genome.fa.s15.2.7.7.80.10.50.1000.3.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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  3  of  25  ( 2909 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)
358489--358513	13	1.9	13	100	0	50	36	16	16	32	1.90
358551--358651	32	3.1	32	92	4	168	33	17	13	34	1.90
358575--358631	13	3.9	13	72	24	51	31	17	15	35	1.92
358620--358672	20	2.7	20	96	0	97	35	16	13	33	1.88
359474--359944	49	10.0	49	75	13	434	32	16	25	25	1.96
359480--359949	92	5.0	92	83	6	549	32	16	25	25	1.96
359944--360233	33	8.9	33	87	8	407	18	18	34	28	1.95
359937--360233	64	4.6	65	89	6	426	17	18	34	28	1.94
359937--360235	97	3.1	95	88	6	426	18	18	34	28	1.94
360295--360353	27	2.2	26	79	5	64	25	10	40	23	1.86
360292--360628	156	2.2	155	80	7	387	31	14	33	21	1.93
360457--360509	27	2.0	27	92	0	88	30	15	30	24	1.95
360337--360532	34	6.2	33	71	17	121	32	13	33	20	1.92
360390--360702	32	10.1	31	77	14	236	32	15	30	22	1.95
360390--360697	96	3.3	96	79	6	294	31	15	30	22	1.95
360389--360702	64	5.0	62	78	8	307	32	15	29	21	1.95
360802--360839	16	2.3	17	86	4	51	26	5	23	44	1.74
370910--370965	19	2.9	19	89	2	76	37	16	16	30	1.90
373325--373350	13	2.0	13	100	0	52	38	15	15	30	1.88
373307--373371	32	2.0	32	87	6	94	43	15	13	27	1.85
376961--376991	15	2.1	15	93	0	53	48	16	22	12	1.80
379072--379109	13	2.9	13	96	0	67	34	18	15	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381657--381709	19	2.7	20	85	8	72	43	15	13	28	1.84
382968--382993	13	2.0	13	100	0	52	38	15	15	30	1.88
389104--389129	13	2.0	13	100	0	52	38	15	15	30	1.88
390348--390385	20	1.9	19	94	5	67	28	18	15	36	1.92
391313--391454	32	4.5	31	75	8	108	43	12	6	37	1.68
391388--391447	31	1.9	31	87	12	88	43	10	10	36	1.72
391310--391594	126	2.2	128	80	7	305	40	12	10	36	1.78
393655--393758	48	2.1	48	84	5	138	25	12	16	45	1.83
393734--394002	53	4.9	55	76	12	248	27	9	16	46	1.78
393721--394002	110	2.6	110	82	3	327	27	9	17	45	1.79
394308--394398	45	2.0	45	95	0	164	41	12	9	36	1.76
398222--398295	20	3.8	20	76	7	80	32	12	14	40	1.83
402904--403134	115	2.0	115	94	0	408	33	21	23	20	1.97
411434--411523	12	7.2	12	81	12	94	85	11	2	1	0.74
411433--411498	33	2.0	33	94	5	116	87	12	0	0	0.53
411434--411500	1	67.0	1	81	0	71	89	10	0	0	0.48
411433--411525	20	4.5	20	83	12	109	83	12	2	1	0.78
412742--413359	28	21.1	28	75	10	447	27	27	18	26	1.98
412745--413159	177	2.4	176	85	4	543	28	27	18	25	1.98
412742--413159	89	4.7	89	76	10	367	28	27	18	25	1.98
412742--413252	146	3.5	146	81	4	557	28	27	18	25	1.98
412742--413358	58	10.5	58	74	10	409	27	27	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427877--427910	16	2.1	16	88	5	50	35	14	41	8	1.77
433219--433470	31	8.1	31	75	1	191	28	31	23	16	1.96
433219--433470	93	2.7	93	80	6	303	28	31	23	16	1.96
433515--433612	31	3.2	31	74	11	85	32	25	21	20	1.97
434247--434301	20	2.7	21	82	2	67	36	14	20	29	1.92
439635--440157	28	18.6	29	81	6	517	27	16	27	28	1.97
439637--440157	57	9.3	57	80	6	514	27	16	27	28	1.97
445551--445597	21	2.2	21	96	0	85	21	23	23	31	1.98
447463--447507	15	3.0	15	76	0	54	15	0	42	42	1.47
457985--458157	32	5.5	32	83	11	164	23	31	16	28	1.96
458027--458895	93	8.8	96	83	9	743	20	33	13	33	1.91
458012--458895	34	26.8	34	82	9	830	20	33	13	32	1.91
458371--458592	33	7.3	27	73	18	120	20	36	13	29	1.91
458897--459066	32	5.2	33	87	4	249	30	36	15	17	1.92
458897--459073	33	5.5	32	88	6	236	30	36	15	16	1.91
