genome.fa.s71.2.7.7.80.10.50.1000.8.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   26   27   28   29   30   31   32   
          33   

This is table  8  of  33  ( 3929 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)
1259488--1259546	30	2.0	30	86	6	84	52	0	0	47	1.00
1268482--1268506	3	8.3	3	100	0	50	32	32	0	36	1.58
1271208--1271234	10	2.7	10	100	0	54	14	0	7	77	0.97
1272142--1272194	22	2.4	22	84	12	65	30	1	0	67	1.01
1272148--1272205	11	5.2	11	78	14	57	27	1	0	70	0.97
1272999--1273029	15	2.1	15	93	0	53	51	0	0	48	1.00
1273006--1273048	19	2.3	19	95	0	77	58	0	0	41	0.98
1273000--1273049	19	3.0	16	76	18	57	50	0	0	50	1.00
1275275--1275301	7	3.9	7	100	0	54	25	0	0	74	0.83
1276559--1276584	7	3.7	7	100	0	52	30	0	0	69	0.89
1276532--1276614	37	2.3	36	83	6	96	34	6	3	55	1.42
1276571--1276627	30	1.9	30	85	7	80	40	8	3	47	1.52
1276610--1276660	16	3.1	16	76	17	52	49	5	0	45	1.26
1276610--1276657	17	2.9	18	79	14	50	45	6	0	47	1.27
1277658--1277710	17	3.2	17	73	26	60	41	0	0	58	0.98
1277660--1277711	15	3.3	15	75	20	52	42	0	0	57	0.98
1277987--1278027	21	2.0	21	100	0	82	36	24	14	24	1.93
1279699--1279732	16	2.1	16	89	10	52	47	0	0	52	1.00
1280046--1280086	22	1.9	21	90	5	64	60	0	0	39	0.96
1280626--1280664	20	2.0	19	90	5	60	30	2	0	66	1.05
1280650--1280699	20	2.8	18	77	22	52	46	0	0	54	1.00
1280744--1280782	12	3.5	11	89	6	53	25	0	2	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281858--1281904	24	1.9	25	83	12	62	53	2	0	44	1.12
1281861--1281910	26	2.0	26	84	4	66	56	2	0	42	1.11
1282523--1282562	21	1.9	21	90	10	64	40	10	7	42	1.67
1282524--1282570	21	2.2	21	82	14	53	42	12	8	36	1.74
1283151--1283195	22	2.0	22	86	4	63	42	0	0	57	0.98
1283160--1283191	15	2.2	14	94	5	55	37	0	0	62	0.95
1283643--1283685	3	14.3	3	100	0	86	67	0	0	32	0.91
1283846--1283870	3	8.3	3	100	0	50	68	0	32	0	0.90
1284402--1284457	27	2.0	26	83	10	67	37	5	3	53	1.41
1285484--1285558	8	9.9	8	70	11	50	40	2	1	56	1.22
1285482--1285558	15	5.1	15	71	10	50	40	2	1	55	1.22
1287771--1287836	16	4.1	15	70	18	53	39	0	1	59	1.07
1292808--1292859	2	26.0	2	92	0	77	46	1	3	48	1.31
1294326--1294353	2	14.0	2	100	0	56	50	0	0	50	1.00
1296287--1296319	2	16.5	2	100	0	66	51	0	0	48	1.00
1296319--1296356	2	19.0	2	100	0	76	50	0	50	0	1.00
1298235--1298304	23	3.0	23	89	0	113	41	1	25	31	1.64
1299643--1299697	27	2.0	27	92	0	92	54	1	1	41	1.21
1300554--1300592	21	1.9	20	85	15	53	61	0	0	38	0.96
1301132--1301174	17	2.6	17	81	3	52	25	6	2	65	1.30
1301352--1301399	23	2.1	22	81	11	53	16	2	8	72	1.18
1301714--1301751	7	5.6	7	85	14	53	10	0	0	89	0.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301714--1301745	8	4.2	8	88	11	50	9	0	0	90	0.45
1301714--1301751	14	2.7	14	92	8	60	10	0	0	89	0.49
1301714--1301758	14	3.3	14	84	3	56	15	0	0	84	0.62
1302554--1302619	29	2.2	29	84	7	89	59	3	0	37	1.13
1304795--1304846	2	26.5	2	96	3	97	51	0	48	0	1.00
1310576--1310617	21	2.0	22	85	4	59	40	0	2	57	1.12
1311349--1311393	17	2.6	18	82	7	65	40	0	0	60	0.97
1311554--1311617	22	2.7	22	75	18	58	54	1	0	43	1.09
1312105--1312167	28	2.2	28	80	5	74	17	7	9	65	1.46
1312150--1312193	16	2.6	17	85	7	63	2	18	4	75	1.09
1323012--1323114	24	4.2	24	71	11	93	50	0	7	40	1.38
1324337--1324376	20	2.0	20	85	9	55	47	0	10	42	1.37
1324365--1324407	17	2.6	16	82	17	52	46	2	9	41	1.48
1328668--1328718	21	2.4	22	80	12	61	33	11	9	45	1.74
1331112--1331160	22	2.2	22	100	0	98	67	8	8	16	1.40
1332081--1332155	20	3.8	20	76	0	69	40	9	13	37	1.77
