genome.fa.s177.2.7.7.80.10.50.1000.4.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: Scaffold177
Parameters: 2 7 7 80 10 50 1000
Length:  788481

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 508 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)
615172--615236	24	2.9	22	80	8	69	49	0	0	50	1.00
615192--615236	22	2.0	21	87	8	63	40	0	0	60	0.97
615234--615276	21	2.0	21	82	8	52	55	6	0	37	1.27
615828--615858	15	2.1	15	93	0	53	48	0	0	51	1.00
622951--623527	284	2.0	284	92	2	967	38	16	14	30	1.89
625196--625221	12	2.2	12	100	0	52	23	34	15	26	1.94
625390--625436	23	2.1	22	92	4	76	34	0	0	65	0.93
625406--625458	17	2.9	17	79	15	61	39	0	0	60	0.97
625398--625471	23	3.3	23	75	19	68	40	0	0	59	0.97
625406--625472	18	3.7	18	81	13	57	41	0	0	58	0.98
626836--626894	32	2.0	30	83	12	77	32	0	6	61	1.22
626903--626930	6	4.7	6	100	0	56	17	0	0	82	0.68
626830--627000	85	2.0	85	85	2	227	28	0	9	61	1.28
627139--627475	75	4.6	73	80	10	345	31	2	11	54	1.50
627141--627475	143	2.3	148	81	9	386	31	2	11	54	1.50
626915--627979	485	2.2	475	84	6	1387	32	1	12	53	1.48
627607--627963	144	2.5	143	81	8	402	32	0	11	55	1.41
627785--627963	75	2.4	74	82	6	220	30	1	9	58	1.37
629079--629425	73	4.8	73	81	4	369	54	12	1	31	1.47
629079--629397	147	2.2	145	83	3	399	55	12	1	30	1.47
629765--629850	45	1.9	44	88	9	129	54	10	0	34	1.35
629961--630145	73	2.5	72	79	7	205	58	10	0	30	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631413--631446	17	2.0	17	88	0	50	79	0	2	17	0.86
631607--631664	28	2.0	28	83	9	73	58	1	1	37	1.18
632899--632934	2	18.0	2	100	0	72	50	0	0	50	1.00
639863--639907	17	2.9	15	78	12	54	42	2	0	55	1.12
640558--640582	2	12.5	2	100	0	50	52	0	0	48	1.00
641062--641185	66	1.9	66	98	0	239	45	10	10	33	1.73
642115--642167	23	2.3	23	81	15	56	20	9	7	62	1.50
642944--643240	155	1.9	156	85	3	411	38	8	7	45	1.63
643450--643497	24	2.0	23	84	4	60	52	6	0	41	1.27
645037--645077	17	2.4	17	95	0	73	75	2	0	21	0.92
648146--648184	2	19.5	2	89	0	60	51	2	0	46	1.14
648357--648391	18	1.9	18	94	0	61	57	0	2	40	1.14
649058--649095	16	2.4	16	86	4	51	39	2	2	55	1.28
649317--649882	287	2.0	281	84	6	743	42	5	8	44	1.57
650279--650335	26	2.3	25	80	11	64	61	1	0	36	1.07
650626--650666	20	2.0	20	95	0	73	36	29	7	26	1.83
651080--651155	24	3.4	23	80	15	88	57	0	0	42	0.98
651101--651159	14	4.5	14	79	16	72	57	0	0	42	0.98
652068--652092	2	12.5	2	100	0	50	48	0	0	52	1.00
652742--652794	21	2.4	23	76	17	67	45	1	0	52	1.11
652850--652883	17	2.0	17	88	11	52	44	17	0	38	1.49
653275--653299	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654134--654185	14	3.5	14	73	14	50	53	1	0	44	1.11
655594--655635	21	2.0	22	85	4	59	69	0	16	14	1.20
661448--661497	19	2.7	18	80	17	57	46	0	2	52	1.12
666896--666921	2	13.0	2	100	0	52	50	0	0	50	1.00
667086--667139	11	4.9	11	80	14	58	53	1	0	44	1.11
667085--667129	13	3.5	14	82	14	53	53	0	0	46	1.00
667085--667139	24	2.2	25	87	3	76	54	1	0	43	1.10
667475--667532	22	2.7	23	84	10	77	56	0	1	41	1.09
668372--668397	3	8.7	3	100	0	52	65	0	34	0	0.93
669945--669982	18	2.1	18	90	9	60	52	2	0	44	1.14
670039--670132	47	2.0	47	83	8	120	46	2	1	50	1.20
670831--670927	49	2.0	49	89	0	149	36	10	23	29	1.88
671719--671775	16	3.3	16	79	13	51	19	0	5	75	0.99
671730--671781	20	2.8	19	78	13	56	25	0	5	69	1.10
