genome.fa.s488.2.7.7.80.10.50.1000.9.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: Scaffold488
Parameters: 2 7 7 80 10 50 1000
Length:  2093548

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

This is table  9  of  14  ( 1614 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)
1249572--1249696	1	125.0	1	75	0	79	2	4	8	84	0.83
1249572--1249696	28	4.5	27	74	10	110	2	4	8	84	0.83
1249572--1249696	30	4.1	29	78	12	117	2	4	8	84	0.83
1249623--1249698	32	2.4	31	86	6	109	2	3	9	84	0.85
1249573--1249696	38	3.3	37	78	12	112	2	4	8	84	0.83
1249572--1249689	55	2.1	55	82	4	139	2	4	9	83	0.86
1259398--1259424	10	2.7	10	100	0	54	77	22	0	0	0.76
1263600--1263741	67	2.2	65	88	6	214	30	18	18	32	1.95
1263716--1263740	13	1.9	13	100	0	50	36	16	16	32	1.90
1263781--1263847	33	2.0	33	88	0	98	40	14	11	32	1.83
1263803--1263827	13	1.9	13	100	0	50	32	16	16	36	1.90
1264654--1264865	52	4.2	52	76	12	208	33	16	25	24	1.96
1264761--1264850	43	2.1	43	93	0	153	31	17	24	26	1.97
1264855--1265062	30	7.0	30	87	5	253	25	17	26	29	1.97
1264861--1265053	87	2.2	88	85	4	246	24	18	27	30	1.98
1266500--1266643	1	144.0	1	76	0	99	2	3	9	85	0.79
1266500--1266643	36	3.7	38	79	12	150	2	3	9	85	0.79
1266501--1266638	73	1.9	74	87	1	206	2	3	9	84	0.82
1270218--1270246	1	29.0	1	100	0	58	100	0	0	0	0.00
1276355--1276381	10	2.7	10	100	0	54	77	22	0	0	0.76
1285402--1286803	702	2.0	707	80	7	1569	34	17	16	31	1.92
1286827--1286875	13	4.2	13	75	24	63	36	18	12	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286827--1286896	33	2.1	33	86	7	97	34	18	12	34	1.89
1286925--1286979	19	2.8	20	88	2	76	38	18	12	30	1.88
1286965--1286991	13	2.1	13	100	0	54	40	14	14	29	1.86
1287571--1287610	22	1.9	21	85	10	55	27	37	2	32	1.70
1289446--1289474	13	2.2	13	100	0	58	41	17	13	27	1.87
1295569--1295617	13	4.2	13	73	24	54	36	18	14	30	1.90
1295569--1295638	33	2.1	34	86	7	99	34	20	14	31	1.92
1295667--1295721	19	2.8	20	88	2	76	36	16	12	34	1.87
1295707--1295733	13	2.1	13	100	0	54	40	14	14	29	1.86
1296084--1296108	13	1.9	13	100	0	50	32	8	16	44	1.76
1296064--1296128	33	2.0	33	84	6	87	32	16	13	36	1.89
1295570--1296531	491	2.0	491	83	5	1210	35	15	13	35	1.87
1298695--1298750	28	2.0	28	92	0	94	25	8	30	35	1.86
1300944--1300987	20	2.2	20	87	4	61	38	4	20	36	1.73
1301053--1301191	52	2.7	52	82	9	178	30	15	11	42	1.82
1305614--1305664	18	2.9	18	80	8	52	66	1	23	7	1.28
1306116--1306155	19	2.1	19	90	0	62	17	7	32	42	1.77
1308894--1308935	15	2.7	16	81	7	50	61	4	7	26	1.42
1312745--1312770	13	2.0	13	100	0	52	30	15	15	38	1.88
1312817--1312872	21	2.7	21	80	2	69	32	19	12	35	1.89
1313798--1313835	13	2.9	13	92	0	58	31	13	18	36	1.89
1313824--1313900	20	3.6	20	73	19	66	44	15	12	27	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317750--1317794	21	2.1	21	84	8	56	22	20	4	53	1.63
1318999--1319096	48	2.0	48	100	0	196	24	18	21	35	1.95
1320054--1320079	13	2.0	13	100	0	52	30	15	15	38	1.88
1325022--1325069	9	4.8	9	80	19	51	54	0	4	41	1.20
1325531--1325565	17	2.1	16	89	5	52	62	2	0	34	1.10
1328296--1328442	49	2.9	52	81	12	155	54	2	0	42	1.19
1328326--1328442	51	2.3	49	87	10	157	55	1	0	41	1.16
1330063--1330392	157	2.1	155	80	2	347	39	18	12	29	1.88
1335468--1335508	20	2.0	21	85	4	57	43	4	2	48	1.37
1336443--1336494	15	3.5	15	78	14	54	28	3	0	67	1.08
1340423--1340580	81	2.0	81	86	5	223	58	4	14	22	1.54
1342830--1342876	24	2.0	24	86	0	67	70	2	0	27	0.99
1347170--1347252	32	2.6	32	88	0	121	31	14	13	40	1.84
1349584--1349609	2	13.0	2	100	0	52	50	0	0	50	1.00
