genome.fa.s44.2.7.7.80.10.50.1000.8.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: Scaffold44
Parameters: 2 7 7 80 10 50 1000
Length:  3265628

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

This is table  8  of  17  ( 1994 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)
1262336--1262769	52	8.5	52	77	5	357	24	25	15	33	1.95
1262478--1262724	49	4.9	49	79	6	165	25	25	15	32	1.96
1268869--1269365	156	3.2	151	79	8	516	38	21	15	24	1.93
1271444--1271839	166	2.4	165	83	4	458	49	8	9	32	1.65
1271479--1271839	165	2.2	166	84	3	460	49	9	9	32	1.66
1273959--1274031	20	3.8	19	85	10	87	41	15	15	28	1.87
1273959--1274011	18	2.8	20	88	8	83	39	15	15	30	1.87
1273998--1274050	20	2.7	20	96	0	97	43	15	13	28	1.84
1281038--1281068	3	10.3	3	92	0	53	29	35	0	35	1.58
1282741--1282793	19	2.7	19	77	8	54	41	13	16	28	1.86
1283669--1283851	92	2.0	92	94	2	323	31	12	17	38	1.87
1283794--1283942	80	1.9	80	84	0	199	32	10	18	38	1.85
1285782--1285820	3	13.0	3	100	0	78	33	0	0	66	0.92
1289742--1289773	2	16.0	2	100	0	64	0	50	0	50	1.00
1290163--1290207	13	3.5	13	81	0	54	77	0	22	0	0.76
1290164--1290203	15	2.5	16	92	8	64	77	0	22	0	0.77
1290166--1290209	15	3.1	15	80	9	56	77	0	22	0	0.77
1293274--1293307	16	2.1	16	94	0	59	55	2	0	41	1.15
1293540--1293599	25	2.3	26	82	5	86	38	0	3	58	1.15
1293911--1293998	44	2.0	44	95	0	158	55	17	7	19	1.65
1296964--1297008	20	2.1	22	88	8	67	48	6	8	35	1.61
1305475--1305514	16	2.5	16	91	0	62	85	12	0	2	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306670--1306707	16	2.3	17	86	4	51	44	23	5	26	1.74
1306812--1307231	31	13.5	31	79	8	392	24	28	15	32	1.95
1307219--1307272	27	2.0	27	85	0	72	24	31	12	31	1.93
1307051--1307307	126	2.0	126	80	5	288	23	28	12	35	1.92
1307240--1307671	27	14.0	33	76	10	234	21	31	12	34	1.90
1307219--1307670	95	4.9	93	77	11	364	22	31	12	33	1.91
1307237--1307481	129	1.9	129	84	1	330	21	30	11	36	1.88
1307336--1307469	68	2.0	68	83	5	173	20	30	10	38	1.86
1307437--1307630	27	7.0	27	83	6	253	23	34	13	28	1.93
1307644--1307738	30	3.3	29	84	10	124	33	32	16	16	1.92
1307661--1307748	27	3.0	28	80	14	90	31	30	18	19	1.95
1307760--1308395	49	13.8	49	76	10	483	26	25	16	31	1.97
1307814--1308013	39	4.9	39	77	12	204	26	25	20	28	1.99
1307848--1308063	88	2.5	88	87	1	317	26	25	18	30	1.98
1307887--1308213	137	2.4	137	93	0	555	26	25	16	31	1.96
1307887--1308395	137	3.6	137	84	4	552	26	24	16	32	1.96
1308117--1308447	147	2.2	148	82	3	389	25	25	15	33	1.95
1309096--1309121	13	2.0	13	100	0	52	30	23	15	30	1.95
1309903--1309955	19	2.7	20	85	8	72	28	13	18	39	1.88
1309903--1309961	19	3.0	18	80	14	64	25	11	22	40	1.88
1320145--1320190	18	2.4	19	76	16	51	80	4	8	6	1.01
1320980--1321029	24	2.2	22	85	7	64	48	0	38	14	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326970--1327022	20	2.6	21	84	3	72	39	15	16	28	1.89
1327059--1327122	33	2.0	32	90	3	101	37	21	12	28	1.90
1335236--1335260	13	1.9	13	100	0	50	32	16	16	36	1.90
1335248--1335297	20	2.4	21	86	3	66	38	14	18	30	1.89
1335353--1335378	13	2.0	13	100	0	52	30	15	15	38	1.88
1335333--1335399	33	2.1	32	88	8	100	37	17	11	32	1.87
1340204--1340238	12	2.9	12	84	16	54	40	0	48	11	1.39
1340204--1340269	24	3.0	24	74	14	70	43	0	43	12	1.41
1340663--1340724	20	3.0	20	81	9	72	37	17	11	33	1.86
1342624--1342649	13	2.0	13	100	0	52	38	15	15	30	1.88
1342725--1342779	21	2.6	21	94	0	92	40	20	12	27	1.88
1340643--1344720	693	5.9	688	83	6	4632	32	20	15	31	1.93
1345424--1345523	50	2.0	50	92	0	164	32	14	10	44	1.78
1346214--1356090	695	14.5	674	81	7	10158	32	19	15	31	1.93
