genome.fa.s74.2.7.7.80.10.50.1000.17.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  17  of  24  ( 2862 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)
3394641--3394740	41	2.5	40	77	8	112	35	4	8	53	1.49
3395664--3395701	16	2.3	17	86	9	60	50	0	2	47	1.15
3395708--3395781	12	6.6	12	70	14	50	58	2	0	39	1.13
3396809--3396912	27	3.9	27	85	5	124	45	23	11	20	1.83
3401328--3401413	27	3.1	28	83	5	95	53	20	3	22	1.61
3401497--3401588	11	9.1	11	72	21	51	61	0	1	36	1.03
3401498--3401603	19	5.5	20	68	19	73	60	0	0	38	1.03
3402071--3402115	21	2.2	20	84	4	54	51	0	0	48	1.00
3402785--3402856	36	2.0	35	81	7	83	44	0	4	51	1.20
3402851--3402892	22	1.9	22	90	9	68	59	4	0	35	1.19
3403030--3403070	10	3.9	10	81	12	55	53	2	0	43	1.13
3403026--3403070	22	2.1	21	92	8	74	55	4	0	40	1.20
3404060--3404113	21	2.6	21	76	5	56	53	0	0	46	1.00
3404052--3404124	28	2.5	27	78	12	83	49	0	0	50	1.00
3404804--3404874	36	2.0	36	82	0	88	46	0	2	50	1.16
3404864--3404905	22	1.9	22	85	9	59	57	2	0	40	1.12
3412160--3412188	2	14.5	2	100	0	58	48	0	0	51	1.00
3412733--3412799	16	4.1	16	73	19	50	62	0	2	34	1.10
3412764--3412799	16	2.2	16	90	0	54	61	0	2	36	1.11
3412748--3412815	27	2.5	27	95	2	118	60	0	1	38	1.06
3412732--3412823	11	8.9	11	74	14	72	59	0	2	38	1.09
3413075--3413114	16	2.4	17	91	4	64	45	27	15	12	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3413171--3413204	13	2.8	12	86	8	50	61	0	2	35	1.11
3414249--3414278	13	2.4	12	94	5	51	53	0	0	46	1.00
3414676--3414730	13	4.0	13	81	9	65	16	5	0	78	0.93
3414838--3414878	21	1.9	21	85	14	57	63	0	0	36	0.95
3416544--3416573	15	2.0	15	93	0	51	50	0	0	50	1.00
3420166--3420204	17	2.2	18	95	4	71	69	7	0	23	1.14
3420658--3420731	39	1.9	39	81	8	89	51	2	1	44	1.24
3426417--3426460	18	2.3	20	84	11	65	43	0	2	54	1.12
3426411--3426484	31	2.4	31	80	11	80	45	0	1	52	1.09
3426747--3426780	2	17.0	2	100	0	68	50	0	0	50	1.00
3427348--3427405	26	2.1	28	90	6	93	60	0	0	39	0.97
3427354--3427391	11	3.5	11	78	7	51	63	0	0	36	0.95
3427359--3427417	28	2.1	27	81	9	66	64	1	0	33	1.04
3427702--3427737	14	2.5	15	86	9	56	27	0	2	69	1.02
3427730--3427779	21	2.4	19	75	18	55	34	2	6	58	1.34
3427823--3427881	21	2.8	21	87	5	75	52	0	0	47	1.00
3427913--3427967	26	2.0	28	83	13	71	43	1	0	54	1.10
3428343--3428385	19	2.2	20	83	4	52	13	18	4	62	1.48
3428482--3428543	29	2.2	29	83	13	76	48	0	0	51	1.00
3429984--3430025	22	1.9	22	90	9	68	61	0	0	38	0.96
3430897--3430959	33	1.9	32	84	9	83	42	3	11	42	1.56
3431966--3432083	59	2.0	59	91	0	191	35	20	16	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3433966--3434011	23	2.0	23	91	0	74	65	0	0	34	0.93
3435394--3435438	16	2.6	19	83	16	62	22	0	0	77	0.76
3436385--3436421	15	2.5	15	86	0	56	54	0	0	45	1.00
3438875--3438900	13	2.0	13	100	0	52	38	15	15	30	1.88
3439857--3439895	7	5.7	7	96	3	71	61	0	0	38	0.96
3439849--3439901	14	3.9	14	82	7	56	64	0	0	35	0.94
3442843--3442906	25	2.6	25	92	0	110	42	18	21	17	1.89
3445525--3445811	146	2.0	141	84	4	369	26	9	22	42	1.83
3450982--3451014	15	2.1	16	94	5	59	66	0	0	33	0.92
3451923--3451994	29	2.5	28	82	11	83	6	9	5	77	1.11
3451938--3451994	27	2.1	27	81	12	64	7	10	3	78	1.05
3451934--3452055	42	2.9	42	78	14	110	9	9	4	76	1.15
3453454--3453506	10	5.0	10	78	19	54	7	5	1	84	0.82
3453467--3453506	14	2.9	14	88	7	55	10	2	2	85	0.80
3454858--3454891	10	3.6	9	88	11	50	47	0	0	52	1.00
