genome.fa.s324.2.7.7.80.10.50.1000.10.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

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

This is table  10  of  16  ( 1878 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)
1405256--1405449	48	4.0	48	91	4	311	44	9	7	38	1.65
1405256--1405449	97	2.0	95	91	4	309	44	9	7	38	1.65
1408187--1408241	22	2.5	23	77	16	62	61	0	1	36	1.06
1408207--1408337	60	2.2	59	85	8	176	50	2	3	44	1.30
1408263--1408485	102	2.1	104	86	5	308	52	3	1	43	1.25
1408778--1408810	13	2.4	14	90	5	50	45	0	0	54	0.99
1408856--1408905	11	4.6	11	82	12	59	72	0	0	28	0.86
1409853--1409883	8	4.0	8	95	4	55	90	0	0	9	0.46
1414549--1414574	2	13.0	2	100	0	52	50	0	0	50	1.00
1415885--1415922	16	2.4	16	87	12	53	57	0	0	42	0.98
1415924--1415953	12	2.5	12	94	0	51	50	0	0	50	1.00
1415931--1415980	22	2.3	21	80	16	57	48	0	2	50	1.12
1415931--1415980	16	3.4	15	79	15	52	48	0	2	50	1.12
1415943--1415980	11	3.5	11	85	3	51	47	0	2	50	1.15
1415929--1416008	5	15.8	5	71	18	51	56	0	1	42	1.07
1418557--1418601	3	14.7	3	95	4	81	66	0	0	33	0.92
1418662--1418753	28	3.5	26	76	14	73	45	3	2	48	1.30
1418765--1418836	34	2.0	37	84	7	96	65	1	0	33	1.02
1418794--1418874	24	3.4	24	81	11	78	62	0	0	37	0.95
1418843--1418880	18	2.1	18	90	0	58	57	2	0	39	1.12
1419181--1419245	18	3.9	16	71	15	51	44	1	1	52	1.19
1419173--1419246	17	4.4	17	73	19	66	44	1	1	52	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1419236--1419311	26	3.1	25	80	14	70	42	0	0	57	0.98
1419243--1419307	15	4.5	15	73	21	50	40	0	0	60	0.97
1419228--1419309	25	3.0	28	71	18	73	41	0	0	58	0.98
1419590--1419639	11	4.6	11	78	12	59	64	0	0	36	0.94
1419591--1419657	16	4.1	17	71	23	54	64	0	1	34	1.03
1419597--1419660	31	2.0	31	87	6	92	64	0	1	34	1.03
1419597--1419681	33	2.6	33	80	10	86	62	0	1	36	1.03
1419561--1419728	20	8.4	20	63	16	62	59	0	0	39	1.06
1419959--1419986	13	2.2	13	100	0	56	57	0	0	42	0.99
1420229--1420253	13	1.9	13	100	0	50	48	0	4	48	1.20
1420544--1420575	17	1.9	17	93	6	57	53	0	0	46	1.00
1422852--1422884	12	2.6	13	85	9	50	57	0	0	42	0.98
1425684--1425708	13	1.9	13	100	0	50	88	0	12	0	0.53
1426296--1426328	17	2.0	17	88	5	50	51	0	0	48	1.00
1426320--1426352	16	2.0	17	94	5	59	72	0	0	27	0.85
1426495--1426524	15	1.9	16	93	6	53	76	0	23	0	0.78
1426975--1427029	18	3.0	18	76	15	51	49	1	0	49	1.11
1426984--1427071	19	4.7	18	73	13	63	48	0	0	51	1.00
1429178--1429330	74	2.1	74	98	0	297	22	24	15	37	1.93
1436432--1436485	3	17.7	3	88	3	81	64	0	0	35	0.94
1436740--1436783	16	2.6	18	77	22	51	52	9	2	36	1.46
1436803--1436849	17	2.7	18	75	15	53	36	0	2	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437194--1437281	44	2.0	44	93	0	149	36	7	6	48	1.59
1437768--1437835	27	2.6	28	84	11	90	42	0	0	57	0.98
1437822--1437866	24	1.9	23	90	4	72	33	0	0	66	0.92
1437826--1437890	29	2.2	29	81	8	69	38	3	0	58	1.14
1438203--1438244	15	2.9	15	79	17	52	57	0	0	42	0.99
1438386--1438445	24	2.3	26	81	16	72	41	0	0	58	0.98
1438428--1438490	29	2.2	30	80	8	78	42	1	1	53	1.19
1438727--1438768	2	21.0	2	95	0	75	47	0	52	0	1.00
1439982--1440007	13	2.0	13	100	0	52	23	0	0	76	0.78
1440873--1440902	14	2.1	14	93	0	51	30	20	16	33	1.94
1440877--1440965	14	6.2	14	75	10	63	26	19	22	31	1.97
1445287--1445316	15	1.9	16	93	6	53	3	23	0	73	0.98
1445709--1445745	17	2.3	17	90	9	60	45	0	5	48	1.25
1448420--1448459	14	2.7	14	88	7	53	50	0	0	50	1.00
