	71	90	0	214	34	11	17	36	1.86
1362794--1362855	9	6.9	9	71	0	52	11	4	61	22	1.48
1362809--1362872	27	2.2	29	81	8	78	12	3	60	23	1.46
1362782--1362851	36	1.9	36	85	5	97	12	4	58	24	1.52
1362793--1362851	24	2.5	24	80	0	64	11	5	59	23	1.52
1362890--1363101	30	7.1	29	81	1	172	19	2	51	26	1.60
1362890--1363305	60	6.8	60	75	6	230	21	4	50	23	1.65
1362890--1363149	90	2.9	90	80	2	236	21	3	51	23	1.62
1363021--1363084	18	3.9	18	67	23	50	21	3	50	25	1.64
1362965--1363287	90	3.5	90	76	7	281	24	4	50	20	1.67
1362926--1363167	30	8.1	30	79	3	137	23	3	50	22	1.63
1363214--1363300	30	2.9	30	79	6	104	20	4	50	24	1.67
1363267--1363359	42	2.2	42	80	3	107	16	6	51	25	1.68
1363328--1363407	30	2.7	30	90	0	124	10	6	57	26	1.55
1363766--1363840	8	9.6	8	75	15	50	68	1	0	30	0.98
1365293--1365376	26	3.1	27	79	8	75	30	0	2	66	1.04
1365286--1365382	37	2.6	37	79	12	110	30	0	2	67	1.03
1365299--1365379	9	8.8	9	72	20	53	28	0	2	69	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365286--1365382	18	5.3	18	75	19	67	30	0	2	67	1.03
1365648--1365701	24	2.2	25	77	9	58	53	3	0	42	1.18
1365860--1365921	19	3.3	19	71	13	56	46	0	0	53	1.00
1366269--1366306	17	2.1	19	85	9	53	52	0	0	47	1.00
1366470--1366498	2	14.5	2	100	0	58	51	0	48	0	1.00
1371870--1371912	21	2.2	21	84	12	56	58	2	0	39	1.11
1371949--1371979	2	15.5	2	93	0	53	48	3	0	48	1.17
1372395--1372459	32	2.0	33	87	3	96	46	0	0	53	1.00
1372482--1372525	13	3.4	13	84	9	54	40	0	0	59	0.98
1372742--1372777	13	2.8	14	84	16	51	55	0	0	44	0.99
1375131--1375176	14	3.0	15	87	9	58	63	0	0	36	0.95
1381465--1381530	33	2.0	33	96	0	123	24	25	3	46	1.66
1382761--1382804	21	2.1	20	87	8	61	36	0	0	63	0.95
1387495--1387532	20	1.9	20	88	0	58	39	0	2	57	1.12
1391498--1391534	13	2.6	14	87	12	58	2	18	0	78	0.87
1391785--1391827	18	2.4	19	76	11	54	53	4	0	41	1.21
1395269--1395306	15	2.4	16	78	8	51	34	0	0	65	0.93
1396444--1396516	29	2.5	30	84	6	96	58	1	1	38	1.15
1397633--1397674	2	21.0	2	100	0	84	50	0	0	50	1.00
1399063--1399114	15	3.6	14	75	19	54	67	0	0	32	0.91
1399049--1399114	27	2.4	25	81	16	78	65	0	0	34	0.93
1399057--1399115	28	2.1	29	90	9	95	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399057--1399122	27	2.4	27	87	10	89	65	0	0	34	0.93
1400470--1400516	23	2.1	22	84	4	58	51	0	0	48	1.00
1400479--1400529	20	2.4	20	83	9	57	41	0	0	58	0.98
1400800--1400841	11	3.8	11	83	0	57	50	2	0	47	1.14
1400792--1400846	22	2.5	22	88	2	76	52	1	1	43	1.22
1401466--1401509	22	2.0	22	86	8	63	54	2	0	43	1.12
1402921--1402965	19	2.4	19	88	7	65	0	17	0	82	0.68
1403327--1403386	31	1.9	32	86	10	88	63	3	0	33	1.11
1403401--1403466	11	6.6	10	76	15	57	4	16	0	78	0.90
1403542--1403614	28	2.6	28	73	14	69	43	1	0	54	1.08
1403552--1403662	35	3.1	35	80	14	138	44	0	0	54	1.06
1404141--1404204	17	3.4	19	76	19	64	40	3	1	54	1.25
1404616--1404644	2	14.5	2	100	0	58	51	0	0	48	1.00
1405607--1405659	21	2.5	21	84	0	70	37	9	0	52	1.34
1405827--1405877	20	2.7	19	71	17	52	50	0	1	47	1.12
1406809--1406848	13	3.1	14	80	20	52	42	0	0	57	0.98
1406804--1406849	11	3.8	12	78	15	51	47	0	0	52	1.00
1410222--1410259	19	2.0	19	85	10	51	31	2	0	65	1.06
1410620--1410662	19	2.3	19	81	18	54	18	11	18	51	1.76