1332078--1332155	40	2.0	39	84	2	102	39	10	12	37	1.78
1332785--1335441	28	92.8	28	84	7	2531	22	17	32	27	1.96
1332735--1335445	145	18.9	141	84	6	2761	22	17	32	27	1.96
1336761--1336812	23	2.2	24	82	3	61	5	11	11	71	1.31
1342917--1342965	22	2.2	22	100	0	98	67	8	8	16	1.40
1343886--1343960	20	3.8	20	76	0	69	40	9	13	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343883--1343960	40	2.0	39	84	2	102	39	10	12	37	1.78
1356587--1357028	223	2.0	224	89	1	672	23	22	23	30	1.99
1358718--1358742	2	12.5	2	100	0	50	52	0	0	48	1.00
1364051--1364076	13	2.0	13	100	0	52	38	15	15	30	1.88
1364033--1364096	32	2.0	33	90	3	103	39	18	14	28	1.90
1366295--1366350	21	2.6	22	75	13	64	55	7	14	23	1.63
1370256--1370281	13	2.0	13	100	0	52	30	15	15	38	1.88
1372102--1372146	18	2.5	18	100	0	90	22	0	35	42	1.54
1372723--1372763	20	2.2	19	86	8	57	46	19	9	24	1.80
1372844--1372869	13	2.0	13	100	0	52	38	15	15	30	1.88
1372826--1372889	32	2.0	33	90	3	103	39	18	14	28	1.90
1377444--1377479	2	18.0	2	100	0	72	50	0	0	50	1.00
1379019--1379059	2	20.5	2	94	0	73	48	2	0	48	1.14
1379076--1379281	114	1.8	114	82	7	267	49	1	4	43	1.35
1381078--1381109	15	2.1	16	94	5	57	71	0	0	28	0.86
1381085--1381163	34	2.3	34	83	12	99	63	8	2	25	1.36
1383913--1383963	9	5.8	9	80	11	61	31	0	0	68	0.90
1383913--1384013	33	3.1	32	76	21	86	35	0	0	63	1.01
1384214--1384311	16	6.1	16	73	0	88	37	36	21	4	1.73
1384219--1384309	32	2.8	32	96	0	164	36	39	20	3	1.69
1384219--1384361	32	4.5	32	86	2	162	40	33	19	6	1.77
1384219--1384393	64	2.7	65	79	4	176	40	33	20	5	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384356--1384393	16	2.4	16	90	0	58	39	34	23	2	1.69
1384763--1384802	21	1.9	21	85	10	55	75	2	0	22	0.93
1385775--1385817	16	2.7	16	96	0	77	44	30	11	13	1.80
1385775--1385824	16	3.1	16	85	5	66	48	26	10	16	1.77
1385788--1385874	32	2.7	31	82	3	93	54	26	6	12	1.63
1385828--1385880	16	3.3	15	77	12	61	54	28	5	11	1.58
1385883--1385913	16	1.9	16	100	0	62	45	25	12	16	1.83
1386395--1386522	11	11.5	11	67	17	59	39	0	0	60	0.97
1386394--1386491	45	2.2	44	80	8	103	42	0	0	57	0.99
1386428--1386521	32	3.1	31	76	17	99	40	0	0	59	0.97
1386444--1386537	25	3.4	27	83	11	104	39	1	1	58	1.12
1386985--1387025	19	2.3	19	87	8	59	56	0	0	43	0.99
1386985--1387025	17	2.3	19	84	16	52	56	0	0	43	0.99
1393678--1393719	19	2.2	19	86	0	57	14	11	7	66	1.43
1403401--1403461	8	7.0	9	85	9	74	86	9	1	1	0.70
1403402--1403478	19	4.2	18	77	9	75	85	7	3	2	0.80
1403402--1403473	12	6.4	11	81	12	67	86	8	2	2	0.77
1403402--1403461	1	60.0	1	76	0	57	88	8	1	1	0.65
1403402--1403478	9	8.4	9	77	11	59	85	7	3	2	0.80
1404689--1405529	28	29.5	29	84	7	987	28	30	18	23	1.97
1406135--1406209	20	3.8	20	76	0	78	36	13	10	40	1.79
1406135--1406212	40	2.0	39	84	2	102	35	12	11	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414204--1414636	157	2.8	156	83	2	476	40	20	14	24	1.89
1416210--1416246	19	1.9	19	88	0	56	10	27	13	48	1.75
1416369--1416436	23	3.0	23	95	4	120	7	25	13	54	1.64
1417266--1417304	10	4.1	10	83	12	55	25	0	0	74	0.82
1417269--1417304	18	2.0	18	94	0	63	25	0	0	75	0.81
1417325--1417374	19	2.6	19	78	9	57	12	4	8	76	1.15
1417952--1418104	44	3.6	43	74	9	134	44	15	28	11	1.81
1417952--1418055	44	2.4	43	87	4	138	44	13	31	10	1.78
1418060--1418199	42	3.3	42	68	9	122	44	17	25	12	1.84
1417990--1418455	85	5.4	85	76	5	404	42	15	27	15	1.86

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   26   27   28   29   30   31   32   
          33