1450312--1450338	2	13.5	2	100	0	54	51	0	0	48	1.00
1458671--1458720	23	2.1	25	85	7	68	56	2	0	42	1.11
1459560--1459595	12	3.0	13	80	19	51	50	0	0	50	1.00
1466006--1466032	2	13.5	2	100	0	54	48	0	0	51	1.00
1466380--1466483	45	2.3	45	81	12	117	39	0	0	59	1.04
1466428--1466484	18	3.2	17	83	11	55	38	1	0	59	1.08
1469545--1469587	2	21.5	2	100	0	86	51	0	0	48	1.00
1470038--1470064	11	2.5	11	100	0	54	37	0	11	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1471409--1471440	6	4.9	7	92	7	50	46	0	0	53	1.00
1471413--1471471	6	9.7	6	81	9	66	40	0	5	54	1.23
1471391--1471472	36	2.3	37	79	14	91	43	0	3	52	1.18
1474945--1474986	21	2.0	21	90	0	66	83	4	9	2	0.88
1475474--1475506	16	2.1	16	94	5	59	39	0	0	60	0.97
1475472--1475507	15	2.4	14	86	13	54	44	0	0	55	0.99
1475524--1475570	15	3.3	15	77	17	55	48	0	4	46	1.21
1475754--1475816	22	2.9	22	92	0	99	42	15	4	36	1.69
1475932--1476023	44	2.1	44	93	0	157	50	7	3	39	1.47
1477132--1477176	22	2.0	22	83	12	56	31	0	0	68	0.89
1481235--1481302	20	3.3	20	75	18	68	44	0	0	55	0.99
1481235--1481312	22	3.7	20	74	16	68	41	0	0	58	0.98
1481237--1481339	42	2.4	43	80	7	104	39	0	0	60	0.97
1481266--1481313	21	2.3	20	82	10	60	37	0	0	62	0.95
1481284--1481341	25	2.3	25	88	8	82	32	0	0	67	0.91
1481231--1481332	46	2.3	41	75	12	96	38	0	0	61	0.96
1481355--1481397	21	2.0	21	86	8	61	41	0	0	58	0.98
1481374--1481465	34	2.7	33	73	6	85	38	7	0	54	1.29
1481469--1481532	33	1.9	34	87	3	94	40	3	3	53	1.33
1481519--1481567	25	2.0	24	84	4	62	34	4	2	59	1.28
1482104--1482143	17	2.5	17	88	8	57	75	0	0	25	0.81
1483059--1483107	24	2.0	25	84	4	64	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)
1483054--1483106	19	2.8	19	80	8	63	54	0	0	45	0.99
1484218--1484256	20	1.9	21	84	5	53	61	7	0	30	1.24
1484506--1484552	24	2.0	24	83	4	60	40	2	2	55	1.24
1486598--1486715	59	2.0	59	93	0	200	35	11	14	38	1.81
1502100--1502136	2	18.5	2	100	0	74	0	51	0	48	1.00
1503058--1503089	2	16.0	2	100	0	64	50	0	0	50	1.00
1503162--1503195	2	17.0	2	100	0	68	50	0	0	50	1.00
1506148--1506176	3	9.7	3	100	0	58	34	0	31	34	1.58
1508059--1508085	3	9.0	3	100	0	54	33	0	0	66	0.92
1510501--1510556	12	4.5	13	82	6	62	28	1	1	67	1.10
1510501--1510544	3	14.3	3	90	4	70	31	2	0	65	1.05
1510530--1510568	19	2.0	20	90	5	62	28	0	5	66	1.12
1511591--1511650	12	4.9	12	74	15	52	68	0	1	30	0.99
1511598--1511641	17	2.6	17	88	0	70	72	0	0	27	0.85
1511590--1511664	31	2.4	30	79	14	80	65	0	2	32	1.07
1511614--1511680	19	3.7	18	78	7	64	61	0	1	37	1.05
1511616--1511701	17	4.8	19	71	17	60	58	0	2	39	1.11
1511696--1511744	19	2.6	19	83	9	64	57	2	0	40	1.10
1512230--1512331	44	2.3	44	98	0	195	42	4	12	40	1.65
1512465--1512508	21	2.1	21	87	4	63	6	18	0	75	1.02
1512897--1512930	2	17.0	2	93	0	59	50	2	0	47	1.16
1513849--1513885	2	18.5	2	100	0	74	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)
1513969--1514001	15	2.1	17	88	11	52	42	3	0	54	1.15
1514242--1514298	3	19.0	3	100	0	114	66	0	0	33	0.92
1515643--1515680	14	2.5	16	79	16	53	50	0	0	50	1.00
1515647--1515678	14	2.3	14	94	0	55	53	0	0	46	1.00
1515658--1515716	22	2.7	22	78	5	57	45	0	0	54	0.99
1517463--1517523	30	2.0	30	84	6	79	39	1	0	59	1.08
1517476--1517523	24	2.0	23	88	4	69	35	2	0	62	1.07
1517860--1517905	22	2.0	24	91	8	78	41	0	0	58	0.98
1518028--1518070	19	2.3	19	88	8	61	53	2	0	44	1.13
1519696--1519734	21	1.9	20	85	15	53	48	2	0	48	1.15

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