genome.fa.s136.2.7.7.80.10.50.1000.3.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: Scaffold136
Parameters: 2 7 7 80 10 50 1000
Length:  1039917

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 665 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)
449428--449481	24	2.2	24	93	0	90	24	3	16	55	1.57
459647--459841	103	1.9	103	90	0	309	24	11	18	44	1.84
461249--461275	2	13.5	2	100	0	54	0	51	0	48	1.00
463227--463253	2	13.5	2	100	0	54	0	48	0	51	1.00
464854--464898	20	2.3	20	84	3	56	6	6	6	80	1.04
470162--470227	22	3.0	24	72	20	63	16	7	4	71	1.26
480798--480850	2	26.5	2	100	0	106	0	50	0	49	1.00
486431--486724	147	2.0	147	100	0	588	27	18	15	38	1.91
487035--487081	2	24.0	2	89	4	69	2	51	0	46	1.13
488287--488312	13	2.0	13	100	0	52	7	15	7	69	1.35
493713--493753	20	2.0	20	90	9	66	39	0	2	58	1.11
493876--493954	28	2.8	29	73	22	78	37	0	0	62	0.96
496193--496262	28	2.4	28	86	9	88	30	0	1	68	0.98
496193--496239	16	2.8	16	90	6	67	29	0	0	70	0.88
496134--496249	21	5.8	19	69	24	71	32	0	1	65	1.03
496449--496474	2	13.0	2	100	0	52	50	0	0	50	1.00
503272--503334	26	2.4	25	75	12	65	42	3	1	52	1.27
506827--506852	2	13.0	2	100	0	52	0	0	50	50	1.00
507090--507117	2	14.0	2	100	0	56	50	0	0	50	1.00
507675--507731	22	2.5	23	80	5	71	59	1	0	38	1.08
508011--508059	23	2.2	22	82	10	55	48	6	2	42	1.39
508297--508321	2	12.5	2	100	0	50	0	48	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508773--508800	3	9.3	3	100	0	56	32	0	0	67	0.91
523462--523487	4	6.5	4	100	0	52	23	0	0	76	0.78
525845--526038	102	1.9	102	92	0	325	23	11	19	45	1.83
527438--527469	2	16.0	2	100	0	64	0	50	0	50	1.00
529435--529477	2	21.5	2	100	0	86	0	48	0	51	1.00
531089--531135	22	2.2	22	84	3	60	8	4	6	80	1.00
535717--535769	3	17.7	3	100	0	106	66	0	0	33	0.92
539425--539473	2	24.5	2	100	0	98	48	0	0	51	1.00
542030--542058	2	14.5	2	100	0	58	51	0	0	48	1.00
543014--543228	110	2.0	111	89	1	335	30	5	4	59	1.39
543462--543486	12	2.1	12	100	0	50	0	40	0	60	0.97
543813--543887	37	2.0	37	94	0	132	38	9	25	26	1.86
543899--543959	32	1.9	32	86	0	86	70	3	19	6	1.24
543965--544006	22	1.9	22	95	0	75	26	21	7	45	1.77
548190--548226	3	12.3	3	100	0	74	67	0	0	32	0.91
548696--548734	16	2.4	17	86	4	53	46	2	2	48	1.29
548744--548777	16	2.1	17	88	5	52	64	2	2	29	1.22
557512--557574	26	2.4	25	75	12	65	42	3	1	52	1.27
558034--558092	24	2.4	24	80	8	57	18	10	5	66	1.40
565511--565537	10	2.7	10	100	0	54	66	11	22	0	1.22
567552--567587	2	18.0	2	100	0	72	50	0	0	50	1.00
568662--568700	6	6.5	6	91	8	62	0	17	0	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568662--568692	11	2.7	11	95	5	53	0	16	0	83	0.64
568660--568708	17	2.9	17	87	3	73	2	18	0	79	0.83
570348--570541	102	1.9	102	92	0	325	23	11	18	46	1.81
571983--572024	18	2.4	17	88	4	57	2	9	11	76	1.12
571976--572024	19	2.6	19	87	9	66	4	10	12	73	1.22
574292--574325	2	17.0	2	100	0	68	50	0	0	50	1.00
575399--575428	2	15.0	2	100	0	60	50	0	0	50	1.00
576411--576455	24	2.0	24	86	8	67	42	0	0	57	0.98
576385--576469	22	4.0	21	72	19	63	42	1	0	56	1.07
577762--577806	22	2.0	22	91	0	72	17	15	13	53	1.73
579698--580119	208	2.0	208	100	0	844	24	20	16	38	1.92
584476--584518	2	21.5	2	95	0	77	0	48	2	48	1.14
586383--586437	16	3.4	16	76	18	60	27	0	0	72	0.85
586486--586544	30	1.9	30	86	10	84	30	0	1	67	1.00
