genome.fa.s163.2.7.7.80.10.50.1000.6.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: Scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1788591

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

This is table  6  of  13  ( 1505 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)
579390--579457	28	2.4	27	88	7	100	48	1	1	48	1.19
579521--579574	26	2.1	24	83	10	63	44	0	1	53	1.11
579521--579588	29	2.5	27	88	7	93	45	0	1	52	1.09
582246--582280	16	2.2	16	90	5	54	25	5	48	20	1.71
583813--583872	20	3.2	19	79	13	70	38	0	1	60	1.07
584015--584084	22	2.8	26	79	16	76	65	0	0	34	0.93
584781--584837	29	1.9	30	85	3	80	61	1	5	31	1.28
585299--585331	17	1.9	17	93	0	57	33	3	15	48	1.60
587197--587253	22	2.5	23	72	11	64	42	0	0	57	0.98
591445--591487	20	2.1	22	83	12	56	60	2	0	37	1.10
591983--592053	29	2.6	27	75	16	74	52	1	0	46	1.09
591987--592044	29	2.0	30	86	3	82	55	1	0	43	1.10
593066--593107	21	2.0	21	86	9	59	42	2	4	50	1.36
594598--594648	23	2.2	23	85	0	66	29	19	17	33	1.95
594609--594654	23	2.0	23	95	0	83	23	21	19	34	1.96
597047--597109	24	2.8	22	84	11	83	47	0	0	52	1.00
598950--598983	14	2.5	14	85	4	52	47	0	0	52	1.00
599256--599286	16	1.9	16	93	0	53	41	0	0	58	0.98
600298--600343	19	2.4	19	96	0	83	26	13	13	47	1.78
604242--604295	25	2.3	23	77	6	54	50	0	5	44	1.25
604304--604357	18	3.2	17	72	22	51	61	0	0	38	0.96
604310--604363	18	3.2	16	78	14	56	62	1	0	35	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604943--604995	19	2.9	18	81	13	56	50	5	7	35	1.54
613699--613736	16	2.3	17	81	4	51	36	0	0	63	0.95
617308--617429	20	5.6	20	73	19	109	42	12	15	29	1.83
620225--620252	2	14.0	2	100	0	56	50	0	0	50	1.00
621497--621531	2	17.5	2	100	0	70	48	0	0	51	1.00
622716--622788	2	37.0	2	81	8	69	47	9	0	42	1.36
624678--624744	21	3.2	21	87	4	100	34	0	0	65	0.93
624664--624744	42	2.0	39	86	11	110	33	0	0	66	0.92
624958--625006	25	2.0	25	87	0	71	55	4	6	34	1.44
626046--626110	32	2.0	32	88	5	96	33	7	7	50	1.59
626165--626220	28	2.0	28	85	0	76	30	0	3	66	1.09
626230--626274	16	2.6	18	86	10	58	46	0	2	51	1.13
626231--626291	19	3.2	19	81	9	61	45	0	1	52	1.10
626528--626562	17	2.1	17	94	0	61	45	0	0	54	0.99
626682--626710	13	2.1	14	93	6	51	55	0	6	37	1.27
626848--626886	15	2.7	14	92	4	60	46	0	0	53	1.00
627043--627098	29	2.0	28	85	3	76	46	0	3	50	1.19
627049--627102	13	4.0	13	77	15	56	44	0	3	51	1.19
628376--628461	42	2.0	43	90	2	138	38	17	13	30	1.89
632545--632573	13	2.1	14	93	6	51	58	6	0	34	1.25
632914--632997	42	2.0	43	85	2	116	41	20	8	29	1.81
635132--635169	15	2.5	15	86	0	58	60	23	0	15	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636225--636267	16	2.7	16	85	0	59	51	0	0	48	1.00
636844--636882	2	20.0	2	94	5	71	48	0	0	51	1.00
637273--637330	21	2.7	22	73	21	52	27	1	3	67	1.17
638377--638443	29	2.3	29	80	10	75	34	1	1	62	1.13
638402--638467	20	3.1	21	80	6	71	33	1	1	63	1.13
638391--638450	30	2.1	28	85	14	79	30	0	0	70	0.88
638413--638467	20	2.7	20	82	2	74	32	1	1	63	1.15
638708--638749	7	6.1	7	80	5	50	50	0	0	50	1.00
639919--639970	27	1.9	27	84	7	70	28	0	0	71	0.87
640346--640404	24	2.4	25	80	8	75	44	0	0	55	0.99
640349--640401	24	2.2	24	90	3	81	45	0	0	54	0.99
640367--640425	29	2.0	30	90	3	93	40	0	0	59	0.97
641108--641153	23	2.0	24	83	12	60	56	2	2	39	1.24
642048--642314	135	2.0	134	91	0	435	37	7	3	52	1.47
