genome.fa.s29.2.7.7.80.10.50.1000.2.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   26   27   28   29   30   31   32   
          33   34   

This is table  2  of  34  ( 4030 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)
194887--194964	40	2.0	39	87	2	111	34	12	12	39	1.82
199174--199209	14	2.6	14	91	4	56	5	13	2	77	1.05
236585--236651	33	2.0	33	88	5	100	32	14	13	38	1.86
236680--236728	21	2.5	20	86	6	64	32	18	18	30	1.95
242507--242536	4	7.5	4	100	0	60	53	0	0	46	1.00
247549--247791	78	3.1	77	65	13	199	45	2	4	47	1.36
247500--247811	156	2.0	154	91	4	508	44	2	4	48	1.36
247676--247734	25	2.5	23	78	15	66	55	0	1	42	1.09
247671--247732	22	2.8	23	78	9	67	54	0	1	43	1.09
248819--248908	28	3.4	26	83	8	110	25	7	21	45	1.78
253393--253456	27	2.3	27	89	7	94	26	7	18	46	1.76
254075--254115	18	2.2	19	91	4	66	34	0	0	65	0.93
254236--254283	25	2.0	24	83	4	60	66	2	2	29	1.14
254519--254559	3	13.7	3	100	0	82	31	0	0	68	0.90
254665--254718	26	2.1	26	100	0	108	27	16	7	48	1.73
255116--255179	31	2.0	32	93	3	112	42	0	0	57	0.98
255118--255167	14	3.4	14	74	15	55	46	0	0	54	1.00
255076--255187	8	13.1	8	69	20	59	39	0	1	58	1.08
255075--255223	13	10.8	13	66	24	51	35	0	2	61	1.15
257726--257770	23	2.0	23	86	8	65	62	0	0	37	0.96
258356--258402	23	2.2	22	88	11	71	38	0	12	48	1.41
259864--259894	15	2.0	16	93	6	55	32	0	16	51	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
261330--261361	16	2.0	16	93	0	55	12	9	31	46	1.73
261351--261381	16	1.9	16	93	0	53	19	16	22	41	1.89
262434--262458	11	2.3	11	100	0	50	48	0	0	52	1.00
264923--264987	33	2.0	32	85	8	87	33	13	13	38	1.85
267210--267267	21	2.8	21	86	2	73	62	0	20	17	1.33
270477--270541	33	2.0	32	88	8	96	33	15	13	36	1.87
271106--271198	36	2.8	33	80	12	109	32	13	24	29	1.94
284746--284790	16	2.7	17	86	10	58	82	4	2	11	0.91
285397--285602	76	2.7	76	84	2	252	25	19	12	43	1.85
285476--285639	76	2.2	76	84	3	215	28	20	12	38	1.89
286151--286245	41	2.4	40	78	3	102	20	16	6	56	1.61
287500--287565	33	2.0	33	87	0	96	31	15	15	37	1.88
287603--287648	19	2.3	20	81	7	58	41	15	15	28	1.87
289858--289915	19	3.1	18	88	11	89	32	17	15	34	1.91
289899--289925	13	2.1	13	100	0	54	40	14	14	29	1.86
289880--289944	32	2.0	32	90	3	103	40	15	15	29	1.88
292455--292481	13	2.1	13	100	0	54	40	14	14	29	1.86
297238--297373	41	3.3	40	79	8	139	21	22	11	45	1.82
301150--301175	13	2.0	13	100	0	52	38	15	15	30	1.88
301218--301270	20	2.7	20	90	0	79	30	15	13	41	1.85
301836--301880	22	2.0	22	87	8	65	35	26	0	37	1.57
301899--301971	25	3.2	25	60	28	63	35	26	1	36	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301856--301971	42	2.5	48	78	20	154	36	25	1	37	1.66
301884--301971	42	2.1	42	100	0	176	36	25	2	36	1.69
303804--303841	13	2.9	13	88	0	58	31	21	15	31	1.94
309980--310004	13	1.9	13	100	0	50	40	8	16	36	1.77
310059--310111	20	2.7	20	87	0	70	28	15	13	43	1.84
312709--312745	18	2.1	18	89	0	56	45	8	16	29	1.76
313629--313674	20	2.3	20	85	7	58	32	17	13	36	1.88
313711--313766	19	2.9	19	91	2	85	35	17	16	30	1.92
321492--321522	13	2.4	13	94	0	53	41	12	12	32	1.81
321470--321538	33	2.1	33	89	5	104	39	18	11	30	1.87
321567--321619	19	2.7	21	88	8	76	41	16	15	26	1.88
323705--323742	18	2.1	18	90	0	58	81	5	13	0	0.85
325125--325183	24	2.5	24	85	0	82	55	11	3	28	1.52
325354--325392	18	2.2	18	86	9	53	53	5	5	35	1.45
325915--326167	138	1.8	139	87	2	375	38	15	12	33	1.85
