genome.fa.s231.2.7.7.80.10.50.1000.4.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: Scaffold231
Parameters: 2 7 7 80 10 50 1000
Length:  1009718

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 735 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)
524296--524347	27	2.0	26	88	3	77	38	7	9	44	1.66
524903--524930	2	14.0	2	100	0	56	50	0	0	50	1.00
528479--528525	10	4.7	10	79	7	51	2	63	0	34	1.06
528481--528508	12	2.3	12	100	0	56	0	64	0	35	0.94
528523--528549	6	4.5	6	100	0	54	0	66	14	18	1.25
539959--539989	2	15.5	2	100	0	62	0	51	0	48	1.00
552517--552792	72	3.8	72	82	0	311	40	18	15	26	1.90
552520--552784	144	1.8	144	87	0	395	40	17	15	26	1.89
552522--552823	144	2.1	144	82	4	360	40	18	14	25	1.89
552522--552823	72	4.2	70	78	5	241	40	18	14	25	1.89
557858--557926	28	2.5	27	88	9	104	39	1	0	59	1.06
557857--557925	29	2.5	27	88	6	104	37	1	0	60	1.06
564717--564812	49	2.0	48	89	2	147	45	7	29	17	1.75
567408--567452	5	9.0	5	90	0	72	77	2	2	17	0.97
568608--568659	24	2.1	25	82	10	63	44	1	1	51	1.23
568616--568733	36	3.5	34	80	14	127	40	1	1	55	1.20
568610--568725	30	3.8	29	75	11	81	42	1	1	54	1.21
568827--568877	24	2.1	24	88	0	75	27	1	1	68	1.11
569561--569597	2	18.5	2	100	0	74	48	0	0	51	1.00
570933--570970	2	19.0	2	100	0	76	50	0	0	50	1.00
571190--571367	93	1.9	93	89	0	275	33	5	6	55	1.47
571985--572025	14	2.9	14	85	0	55	43	2	7	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571993--572033	18	2.3	18	86	0	55	46	7	4	41	1.53
572569--572616	14	3.4	14	91	0	69	62	0	0	37	0.95
572760--572802	22	1.9	23	90	4	70	58	4	9	27	1.49
573510--573547	19	1.9	19	89	5	58	55	0	0	44	0.99
573811--573849	14	2.8	13	85	11	51	66	0	0	33	0.92
573817--573859	14	3.2	13	83	9	50	60	0	0	39	0.97
574580--574663	26	3.2	26	78	10	82	42	2	1	53	1.21
583008--583065	23	2.5	24	78	16	68	51	1	0	46	1.11
583004--583094	31	3.1	31	76	14	97	53	1	0	45	1.07
585975--586009	4	8.8	4	100	0	70	51	22	0	25	1.48
587864--587888	13	1.9	13	100	0	50	60	8	0	32	1.26
587996--588065	32	2.2	32	89	0	104	30	30	22	17	1.97
588366--588416	21	2.4	22	80	9	61	25	0	1	72	0.95
588563--588602	15	2.7	15	88	7	55	32	0	25	42	1.55
588563--588607	15	3.1	14	84	9	54	31	0	26	42	1.56
588699--588822	63	2.0	62	95	1	221	40	1	29	28	1.66
593646--593784	63	2.2	63	97	0	260	24	30	6	38	1.81
593762--593813	27	1.9	27	92	0	86	30	40	1	26	1.67
594077--594327	72	3.5	72	83	4	321	32	6	16	44	1.74
594659--594688	12	2.5	12	94	0	51	63	0	0	36	0.95
595500--595538	15	2.6	15	88	8	53	25	2	12	58	1.47
595514--595543	15	2.0	15	93	0	51	26	0	16	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596193--596810	52	11.9	52	80	10	644	54	3	1	40	1.29
596201--596809	51	11.8	50	79	11	404	54	3	1	40	1.28
596370--596522	44	3.4	44	79	13	166	56	3	1	38	1.26
596370--596758	95	3.9	96	83	10	363	54	4	1	38	1.32
596200--596834	264	2.4	254	80	12	702	54	3	2	40	1.30
596862--596913	22	2.4	22	86	0	77	38	7	11	42	1.70
597059--597115	22	2.7	22	86	5	73	42	8	3	45	1.52
597253--597299	2	23.0	2	82	4	58	48	4	0	46	1.21
597469--597599	53	2.5	52	86	7	167	38	1	3	55	1.27
597469--597601	54	2.5	52	86	8	178	39	1	3	55	1.27
597682--597723	2	21.0	2	100	0	84	50	0	0	50	1.00
601093--601143	15	3.3	16	78	8	61	39	0	0	60	0.97
601098--601145	20	2.3	21	86	13	73	37	0	0	62	0.95
601100--601156	11	5.5	11	76	23	52	33	0	0	66	0.92
