genome.fa.s350.2.7.7.80.10.50.1000.4.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: Scaffold350
Parameters: 2 7 7 80 10 50 1000
Length:  1036165

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 841 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)
415393--415516	52	2.4	51	93	4	205	29	17	18	34	1.94
415393--415536	52	2.8	50	84	13	177	30	17	18	33	1.94
415525--415549	13	1.9	13	100	0	50	36	16	16	32	1.90
415613--415637	13	1.9	13	100	0	50	32	16	16	36	1.90
418443--418567	52	2.4	52	94	0	214	28	16	18	36	1.93
418443--418587	52	2.8	51	87	4	202	29	16	18	35	1.93
418576--418600	13	1.9	13	100	0	50	36	16	16	32	1.90
418641--418707	33	2.0	33	88	0	98	40	13	11	34	1.81
418663--418687	13	1.9	13	100	0	50	32	16	16	36	1.90
419470--419596	67	1.9	68	86	1	184	38	12	25	23	1.90
419609--420952	49	27.8	49	85	3	1802	30	17	26	25	1.97
419543--420952	98	14.5	98	89	5	2051	31	17	25	25	1.97
420991--421390	34	11.8	34	83	11	468	33	12	34	20	1.90
420991--421389	70	5.9	69	88	8	499	33	12	33	20	1.90
420991--421388	104	3.9	101	86	8	494	33	12	33	20	1.90
421297--421402	27	3.7	27	76	16	113	30	13	35	20	1.91
421263--421411	61	2.4	61	94	0	253	30	13	34	21	1.92
421385--421446	32	1.9	32	86	0	88	30	14	32	22	1.94
421549--421586	16	2.3	17	86	4	51	26	5	23	44	1.74
427168--428258	49	22.3	49	88	0	1617	31	16	26	25	1.97
427168--428258	98	11.1	98	95	0	1950	31	16	26	25	1.97
429077--429102	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429057--429120	32	2.0	33	87	3	94	28	14	17	40	1.88
429801--429844	21	2.1	21	83	8	54	25	31	4	38	1.76
431647--431724	13	6.0	13	98	0	147	39	15	14	30	1.87
433803--433833	15	2.1	15	93	0	53	12	22	16	48	1.80
437876--437901	13	2.0	13	100	0	52	30	15	15	38	1.88
437856--437919	32	2.0	33	87	3	94	28	14	17	40	1.88
440441--440474	2	17.0	2	93	0	59	47	0	0	52	1.00
442412--442462	23	2.2	22	86	6	66	76	5	1	15	1.07
443481--443582	34	3.0	34	94	0	177	21	0	38	40	1.54
443549--443604	22	2.5	22	100	0	112	21	0	41	37	1.53
443522--443633	56	2.0	56	92	0	188	23	0	38	38	1.55
448277--448446	34	5.0	34	99	0	331	20	0	38	41	1.52
448301--448402	25	4.4	25	66	28	80	20	0	38	41	1.53
448386--448497	56	2.0	56	98	0	215	20	0	40	39	1.53
448277--448497	68	3.4	66	91	7	327	20	0	38	41	1.52
448277--448497	102	2.3	100	90	9	336	20	0	38	41	1.52
448905--448974	27	2.4	28	83	9	79	42	0	1	55	1.08
448926--448994	36	1.9	36	85	5	95	42	1	2	53	1.24
450145--450218	21	3.6	20	81	3	67	40	14	16	28	1.88
450387--450437	19	2.7	19	100	0	102	29	15	15	39	1.89
452977--453041	32	2.0	33	87	3	96	41	16	13	27	1.87
453468--453532	23	2.9	22	77	6	60	56	6	6	30	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
453579--453651	33	2.2	33	83	11	89	71	2	1	24	1.07
453575--453654	20	4.4	19	72	13	62	71	2	1	25	1.06
458302--458449	78	1.9	78	85	0	206	34	20	14	29	1.93
458845--458884	17	2.3	17	86	4	53	52	15	7	25	1.68
458861--459116	58	4.4	58	79	8	254	47	13	12	26	1.78
458861--459166	57	5.3	58	79	5	296	46	13	12	27	1.78
459756--459800	18	2.6	17	82	6	54	4	13	0	82	0.82
462796--463439	163	3.9	164	77	11	606	29	11	8	50	1.67
463355--463389	18	2.0	18	88	5	54	22	2	8	65	1.34
462838--463439	325	1.9	323	80	8	704	28	11	8	51	1.67
462838--463484	324	2.0	322	78	9	674	29	11	8	50	1.69
466250--466298	23	2.3	20	78	18	62	63	8	8	20	1.48
466255--466307	23	2.3	23	100	0	106	60	9	11	18	1.57
467218--467292	20	3.8	20	80	3	80	40	12	13	34	1.81