1350824--1350849	13	2.0	13	100	0	52	38	15	15	30	1.88
1350918--1350979	20	3.1	19	75	13	61	38	17	11	32	1.85
1353571--1353632	32	1.9	32	86	0	88	35	12	11	40	1.80
1354275--1354300	13	2.0	13	100	0	52	38	15	15	30	1.88
1354949--1354974	13	2.0	13	100	0	52	38	15	15	30	1.88
1355049--1355101	21	2.6	20	85	5	70	37	13	13	35	1.83
1366320--1366409	1	90.0	1	68	0	54	84	13	0	2	0.72
1366320--1366403	9	9.7	9	77	14	88	84	13	0	2	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366321--1366409	16	5.2	17	77	18	96	84	13	0	2	0.72
1366323--1366409	23	3.8	22	81	18	99	83	13	0	2	0.73
1367688--1368125	184	2.3	190	82	6	534	24	24	16	34	1.95
1368090--1368217	52	2.5	52	82	0	166	25	23	15	35	1.94
1369046--1369163	50	2.3	51	86	1	157	31	16	11	40	1.84
1378370--1378651	80	3.5	80	79	1	271	29	16	26	27	1.97
1378870--1378979	32	3.6	31	76	9	118	17	19	32	30	1.94
1378857--1378984	60	2.1	60	85	0	166	16	18	32	32	1.93
1378896--1378994	28	3.4	28	76	10	90	13	21	33	32	1.91
1379311--1379396	29	3.1	26	76	12	91	22	15	31	31	1.94
1381070--1381129	29	2.1	29	84	6	79	16	15	15	53	1.74
1381332--1381568	119	2.0	119	99	0	465	22	15	21	40	1.90
1392424--1392474	20	2.5	20	83	3	66	33	19	5	41	1.76
1393261--1393329	33	2.1	33	83	5	86	30	18	13	37	1.89
1406047--1406087	19	2.1	20	90	4	66	78	2	9	9	1.06
1406852--1406914	12	5.5	12	69	17	53	44	0	42	12	1.42
1406852--1406919	33	2.1	33	83	10	86	45	0	41	13	1.43
1406859--1406929	21	3.2	22	74	20	58	50	0	36	12	1.41
1410650--1410700	20	2.5	21	80	3	59	39	9	17	33	1.83
1410763--1410788	13	2.0	13	100	0	52	30	15	15	38	1.88
1410743--1410810	33	2.1	33	94	2	120	33	20	13	32	1.91
1421186--1421229	20	2.2	19	88	8	61	52	18	11	18	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422261--1422297	17	2.1	18	90	5	58	35	10	13	40	1.80
1425581--1425708	52	2.5	52	94	3	224	30	17	17	33	1.94
1425717--1425741	13	1.9	13	100	0	50	36	16	16	32	1.90
1425782--1425848	33	2.0	33	88	0	98	40	13	11	34	1.81
1425804--1425828	13	1.9	13	100	0	50	32	16	16	36	1.90
1426557--1427185	49	12.8	52	83	9	561	30	17	26	25	1.97
1426621--1427185	49	11.7	49	86	5	796	29	18	26	25	1.98
1426974--1427041	22	3.1	22	62	26	54	30	20	25	23	1.98
1426612--1427190	190	3.0	188	86	5	833	30	17	27	24	1.98
1427185--1427325	34	4.2	34	91	0	232	19	17	35	27	1.94
1427185--1427325	67	2.1	67	92	2	230	19	17	35	27	1.94
1427328--1427740	33	12.6	32	75	17	311	31	14	33	20	1.92
1427328--1427745	34	12.8	34	76	17	374	31	14	33	20	1.92
1427307--1427745	98	4.5	98	83	8	433	31	13	33	20	1.92
1427529--1427716	61	3.1	59	83	3	241	30	14	33	21	1.93
1428679--1428710	16	1.9	17	93	6	57	0	6	9	84	0.78
1428950--1429001	18	2.9	18	88	2	79	0	0	7	92	0.39
1428950--1429001	1	52.0	1	84	0	68	0	0	7	92	0.39
1435863--1435990	52	2.5	52	94	3	224	30	17	17	33	1.94
1435999--1436023	13	1.9	13	100	0	50	36	16	16	32	1.90
1438156--1438221	26	2.5	26	95	0	114	19	15	36	28	1.92
1438206--1438526	103	3.1	101	85	3	417	34	13	25	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1444534--1444650	58	2.0	58	89	0	180	27	23	19	29	1.98
1446733--1446902	29	5.9	29	78	0	180	26	31	13	28	1.94
1447022--1447212	31	6.4	30	72	10	92	30	27	19	21	1.98
1447022--1447115	31	3.0	31	82	0	107	30	26	20	22	1.98
1447149--1447254	31	3.4	31	80	2	113	27	28	20	23	1.99
1447468--1447765	52	5.8	52	78	7	304	23	25	16	33	1.96
1447527--1447742	102	2.1	103	87	5	303	22	26	17	32	1.96
1448440--1448464	13	1.9	13	100	0	50	32	16	16	36	1.90
1448420--1448487	33	2.1	33	88	2	102	35	17	14	32	1.91
1454626--1454650	13	1.9	13	100	0	50	32	20	16	32	1.94

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