genome.fa.s33.2.7.7.80.10.50.1000.3.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: Scaffold33
Parameters: 2 7 7 80 10 50 1000
Length:  2032796

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

This is table  3  of  13  ( 1521 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)
347981--348037	21	2.8	21	91	2	89	24	17	12	45	1.83
348544--348572	10	3.0	10	95	5	51	79	20	0	0	0.74
350356--350473	51	2.4	51	84	12	149	30	23	11	33	1.91
350455--350531	27	2.8	27	90	5	111	23	33	19	23	1.97
350484--350660	80	2.2	80	87	5	243	25	28	16	29	1.97
350595--350769	52	3.4	51	80	9	185	28	26	12	33	1.92
350384--350946	290	2.0	284	87	3	815	26	27	13	32	1.94
350777--350998	78	2.8	78	76	5	223	25	29	15	29	1.96
356060--356085	13	2.0	13	100	0	52	30	15	15	38	1.88
356145--356197	20	2.6	21	82	8	65	28	16	16	37	1.91
356220--356256	20	1.9	20	88	5	58	32	8	18	40	1.80
356542--356579	20	1.9	20	94	0	67	28	18	7	44	1.78
356599--356672	21	3.6	20	81	3	67	31	10	12	45	1.76
358251--358411	31	5.2	32	72	10	129	18	21	29	31	1.97
358239--358411	62	2.8	63	85	3	235	18	23	27	30	1.97
358385--358736	62	5.5	62	80	8	357	33	17	23	26	1.96
358384--358736	129	2.8	127	82	7	453	33	17	22	26	1.96
358711--358987	31	8.7	31	80	4	277	21	16	30	31	1.96
358711--358980	95	2.8	94	83	5	303	21	17	30	30	1.96
359042--359419	63	6.0	63	72	11	252	39	9	27	23	1.85
359080--359402	34	10.0	34	73	14	173	40	8	27	22	1.84
359081--359402	97	3.3	96	83	4	380	40	9	27	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359211--359270	29	2.1	28	81	6	68	40	10	26	23	1.86
359308--359365	27	2.1	27	87	6	82	34	10	34	20	1.87
358997--359423	63	6.8	63	73	10	225	38	9	28	23	1.86
359307--359474	29	5.7	29	76	12	119	31	12	32	23	1.92
359383--359513	30	4.5	28	75	13	86	27	14	31	26	1.95
363896--363975	27	3.1	26	75	19	78	28	15	36	20	1.92
366452--366505	20	2.7	20	85	2	72	31	20	12	35	1.90
369085--369118	16	2.1	16	88	0	50	23	0	2	73	0.97
370135--370179	21	2.1	21	87	4	63	2	20	2	75	1.01
370640--370679	10	4.1	10	80	6	55	25	25	7	42	1.80
372608--373121	166	3.1	162	76	9	507	48	10	11	30	1.73
373004--373236	124	1.9	124	85	0	322	48	10	12	28	1.74
374500--374809	85	3.6	85	75	5	232	39	16	25	18	1.91
374662--374776	42	2.7	43	75	5	126	39	13	26	20	1.90
374583--375618	43	24.4	42	72	9	467	36	17	26	19	1.93
374583--375618	85	12.2	84	72	8	485	36	17	26	19	1.93
374863--375618	128	5.9	128	73	9	440	36	16	26	20	1.94
375332--375617	42	6.7	42	73	6	191	36	17	26	19	1.94
376555--376614	13	5.1	13	76	19	69	35	15	16	33	1.90
376551--376634	33	2.5	33	92	5	136	32	14	17	35	1.90
376686--376733	19	2.5	20	86	3	62	27	14	22	35	1.93
377369--377401	14	2.4	14	100	0	66	45	6	6	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378176--378209	18	1.9	17	88	5	50	26	11	29	32	1.92
385833--385898	35	1.9	34	90	3	105	28	25	15	30	1.96
386384--386434	20	2.5	21	83	3	68	41	15	15	27	1.88
386467--386534	33	2.1	32	91	2	109	36	16	13	33	1.87
388332--388382	21	2.4	21	96	0	93	52	11	27	7	1.65
392333--392358	8	3.2	8	100	0	52	15	0	23	61	1.33
392560--392597	13	2.9	13	96	0	67	31	15	18	34	1.92
394244--394285	22	1.9	22	90	9	68	33	4	28	33	1.78
394958--394983	13	2.0	13	100	0	52	30	15	15	38	1.88
394938--395005	33	2.1	32	94	2	118	36	17	13	32	1.89
396086--396129	23	2.0	23	82	13	56	36	9	9	45	1.68
398506--398584	20	3.8	20	85	6	95	40	12	10	36	1.77
401987--402012	13	2.0	13	100	0	52	30	15	15	38	1.88
403179--403241	33	1.9	33	90	3	101	36	1	22	39	1.64
