genome.fa.s125.2.7.7.80.10.50.1000.4.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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

This is table  4  of  18  ( 2131 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)
516050--516088	17	2.2	18	95	4	71	66	0	5	28	1.12
516181--516230	25	2.0	25	92	7	84	42	0	0	58	0.98
516184--516243	25	2.5	25	84	12	74	48	0	0	51	1.00
516704--516735	2	16.0	2	93	0	55	46	0	3	50	1.17
520352--520394	22	2.0	22	81	9	52	16	13	9	60	1.58
523221--523269	14	3.2	16	75	13	50	48	2	2	46	1.25
528615--528639	13	1.9	13	100	0	50	48	0	52	0	1.00
530811--530865	22	2.7	21	81	13	62	43	0	1	54	1.10
530858--530894	18	2.1	18	89	0	56	56	0	0	43	0.99
531299--531371	35	2.0	37	84	10	98	45	0	2	52	1.15
531406--531438	13	2.6	13	90	4	50	48	0	0	51	1.00
535627--535700	31	2.4	29	79	16	78	32	0	1	66	1.00
537182--537247	17	3.8	17	86	8	71	46	1	0	51	1.10
537207--537247	17	2.4	17	95	0	73	48	0	0	51	1.00
537207--537271	9	7.2	9	74	10	53	43	0	0	56	0.99
537204--537333	60	2.3	58	78	16	137	40	0	0	58	1.03
537236--537344	20	5.4	20	72	17	84	35	0	0	63	1.01
537442--537476	4	9.0	4	87	6	54	77	0	22	0	0.78
537443--537478	16	2.2	17	95	5	65	80	0	19	0	0.71
539393--539439	11	4.2	11	76	13	51	63	0	0	36	0.94
539519--539560	21	1.9	22	85	9	59	28	2	0	69	1.01
540302--540360	28	2.0	30	87	6	86	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542145--542186	22	1.9	22	85	9	59	40	4	2	52	1.35
543359--543399	21	2.0	21	85	9	57	46	2	0	51	1.14
544555--544591	16	2.2	18	86	13	53	16	2	8	72	1.19
548137--548200	14	4.4	14	75	11	58	53	3	0	43	1.16
549291--549334	13	3.5	13	78	6	54	72	4	0	22	1.02
553379--553406	2	14.0	2	100	0	56	50	0	0	50	1.00
557892--557932	22	1.9	22	85	5	57	43	2	0	53	1.13
558105--558162	29	2.0	30	86	10	84	56	3	0	39	1.16
558179--558220	21	2.0	22	90	4	68	47	0	0	52	1.00
558816--558866	5	10.0	5	80	16	52	37	0	1	60	1.08
558836--558932	41	2.4	41	83	10	128	44	0	1	54	1.06
558836--558945	41	2.7	40	81	5	123	41	1	1	54	1.21
559034--559066	14	2.3	15	89	5	50	39	0	0	60	0.97
559073--559137	26	2.7	23	77	15	69	56	1	1	40	1.18
560923--560998	38	2.1	36	85	9	100	57	0	5	36	1.21
561651--561694	12	3.6	12	84	3	61	34	0	0	65	0.93
562632--562662	15	2.1	15	100	0	62	19	19	25	35	1.95
563244--563299	3	18.7	3	100	0	112	32	0	0	67	0.91
566599--566641	9	4.6	9	80	11	50	37	0	4	58	1.19
567633--567680	11	4.9	10	80	19	57	75	0	2	22	0.91
567731--567782	27	1.9	27	84	0	68	51	3	1	42	1.31
567805--567843	17	2.3	17	86	13	62	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567781--567835	29	2.0	27	85	7	74	36	0	0	63	0.95
567781--567833	28	1.9	28	88	3	81	35	0	0	64	0.94
568926--568967	20	2.1	20	86	8	59	52	2	0	45	1.13
570785--570830	23	1.9	23	86	8	65	60	0	0	39	0.97
571654--571714	19	3.2	19	84	9	79	62	0	1	36	1.05
571632--571748	22	5.2	23	70	22	79	58	0	0	40	1.10
571621--571749	24	5.7	22	72	20	81	56	0	0	41	1.10
571632--571749	46	2.6	44	80	11	125	57	0	0	40	1.10
571791--571837	24	2.0	24	87	4	69	55	6	2	36	1.37
571824--571865	17	2.4	18	88	8	68	57	0	9	33	1.31
572465--572507	19	2.3	18	84	7	59	53	0	0	46	1.00
572479--572551	29	2.5	30	80	13	80	52	4	0	43	1.20
572483--572551	30	2.4	31	79	16	76	52	4	0	43	1.21
572914--572995	23	3.5	23	72	21	80	58	0	0	41	0.98
572965--573018	10	5.0	11	74	19	51	57	0	0	42	0.98