601098--601157	20	3.0	21	76	13	63	33	0	0	66	0.92
601100--601157	21	2.8	20	82	12	64	32	0	0	67	0.91
601438--601488	19	2.7	18	79	8	57	43	0	0	56	0.99
601784--601842	10	5.7	10	75	13	57	52	0	1	45	1.10
601782--601833	15	3.4	16	75	15	56	51	0	0	48	1.00
601782--601864	34	2.5	33	82	7	89	49	0	1	49	1.08
601808--601875	34	2.1	31	86	8	91	48	0	1	50	1.10
602610--602660	19	2.7	18	76	17	50	52	3	0	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602896--602930	3	11.7	3	93	0	61	34	2	0	62	1.10
606662--606714	26	2.0	26	100	0	106	64	3	3	28	1.28
607517--607553	2	18.5	2	100	0	74	48	0	0	51	1.00
615067--615117	19	2.7	19	90	0	75	39	3	11	45	1.59
617762--617794	14	2.4	14	94	0	57	60	0	3	36	1.12
618707--618740	2	17.0	2	100	0	68	50	0	0	50	1.00
618784--618836	26	2.0	26	92	0	88	41	0	11	47	1.39
618783--618821	2	19.5	2	94	0	51	43	0	7	48	1.31
625174--625212	18	2.2	18	100	0	78	41	15	10	33	1.81
627028--627088	27	2.3	27	80	5	70	49	1	1	47	1.21
627299--627332	3	11.3	3	100	0	68	32	0	0	67	0.91
628236--628271	18	1.9	20	88	11	58	55	0	0	44	0.99
628263--628302	20	2.0	21	90	5	64	50	0	0	50	1.00
628246--628306	27	2.2	27	82	8	70	49	0	0	50	1.00
628870--628916	16	2.7	19	78	21	66	53	0	0	46	1.00
628877--628912	16	2.2	16	100	0	72	52	0	0	47	1.00
628903--628942	21	2.0	21	85	9	57	60	0	0	40	0.97
629301--629330	2	15.0	2	92	0	51	50	3	0	46	1.18
630041--630078	3	12.7	3	94	0	67	34	31	2	31	1.72
631598--631629	16	2.0	16	100	0	64	68	0	0	31	0.90
632529--632592	24	2.8	23	72	11	60	62	0	1	35	1.05
633036--633063	2	14.0	2	100	0	56	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)
636233--636259	2	13.5	2	100	0	54	48	0	0	51	1.00
636909--636962	21	2.4	23	80	20	69	51	0	1	46	1.11
637067--637099	12	2.8	12	90	4	50	27	6	0	66	1.15
645502--645559	30	1.9	30	86	6	82	53	1	0	44	1.10
645877--645926	25	2.0	25	84	4	64	54	2	0	44	1.11
646059--646270	101	2.1	101	94	0	372	41	17	5	36	1.72
650370--650415	23	2.0	23	82	0	56	26	8	15	50	1.73
652888--652933	15	3.3	15	82	14	62	39	0	0	60	0.97
652887--652933	13	3.5	14	78	18	55	38	0	0	61	0.96
653056--653160	9	11.2	9	72	26	53	38	1	0	59	1.15
653039--653182	7	20.6	7	72	17	95	39	2	1	56	1.23
653039--653158	2	69.0	2	68	26	60	40	1	1	56	1.19
653062--653158	26	3.7	26	72	17	85	38	2	1	58	1.16
653174--653904	178	4.2	175	78	8	668	37	12	16	34	1.86
653202--653614	89	4.6	89	78	5	422	38	10	16	35	1.83
653556--653695	74	1.9	74	89	2	219	37	10	19	32	1.86
653285--653912	177	3.7	169	80	9	546	36	12	17	32	1.87
653621--653912	89	3.3	89	85	1	372	36	14	16	32	1.89
657389--657544	2	89.0	2	72	25	131	48	1	0	50	1.09
657378--657521	5	28.8	5	67	25	58	45	0	0	52	1.10
657391--657553	7	23.6	7	78	15	119	48	1	0	50	1.08
657390--657547	43	3.6	42	74	19	110	48	1	0	50	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
667609--667658	2	26.0	2	82	8	59	50	0	2	48	1.12
668033--668062	3	10.0	3	100	0	60	66	0	0	33	0.92
668123--668177	25	2.2	26	84	9	71	45	0	7	47	1.30
669829--669871	14	3.1	14	78	15	54	65	0	0	34	0.93
669850--669891	20	2.1	20	86	8	59	71	0	0	28	0.86
670158--670245	46	1.9	46	84	9	117	3	31	0	64	1.10
670813--670846	16	2.1	17	88	5	52	41	0	0	58	0.98
671051--671083	10	3.3	10	95	0	57	51	0	3	45	1.16
672803--672839	12	3.1	12	92	0	56	59	16	8	16	1.59
672807--672862	6	9.3	6	96	0	58	44	17	19	17	1.87

Tables:   1   2   3   4   5   6   7