329336--329439	39	2.7	39	77	5	111	44	15	4	35	1.68
332270--332300	3	10.3	3	100	0	62	35	0	32	32	1.58
332731--332772	15	2.8	16	78	10	52	52	2	16	28	1.56
333389--333574	90	2.1	90	84	1	239	29	27	15	27	1.96
334089--334154	33	2.0	33	85	5	89	31	19	12	36	1.89
339698--339736	16	2.4	17	91	4	62	12	15	5	66	1.41
343688--343741	19	2.8	19	85	2	72	29	12	18	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352396--352422	13	2.1	13	100	0	54	29	14	14	40	1.86
352472--352525	20	2.7	20	91	5	83	31	11	18	38	1.86
358502--358542	21	2.0	21	85	9	57	39	12	9	39	1.76
358579--358635	21	2.8	20	81	5	69	40	15	14	29	1.87
358623--358759	53	2.6	53	90	3	213	36	18	17	27	1.93
358801--358856	21	2.6	22	91	5	96	28	23	10	37	1.88
358927--358965	13	3.0	13	92	0	69	30	15	17	35	1.91
361437--361474	18	2.1	18	85	9	51	50	10	23	15	1.75
362322--362460	51	2.7	51	85	5	174	41	12	14	32	1.83
362515--362568	20	2.7	20	85	2	81	33	16	9	40	1.80
365211--365249	18	2.2	18	86	13	55	48	7	2	41	1.45
365410--365467	21	2.8	21	81	5	73	36	15	15	32	1.89
365503--365557	19	2.9	19	97	0	101	34	10	14	40	1.81
365597--365623	13	2.1	13	100	0	54	29	14	14	40	1.86
367955--368071	51	2.4	51	84	12	147	30	23	11	33	1.91
368053--368129	27	2.8	27	86	5	102	23	32	19	24	1.97
368010--368407	187	2.2	183	86	2	546	27	27	14	30	1.95
368274--368446	79	2.2	79	84	2	213	25	30	15	28	1.96
370377--370429	20	2.7	19	77	11	63	28	16	16	37	1.91
370768--370833	35	2.0	34	85	14	93	16	15	12	56	1.68
377197--377255	32	1.9	30	83	13	75	59	10	10	20	1.58
377515--377581	32	2.0	34	91	5	111	28	10	14	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377549--377584	19	2.0	18	89	10	56	25	11	16	47	1.79
381404--381448	21	2.1	21	84	8	56	22	20	4	53	1.63
383669--383694	13	2.0	13	100	0	52	30	15	15	38	1.88
383648--383712	19	3.6	19	73	26	70	29	12	15	43	1.83
383648--383712	32	2.0	34	93	6	116	29	12	15	43	1.83
388255--388286	15	2.1	15	94	0	55	40	12	15	31	1.85
389474--389519	15	3.3	15	73	17	53	54	0	0	45	0.99
389589--389640	20	2.8	19	83	11	65	59	0	1	38	1.08
389944--389977	16	2.1	16	88	0	50	50	11	2	35	1.54
391642--391674	9	3.6	9	95	4	57	0	12	0	87	0.53
391642--391683	18	2.3	18	87	0	57	2	9	2	85	0.77
392966--393155	104	1.8	104	98	0	371	35	16	10	37	1.84
392988--393151	50	3.2	50	67	21	149	34	17	12	36	1.87
396623--396658	18	2.0	18	88	0	54	44	5	2	47	1.41
398616--398674	21	2.8	20	82	10	66	1	18	1	77	0.93
398594--398674	25	3.3	25	74	16	71	2	20	1	75	0.99
398598--398682	17	5.1	17	75	18	72	3	22	1	72	1.06
398687--398719	3	11.0	3	100	0	66	66	0	0	33	0.92
410009--410060	16	3.2	16	74	20	54	40	0	0	59	0.97
410000--410077	32	2.5	33	83	8	92	41	0	0	58	0.98
409999--410074	30	2.4	30	80	10	80	40	0	0	59	0.98
410213--410248	15	2.3	15	90	4	54	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415376--415408	12	2.8	12	90	4	50	48	0	3	48	1.17
415556--415582	6	4.5	6	100	0	54	81	0	0	18	0.69
415772--415809	10	3.8	10	82	10	51	65	0	0	34	0.93
415772--415813	19	2.3	19	95	4	77	66	0	0	33	0.92
415902--415948	24	2.0	23	83	4	58	68	2	2	27	1.13
416065--416108	19	2.3	19	84	4	52	50	2	0	47	1.13
416066--416130	23	2.8	23	73	11	62	50	4	0	44	1.22
416172--416260	17	5.2	18	71	12	53	66	11	0	22	1.23
416169--416260	34	2.7	34	83	8	107	65	10	0	23	1.24
416187--416260	17	4.4	17	77	6	78	66	10	0	22	1.23

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   26   27   28   29   30   31   32   
          33   34