643446--643487	14	3.1	14	82	6	59	28	0	0	71	0.86
645065--645100	17	2.0	17	89	10	54	50	0	0	50	1.00
645078--645181	50	2.1	50	81	16	128	52	0	0	46	1.07
645443--645503	29	2.1	30	87	6	90	44	0	1	54	1.10
645480--645522	22	2.1	21	87	12	63	44	0	0	55	0.99
645443--645540	29	3.4	28	79	8	79	42	0	1	56	1.06
645743--645783	21	2.0	21	85	0	55	51	0	2	46	1.14
646123--646158	19	1.9	19	94	5	65	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646088--646169	19	4.1	19	68	20	51	46	0	1	52	1.08
646711--646750	21	1.9	21	89	0	62	40	0	0	60	0.97
647349--647398	17	2.8	19	71	17	54	46	2	0	52	1.12
649563--649620	30	1.9	30	82	6	73	55	0	0	44	0.99
651071--651101	2	15.5	2	100	0	62	51	0	0	48	1.00
653092--653139	11	4.5	11	82	10	55	70	2	0	27	0.98
653275--653315	2	20.5	2	84	0	55	46	0	4	48	1.23
654610--654641	15	2.1	15	94	0	55	46	3	0	50	1.17
658820--658856	2	18.5	2	94	0	65	51	2	0	45	1.15
660857--660931	32	2.4	32	75	18	79	49	0	2	48	1.15
661497--661550	17	3.1	17	86	5	63	40	0	0	59	0.98
661506--661562	20	2.9	20	82	10	64	45	0	0	54	0.99
661520--661582	28	2.3	27	84	10	83	46	0	1	52	1.10
661521--661598	28	2.8	27	79	12	79	46	0	2	51	1.14
661586--661648	11	5.6	11	75	17	58	33	0	0	66	0.92
661560--661658	50	2.1	44	81	10	108	35	0	2	62	1.07
662523--662567	18	2.5	18	85	7	56	51	4	0	44	1.21
662796--662835	20	2.0	20	85	9	55	45	2	0	52	1.14
662792--662837	19	2.4	20	82	7	60	50	2	0	47	1.13
663316--663346	2	15.5	2	100	0	62	51	0	0	48	1.00
663426--663465	20	2.0	21	90	5	64	52	0	0	47	1.00
664225--664286	18	3.4	18	72	20	58	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664221--664306	20	4.1	20	72	15	59	39	0	0	60	0.97
664239--664309	20	3.5	19	70	11	61	40	0	0	59	0.98
664210--664315	41	2.6	39	77	15	108	41	0	0	58	0.98
665755--665783	2	14.5	2	100	0	58	51	0	0	48	1.00
666618--666707	14	6.4	14	78	5	65	34	15	13	36	1.87
666597--666707	29	3.9	28	77	10	109	34	14	14	36	1.87
672377--672411	6	5.8	6	86	0	52	65	0	34	0	0.93
672772--672828	25	2.3	25	76	11	64	40	1	0	57	1.09
672836--672886	17	3.3	16	76	13	54	56	0	0	43	0.99
673660--673691	17	1.9	17	93	6	57	65	0	0	34	0.93
673753--673785	2	16.5	2	100	0	66	51	0	0	48	1.00
679575--679610	18	2.1	17	89	5	54	66	0	0	33	0.92
680308--680343	2	18.0	2	100	0	72	50	0	0	50	1.00
685134--685177	15	2.9	15	83	13	54	22	2	2	72	1.07
685270--685327	27	2.1	28	87	3	82	43	1	0	55	1.10
696614--696676	33	1.9	33	90	0	99	46	3	3	47	1.34
703754--703861	54	2.0	54	87	3	155	28	13	12	44	1.81
704988--705030	2	21.5	2	100	0	86	48	0	0	51	1.00
705897--705934	18	2.1	18	85	9	51	73	5	0	21	1.02
705985--706017	10	3.5	10	88	12	52	57	0	0	42	0.98
705991--706053	33	1.9	33	83	6	83	49	0	0	50	1.00
707719--707754	17	2.1	17	94	0	63	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
707778--707837	30	2.0	29	87	3	84	58	0	0	41	0.98
707769--707836	35	1.9	35	85	5	93	60	0	0	39	0.97
707803--707870	25	2.8	25	76	8	70	58	1	0	39	1.07
708102--708149	2	24.0	2	91	8	80	50	2	0	47	1.12
708156--708214	24	2.5	24	82	0	73	55	0	0	44	0.99
708782--708820	11	3.6	11	79	6	53	53	0	0	46	1.00
708910--708985	26	2.9	26	69	9	64	48	2	2	46	1.30
709063--709111	16	3.1	16	80	11	55	57	0	0	42	0.99
710070--710114	22	2.0	24	86	8	67	44	0	0	55	0.99
710737--710843	10	10.5	10	68	17	51	40	0	0	58	1.04

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