genome.fa.s59.2.7.7.80.10.50.1000.8.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  8  of  25  ( 2913 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)
1296976--1297028	18	3.2	18	70	25	62	47	0	0	52	1.00
1297385--1297438	25	2.3	23	83	6	63	38	0	0	61	0.96
1297489--1297533	18	2.5	19	82	10	58	31	0	0	68	0.89
1297522--1297571	25	2.0	26	84	4	66	46	6	0	48	1.27
1297676--1297713	2	19.0	2	100	0	76	50	0	0	50	1.00
1298236--1298265	15	2.0	15	93	0	51	0	13	3	83	0.77
1298967--1299020	2	27.0	2	100	0	108	50	0	0	50	1.00
1299919--1299958	13	2.9	14	85	11	55	32	5	0	62	1.17
1301011--1301045	14	2.4	15	90	4	54	45	0	0	54	0.99
1301530--1301596	31	2.3	29	79	18	77	50	0	0	49	1.00
1302538--1302581	2	22.0	2	95	0	79	52	0	0	47	1.00
1302658--1302700	2	21.5	2	100	0	86	51	0	0	48	1.00
1306022--1306118	32	2.9	34	72	20	87	46	3	1	49	1.24
1306057--1306107	15	3.1	15	76	23	50	47	0	1	50	1.12
1306140--1306184	22	2.0	22	86	0	63	48	0	0	51	1.00
1306360--1306389	12	2.5	12	94	0	51	56	0	0	43	0.99
1308513--1308599	33	2.6	34	80	8	88	43	1	0	55	1.07
1312469--1312509	3	13.7	3	100	0	82	68	0	0	31	0.90
1313996--1314055	2	30.0	2	100	0	120	50	0	0	50	1.00
1314916--1314955	3	13.3	3	89	0	62	67	0	32	0	0.91
1314912--1314955	15	2.9	15	93	0	70	68	0	31	0	0.90
1315546--1315570	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316167--1316206	21	2.0	20	85	5	53	40	0	5	55	1.22
1316144--1316244	36	2.9	34	78	10	105	38	0	4	55	1.28
1322337--1322371	2	17.5	2	100	0	70	51	0	0	48	1.00
1323884--1323930	23	2.0	23	100	0	94	34	17	21	27	1.95
1324273--1324310	19	2.0	19	100	0	76	26	10	10	52	1.68
1329824--1329856	11	3.1	11	86	8	50	0	12	0	87	0.53
1329824--1329852	14	2.1	14	93	6	51	0	10	0	89	0.48
1330555--1330739	34	5.5	34	87	3	248	40	26	7	25	1.81
1334805--1334867	19	3.3	19	90	0	90	34	19	17	28	1.94
1335175--1335290	34	3.4	33	82	7	135	40	27	6	25	1.79
1335396--1335421	4	6.5	4	100	0	52	23	0	0	76	0.78
1336279--1336370	16	5.8	15	70	12	51	57	8	4	29	1.48
1336336--1336370	16	2.2	15	90	10	52	62	5	0	31	1.18
1336839--1336884	17	2.8	17	75	18	53	56	0	0	43	0.99
1337026--1337105	16	5.0	16	75	6	54	12	15	30	42	1.83
1337295--1337350	25	2.2	25	100	0	112	42	8	8	39	1.68
1340921--1340947	3	9.0	3	100	0	54	66	0	0	33	0.92
1343753--1343777	2	12.5	2	100	0	50	48	0	0	52	1.00
1344579--1344632	23	2.3	23	84	12	65	37	1	1	59	1.19
1344603--1344645	15	2.9	14	80	10	50	34	0	0	65	0.93
1344595--1344639	23	2.0	23	91	8	74	37	0	0	62	0.96
1344614--1344653	14	2.9	14	81	3	55	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344881--1344950	30	2.3	29	83	13	81	52	0	2	44	1.15
1344863--1344950	14	6.0	14	71	12	52	51	0	3	45	1.18
1351230--1351286	28	2.0	28	83	6	71	47	3	0	49	1.18
1351234--1351284	19	2.7	19	78	9	59	47	3	0	49	1.20
1353007--1353032	3	8.7	3	100	0	52	65	0	0	34	0.93
1353433--1353484	20	2.7	20	80	14	63	65	1	0	32	1.04
1353421--1353484	25	2.6	24	85	9	85	67	1	0	31	1.00
1354316--1354353	2	19.5	2	94	5	69	50	0	0	50	1.00
1354411--1354566	80	2.0	80	86	0	222	37	20	5	37	1.75
1354585--1354635	21	2.4	21	78	12	59	56	0	3	39	1.18
1354619--1354687	14	4.9	15	74	13	58	56	0	0	43	0.99
1356425--1356486	20	3.0	21	77	13	74	54	8	4	32	1.51
1357280--1357304	2	12.5	2	100	0	50	48	0	0	52	1.00
1358706--1358743	12	3.0	13	76	7	51	63	13	0	23	1.30
1359029--1359098	30	2.4	31	80	9	92	41	1	0	57	1.08
1359075--1359108	17	1.9	18	94	5	61	50	0	0	50	1.00
