genome.fa.s253.2.7.7.80.10.50.1000.10.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: Scaffold253
Parameters: 2 7 7 80 10 50 1000
Length:  2064896

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

This is table  10  of  13  ( 1496 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)
1265898--1265941	15	3.0	15	80	3	54	70	4	0	25	1.06
1266274--1266324	17	3.1	18	75	18	56	49	0	0	50	1.00
1266277--1266332	5	10.8	5	74	14	51	46	0	0	53	1.00
1266277--1266347	37	1.9	36	86	11	99	49	0	0	50	1.00
1268016--1268043	2	14.0	2	100	0	56	50	0	0	50	1.00
1269973--1270001	15	2.0	15	93	6	51	75	10	0	13	1.04
1271869--1271897	2	14.5	2	100	0	58	48	0	0	51	1.00
1272923--1272998	29	2.6	28	82	12	91	57	0	1	40	1.07
1280249--1280363	10	12.0	10	64	19	50	46	0	0	53	1.00
1280352--1280417	27	2.5	25	76	13	69	40	1	0	57	1.08
1286516--1286540	2	12.5	2	100	0	50	52	0	0	48	1.00
1291346--1291391	22	2.0	23	84	16	60	41	0	0	58	0.98
1291627--1291687	27	2.3	27	78	13	74	59	0	1	39	1.08
1293809--1293850	2	21.0	2	95	0	75	50	2	0	47	1.14
1295954--1296008	18	3.2	17	82	7	67	40	0	0	60	0.97
1295959--1296012	17	3.1	17	82	12	65	40	0	0	59	0.98
1295962--1296048	30	3.1	29	76	21	80	43	0	2	54	1.13
1296090--1296177	16	5.7	15	75	9	61	39	1	2	56	1.19
1297317--1297374	20	2.6	23	84	10	68	50	0	0	50	1.00
1297323--1297374	10	4.8	10	78	21	52	50	0	0	50	1.00
1297304--1297367	23	2.7	25	80	9	71	48	0	0	51	1.00
1301439--1301474	2	18.0	2	100	0	72	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)
1301585--1301621	10	3.5	10	89	10	56	86	0	5	8	0.70
1304692--1304735	23	1.9	23	82	17	56	52	0	0	47	1.00
1305942--1306038	5	20.2	5	66	16	53	56	0	1	42	1.06
1305967--1306029	25	2.4	25	84	10	74	53	0	0	46	1.00
1305942--1306044	54	1.9	54	80	11	122	56	0	0	42	1.06
1306786--1306823	12	3.2	12	85	7	51	2	7	0	89	0.57
1315152--1315190	20	2.0	20	85	10	53	41	0	2	56	1.13
1315172--1315258	27	3.3	26	68	22	74	36	1	0	62	1.03
1315162--1315234	22	3.4	22	79	7	71	39	0	0	60	0.97
1315178--1315262	18	5.0	18	67	21	58	37	1	0	61	1.04
1315722--1315747	2	13.0	2	100	0	52	50	0	0	50	1.00
1315861--1315909	25	2.0	25	92	4	82	59	0	4	36	1.17
1320783--1320842	30	2.0	30	100	0	120	36	33	10	20	1.86
1321475--1321508	15	2.3	15	94	0	59	29	32	11	26	1.92
1323438--1323481	17	2.6	17	85	0	61	56	0	2	40	1.11
1325368--1325393	2	13.0	2	100	0	52	50	0	0	50	1.00
1326382--1326440	26	2.2	27	81	3	66	45	0	3	50	1.18
1326470--1326559	33	2.5	36	72	21	82	48	4	1	45	1.29
1326546--1326603	20	2.7	22	86	5	75	46	0	0	53	1.00
1326547--1326603	22	2.6	22	83	8	73	47	0	0	52	1.00
1334567--1334616	22	2.2	23	82	13	68	46	0	6	48	1.27
1334597--1334703	37	2.7	39	76	21	116	52	0	0	46	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335483--1335516	11	2.9	12	82	8	52	70	0	0	29	0.87
1337325--1337363	20	2.0	19	85	5	51	48	0	0	51	1.00
1339191--1339225	14	2.3	16	90	9	56	62	0	8	28	1.24
1340146--1340177	15	2.0	17	88	11	50	43	0	0	56	0.99
1342964--1343000	2	18.5	2	100	0	74	51	0	0	48	1.00
1343273--1343311	16	2.4	17	87	8	55	53	2	0	43	1.14
1343614--1343651	18	2.1	19	85	5	51	39	0	0	60	0.97
1344412--1344477	22	3.0	22	79	16	73	56	0	0	43	0.99
1344414--1344477	23	2.8	22	79	11	67	57	0	0	42	0.98
1344482--1344507	8	3.2	8	100	0	52	76	0	0	23	0.78
1351386--1351423	2	19.0	2	100	0	76	50	0	0	50	1.00
1355192--1355285	48	2.0	48	84	0	125	29	21	22	26	1.99
1358356--1358380	13	1.9	13	100	0	50	36	16	40	8	1.77
1358349--1358391	19	2.3	19	84	8	52	41	16	32	9	1.80