1410795--1410831	19	1.9	19	100	0	74	64	5	0	29	1.15
1411115--1411191	32	2.4	32	85	12	104	41	0	2	55	1.13
1411115--1411183	32	2.2	32	89	7	106	42	0	2	55	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411097--1411204	38	2.8	38	74	12	105	40	0	1	56	1.16
1412145--1412177	2	16.5	2	93	0	57	45	0	0	54	0.99
1418169--1418214	18	2.7	18	84	15	62	45	0	0	54	0.99
1418449--1418530	28	3.0	27	73	10	76	48	0	0	51	1.00
1418474--1418514	19	2.2	19	90	0	64	51	0	0	48	1.00
1418482--1418524	19	2.2	19	91	4	68	46	0	0	53	1.00
1420177--1420233	21	2.6	21	80	5	60	49	7	0	43	1.29
1420836--1420882	14	3.6	13	80	11	51	38	2	0	59	1.09
1423780--1423835	18	3.1	17	82	12	67	66	1	0	32	1.03
1424198--1424465	135	2.0	135	85	4	362	43	13	10	33	1.77
1424916--1424972	29	2.0	28	83	10	71	49	0	0	50	1.00
1425349--1425478	55	2.4	55	87	5	192	41	0	6	51	1.32
1436610--1436656	2	23.5	2	100	0	94	48	0	0	51	1.00
1440760--1440806	18	2.5	20	79	13	62	61	0	0	38	0.96
1440763--1440830	29	2.2	29	84	10	82	57	0	0	42	0.98
1440787--1440830	14	2.9	16	74	19	58	52	0	0	47	1.00
1441143--1441187	12	3.8	12	82	5	56	66	0	33	0	0.92
1441140--1441191	11	4.6	11	76	11	52	67	0	32	0	0.91
1441140--1441193	23	2.4	23	84	3	74	66	0	33	0	0.92
1441663--1441722	22	2.8	22	84	2	77	28	0	0	71	0.86
1441683--1441722	15	2.7	15	80	0	53	25	0	0	75	0.81
1441647--1441757	51	2.1	52	82	14	131	35	0	0	63	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445854--1445930	10	7.4	10	72	21	61	32	0	2	64	1.07
1445810--1445938	31	4.1	31	68	18	88	37	0	2	59	1.10
1446745--1446795	26	2.0	25	85	7	68	43	0	0	56	0.99
1446756--1446812	24	2.3	25	81	6	62	38	0	0	61	0.96
1447843--1447914	3	24.0	3	100	0	144	66	0	0	33	0.92
1448475--1448504	2	15.0	2	100	0	60	50	0	0	50	1.00
1448930--1448996	26	2.6	26	72	9	64	53	0	0	46	1.00
1453438--1453477	20	2.0	20	85	0	53	10	2	27	60	1.42
1453682--1453717	19	1.9	18	88	5	54	61	11	5	22	1.50
1454521--1454567	23	2.0	24	91	4	78	65	6	0	27	1.16
1454574--1454653	22	3.1	26	74	22	71	63	10	2	23	1.37
1454584--1454653	27	2.9	23	73	22	79	64	8	2	24	1.36
1454510--1454640	62	2.1	62	81	8	169	63	8	2	25	1.35
1454534--1454714	89	2.0	89	92	2	301	60	9	2	27	1.40
1454596--1454653	27	2.1	27	93	3	98	63	8	3	24	1.38
1454925--1454988	11	5.9	11	67	10	51	48	0	0	51	1.00
1456019--1456047	14	2.1	14	100	0	58	20	20	24	34	1.97
1455853--1456191	181	1.9	181	94	1	599	30	18	16	34	1.93
1456416--1457008	220	2.7	219	85	3	791	35	20	17	26	1.95
1459343--1459387	22	2.0	22	95	0	81	35	0	31	33	1.58
1459520--1459593	38	1.9	38	88	0	112	48	13	8	29	1.71
1460096--1460150	29	2.0	29	82	7	69	54	5	1	38	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465181--1465221	2	20.5	2	89	0	64	43	0	4	51	1.23
1466042--1466107	12	5.2	13	76	20	52	42	0	0	57	0.98
1466037--1466125	25	3.5	25	76	11	83	39	0	2	58	1.11
1467692--1467748	12	4.8	12	78	4	53	29	3	1	64	1.20
1467728--1467786	20	3.1	19	76	9	57	44	1	0	54	1.10
1468298--1468334	13	2.9	13	92	4	58	45	0	0	54	1.00
1468427--1468703	148	1.9	148	93	3	490	41	9	12	35	1.76
1472313--1472342	15	2.0	15	93	0	51	10	0	10	80	0.92
1472504--1472581	32	2.5	30	78	11	77	58	0	0	41	0.98
1473344--1473419	38	2.0	37	82	12	93	53	1	0	44	1.08

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