672128--672190	31	2.0	31	81	6	74	50	0	0	49	1.00
672228--672277	22	2.3	23	80	13	61	60	0	0	40	0.97
672227--672277	26	2.0	26	84	7	68	58	0	0	41	0.98
672209--672269	30	2.1	30	82	14	74	60	0	1	37	1.07
672597--672646	22	2.3	22	89	3	75	48	0	0	52	1.00
672603--672664	25	2.4	25	82	17	74	48	1	0	50	1.10
676211--676281	22	3.2	22	67	15	65	53	22	0	23	1.46
676383--676481	24	3.9	24	77	8	90	48	23	18	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676464--676500	18	2.1	18	94	0	65	45	29	18	5	1.72
677626--677665	19	2.0	20	85	4	55	55	5	10	30	1.54
682269--682315	13	3.5	13	77	5	58	42	8	4	44	1.54
682264--682323	27	2.2	27	96	0	111	45	10	8	36	1.68
682684--682804	44	2.8	44	96	0	224	22	19	15	42	1.89
687033--687092	27	2.2	27	90	0	102	41	11	11	35	1.78
688951--689015	32	2.0	32	88	5	96	61	12	3	23	1.45
688942--688989	18	2.5	19	77	16	55	60	10	4	25	1.47
698831--698855	12	2.1	12	100	0	50	72	0	0	28	0.86
699308--699337	16	1.9	15	93	6	51	46	0	0	53	1.00
699290--699341	21	2.4	22	84	15	72	48	0	0	51	1.00
699302--699356	21	2.7	21	78	13	62	54	0	0	45	0.99
699385--699441	28	2.0	29	82	6	71	43	0	0	56	0.99
699382--699445	24	2.7	23	78	7	65	48	0	0	51	1.00
700216--700251	19	1.9	18	88	5	54	36	2	2	58	1.27
709844--709887	22	2.0	22	100	0	88	40	13	18	27	1.88
710573--710600	3	9.3	3	100	0	56	32	0	0	67	0.91
714221--714277	23	2.5	22	70	13	53	57	0	0	42	0.98
714266--714313	14	3.2	14	77	11	51	41	2	0	56	1.11
714269--714325	16	3.7	15	75	11	53	33	1	0	64	1.04
714610--714647	3	13.0	3	94	5	69	34	0	0	65	0.93
716191--716242	19	2.8	20	85	11	74	69	0	1	28	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
716192--716242	24	2.1	25	85	10	70	68	0	1	29	1.00
716180--716285	19	6.1	18	73	15	73	61	0	0	37	1.03
716230--716270	21	1.9	22	85	14	59	51	0	0	48	1.00
716194--716295	10	10.3	10	67	20	63	59	0	0	39	1.04
716523--716570	22	2.2	22	88	7	71	45	0	2	52	1.12
716525--716585	27	2.3	26	83	8	77	50	0	1	47	1.10
716733--716780	5	9.6	5	82	17	64	58	0	0	41	0.98
716733--716780	14	3.2	15	85	14	64	58	0	0	41	0.98
716733--716782	9	5.1	9	82	17	64	56	0	0	44	0.99
716851--716890	3	13.3	3	100	0	80	32	0	0	67	0.91
717158--717210	20	2.8	20	81	10	60	43	0	1	54	1.11
717447--717496	26	1.9	26	88	8	75	46	4	0	50	1.20
717899--717952	22	2.4	21	81	9	54	40	1	0	57	1.09
717976--718083	18	5.7	19	69	14	62	42	0	0	56	1.05
718015--718056	13	3.6	12	81	15	52	45	0	0	54	0.99
718041--718090	10	5.0	10	79	11	50	32	0	2	66	1.03
718137--718169	14	2.5	13	90	9	50	45	0	0	54	0.99
718353--718377	2	12.5	2	100	0	50	48	0	0	52	1.00
718465--718532	28	2.5	28	78	9	68	38	0	1	60	1.06
718571--718617	20	2.2	21	82	17	53	27	2	4	65	1.22
718761--718836	32	2.4	32	78	8	84	34	1	2	61	1.18
719051--719091	11	3.7	11	83	9	57	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720260--720310	13	3.9	13	77	10	59	29	0	1	68	1.00
720261--720369	20	5.7	18	69	18	60	33	1	3	61	1.24
720255--720308	26	2.1	26	92	0	90	27	0	1	70	0.98
720324--720368	18	2.3	20	75	17	51	40	0	0	60	0.97
721119--721194	40	1.9	40	97	0	143	52	11	0	35	1.38
722359--722421	22	3.0	21	70	25	60	22	1	6	69	1.19
723352--723403	23	2.2	24	82	6	61	50	0	0	50	1.00
723761--724019	127	2.0	126	95	0	464	22	9	26	40	1.85
724596--724960	188	1.9	186	92	2	615	21	9	20	48	1.78
727372--727416	23	2.0	23	82	8	56	35	22	11	31	1.89

Tables:   1   2   3   4   5