3454842--3454899	19	3.1	18	77	5	62	50	0	0	50	1.00
3455232--3455279	21	2.3	20	79	10	53	60	2	2	35	1.20
3455277--3455315	18	2.1	19	85	4	53	56	0	2	41	1.13
3455859--3455891	9	3.7	9	88	12	50	81	0	3	15	0.80
3455858--3455891	17	1.9	18	94	5	61	82	0	2	14	0.79
3455918--3455970	22	2.4	22	84	9	63	54	0	0	45	0.99
3456453--3456502	20	2.5	19	79	17	57	42	2	0	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3464464--3464499	13	2.8	13	91	0	54	27	0	0	72	0.85
3464533--3464664	29	4.4	29	68	19	99	37	6	0	56	1.24
3464533--3464752	92	2.4	91	93	3	370	36	8	0	55	1.30
3464533--3464691	29	5.3	30	70	18	98	37	6	0	55	1.25
3468664--3468693	7	4.4	7	95	4	53	90	0	0	10	0.47
3469452--3469518	33	2.0	33	86	11	93	29	0	0	70	0.88
3470048--3470076	6	4.8	6	100	0	58	17	48	0	34	1.47
3470649--3470703	16	3.4	16	73	9	58	49	0	0	50	1.00
3470645--3470716	33	2.2	34	90	5	112	51	0	0	48	1.00
3470684--3470766	20	4.3	20	66	25	54	59	0	1	39	1.05
3470659--3470713	17	3.4	17	75	25	64	56	0	0	43	0.99
3470672--3470769	9	10.8	9	70	14	60	59	0	1	39	1.04
3470734--3470769	19	1.9	18	94	5	63	69	0	0	30	0.89
3470803--3470835	16	2.0	17	88	5	50	57	3	3	36	1.29
3471014--3471039	3	8.7	3	100	0	52	30	0	0	69	0.89
3471573--3471613	17	2.3	18	87	4	57	43	0	0	56	0.99
3471597--3471668	26	2.8	26	75	14	69	51	0	0	48	1.00
3471616--3471654	21	1.9	20	89	5	60	51	0	0	48	1.00
3471630--3471687	30	1.9	30	82	3	71	50	1	0	48	1.11
3471734--3471772	16	2.4	16	91	8	62	48	0	0	51	1.00
3472632--3472679	16	3.0	16	84	0	60	60	6	0	33	1.22
3475138--3475166	10	2.7	11	89	10	51	17	6	0	75	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481334--3481367	9	3.7	9	84	7	50	20	2	29	47	1.65
3481335--3481376	19	2.3	19	84	12	52	23	4	23	47	1.70
3489891--3489924	2	17.0	2	93	0	59	47	0	0	52	1.00
3491405--3491447	18	2.4	18	82	17	54	46	0	6	46	1.30
3491417--3491457	18	2.2	19	83	12	50	46	2	7	43	1.44
3491473--3491535	23	2.8	22	78	4	63	46	1	0	52	1.10
3494908--3494945	6	6.3	6	87	0	58	71	0	0	28	0.87
3494932--3494984	21	2.7	20	75	16	56	52	0	0	47	1.00
3500146--3500190	22	2.0	22	82	0	54	64	0	0	35	0.94
3500169--3500210	13	3.2	13	80	9	50	64	0	2	33	1.07
3502422--3502469	2	24.5	2	87	4	71	52	0	2	45	1.12
3503841--3503888	23	2.2	20	82	10	51	41	0	2	56	1.11
3503818--3503880	31	2.0	31	84	6	83	39	0	1	58	1.07
3505154--3505200	21	2.2	22	81	11	53	55	0	0	44	0.99
3507206--3507236	3	10.3	3	100	0	62	0	32	0	67	0.91
3515615--3515640	2	13.0	2	100	0	52	50	0	0	50	1.00
3516870--3516932	22	3.0	21	73	13	58	50	0	1	47	1.10
3517588--3517655	16	4.2	16	74	10	57	58	0	0	41	0.98
3517568--3517623	24	2.4	25	82	8	64	64	1	0	33	1.04
3517594--3517666	33	2.2	33	80	11	78	56	0	1	42	1.08
3519783--3519829	3	15.7	3	100	0	94	0	31	0	68	0.90
3530549--3530597	25	2.0	25	84	8	64	46	4	2	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3537322--3537394	21	3.2	21	72	12	56	53	2	2	41	1.29
3537383--3537489	32	3.5	29	74	18	83	53	0	2	43	1.15
3537453--3537514	23	2.6	23	73	14	54	54	1	4	38	1.31
3547677--3547724	18	2.8	18	74	20	50	54	0	4	41	1.20
3548075--3548127	24	2.2	24	82	0	61	71	7	0	20	1.10
3548220--3548264	8	5.6	8	79	10	56	2	13	0	84	0.72
3548219--3548272	16	3.4	16	78	14	58	7	11	0	81	0.87
3548715--3548760	22	2.1	22	84	8	58	69	8	0	21	1.15
3549006--3549046	14	2.9	15	78	10	50	2	21	0	75	0.92
3553152--3553207	20	2.8	20	83	2	69	37	0	19	42	1.52

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