403373--403437	19	3.7	19	71	23	70	36	9	12	41	1.75
403375--403451	32	2.4	32	100	0	154	35	10	12	41	1.78
403375--403471	32	3.0	31	89	5	106	35	12	13	39	1.82
405202--405268	33	2.0	33	85	0	89	32	10	14	41	1.80
411356--411385	3	10.0	3	92	0	51	30	33	0	36	1.58
413115--413165	19	2.6	20	87	3	77	41	15	15	27	1.88
413270--413314	23	1.9	23	86	4	63	40	11	8	40	1.72
413454--413812	48	7.6	49	79	6	380	44	18	19	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413457--413811	95	3.7	96	84	6	420	44	18	18	18	1.87
413454--413813	143	2.5	142	87	1	506	44	18	19	18	1.87
413798--413905	35	3.1	35	90	0	171	42	13	23	20	1.88
413901--413982	30	2.8	30	72	5	78	39	8	26	25	1.85
414143--414392	91	2.8	91	80	8	262	30	13	27	28	1.94
414071--414443	90	4.1	90	78	6	353	30	15	26	28	1.95
414144--414479	180	1.9	181	82	2	424	30	13	26	28	1.94
471547--471672	50	2.5	50	80	1	144	27	22	11	38	1.89
471610--471862	79	3.2	79	77	2	265	26	25	15	32	1.96
471822--471908	44	2.0	45	86	6	124	34	33	10	21	1.88
471891--472036	79	1.8	79	86	2	213	27	26	15	30	1.96
475232--475303	28	2.6	28	88	0	99	23	19	34	22	1.96
475292--475461	52	3.3	50	79	11	182	32	12	24	29	1.93
475435--475516	27	3.0	28	82	10	98	26	21	29	21	1.99
477929--477954	13	2.0	13	100	0	52	38	15	15	30	1.88
477908--477974	33	2.0	33	88	0	98	43	16	14	25	1.86
477994--478061	19	3.9	18	76	23	83	38	14	11	35	1.83
478016--478040	13	1.9	13	100	0	50	32	16	16	36	1.90
477997--478059	32	2.0	32	96	0	117	36	15	12	34	1.86
478117--478173	21	2.7	21	97	0	105	36	19	10	33	1.86
478178--478221	1	44.0	1	93	0	61	4	2	0	93	0.42
478187--478224	19	2.0	19	100	0	76	10	5	0	84	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486511--486852	79	4.3	80	83	5	399	31	15	26	26	1.96
486511--486847	158	2.1	158	84	3	446	32	14	27	26	1.95
486785--486914	50	2.6	50	83	1	152	34	13	26	26	1.93
490784--490980	20	9.7	20	64	24	92	43	12	14	29	1.82
490784--490967	71	2.6	72	81	5	241	44	11	14	28	1.81
491896--492417	28	18.5	28	87	2	713	22	17	31	28	1.97
493651--493701	9	5.8	9	79	6	52	1	3	7	86	0.77
497624--497649	13	2.0	13	100	0	52	30	15	15	38	1.88
499889--499935	21	2.3	21	76	23	55	42	4	19	34	1.70
500056--500094	13	3.0	13	96	0	69	35	15	17	30	1.91
500080--500158	20	3.7	20	78	15	77	44	15	15	25	1.85
502173--502203	15	2.1	15	93	0	53	12	22	16	48	1.80
504000--504044	21	2.1	21	84	8	56	22	20	4	53	1.63
509088--509135	19	2.6	19	81	15	64	62	0	0	37	0.95
509091--509194	41	2.4	43	78	10	106	62	0	0	35	1.08
509109--509161	22	2.4	21	75	9	52	62	1	0	35	1.06
509112--509187	25	3.2	24	73	10	59	64	1	1	32	1.10
510127--510172	14	3.4	14	74	14	51	45	0	0	54	0.99
510736--510771	17	2.1	17	89	0	54	50	2	0	47	1.15
510752--510865	48	2.4	48	77	5	115	51	2	4	41	1.35
511170--511242	11	6.6	10	75	20	58	26	0	1	72	0.93
511170--511278	16	7.2	15	69	12	71	30	0	0	68	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511174--511265	27	3.3	27	80	18	91	29	0	1	69	0.95
511208--511270	10	6.3	10	76	18	51	31	0	0	68	0.90
511164--511231	18	3.9	17	74	12	50	29	0	1	69	0.98
516161--516420	59	4.4	59	88	1	371	16	14	32	37	1.88
533428--533666	78	3.1	78	81	5	232	41	20	7	29	1.81
533502--533666	79	2.1	77	84	3	204	43	21	6	28	1.78
538304--538343	2	20.0	2	100	0	80	0	0	50	50	1.00
539948--539978	2	15.5	2	100	0	62	48	0	0	51	1.00
540401--540430	13	2.3	13	94	0	51	73	0	0	26	0.84
543026--543090	29	2.2	31	83	5	80	60	0	0	40	0.97

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