genome.fa.s440.2.7.7.80.10.50.1000.5.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: Scaffold440
Parameters: 2 7 7 80 10 50 1000
Length:  783396

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 683 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)
491938--491983	2	24.0	2	82	8	60	50	0	0	50	1.00
492101--492152	22	2.4	22	90	0	77	44	11	11	32	1.77
492144--492193	17	2.6	21	75	24	72	46	4	0	50	1.20
492150--492193	17	2.6	17	96	0	79	43	4	0	52	1.22
492150--492203	17	3.2	17	89	5	65	46	7	0	46	1.31
492683--492715	15	2.1	16	94	5	59	48	0	0	51	1.00
492980--493011	5	6.8	5	92	7	50	56	0	0	43	0.99
493022--493463	218	2.0	218	95	1	798	45	3	7	43	1.51
495374--495405	16	1.9	17	93	6	57	53	12	9	25	1.68
495499--495548	21	2.3	23	74	22	54	44	16	6	34	1.72
503620--503662	21	2.0	21	100	0	86	30	37	9	23	1.86
506551--506613	20	3.2	20	78	13	51	57	1	0	41	1.08
511092--511118	2	13.5	2	100	0	54	48	0	0	51	1.00
514785--514813	2	14.5	2	100	0	58	0	48	0	51	1.00
517633--517687	24	2.3	24	81	9	69	40	18	5	36	1.74
522820--522910	6	15.0	6	76	15	71	51	0	0	48	1.00
522820--522907	17	4.8	19	73	13	69	52	0	0	47	1.00
522849--522921	36	2.1	36	82	5	87	43	0	0	56	0.99
524071--524143	23	3.0	23	81	15	85	57	0	0	42	0.98
524071--524146	25	3.1	25	83	7	93	57	0	0	42	0.98
524466--524498	2	16.5	2	100	0	66	48	0	0	51	1.00
524815--524870	16	3.4	16	83	9	60	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)
524834--524908	16	4.9	16	76	12	77	41	0	0	58	0.98
524839--524926	44	2.0	43	84	6	115	37	0	0	62	0.95
525287--525323	14	2.5	15	91	8	67	45	0	0	54	1.00
525290--525340	14	3.3	15	76	12	50	43	0	0	56	0.99
525704--525752	24	2.0	24	84	0	62	46	4	2	46	1.33
526324--526407	18	5.3	18	67	27	73	47	0	0	52	1.00
529599--529658	27	2.2	27	82	8	68	55	0	3	41	1.16
529636--529723	28	2.9	31	83	11	94	46	0	3	50	1.18
529636--529680	16	2.7	17	75	25	51	44	0	6	48	1.29
529665--529725	13	4.3	14	80	19	65	47	0	1	50	1.10
529672--529725	15	3.7	15	80	16	69	50	0	0	50	1.00
530196--530287	20	4.7	18	72	22	55	45	0	0	54	0.99
530240--530298	20	3.0	20	70	22	52	52	0	0	47	1.00
530462--530519	16	3.6	16	73	19	57	48	0	0	51	1.00
530992--531029	18	2.1	18	85	9	51	39	2	0	57	1.12
531256--531317	20	3.0	20	76	11	63	54	0	0	45	0.99
531267--531319	21	2.4	22	81	9	63	50	0	0	49	1.00
531990--532028	13	2.9	13	82	17	53	38	0	0	61	0.96
532006--532049	19	2.2	20	88	4	63	40	0	0	59	0.98
532136--532176	21	2.0	21	95	0	73	41	0	0	58	0.98
532138--532204	18	3.6	18	73	15	55	38	0	0	61	0.96
532128--532204	12	6.3	12	74	14	61	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532267--532300	2	17.0	2	100	0	68	50	0	50	0	1.00
537560--537584	5	5.0	5	100	0	50	60	0	0	40	0.97
539808--539905	43	2.2	45	83	7	119	34	11	3	51	1.53
539877--540023	73	2.0	73	95	0	267	37	5	3	53	1.41
540749--540915	90	1.9	90	87	0	244	56	10	4	28	1.51
541472--541507	15	2.4	15	90	0	54	47	0	5	47	1.25
542133--542169	2	18.5	2	94	0	65	51	2	0	45	1.15
542838--542869	2	16.0	2	100	0	64	50	0	0	50	1.00
543306--543352	4	11.8	4	90	0	58	31	0	19	48	1.49
543553--544126	234	2.5	232	80	5	628	20	25	21	31	1.98
550150--550290	21	6.7	21	69	20	82	46	0	0	52	1.10
550262--550376	6	19.3	6	67	22	57	51	0	0	47	1.06
550246--550320	26	2.9	25	73	15	62	54	1	0	44	1.08
550258--550294	6	5.4	7	87	12	51	51	0	0	48	1.00