467215--467292	40	2.0	39	87	2	111	39	12	12	34	1.82
468876--469613	157	4.7	154	77	6	558	23	17	21	37	1.94
469678--469823	72	2.0	72	94	0	256	31	15	18	34	1.92
482462--482496	13	2.7	13	90	0	52	20	2	25	51	1.61
484148--484200	7	7.1	7	79	8	52	45	0	1	52	1.11
484151--484176	8	3.2	8	100	0	52	53	0	0	46	1.00
484148--484200	15	3.6	14	80	10	52	45	0	1	52	1.11
484288--484336	18	2.7	19	78	9	57	67	8	4	20	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484498--484522	13	1.9	13	100	0	50	48	0	0	52	1.00
486226--486259	18	1.9	18	88	5	52	50	0	0	50	1.00
486229--486267	20	2.0	19	85	14	53	51	0	0	48	1.00
488709--488758	19	2.8	19	82	11	61	60	6	2	32	1.32
488715--488764	17	2.9	17	82	11	57	58	6	4	32	1.41
489824--489871	24	2.0	24	95	0	87	16	35	0	47	1.47
490391--490418	14	2.0	14	100	0	56	42	14	0	42	1.45
491191--491269	16	4.8	17	70	11	58	58	0	1	40	1.06
491212--491276	26	2.6	26	73	11	64	61	0	1	36	1.05
491272--491312	17	2.3	18	84	12	50	56	2	2	39	1.26
491215--491384	69	2.5	65	77	14	159	55	1	1	41	1.17
491324--491380	15	3.7	15	74	19	55	59	1	1	36	1.18
491224--491384	33	4.9	34	73	15	124	55	1	1	40	1.18
494448--494474	2	13.5	2	100	0	54	51	0	48	0	1.00
495651--495697	17	2.7	17	83	9	51	46	0	2	51	1.13
495650--495722	28	2.6	26	77	12	74	46	0	1	52	1.09
495650--495745	29	3.4	28	76	15	83	43	0	1	55	1.06
495682--495755	22	3.4	22	74	10	62	40	0	0	59	0.97
499426--499467	14	3.0	14	79	6	50	76	11	0	11	1.03
502655--502708	20	2.7	20	97	0	99	38	25	11	24	1.88
502720--502769	20	2.6	19	90	3	73	32	16	18	34	1.92
502798--502866	33	2.1	33	86	5	95	31	11	20	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509008--509034	13	2.1	13	100	0	54	29	14	14	40	1.86
510624--510741	58	2.0	58	96	0	218	26	19	16	37	1.93
511528--511599	20	3.7	19	87	7	83	29	15	16	38	1.89
511630--511682	20	2.7	20	88	5	72	33	13	18	33	1.90
517712--518001	52	5.8	49	81	8	200	34	16	23	24	1.95
517833--518110	48	5.9	48	80	11	288	31	17	24	26	1.97
517929--518098	89	1.9	87	89	2	259	28	18	24	28	1.98
518127--518257	28	4.6	28	73	6	111	19	16	31	33	1.93
519710--519752	17	2.5	17	85	10	61	2	2	11	83	0.83
533577--533631	20	2.8	20	88	5	76	40	12	14	32	1.84
535351--535680	155	2.1	155	84	5	416	38	16	13	31	1.88
536792--536817	13	2.0	13	100	0	52	30	15	15	38	1.88
539346--539380	11	3.0	12	83	8	54	31	20	17	31	1.95
549580--549618	13	3.0	13	96	0	69	35	15	17	30	1.91
549580--549681	46	2.2	46	84	3	125	38	14	17	29	1.90
557354--558008	217	3.0	217	98	0	1256	37	15	19	27	1.92
560359--560434	32	2.4	32	95	0	134	27	19	19	32	1.96
560443--560467	13	1.9	13	100	0	50	36	16	16	32	1.90
562935--562976	21	2.0	22	85	4	59	23	0	11	64	1.27
565517--565584	29	2.3	29	80	9	77	45	4	16	33	1.67
565633--565702	29	2.4	30	73	23	69	50	8	8	32	1.64
567012--567064	21	2.6	20	84	3	70	37	11	13	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568580--568633	20	2.7	20	74	8	56	42	9	12	35	1.75
575568--575592	11	2.3	11	100	0	50	36	20	8	36	1.82
576541--576782	82	3.0	82	83	2	297	44	6	15	34	1.71
582015--582047	6	5.5	6	89	10	50	84	0	15	0	0.61
582015--582047	11	2.8	12	86	13	50	84	0	15	0	0.61
582015--582048	17	1.9	18	94	5	61	85	0	14	0	0.60
585805--585857	10	5.6	9	76	12	52	20	3	1	73	1.08
585804--585857	21	2.7	19	75	13	56	22	3	1	72	1.10
591040--591123	13	5.5	13	68	28	51	34	16	13	35	1.88
591040--591130	32	2.8	32	88	0	146	34	16	12	37	1.86

Tables:   1   2   3   4   5   6   7   8