genome.fa.s372.2.7.7.80.10.50.1000.2.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: Scaffold372
Parameters: 2 7 7 80 10 50 1000
Length:  1060101

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1049 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)
215552--215581	2	15.0	2	100	0	60	50	0	0	50	1.00
216363--216398	16	2.2	17	90	9	58	50	0	0	50	1.00
216354--216404	26	2.0	25	84	3	66	50	0	0	49	1.00
216583--216644	26	2.3	26	81	15	74	51	0	1	46	1.10
217725--217765	18	2.2	19	95	4	75	56	4	34	4	1.42
217725--217770	18	2.6	18	89	6	58	56	4	34	4	1.39
223282--223331	25	2.1	25	82	14	61	38	8	0	54	1.30
223388--223438	15	3.3	15	86	5	66	56	0	0	43	0.99
223433--223478	23	1.9	25	82	8	60	63	2	2	32	1.19
226998--227063	32	2.2	29	83	8	78	51	1	0	46	1.10
234981--235067	41	2.1	42	89	4	131	45	18	18	17	1.85
237790--237838	21	2.3	21	82	0	62	51	0	0	48	1.00
238595--238652	29	2.0	29	86	6	82	55	0	0	44	0.99
238896--238956	24	2.5	25	84	7	72	60	0	0	39	0.97
238919--238974	18	3.2	17	76	19	53	58	0	0	41	0.98
238895--238985	22	4.2	22	70	16	66	57	0	0	42	0.99
238929--238985	21	2.7	21	79	12	64	56	0	0	43	0.99
239673--239709	12	2.9	13	88	8	58	51	0	0	48	1.00
253171--253195	2	12.5	2	100	0	50	52	0	48	0	1.00
256492--256566	10	7.4	10	72	11	55	38	0	0	61	0.96
256494--256526	16	2.1	16	88	11	50	42	0	0	57	0.98
256492--256571	21	3.9	21	72	18	69	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
256605--256650	17	2.8	17	83	3	67	34	0	0	65	0.93
256615--256673	27	2.1	28	84	3	75	44	0	0	55	0.99
256617--256684	27	2.6	26	72	9	66	41	0	0	58	0.98
257563--257614	22	2.4	22	81	9	61	44	0	0	55	0.99
257607--257661	23	2.5	22	79	5	65	45	1	0	52	1.11
257792--257816	2	12.5	2	100	0	50	52	0	0	48	1.00
260987--261029	22	2.0	22	90	0	68	37	0	0	62	0.95
261515--261557	12	3.3	13	80	9	52	34	2	2	60	1.22
268922--268956	18	1.9	18	88	0	52	14	17	11	57	1.66
273658--273692	15	2.4	14	90	9	52	0	11	2	85	0.69
274253--274297	2	23.0	2	86	4	65	0	55	0	44	0.99
274998--275036	18	2.3	18	86	8	55	56	0	0	43	0.99
275740--275776	13	2.8	13	83	0	56	64	0	0	35	0.94
277650--277706	20	2.8	19	80	17	62	47	1	3	47	1.29
277650--277713	19	3.2	19	80	8	74	46	1	3	48	1.27
277736--277782	13	3.6	13	81	16	53	34	2	0	63	1.06
277738--277789	27	1.9	27	81	14	63	36	3	0	59	1.16
279062--279111	17	3.1	17	74	11	59	74	4	0	22	0.99
283790--283954	16	9.8	16	70	20	61	62	3	0	33	1.17
283858--283954	49	2.0	49	84	8	126	61	2	0	36	1.07
283901--283960	22	2.8	21	80	7	59	66	1	1	30	1.11
284823--284847	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286446--286516	18	4.1	17	72	13	56	56	0	0	43	0.99
286446--286516	27	2.6	29	80	14	89	56	0	0	43	0.99
288082--288116	3	11.7	3	93	0	61	34	2	0	62	1.10
288325--288357	12	2.7	13	86	13	52	66	0	0	33	0.92
289681--289708	2	14.0	2	100	0	56	50	0	0	50	1.00
296191--296228	2	19.0	2	100	0	76	0	50	0	50	1.00
296228--296257	2	15.0	2	92	0	51	46	50	3	0	1.18
296429--296468	2	20.0	2	89	0	53	42	50	7	0	1.30
300406--300431	2	13.0	2	100	0	52	50	0	0	50	1.00
300956--300980	4	6.2	4	100	0	50	76	0	0	24	0.80
301172--301241	34	2.0	34	83	5	86	52	0	1	45	1.09
302186--302230	20	2.2	20	84	11	56	42	2	0	55	1.12
302385--302409	13	1.9	13	100	0	50	56	0	0	44	0.99
303081--303159	36	2.2	37	80	11	92	34	0	0	65	0.93
303088--303175	20	4.4	20	76	16	85	32	1	0	65	1.00