550258--550305	20	2.5	20	83	10	55	52	2	0	45	1.12
550253--550368	54	2.1	55	80	10	139	53	0	0	45	1.06
550296--550344	21	2.2	23	85	10	66	53	0	0	46	1.00
550298--550349	23	2.4	22	84	12	63	50	0	0	50	1.00
550243--550374	57	2.3	57	77	16	146	52	0	0	46	1.05
551682--551707	2	13.0	2	100	0	52	0	50	0	50	1.00
552347--552434	10	8.5	10	69	23	58	62	0	0	37	0.95
552343--552426	12	6.9	12	72	8	62	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558408--558446	13	3.1	13	92	3	62	43	30	10	15	1.80
560986--561024	2	19.5	2	89	0	60	48	5	0	46	1.24
562928--562967	12	3.3	12	82	0	53	32	17	40	10	1.83
562943--563020	3	26.0	3	72	5	59	33	25	35	5	1.78
562931--562986	24	2.3	24	84	6	69	33	19	37	8	1.83
562940--563029	27	3.2	27	79	7	83	33	24	35	6	1.82
567098--567138	3	13.7	3	90	10	66	63	0	0	36	0.95
567190--567246	29	1.9	30	89	10	91	26	1	0	71	0.95
567191--567247	13	4.2	13	78	15	53	26	1	0	71	0.95
572126--572180	19	2.9	19	91	0	92	41	0	34	23	1.55
577471--577599	52	2.5	52	87	0	204	31	17	16	34	1.92
577685--577734	19	2.6	19	90	0	73	38	18	12	32	1.87
577723--577747	13	1.9	13	100	0	50	32	16	16	36	1.90
579678--579711	3	11.3	3	93	0	59	64	0	2	32	1.08
579787--579825	16	2.5	15	80	8	51	58	0	0	41	0.98
583787--583858	35	2.1	35	89	0	108	29	15	18	37	1.91
584593--584633	3	13.7	3	100	0	82	0	31	0	68	0.90
584433--584614	88	2.1	88	89	4	278	25	20	8	45	1.80
584632--584658	3	9.0	3	100	0	54	33	0	0	66	0.92
588735--588760	13	2.0	13	100	0	52	0	0	15	84	0.62
589750--589776	6	4.5	6	100	0	54	18	33	0	48	1.49
590289--590387	48	2.1	48	94	0	171	14	44	9	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591661--591699	2	19.5	2	100	0	78	51	0	0	48	1.00
592066--592098	3	11.0	3	93	0	57	36	0	0	63	0.95
594508--594537	2	15.0	2	100	0	60	50	0	50	0	1.00
594621--594658	2	19.0	2	100	0	76	50	0	50	0	1.00
595067--595122	27	2.0	27	82	10	67	30	3	10	55	1.51
597159--597195	3	12.3	3	88	0	56	29	2	2	64	1.21
597579--597611	2	16.5	2	100	0	66	51	0	0	48	1.00
598471--598495	2	12.5	2	100	0	50	48	0	0	52	1.00
603375--603430	27	2.1	27	86	3	78	25	5	23	46	1.73
607443--607473	3	10.3	3	100	0	62	67	32	0	0	0.91
612686--612754	27	2.5	28	80	17	83	47	2	0	49	1.16
612764--612840	34	2.3	33	80	10	77	42	1	1	54	1.16
612856--612888	17	2.1	17	88	11	52	45	0	0	54	0.99
613003--613052	23	2.2	23	82	7	57	46	0	2	52	1.12
613251--613304	26	2.1	26	82	6	65	50	1	1	46	1.23
617597--617666	32	2.2	33	89	5	108	51	0	1	47	1.09
617680--617720	3	14.3	3	85	10	59	65	0	2	31	1.05
620299--620330	8	3.9	8	95	4	55	0	15	0	84	0.63
621785--621828	17	2.6	18	79	20	58	59	0	0	40	0.98
621771--621838	12	5.6	12	70	14	50	55	0	0	44	0.99
621770--621837	17	3.9	17	69	17	50	57	0	0	42	0.98
627637--627796	50	3.2	50	93	0	284	27	18	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628085--628294	50	4.2	50	91	0	321	29	17	19	33	1.95
629719--629755	18	2.1	18	100	0	74	37	0	27	35	1.57
640092--640126	2	17.5	2	100	0	70	51	0	0	48	1.00
646581--646612	2	16.0	2	100	0	64	0	50	0	50	1.00
654452--654482	15	2.1	15	100	0	62	41	0	25	32	1.56
659096--659150	2	28.0	2	88	3	85	47	1	1	49	1.23
659086--659139	17	3.1	17	89	2	72	42	3	3	50	1.38
661644--661694	17	2.9	17	85	5	66	15	11	50	21	1.76
661643--661706	6	10.8	6	83	3	85	17	14	48	20	1.81
662138--662179	21	2.0	21	86	9	59	23	21	28	26	1.99

Tables:   1   2   3   4   5   6