genome.fa.s220.2.7.7.80.10.50.1000.3.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  3  of  19  ( 2201 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)
489852--489878	5	5.4	5	100	0	54	18	18	40	22	1.91
496987--497040	23	2.2	26	84	12	71	42	1	0	55	1.10
499833--499871	21	1.9	21	94	5	71	48	0	0	51	1.00
500703--500740	4	9.5	4	88	0	58	47	2	2	47	1.30
502397--502462	27	2.5	26	80	9	73	36	1	1	60	1.15
505404--505430	3	9.0	3	100	0	54	33	0	0	66	0.92
508472--508500	15	2.0	15	93	6	51	41	10	0	48	1.37
509920--509963	16	2.6	17	82	7	54	43	0	0	56	0.99
510011--510078	15	4.5	15	71	14	50	48	0	0	51	1.00
510140--510185	22	2.0	22	87	8	65	65	2	0	32	1.05
511446--511489	21	2.0	21	86	4	61	61	2	0	36	1.09
511513--511537	11	2.3	11	100	0	50	32	0	0	68	0.90
511565--511631	14	4.8	14	73	17	59	32	4	0	62	1.15
512326--512365	16	2.5	15	88	8	53	82	5	12	0	0.82
517277--517318	2	21.0	2	100	0	84	50	0	0	50	1.00
517348--517414	18	3.6	19	74	21	61	23	0	26	49	1.51
531316--531430	59	1.9	60	91	1	187	46	15	12	26	1.81
536624--536681	6	10.3	6	76	14	61	0	20	0	79	0.74
536624--536678	11	5.1	11	80	10	69	0	20	0	80	0.72
536624--536681	17	3.5	17	85	2	82	0	20	0	79	0.74
536625--536681	22	2.5	23	85	2	80	0	21	0	78	0.74
541600--541632	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542408--542441	15	2.2	16	90	10	54	55	0	5	38	1.24
546791--546818	2	14.0	2	100	0	56	50	0	0	50	1.00
550251--550304	2	27.0	2	92	0	90	50	3	0	46	1.19
567042--567088	9	5.0	9	76	19	51	27	0	0	72	0.85
568520--568551	14	2.3	14	100	0	64	40	6	25	28	1.79
574689--574766	22	3.3	23	75	16	79	64	0	1	34	1.02
574711--574774	19	3.2	19	78	18	67	62	1	0	35	1.05
580348--580373	2	13.0	2	100	0	52	50	0	0	50	1.00
585050--585102	20	2.4	24	79	20	71	54	0	0	45	0.99
585127--585192	21	3.3	21	73	21	61	53	0	0	46	1.00
585684--585720	3	12.3	3	100	0	74	32	0	0	67	0.91
588955--588984	2	15.0	2	100	0	60	50	0	0	50	1.00
590373--590404	3	10.7	3	100	0	64	31	0	0	68	0.90
593597--593812	34	6.4	34	86	1	283	25	7	26	40	1.83
593597--593814	67	3.2	67	86	1	310	24	7	27	40	1.82
598226--598443	34	6.5	34	87	1	287	25	7	26	40	1.82
598226--598445	67	3.3	67	87	1	314	25	7	26	40	1.82
601441--601471	2	15.5	2	100	0	62	51	0	0	48	1.00
604291--604348	25	2.3	26	79	11	66	51	1	0	46	1.11
613266--613403	68	2.0	69	88	5	208	34	12	10	42	1.76
625100--625145	3	15.0	3	86	4	65	2	30	4	63	1.26
628202--628231	15	2.0	15	100	0	60	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
629600--629670	3	23.7	3	86	0	79	4	4	64	26	1.30
631095--631233	46	3.0	46	100	0	278	28	17	10	43	1.82
632866--632890	4	6.2	4	100	0	50	24	24	0	52	1.48
633196--633339	72	2.0	72	87	2	209	32	15	23	28	1.95
639729--639761	2	17.0	2	87	6	50	0	51	3	45	1.16
644464--644692	64	3.6	64	87	1	316	27	16	17	39	1.90
644766--644881	59	1.9	61	84	7	155	23	17	20	38	1.93
644734--645148	63	6.7	64	70	10	218	24	19	18	37	1.94
646157--646559	62	6.5	62	75	8	304	25	17	19	37	1.93
648828--648859	16	1.9	16	93	6	55	0	18	0	81	0.70
651760--652393	322	2.0	322	100	0	1268	34	19	14	30	1.93
656229--656277	24	2.1	23	96	3	89	18	20	12	48	1.79
658713--658746	6	5.7	6	92	0	59	14	32	17	35	1.91
658862--658888	14	1.9	14	100	0	54	70	0	0	29	0.88
658947--658985	13	2.8	14	84	11	53	58	2	0	38	1.12