1359121--1359226	29	3.7	29	75	8	90	51	2	2	42	1.31
1359688--1359733	2	23.0	2	100	0	92	50	0	0	50	1.00
1365234--1365265	3	10.7	3	93	0	55	62	34	3	0	1.11
1365267--1365308	2	22.0	2	83	9	52	45	2	2	50	1.27
1365511--1365556	15	2.9	16	72	21	51	52	0	0	47	1.00
1365730--1365820	47	1.9	47	82	8	114	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365771--1365809	20	2.0	20	85	5	53	51	0	0	48	1.00
1365770--1365817	18	2.7	18	79	17	55	52	0	0	47	1.00
1366238--1366304	20	3.5	20	78	17	63	49	0	0	50	1.00
1366256--1366310	25	2.2	24	81	9	65	52	0	0	47	1.00
1366257--1366327	38	1.9	36	83	11	90	54	1	0	43	1.08
1366709--1366768	25	2.2	29	77	14	74	46	0	0	53	1.00
1366713--1366768	9	6.4	9	76	15	64	44	0	0	55	0.99
1370391--1370438	22	2.2	22	85	7	62	43	0	0	56	0.99
1371335--1371370	17	2.0	19	89	10	58	63	0	0	36	0.94
1371381--1371412	15	2.0	17	88	11	50	25	0	0	75	0.81
1371708--1371760	27	2.0	27	84	0	70	52	1	0	45	1.11
1372222--1372261	3	13.7	3	94	5	73	67	0	0	32	0.91
1372226--1372260	17	2.1	17	100	0	70	65	0	0	34	0.93
1372223--1372261	20	2.0	20	100	0	78	66	0	0	33	0.92
1372582--1372695	62	2.0	56	81	13	133	41	0	5	53	1.23
1373239--1373298	14	4.1	14	73	14	50	35	0	3	61	1.12
1373486--1373536	26	2.0	25	81	7	59	35	1	5	56	1.35
1374833--1374882	20	2.4	21	74	16	50	46	2	2	50	1.24
1377280--1377321	2	21.0	2	100	0	84	50	0	0	50	1.00
1378267--1378293	2	13.5	2	100	0	54	51	48	0	0	1.00
1379537--1379799	130	2.0	130	96	0	483	40	12	17	28	1.87
1381026--1381055	14	2.1	14	100	0	60	43	0	30	26	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382281--1382312	9	3.7	9	95	4	57	34	0	0	65	0.93
1383687--1383723	2	18.5	2	100	0	74	0	0	48	51	1.00
1388105--1388143	2	19.5	2	100	0	78	0	48	0	51	1.00
1393937--1393967	16	1.9	16	93	0	53	25	16	6	51	1.68
1396913--1397152	118	2.0	118	98	0	462	45	7	16	30	1.74
1399992--1400034	2	21.5	2	100	0	86	48	0	0	51	1.00
1406257--1406331	26	2.8	26	97	2	141	36	18	8	37	1.80
1407951--1407977	14	1.9	14	100	0	54	29	29	0	40	1.57
1412641--1412682	12	3.4	12	96	3	75	52	0	0	47	1.00
1412617--1412693	24	3.1	25	80	12	79	55	0	0	44	0.99
1412660--1412724	34	1.9	34	81	12	80	49	0	1	49	1.10
1414389--1414434	21	2.2	20	85	14	58	54	0	0	45	0.99
1415950--1415984	17	2.1	16	89	5	52	34	2	2	60	1.26
1416281--1416322	22	1.9	22	90	9	68	61	0	0	38	0.96
1422442--1422497	16	3.6	16	79	11	62	21	1	19	57	1.50
1422547--1422619	22	3.3	23	79	11	64	38	5	8	47	1.56
1422776--1422824	25	1.9	26	84	12	66	59	0	4	36	1.17
1424128--1424186	25	2.4	25	94	0	100	52	0	0	47	1.00
1424138--1424204	19	3.6	19	71	16	59	55	0	0	44	0.99
1424128--1424206	25	3.1	25	82	8	63	54	0	0	45	0.99
1424461--1424502	19	2.2	20	91	4	68	52	9	2	35	1.47
1426549--1426623	7	11.3	7	75	16	63	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1426535--1426585	25	2.0	25	85	7	68	49	0	3	47	1.20
1426536--1426635	6	16.8	6	70	17	50	49	0	2	49	1.12
1426557--1426639	41	2.0	40	82	13	98	48	0	0	51	1.00
1426788--1426826	19	2.2	17	90	9	60	46	0	0	53	1.00
1426777--1426836	19	3.5	17	77	18	54	48	0	0	51	1.00
1430060--1430103	21	2.1	21	87	4	63	52	18	4	25	1.64
1433686--1433718	2	16.5	2	100	0	66	0	48	0	51	1.00
1433718--1433776	4	14.2	4	89	7	91	28	0	22	49	1.50
1433719--1433776	22	2.5	26	71	26	65	29	0	22	48	1.51
1434842--1434894	19	2.9	17	76	13	52	43	0	1	54	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25