genome.fa.s7.2.7.7.80.10.50.1000.36.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   34   35   36   37   

This is table  36  of  37  ( 4421 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)
6264547--6264798	112	2.3	108	86	9	334	42	2	1	53	1.21
6264547--6264838	112	2.7	111	80	10	282	43	2	1	53	1.20
6266314--6266356	22	2.0	22	85	0	59	32	23	18	25	1.97
6268910--6268951	22	1.9	22	90	9	68	61	0	0	38	0.96
6269081--6269117	19	2.0	19	94	5	67	70	0	2	27	1.01
6277411--6277451	13	3.2	13	77	19	50	63	0	4	31	1.15
6277402--6277451	25	2.0	26	88	4	75	60	0	4	36	1.16
6278682--6278733	22	2.4	22	80	9	61	36	11	0	51	1.38
6280215--6280357	69	2.1	69	88	2	207	33	23	23	20	1.97
6280439--6280507	6	11.8	6	75	14	56	43	0	4	52	1.21
6280439--6280508	28	2.4	28	79	15	72	44	0	4	51	1.21
6280473--6280515	22	2.0	22	90	9	70	41	0	0	58	0.98
6280478--6280556	20	4.1	19	74	16	65	41	0	0	58	0.98
6280509--6280604	32	3.6	27	68	28	71	44	0	0	55	0.99
6280518--6280615	19	5.4	19	66	17	64	43	0	0	56	0.99
6282504--6282533	2	15.5	2	93	6	53	50	0	0	50	1.00
6282594--6282630	18	2.0	19	89	5	58	40	0	2	56	1.13
6282798--6282823	12	2.2	12	100	0	52	30	7	0	61	1.24
6282940--6282980	17	2.4	17	91	4	64	48	2	0	48	1.14
6282944--6282984	16	2.5	17	80	11	50	51	2	0	46	1.14
6284438--6284478	21	2.0	20	86	13	57	36	2	0	60	1.10
6284428--6284489	27	2.5	24	70	19	63	45	1	0	53	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6284513--6284570	16	3.7	15	82	13	71	56	5	1	36	1.32
6285110--6285152	19	2.3	19	84	8	52	58	2	0	39	1.11
6289721--6289772	3	17.3	3	95	0	95	69	0	0	30	0.89
6291231--6291255	11	2.3	11	100	0	50	72	0	0	28	0.86
6291342--6291382	16	2.5	17	92	8	75	36	0	4	58	1.20
6291984--6292074	5	18.2	5	68	16	55	72	1	2	24	1.02
6291969--6292075	42	2.6	41	76	14	94	71	1	1	25	1.07
6292026--6292111	27	3.0	28	74	21	79	63	3	1	31	1.18
6292122--6292163	19	2.2	19	86	4	57	0	28	0	71	0.86
6292740--6292782	21	2.0	22	86	4	61	48	9	2	39	1.48
6293610--6293651	16	2.6	16	84	0	57	23	7	16	52	1.68
6293728--6293771	23	2.0	23	81	4	54	31	11	20	36	1.88
6296856--6296910	22	2.5	22	100	0	110	61	9	10	18	1.54
6297819--6297894	20	3.8	19	79	6	89	40	11	13	34	1.81
6297816--6297894	40	2.0	39	90	2	122	40	12	12	34	1.81
6298538--6300260	29	60.4	28	87	5	2125	21	17	32	27	1.97
6298538--6300260	28	60.4	29	89	4	2412	21	17	32	27	1.97
6298508--6300259	86	20.5	85	87	5	2342	22	17	32	28	1.96
6301491--6301552	1	62.0	1	83	0	79	0	3	4	91	0.48
6301491--6301552	24	2.7	23	92	7	108	0	3	4	91	0.48
6314607--6314662	22	2.5	23	97	2	105	62	8	10	17	1.52
6315572--6315646	20	3.8	20	76	0	78	41	13	13	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6315569--6315646	40	2.0	39	87	2	111	41	14	12	32	1.83
6320662--6320756	48	2.0	48	91	4	156	22	9	18	49	1.76
6320743--6320827	32	2.7	32	83	5	102	21	7	22	49	1.73
6322733--6322806	14	4.9	14	75	16	67	48	0	0	51	1.00
6322759--6322812	16	3.2	18	69	28	55	48	0	0	51	1.00
6322744--6322815	32	2.2	33	87	5	101	48	0	0	51	1.00
6322734--6322820	24	3.6	24	70	4	70	47	0	0	52	1.00
6323844--6323874	7	4.3	7	92	8	53	80	0	3	16	0.83
6323845--6323873	15	1.9	15	100	0	58	82	0	3	13	0.79
6324781--6324891	17	6.5	17	70	7	73	23	27	12	36	1.91
6326199--6326254	20	2.8	20	94	0	94	46	8	12	32	1.73
6326391--6326433	21	2.0	22	86	4	61	44	4	9	41	1.57
6327164--6327193	16	1.9	16	93	6	53	40	10	3	46	1.54
6328364--6328404	21	1.9	21	85	5	55	36	0	0	63	0.95
6331273--6331392	61	2.0	61	96	0	222	40	6	3	50	1.45
6332904--6332946	16	2.9	14	80	16	50	27	2	9	60	1.40