659503--659545	22	2.0	21	86	4	59	41	0	2	55	1.12
660646--660684	2	20.0	2	89	5	62	46	0	0	53	1.00
662883--662930	23	2.1	22	88	7	69	52	0	0	47	1.00
663487--663523	19	2.0	19	89	5	58	27	0	8	64	1.21
663490--663533	19	2.4	17	79	17	52	25	0	9	65	1.21
669993--670026	15	2.3	15	89	0	50	44	0	0	55	0.99
671026--671068	20	2.2	20	100	0	86	58	4	9	27	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674272--674306	2	17.5	2	100	0	70	48	0	0	51	1.00
674585--674615	2	15.5	2	93	0	53	48	0	0	51	1.00
675257--675302	2	23.0	2	100	0	92	0	50	0	50	1.00
676449--676475	2	13.5	2	100	0	54	48	0	0	51	1.00
677196--677535	188	1.8	188	100	0	680	43	20	16	19	1.88
683016--683043	2	14.0	2	100	0	56	50	50	0	0	1.00
683043--683069	2	13.5	2	100	0	54	51	0	0	48	1.00
684842--684881	20	2.0	21	90	5	64	25	0	2	72	0.97
685243--685304	19	3.3	20	80	17	71	37	0	0	62	0.95
685230--685284	28	2.0	28	82	7	67	40	0	0	60	0.97
685243--685295	18	2.8	20	83	13	67	35	0	0	64	0.94
685260--685304	18	2.4	18	82	10	56	37	0	0	62	0.96
687209--687236	6	4.7	6	100	0	56	32	0	0	67	0.91
687363--687413	23	2.2	24	92	3	86	43	5	0	50	1.26
687809--687843	3	11.7	3	100	0	70	68	0	0	31	0.90
688261--688344	45	2.0	46	81	13	108	46	0	2	51	1.14
688315--688391	5	14.8	5	74	17	68	35	0	1	63	1.03
688315--688391	11	7.4	10	79	15	68	35	0	1	63	1.03
689493--689542	24	2.1	24	85	7	66	42	0	0	58	0.98
689506--689542	12	3.0	13	80	11	51	37	0	0	62	0.96
689514--689548	17	2.0	18	88	5	54	40	0	0	60	0.97
690463--690529	15	4.6	14	76	20	59	41	2	0	55	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690451--690528	25	3.0	25	74	17	68	43	2	0	53	1.14
691264--691331	7	10.1	7	74	16	56	63	0	1	35	1.04
691242--691324	19	4.4	18	78	15	80	61	0	2	36	1.09
691351--691392	9	4.7	9	82	11	50	52	0	0	47	1.00
699416--699531	56	2.1	56	95	0	205	25	18	11	44	1.82
701210--701236	2	13.5	2	100	0	54	51	0	48	0	1.00
707086--707123	2	19.5	2	89	5	60	47	0	2	50	1.15
707089--707122	17	2.0	17	94	0	59	44	0	2	52	1.16
707087--707123	19	1.9	19	94	0	65	45	0	2	51	1.15
708091--708117	3	9.0	3	100	0	54	0	33	33	33	1.58
714270--714296	14	1.9	14	100	0	54	51	37	0	11	1.37
714474--714513	17	2.2	18	86	13	55	80	5	5	10	1.02
714474--714513	19	2.1	19	86	9	55	80	5	5	10	1.02
716043--716076	12	2.7	13	86	9	52	58	0	0	41	0.98
717458--717487	2	15.0	2	100	0	60	50	0	0	50	1.00
717846--717912	19	3.3	22	76	11	56	47	0	1	50	1.10
721145--721182	6	6.2	6	87	6	58	18	31	18	31	1.95
721518--721551	3	11.0	3	93	6	59	32	0	2	64	1.08
721721--721747	2	13.5	2	100	0	54	0	51	0	48	1.00
725563--725604	2	21.0	2	100	0	84	50	0	0	50	1.00
727103--727130	5	5.6	5	100	0	56	17	21	39	21	1.93
727574--727622	20	2.4	21	80	10	66	32	8	20	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
727603--727716	40	2.8	40	89	0	174	30	10	24	34	1.89
727950--727982	12	2.8	12	95	0	57	57	0	30	12	1.35
731336--731382	20	2.3	20	82	7	60	31	10	21	36	1.88
731365--731474	40	2.8	40	88	0	166	30	7	27	35	1.84
731712--731744	12	2.8	12	95	0	57	57	0	30	12	1.35
733407--733461	17	3.4	17	75	25	64	45	0	0	54	0.99
733411--733483	32	2.2	32	85	7	94	45	0	1	53	1.09
733411--733462	15	3.3	15	73	21	52	44	0	0	55	0.99
736806--736841	3	12.0	3	100	0	72	33	0	0	66	0.92
740096--740137	13	3.1	14	73	13	52	47	0	0	52	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19