1359917--1359977	26	2.5	24	81	5	68	65	0	0	34	0.93
1359924--1359984	23	2.6	23	72	12	61	63	0	1	34	1.04
1360499--1360547	18	2.7	18	78	6	55	53	0	0	46	1.00
1360608--1360654	15	3.1	15	73	11	51	48	0	0	51	1.00
1361036--1361098	23	2.7	24	85	9	85	42	0	1	55	1.09
1361013--1361089	11	7.2	11	68	21	56	44	1	0	54	1.08
1361024--1361197	11	16.3	11	67	20	68	37	1	0	60	1.09
1361091--1361208	17	6.8	17	68	23	59	35	1	0	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1361257--1361311	9	6.1	9	75	21	53	61	1	0	36	1.06
1362462--1362504	17	2.4	19	84	11	63	69	0	2	27	1.00
1362457--1362520	20	3.2	20	76	19	71	64	1	1	32	1.13
1362515--1362558	3	15.0	3	95	4	81	34	0	0	65	0.93
1362703--1362750	16	3.1	15	79	8	51	52	2	0	45	1.12
1363036--1363098	5	12.6	5	79	12	67	65	0	0	34	0.93
1363035--1363084	25	2.0	25	92	7	84	60	0	0	40	0.97
1363040--1363120	30	2.7	30	83	5	94	65	0	0	34	0.93
1364137--1364187	11	4.7	11	77	20	54	33	1	0	64	1.05
1364142--1364183	20	2.1	20	86	0	57	33	0	0	66	0.92
1364173--1364217	17	2.5	19	75	20	51	53	0	0	46	1.00
1364233--1364278	24	1.9	24	91	8	76	39	0	0	60	0.97
1364228--1364278	11	4.5	11	77	20	52	39	0	0	60	0.97
1364623--1364674	5	10.4	5	76	15	54	59	0	1	38	1.08
1367339--1367380	22	1.9	22	90	9	68	61	0	0	38	0.96
1367503--1367591	5	19.0	5	67	21	50	61	1	0	37	1.03
1367494--1367551	17	3.2	17	73	19	55	58	0	0	41	0.98
1367502--1367591	14	6.9	13	69	19	55	62	1	0	36	1.03
1367541--1367602	21	3.0	22	80	13	71	64	1	0	33	1.03
1367538--1367602	19	3.3	18	78	19	60	66	1	0	32	1.01
1370156--1370208	21	2.6	20	80	16	56	20	1	9	67	1.28
1375049--1375087	2	20.0	2	84	5	53	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381828--1381959	27	4.7	27	70	21	74	38	0	0	60	1.02
1381876--1381925	20	2.5	19	81	9	55	38	2	0	60	1.09
1381835--1381962	38	3.6	33	75	13	105	39	0	0	60	1.03
1381843--1381937	26	3.6	26	78	14	88	38	1	0	60	1.04
1381875--1381965	19	4.5	21	72	14	66	37	1	0	61	1.03
1382097--1382140	22	2.0	22	100	0	88	50	4	13	31	1.62
1383280--1383327	15	3.2	15	80	11	53	60	0	0	39	0.97
1383912--1383977	32	2.0	31	82	8	78	56	0	0	43	0.99
1395067--1395196	64	2.0	64	95	0	233	39	15	13	32	1.86
1395079--1395217	64	2.1	64	86	5	190	42	15	12	30	1.83
1396559--1396613	19	3.2	17	76	19	53	60	0	0	40	0.97
1397234--1397294	11	5.6	11	86	7	81	36	0	0	63	0.94
1397244--1397295	16	3.1	18	86	13	76	32	0	0	67	0.91
1397226--1397290	5	13.0	5	72	18	55	36	0	1	61	1.05
1397233--1397302	28	2.5	29	77	9	83	37	0	0	62	0.95
1397244--1397294	17	3.1	16	86	10	68	33	0	0	66	0.92
1397207--1397297	17	5.0	17	69	21	60	36	1	1	61	1.10
1398079--1398110	2	16.5	2	93	6	57	50	0	0	50	1.00
1399356--1399422	22	3.0	23	75	16	70	62	0	0	37	0.95
1399353--1399422	21	3.3	22	75	16	67	61	0	0	38	0.96
1400864--1400912	14	3.4	14	76	15	55	51	0	0	48	1.00
1400849--1400914	29	2.3	30	86	7	100	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)
1400923--1400993	32	2.2	32	87	5	99	52	7	4	36	1.48
1401136--1401203	19	3.6	19	76	9	68	50	0	0	50	1.00
1401369--1401397	13	2.2	13	100	0	58	58	0	0	41	0.98
1401591--1401640	14	3.5	14	76	15	57	52	0	0	48	1.00
1401594--1401650	29	2.0	29	92	0	96	49	0	0	50	1.00
1418691--1418723	2	16.5	2	100	0	66	48	0	0	51	1.00
1425716--1425756	18	2.2	20	86	8	59	36	0	0	63	0.95
1425732--1425813	21	4.0	20	72	23	55	41	0	1	57	1.06
1425745--1425806	19	3.2	18	74	21	54	41	0	1	56	1.09
1425830--1425863	10	3.4	10	83	0	50	50	0	2	47	1.16

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