genome.fa.s173.2.7.7.80.10.50.1000.5.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  5  of  16  ( 1814 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)
573408--573466	27	2.2	28	84	6	77	42	1	0	55	1.09
573504--573535	13	2.5	13	95	5	57	59	0	6	34	1.23
574193--574253	16	3.8	16	75	12	54	80	1	3	14	0.92
574409--574480	19	4.1	19	69	20	57	45	0	4	50	1.21
575240--575503	132	2.0	129	83	3	332	52	6	7	34	1.53
576435--576473	3	13.0	3	94	0	69	33	2	0	64	1.08
576993--577050	2	29.0	2	92	0	89	44	0	55	0	0.99
577181--577235	20	2.9	18	82	12	65	1	10	7	80	0.99
582045--582104	21	2.8	22	75	7	61	48	3	45	3	1.35
583273--583449	20	8.8	20	71	20	111	27	15	15	41	1.88
583381--583405	13	1.9	13	100	0	50	32	8	16	44	1.76
583360--583429	33	2.1	33	97	0	131	28	14	15	41	1.86
585744--585956	79	2.7	79	88	2	313	28	25	13	32	1.94
585899--586018	51	2.4	51	82	0	159	29	25	13	31	1.94
585998--586072	28	2.7	28	85	8	100	24	30	18	26	1.98
585872--586199	158	2.1	158	82	3	392	28	25	13	32	1.94
586059--586175	51	2.3	51	86	0	162	29	25	11	34	1.90
586026--586332	130	2.4	130	80	8	340	27	24	13	34	1.92
588232--588268	3	12.3	3	100	0	74	64	0	0	35	0.94
588565--588613	24	2.0	24	100	0	98	40	8	4	46	1.52
589867--589893	2	13.5	2	100	0	54	51	0	48	0	1.00
590084--590113	14	2.1	14	93	0	51	46	0	23	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592652--592678	3	9.0	3	100	0	54	0	0	33	66	0.92
592693--592737	6	7.5	6	84	0	63	26	2	35	35	1.69
592694--592737	18	2.4	18	92	0	79	25	2	36	36	1.69
592922--592956	3	11.7	3	93	0	52	0	25	34	40	1.56
593228--593303	24	3.1	25	80	12	79	44	1	0	53	1.08
593394--593431	19	2.0	19	85	10	51	28	0	2	68	1.03
593965--594003	18	2.0	20	85	14	55	33	0	0	66	0.92
594203--594238	18	2.0	18	94	0	63	55	2	0	41	1.14
595250--595375	64	2.0	65	87	4	184	48	7	4	39	1.52
595540--595574	16	2.2	16	90	10	54	48	2	0	48	1.16
596652--596694	11	3.8	11	81	6	50	65	0	2	32	1.06
600252--600281	10	3.0	10	95	0	51	33	10	16	40	1.82
600575--600627	26	2.1	25	86	10	72	69	13	0	16	1.18
600711--600829	11	10.5	11	72	21	79	68	5	1	24	1.18
600746--600824	37	2.1	38	97	2	151	68	7	0	24	1.15
600878--600902	12	2.1	12	100	0	50	76	0	0	24	0.80
601559--601605	16	3.0	16	80	20	55	46	0	0	53	1.00
601573--601613	16	2.7	15	82	17	50	56	0	0	43	0.99
601591--601636	21	2.3	19	88	7	65	58	0	0	41	0.98
607672--607728	20	2.9	20	81	2	71	57	0	1	40	1.09
608401--608447	21	2.2	21	81	7	60	46	0	0	53	1.00
611047--611080	6	5.7	6	96	0	50	44	17	32	5	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611861--613572	247	6.9	247	85	3	2160	44	16	14	24	1.85
611861--613572	735	2.3	737	86	2	2301	44	16	14	24	1.85
614811--614848	18	2.1	19	90	5	60	39	0	2	57	1.12
615123--615159	19	2.1	19	85	10	51	62	2	2	32	1.23
615380--615421	17	2.6	16	78	14	50	30	0	0	69	0.89
615561--615638	27	2.7	27	84	13	93	50	0	2	47	1.15
615543--615649	27	3.8	28	74	18	82	52	0	1	45	1.11
616637--616677	15	2.9	14	86	13	57	31	0	2	65	1.05
619416--619478	27	2.4	26	80	15	76	33	4	3	58	1.35
619651--619700	24	2.2	24	85	7	68	72	0	4	24	1.02
622684--622732	26	1.9	26	83	4	64	53	2	0	44	1.12
622741--622798	28	2.0	29	86	3	82	44	0	0	55	0.99
622747--622804	29	2.0	29	83	12	75	43	0	1	55	1.10
623487--623544	15	4.1	15	73	10	59	41	0	0	58	0.98
623592--623673	28	2.9	26	82	14	83	34	1	3	60	1.22