1352825--1352858	16	2.3	15	90	10	52	41	0	23	35	1.55
1355597--1355622	13	2.0	13	100	0	52	38	15	15	30	1.88
1357217--1357250	12	2.8	12	90	0	50	41	0	35	23	1.55
1357833--1357888	21	2.6	22	75	13	64	55	7	14	23	1.63
1361789--1361821	13	2.5	13	95	0	57	27	18	15	39	1.90
1361948--1361993	21	2.2	20	81	11	58	32	19	4	43	1.71
1364256--1364311	20	2.8	19	89	5	76	39	14	16	30	1.88
1364381--1364406	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364460--1364499	20	2.1	19	85	4	53	42	12	7	37	1.71
1370760--1370790	8	3.8	8	95	4	53	12	0	25	61	1.32
1372881--1372925	22	2.0	22	83	8	56	33	4	31	31	1.78
1373456--1373532	20	3.8	21	78	13	72	38	19	16	24	1.92
1373592--1373617	13	2.0	13	100	0	52	38	15	15	30	1.88
1377198--1377223	13	2.0	13	100	0	52	38	15	15	30	1.88
1379440--1379484	21	2.1	21	84	8	56	53	4	20	22	1.63
1381288--1381318	15	2.1	15	93	0	53	48	16	22	12	1.80
1383397--1383422	13	2.0	13	100	0	52	30	15	15	38	1.88
1383543--1383588	21	2.2	20	81	11	58	32	19	4	43	1.71
1385228--1385272	20	2.2	21	96	4	83	37	4	33	24	1.76
1386001--1386026	13	2.0	13	100	0	52	38	15	15	30	1.88
1395851--1396634	161	4.8	161	87	2	1043	41	12	10	34	1.79
1397420--1397466	11	4.0	11	84	15	67	0	21	0	78	0.75
1397423--1397463	13	3.2	13	89	3	66	0	24	0	75	0.80
1397837--1398529	165	4.2	161	83	5	764	51	8	11	28	1.67
1399261--1399312	13	4.5	13	71	26	53	36	15	13	34	1.87
1399261--1399329	33	2.1	33	89	5	104	36	17	13	33	1.88
1399357--1399412	19	2.8	20	79	12	71	37	17	10	33	1.85
1401832--1401889	21	2.8	21	92	2	91	43	0	22	34	1.54
1408184--1408222	20	2.0	20	100	0	78	35	20	10	33	1.86
1408250--1408304	19	2.8	19	89	10	85	34	18	14	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408293--1408319	13	2.1	13	100	0	54	44	14	18	22	1.86
1408274--1408336	33	1.9	32	90	3	99	41	15	15	26	1.88
1410197--1410270	20	3.8	19	80	8	78	36	14	16	32	1.89
1412638--1412664	13	2.1	13	100	0	54	48	14	7	29	1.71
1412659--1412723	20	3.2	20	97	0	121	46	12	13	27	1.79
1418834--1418887	20	2.7	20	88	11	76	35	18	14	31	1.91
1420794--1420907	56	2.0	56	94	0	201	28	10	21	39	1.86
1425532--1425557	13	2.0	13	100	0	52	38	15	15	30	1.88
1427772--1427816	21	2.1	21	84	8	56	53	4	20	22	1.63
1431663--1431742	20	3.8	20	75	15	79	26	15	15	43	1.85
1431728--1431766	13	3.0	13	96	0	69	30	17	15	35	1.91
1434302--1434327	13	2.0	13	100	0	52	38	15	15	30	1.88
1436610--1437039	167	2.6	167	80	7	428	31	12	8	47	1.71
1436833--1436875	20	2.1	21	82	4	52	16	11	6	65	1.46
1436833--1436877	21	2.1	21	84	8	56	15	13	6	64	1.47
1438517--1438546	15	1.9	15	93	6	51	80	3	0	16	0.85
1440474--1440975	166	3.0	164	82	4	560	48	10	10	31	1.71
1440504--1441060	166	3.4	163	77	6	507	47	10	10	30	1.72
1442151--1442301	44	3.4	43	69	9	117	42	11	25	20	1.85
1442109--1442291	87	2.1	87	86	3	253	44	12	23	20	1.85
1442368--1442476	42	2.6	42	85	2	139	42	15	25	16	1.88
1442455--1442500	24	1.9	24	95	0	83	56	8	23	10	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442413--1442540	66	1.9	66	82	3	159	46	13	24	16	1.83
1442482--1443065	43	13.8	43	71	8	295	37	16	27	18	1.92
1442479--1442977	85	5.9	84	73	9	275	37	17	27	17	1.92
1443161--1443319	44	3.6	44	75	6	153	40	15	22	22	1.91
1443161--1443321	87	1.8	88	85	1	225	40	14	22	22	1.90
1443161--1443344	44	4.2	44	73	8	151	41	14	21	23	1.89
1443330--1443536	48	4.3	48	81	1	218	42	16	20	21	1.90
1443330--1443534	96	2.1	96	82	3	252	41	16	20	20	1.90
1443802--1444030	90	2.5	88	81	10	248	28	12	31	27	1.93
1444398--1444512	20	5.4	20	68	17	70	45	14	17	22	1.85

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