572969--573038	16	4.5	15	73	18	63	62	0	0	37	0.95
572914--573018	32	3.5	31	76	17	89	58	0	0	41	0.98
573327--573359	2	16.5	2	100	0	66	51	0	48	0	1.00
573427--573506	21	4.2	19	74	16	58	37	0	3	58	1.16
573686--573732	19	2.4	20	86	10	62	61	0	0	38	0.96
577910--577962	16	3.2	16	70	15	54	35	0	11	52	1.37
582572--582619	20	2.5	20	83	16	73	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584110--584157	2	24.0	2	100	0	96	50	0	0	50	1.00
584995--585072	30	2.7	30	77	15	83	41	3	0	55	1.18
586690--586736	21	2.2	22	75	21	55	65	0	0	34	0.93
587374--587428	22	2.5	21	82	8	65	47	0	0	52	1.00
587379--587411	16	2.0	17	94	5	59	51	0	0	48	1.00
588179--588230	23	2.4	20	79	17	59	44	0	1	53	1.11
588282--588339	28	2.1	28	80	6	64	37	12	5	44	1.64
589026--589068	23	1.9	22	85	4	59	53	2	0	44	1.13
589033--589080	9	5.1	9	80	7	51	54	2	0	43	1.12
589166--589207	15	2.9	14	83	16	50	50	0	0	50	1.00
589171--589229	18	3.4	17	73	21	52	50	0	0	49	1.00
589171--589209	18	2.2	18	86	9	53	48	0	0	51	1.00
600412--600489	40	2.0	40	89	0	120	34	12	16	35	1.87
600417--600510	40	2.3	39	82	7	100	38	9	13	38	1.78
600523--600573	14	3.9	14	80	10	63	47	0	0	52	1.00
600543--600585	17	2.5	18	81	11	54	48	0	0	51	1.00
600494--600575	10	8.8	10	70	16	52	46	0	0	53	1.00
607051--607080	3	10.0	3	92	0	51	30	0	3	66	1.07
611296--611336	20	2.0	20	90	0	64	43	0	0	56	0.99
611295--611360	20	3.0	21	76	10	62	45	0	0	54	0.99
611294--611367	21	3.6	20	73	22	57	44	0	0	55	0.99
612986--613029	19	2.2	21	84	11	58	65	4	4	25	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613601--613647	10	4.9	10	79	5	53	59	0	0	40	0.97
613601--613651	19	2.7	19	81	9	59	56	0	0	43	0.99
615860--615900	21	2.0	21	85	4	57	58	2	4	34	1.32
616001--616128	61	2.1	61	95	0	229	40	13	2	43	1.56
617860--617936	38	2.0	38	97	0	145	28	6	15	49	1.69
618185--618220	11	3.4	11	92	3	56	61	0	2	36	1.11
619097--619132	18	1.9	19	94	5	65	47	2	0	50	1.15
619376--619436	31	2.1	29	82	17	74	45	0	0	54	1.00
622157--622208	21	2.5	19	74	17	50	53	5	0	40	1.25
623417--623444	2	14.0	2	100	0	56	50	0	0	50	1.00
624717--624802	40	2.2	40	93	0	145	34	8	6	50	1.59
625251--625275	7	3.6	7	100	0	50	40	0	0	60	0.97
625362--625391	2	15.0	2	100	0	60	50	0	0	50	1.00
628989--629033	21	2.2	20	84	7	56	42	2	11	44	1.52
630239--630281	21	2.0	21	86	8	61	30	4	0	65	1.13
636154--636203	11	4.8	11	73	14	52	34	0	0	66	0.92
637040--637064	10	2.5	10	100	0	50	40	0	0	60	0.97
637353--637388	2	18.0	2	100	0	72	50	0	0	50	1.00
641515--641561	15	2.9	16	78	9	51	78	0	14	6	0.93
641507--641561	28	2.0	27	82	10	67	78	1	14	5	1.02
643641--643714	32	2.2	33	83	9	89	47	1	0	51	1.09
644211--644263	22	2.6	20	82	14	56	43	0	1	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646781--646806	10	2.6	10	100	0	52	57	0	0	42	0.98
647492--647526	16	2.1	17	89	5	54	74	0	0	25	0.82
647538--647602	31	2.1	31	85	0	85	52	4	3	40	1.38
647560--647630	15	4.5	16	74	13	67	56	0	0	43	0.99
648313--648376	30	2.1	31	85	5	87	43	0	1	54	1.09
649669--649742	27	2.8	25	75	21	64	37	0	0	62	0.96
650308--650349	3	14.0	3	100	0	84	33	0	0	66	0.92
650367--650414	24	2.0	25	84	12	64	47	6	0	45	1.27
650768--650815	23	2.0	24	84	11	64	50	8	4	37	1.52
652567--652602	15	2.4	15	90	9	56	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