459066--459838	49	16.0	49	81	7	785	24	26	17	31	1.97
459066--459830	141	5.3	143	82	7	807	24	26	17	31	1.97
459061--459772	190	3.7	186	83	6	867	24	26	18	31	1.97
459847--460135	49	6.0	49	85	6	403	25	25	17	30	1.97
459731--459946	122	1.8	119	83	6	285	25	25	15	34	1.95
459954--460143	43	4.1	43	79	14	191	26	24	16	32	1.96
459954--460143	95	2.0	91	90	4	299	26	24	16	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460045--460198	55	2.9	54	80	6	163	25	22	14	37	1.93
459492--460266	363	2.1	360	88	3	1151	24	25	16	33	1.95
461030--461054	13	1.9	13	100	0	50	36	16	16	32	1.90
461010--461079	33	2.1	33	89	0	104	34	11	14	40	1.82
461119--461243	52	2.4	52	91	0	205	36	17	16	28	1.92
468585--468630	19	2.4	19	85	0	56	47	8	10	32	1.69
468595--468632	19	2.0	19	94	0	67	44	7	10	36	1.68
471102--471165	32	2.0	33	87	3	94	35	17	7	39	1.78
475792--475828	13	2.8	13	91	0	56	37	16	13	32	1.87
475896--475922	13	2.1	13	100	0	54	48	14	7	29	1.71
475877--475941	33	2.0	32	87	3	94	46	16	10	26	1.80
481170--481203	17	2.0	17	100	0	68	5	11	29	52	1.61
481187--481575	29	13.7	29	84	3	445	24	16	26	31	1.97
481189--481576	114	3.4	114	83	3	426	25	16	26	31	1.97
485744--485924	52	3.5	52	98	0	353	27	19	18	34	1.95
485933--485957	13	1.9	13	100	0	50	36	16	16	32	1.90
486000--486062	19	3.7	18	76	24	73	36	17	12	33	1.88
485995--486062	32	2.1	32	97	0	127	36	17	11	33	1.86
486019--486043	13	1.9	13	100	0	50	32	16	16	36	1.90
491146--491332	93	2.0	93	97	0	356	27	21	22	27	1.99
501085--501138	20	2.7	21	85	8	76	35	18	12	33	1.89
502188--502223	18	1.9	19	88	5	56	47	8	13	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501825--502258	165	2.6	165	85	4	559	50	8	12	28	1.69
504028--504053	13	2.0	13	100	0	52	38	15	15	30	1.88
504010--504073	32	2.0	33	90	3	103	42	15	14	28	1.86
505640--505716	20	3.9	19	78	6	82	33	10	11	44	1.75
516038--516088	19	2.6	20	87	3	68	39	19	15	25	1.91
516020--516088	20	3.5	20	80	4	77	39	18	14	27	1.90
517142--517198	27	2.1	27	83	6	71	64	0	1	33	1.04
518086--518142	16	3.6	16	74	9	62	24	15	17	42	1.88
518336--518458	51	2.4	51	91	0	201	28	21	10	39	1.86
530391--530468	32	2.4	32	84	0	102	33	15	16	34	1.90
531710--531748	11	3.5	11	89	3	51	87	5	7	0	0.68
531710--531748	12	3.4	11	89	7	51	87	5	7	0	0.68
533036--533190	31	5.0	32	85	7	196	25	29	15	29	1.96
533036--533211	61	2.8	62	80	10	198	25	30	14	29	1.95
533040--533216	31	5.8	30	85	6	135	24	31	14	29	1.95
533204--533690	34	14.8	33	84	7	541	19	32	12	36	1.88
533208--533690	65	7.4	65	88	3	623	19	32	12	36	1.88
533208--533744	197	2.7	197	88	5	754	19	31	12	36	1.89
533658--533710	27	2.0	27	92	0	88	22	32	15	30	1.94
533738--533819	29	2.8	28	77	17	87	30	32	18	18	1.95
533724--533817	30	3.2	30	79	5	95	29	30	19	20	1.97
533748--533819	29	2.5	30	82	8	96	31	33	16	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533848--534019	91	1.9	87	84	4	227	26	24	18	30	1.98
533933--534597	49	13.8	48	74	11	488	26	26	16	30	1.97
533973--534609	101	6.6	97	79	10	550	26	27	16	30	1.97
533933--534214	150	1.9	150	87	0	411	25	25	16	32	1.96
534249--534396	39	3.5	39	72	16	143	27	27	19	26	1.99
534179--534444	88	3.0	88	87	2	372	27	26	18	28	1.98
534358--534644	48	5.8	48	78	7	252	26	27	17	28	1.98
534358--534597	100	2.4	96	85	7	313	26	27	17	28	1.97
535285--535362	32	2.4	32	86	0	111	33	12	16	37	1.87
540399--540424	11	2.4	11	100	0	52	92	7	0	0	0.39

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25