623592--623673	29	2.9	26	84	14	85	34	1	3	60	1.22
624680--624723	23	1.9	23	85	0	61	52	0	0	47	1.00
624689--624745	16	3.6	16	79	15	57	40	1	0	57	1.09
624689--624734	23	2.0	22	88	12	67	43	0	0	56	0.99
625555--625597	20	2.2	20	84	16	54	41	0	0	58	0.98
627404--627523	59	2.1	58	87	4	170	39	5	6	48	1.54
632150--632183	18	1.9	17	88	5	50	23	38	5	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634724--634751	2	14.0	2	100	0	56	50	0	0	50	1.00
635128--635152	2	12.5	2	100	0	50	52	48	0	0	1.00
635822--635985	81	2.0	81	100	0	328	23	18	13	44	1.85
640351--640383	10	3.3	10	91	8	50	3	18	0	78	0.87
640431--640457	2	13.5	2	100	0	54	0	48	0	51	1.00
640705--640736	2	16.0	2	93	0	55	50	3	0	46	1.17
642190--642273	29	2.9	28	80	10	80	51	0	2	46	1.14
643306--643344	15	2.7	15	88	4	53	48	2	5	43	1.38
644560--644590	6	5.2	6	100	0	62	67	16	16	0	1.23
646747--646848	51	2.0	51	100	0	204	41	15	15	27	1.88
647794--648044	126	2.0	126	93	0	430	50	15	16	18	1.79
650880--650965	43	2.0	43	95	0	154	41	15	12	30	1.84
657961--658023	5	11.8	5	77	12	54	28	0	0	71	0.86
657963--658022	12	4.8	13	76	10	54	30	0	0	70	0.88
658777--658827	22	2.4	22	83	6	61	52	3	1	41	1.31
659131--659176	21	2.2	20	84	3	56	60	0	4	34	1.16
659209--659269	21	3.2	20	77	15	74	54	0	0	45	1.00
659762--659801	5	7.6	5	83	10	53	52	0	0	47	1.00
659716--659821	41	2.5	42	73	8	99	49	0	0	50	1.00
660302--660361	11	5.2	12	75	16	56	48	0	3	48	1.18
661500--661541	16	2.6	17	85	7	61	38	0	0	61	0.96
661573--661630	25	2.3	26	79	8	66	60	3	0	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661788--661831	13	3.4	13	78	12	54	52	0	0	47	1.00
662032--662081	15	3.2	15	78	10	55	44	0	0	56	0.99
662716--662787	35	2.1	35	100	0	144	56	5	8	29	1.51
664218--664244	2	13.5	2	100	0	54	51	0	0	48	1.00
665375--665399	9	2.8	9	100	0	50	16	0	0	84	0.63
665661--665694	13	2.6	13	95	0	59	35	0	2	61	1.11
667741--667804	18	3.4	18	72	19	67	25	18	14	42	1.88
668263--668309	23	2.0	24	87	4	69	36	36	8	19	1.82
672495--672532	19	2.0	19	100	0	76	31	21	10	36	1.87
672502--672601	29	3.6	29	69	25	88	29	19	13	39	1.89
672514--672617	54	1.9	54	96	0	190	27	19	14	38	1.90
674030--674067	19	2.0	19	85	10	51	50	7	0	42	1.31
674516--674560	3	15.0	3	100	0	90	66	0	0	33	0.92
676673--676876	103	2.0	99	85	5	275	32	12	10	44	1.76
677584--677631	22	2.2	22	85	7	62	56	4	4	35	1.38
678436--678565	62	2.0	62	81	10	147	52	1	2	43	1.23
678861--678896	16	2.2	16	90	0	54	47	16	11	25	1.79
680061--680128	20	3.4	20	77	0	73	35	11	10	42	1.76
687157--687240	39	2.2	39	81	10	102	70	9	14	5	1.32
688561--689139	27	21.1	27	80	5	583	26	29	14	30	1.95
688561--689139	55	10.6	55	81	4	634	26	29	14	30	1.95
688561--689150	82	7.2	82	83	5	631	26	29	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688561--690023	28	51.1	28	80	7	903	27	30	17	25	1.97
689100--689971	58	14.9	58	81	7	774	28	30	18	21	1.97
689100--690018	175	5.2	175	86	4	1126	28	30	18	22	1.97
690443--690516	20	3.7	20	79	0	94	33	13	12	40	1.82
691377--691432	23	2.5	23	97	2	105	17	10	8	62	1.52
691377--691439	23	2.9	21	86	9	56	20	11	9	58	1.60
694025--694154	62	2.0	62	81	10	147	52	1	2	43	1.23
694451--694485	16	2.2	16	89	0	52	48	17	11	22	1.79
695648--695718	20	3.6	19	77	7	70	33	11	12	42	1.79
702755--702836	39	2.1	39	82	10	98	70	9	13	6	1.32

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