6332928--6332963	18	2.0	18	88	0	54	25	2	5	66	1.27
6338961--6339127	20	7.8	20	72	13	136	40	11	15	31	1.84
6338912--6339137	91	2.5	91	91	2	346	41	11	16	29	1.85
6339861--6340268	48	8.6	48	85	1	527	35	14	27	21	1.93
6340245--6340572	52	6.8	49	72	17	166	33	16	24	25	1.96
6340285--6340609	95	3.4	95	86	0	416	32	17	24	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6339865--6340318	238	1.9	234	87	3	581	35	15	27	21	1.93
6340435--6340614	43	4.0	43	74	13	162	32	20	23	23	1.98
6340618--6340876	62	4.1	62	85	7	285	20	18	32	28	1.96
6340652--6340882	62	3.7	61	85	7	288	19	17	33	29	1.95
6340626--6340879	32	8.0	31	80	10	257	20	16	33	29	1.95
6342116--6342203	1	88.0	1	72	0	59	3	1	10	85	0.77
6342116--6342204	9	9.9	9	77	12	94	3	1	11	84	0.80
6353756--6353930	81	2.2	80	83	5	219	34	14	23	26	1.94
6353874--6353927	28	1.9	28	92	0	90	35	20	25	18	1.95
6353756--6353959	81	2.5	81	80	7	200	35	12	24	27	1.92
6353913--6354028	51	2.3	51	90	3	180	29	12	28	30	1.92
6354011--6354083	28	2.6	28	86	2	94	26	21	32	19	1.97
6354006--6354086	27	3.0	27	85	3	108	29	19	30	19	1.97
6353875--6354183	156	2.0	157	84	4	410	32	14	26	26	1.95
6353913--6354211	51	5.8	50	69	8	127	31	13	26	28	1.93
6356499--6356552	20	2.7	19	88	11	74	44	14	14	25	1.84
6356571--6356596	13	2.0	13	100	0	52	38	15	15	30	1.88
6363232--6363394	20	7.7	20	68	13	92	41	12	14	31	1.83
6363180--6363406	90	2.5	91	85	2	305	42	11	15	30	1.82
6368485--6368974	157	3.1	157	78	6	506	39	19	16	24	1.92
6368485--6368848	158	2.3	156	82	7	430	40	19	15	24	1.90
6371140--6371164	11	2.3	11	100	0	50	36	8	8	48	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6371292--6371747	163	2.8	163	82	6	505	52	9	10	27	1.66
6377633--6377712	18	4.5	18	70	9	74	55	3	0	41	1.18
6377675--6377716	22	1.9	22	100	0	84	57	2	0	40	1.12
6377626--6377761	26	5.0	26	75	15	141	52	3	0	42	1.24
6377827--6377852	2	13.0	2	100	0	52	50	0	0	50	1.00
6378669--6378698	3	10.0	3	92	0	51	30	0	3	66	1.07
6378697--6378740	3	14.7	3	100	0	88	0	0	31	68	0.90
6380017--6380122	53	2.0	52	89	5	160	29	6	21	42	1.78
6383750--6383793	18	2.3	20	80	7	56	56	2	2	38	1.24
6384202--6384337	46	3.0	45	81	4	155	31	27	9	30	1.89
6386216--6386241	6	4.3	6	100	0	52	65	0	0	34	0.93
6394994--6395090	30	3.4	30	66	20	89	36	9	12	42	1.75
6394982--6395089	55	2.0	55	100	0	216	34	9	14	41	1.78
6394987--6395074	28	3.2	28	64	20	76	32	7	17	42	1.78
6397895--6397941	2	24.5	2	91	8	80	48	0	0	51	1.00
6407523--6407574	23	2.4	22	81	12	63	57	0	3	38	1.17
6407552--6407591	21	2.0	21	85	5	55	55	0	2	42	1.13
6408835--6408887	25	2.1	26	86	10	74	45	0	5	49	1.26
6408835--6408893	23	2.4	25	83	11	68	42	0	5	52	1.23
6408901--6408930	6	5.0	6	100	0	60	16	0	0	83	0.65
6408887--6408942	18	3.1	18	79	5	60	28	0	1	69	0.98
6410137--6410215	39	2.0	39	100	0	158	37	12	27	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6410818--6410876	21	2.7	21	76	5	64	57	0	0	42	0.98
6410830--6411008	92	1.9	92	85	2	243	46	10	3	40	1.54
6412149--6412206	27	2.1	27	87	0	80	48	0	0	51	1.00
6412910--6412956	12	4.0	12	80	2	51	48	0	2	48	1.13
6412907--6412960	21	2.6	20	80	8	63	50	0	1	48	1.11
6413531--6413576	13	3.7	13	82	5	51	82	0	17	0	0.67
6413792--6413875	11	7.7	11	67	21	52	54	2	1	41	1.21
6413799--6413859	20	3.0	20	92	0	104	57	1	1	39	1.18
6413840--6413889	14	3.8	14	76	15	61	56	4	0	40	1.18
6413791--6413892	20	4.5	23	80	13	99	55	2	0	40	1.21

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   34   35   36   37