586885--586963	19	4.0	18	70	16	50	54	1	2	41	1.22
586896--586963	21	3.3	20	73	8	66	57	1	1	39	1.17
587427--587472	17	2.7	17	80	9	58	26	2	13	58	1.46
589850--589894	20	2.2	20	84	0	54	33	2	2	62	1.20
590968--591035	31	2.2	31	81	5	75	51	1	1	45	1.19
591099--591130	2	16.0	2	100	0	64	50	0	0	50	1.00
593843--593913	26	2.7	25	76	8	70	57	1	0	40	1.07
595526--595559	16	2.1	16	94	0	59	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)
596413--596442	5	6.0	5	92	0	51	76	0	0	23	0.78
597719--597765	22	2.1	23	84	4	60	46	0	0	53	1.00
598989--599074	29	3.1	28	85	6	97	52	0	0	47	1.00
605852--605901	2	24.5	2	87	4	64	48	2	6	44	1.39
608331--608364	11	3.1	11	95	0	59	0	11	0	88	0.52
616255--616291	20	1.9	19	89	10	58	48	0	0	51	1.00
617595--617628	17	2.1	16	89	10	52	47	0	0	52	1.00
622450--622479	2	15.0	2	100	0	60	50	0	0	50	1.00
623916--623961	20	2.3	20	85	7	58	39	0	0	60	0.97
629320--629363	21	2.2	20	83	4	52	77	2	0	20	0.88
629440--629505	25	2.6	26	83	7	91	28	22	4	43	1.73
629487--629544	14	4.4	14	78	10	59	24	22	5	48	1.71
629440--629561	64	1.9	64	96	0	226	27	22	4	44	1.74
629499--629599	25	3.8	25	74	17	80	29	22	5	41	1.77
629461--629544	39	2.2	38	82	6	98	26	22	5	45	1.75
629528--629584	29	2.0	29	82	6	71	33	22	5	38	1.77
629578--629618	15	2.9	15	85	7	59	21	21	9	46	1.80
629490--629606	25	4.6	24	72	21	78	29	22	5	43	1.74
630115--630180	32	2.1	31	88	5	98	37	28	15	18	1.91
630082--630301	104	2.1	104	89	2	334	39	29	15	15	1.88
629963--630404	240	1.8	239	84	2	598	38	29	16	15	1.89
630344--630591	124	2.0	124	91	0	397	32	36	18	12	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633211--633269	30	2.0	30	86	3	84	15	8	35	40	1.77
633315--633381	30	2.2	30	83	5	80	14	10	31	43	1.80
633297--633667	136	2.7	135	89	1	544	15	15	29	39	1.88
633414--633631	68	3.2	68	68	13	187	15	15	31	37	1.89
633452--633517	32	2.1	31	88	5	98	16	13	30	39	1.87
634013--634053	15	2.9	15	92	7	68	46	12	21	19	1.82
634128--634160	14	2.4	14	94	0	57	54	6	18	21	1.64
634142--634208	26	2.6	25	83	9	91	43	5	22	28	1.76
634262--634318	21	2.7	21	81	10	55	26	0	3	70	1.03
634284--634323	21	1.9	21	85	10	55	25	0	5	70	1.08
634649--634680	17	2.0	17	88	11	50	62	12	21	3	1.43
634805--635550	42	17.7	43	80	6	681	37	18	30	14	1.90
638704--638800	48	2.0	48	97	0	185	24	16	23	35	1.95
640436--640485	14	3.8	13	82	12	66	72	0	0	28	0.86
641510--641548	2	19.5	2	100	0	78	51	0	0	48	1.00
645482--645531	10	4.8	10	79	15	57	56	0	0	44	0.99
645486--645533	15	3.0	15	84	9	60	58	0	0	41	0.98
646105--646161	14	4.1	14	78	13	55	50	1	0	47	1.11
648448--648473	3	8.7	3	100	0	52	0	30	0	69	0.89
649241--649335	29	3.4	29	75	16	101	40	0	0	60	0.97
649241--649344	18	6.8	17	69	28	65	40	0	0	59	0.97
650198--650252	29	1.9	28	85	3	74	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
650470--650526	22	2.6	21	76	15	62	38	0	3	57	1.16
651839--651919	11	7.0	12	72	12	53	59	1	0	39	1.05
651839--651914	23	3.2	23	72	10	64	59	1	0	39	1.06
653335--653373	18	2.2	18	95	0	69	0	28	33	38	1.57
653420--653470	16	3.1	16	78	13	59	41	0	0	58	0.98
653425--653497	31	2.3	31	83	6	85	43	0	0	56	0.99
653940--654009	30	2.4	30	83	11	83	51	1	0	47	1.09
654969--655032	21	2.8	24	75	15	73	65	0	0	34	0.93
654985--655040	18	3.1	18	85	10	62	64	0	0	35	0.94
654954--655047	18	5.2	17	71	20	59	62	1	0	36	1.02

Tables:   1   2   3   4   5   6