303092--303181	12	7.4	13	71	25	54	34	1	0	64	1.01
310501--310540	13	3.2	12	83	16	55	80	2	10	7	1.00
311648--311707	12	4.5	12	74	22	57	36	0	1	61	1.06
311641--311714	24	3.3	24	75	21	88	39	0	1	59	1.06
311658--311773	18	6.5	18	73	18	66	43	0	0	56	1.05
311646--311762	45	2.6	43	80	15	114	41	0	0	57	1.05
311646--311841	42	4.5	42	71	15	128	38	1	2	57	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
311677--311755	27	2.8	30	81	12	80	41	0	0	58	0.98
311726--311773	17	2.9	17	72	27	50	43	0	0	56	0.99
311646--311777	42	3.0	45	78	13	148	40	0	0	58	1.03
311723--311787	32	2.0	33	84	3	87	41	0	1	56	1.08
313313--313346	16	2.1	16	88	0	50	38	0	11	50	1.39
315148--315191	23	1.9	23	95	0	79	38	0	31	29	1.58
315589--315643	22	2.5	23	82	11	71	60	0	0	40	0.97
315601--315646	22	2.1	22	92	8	76	56	0	0	43	0.99
324413--324443	14	2.2	14	94	0	53	51	0	0	48	1.00
324974--325017	21	2.1	21	83	8	54	2	22	9	65	1.32
325785--325835	27	2.0	27	84	7	70	43	0	1	54	1.11
327395--327428	9	3.7	9	88	4	50	58	0	0	41	0.98
328626--328653	2	14.0	2	100	0	56	50	0	0	50	1.00
329590--329885	145	2.0	145	94	0	522	36	9	10	43	1.72
332095--332186	32	3.0	31	78	16	86	60	1	0	38	1.04
332097--332195	27	3.8	27	82	12	118	61	1	0	37	1.03
332106--332159	17	3.2	18	72	17	53	61	0	0	38	0.96
332098--332209	9	13.0	9	70	20	62	59	0	0	38	1.10
332565--332607	19	2.3	19	88	8	61	44	2	0	53	1.13
333148--333188	17	2.4	16	84	8	55	39	0	0	60	0.96
334657--334706	18	2.6	19	77	17	59	38	0	0	62	0.96
334666--334704	21	1.9	21	94	5	71	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337510--337551	10	4.2	10	81	9	50	33	0	0	66	0.92
339162--339230	32	2.2	32	100	0	138	43	5	8	42	1.59
340449--340510	32	1.9	33	83	3	81	51	4	9	33	1.56
341784--341813	14	2.1	14	93	0	51	0	6	10	83	0.81
342275--342316	3	14.0	3	100	0	84	66	0	0	33	0.92
342425--342466	3	14.0	3	90	9	68	64	0	0	35	0.94
343707--343736	15	1.9	16	93	6	53	66	0	0	33	0.92
343694--343736	16	2.5	17	85	7	52	60	0	0	39	0.97
344412--344464	19	2.8	20	75	16	60	50	0	0	49	1.00
345535--345596	16	3.8	16	76	2	52	50	12	12	24	1.76
346106--346135	16	1.9	15	93	6	51	53	3	16	26	1.59
346612--346640	14	2.0	15	93	6	51	55	0	6	37	1.27
346823--346859	18	2.0	20	89	10	60	56	2	0	40	1.13
346822--346899	18	4.3	17	73	19	52	56	3	1	38	1.26
346992--347035	16	2.7	16	89	3	61	65	2	2	29	1.16
351414--351442	2	14.5	2	100	0	58	51	0	0	48	1.00
351647--351675	2	14.5	2	100	0	58	48	0	0	51	1.00
351896--351939	19	2.3	19	88	4	70	65	0	0	34	0.93
351907--351975	26	2.7	25	78	8	77	60	0	1	37	1.06
351900--351966	27	2.5	28	80	7	75	62	0	1	35	1.04
351926--352004	32	2.4	33	82	8	97	55	1	3	39	1.26
352135--352172	3	12.7	3	100	0	76	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352400--352427	2	14.0	2	100	0	56	50	0	0	50	1.00
352698--352741	6	7.3	6	92	0	52	47	0	11	40	1.39
354581--354639	31	1.9	30	83	10	75	44	3	1	50	1.28
355083--355121	20	2.0	20	89	0	60	66	0	0	33	0.92
358799--359046	126	2.0	126	100	0	496	29	12	16	42	1.84
359184--359248	33	2.0	33	96	0	121	29	20	10	40	1.86
363420--363546	16	7.4	16	68	19	60	37	0	0	61	1.02
363420--363536	28	4.3	27	72	17	89	39	0	0	60	0.97
363487--363544	17	3.4	17	77	20	59	31	1	0	67	1.01
363427--363506	27	2.9	26	82	14	90	42	0	0	57	0.98

Tables:   1   2   3   4   5   6   7   8   9