genome.fa.s77.2.7.7.80.10.50.1000.4.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: Scaffold77
Parameters: 2 7 7 80 10 50 1000
Length:  1374688

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1055 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)
400724--400771	14	3.2	16	77	19	50	62	0	0	37	0.95
401159--401200	22	1.9	22	85	9	59	57	2	2	38	1.25
401321--401368	26	1.9	26	87	8	73	35	2	0	62	1.07
402433--402472	11	3.5	12	83	10	57	60	0	0	40	0.97
402438--402487	20	2.3	21	86	10	66	58	0	2	40	1.10
404107--404150	3	14.7	3	95	0	79	31	0	2	65	1.05
405501--405534	7	4.9	7	86	13	52	85	0	0	14	0.60
405496--405539	14	3.0	14	83	16	54	81	0	0	18	0.68
405497--405529	16	2.1	16	94	0	57	84	0	0	15	0.61
405497--405539	9	4.9	9	86	13	54	83	0	0	16	0.64
406109--406149	2	20.5	2	100	0	82	48	0	0	51	1.00
407271--407308	15	2.5	16	83	12	53	78	2	0	18	0.86
408938--408995	9	6.4	9	84	9	66	50	0	0	50	1.00
410773--410817	24	2.0	22	86	8	63	37	0	0	62	0.96
410785--410833	16	2.8	18	70	17	50	36	0	0	63	0.95
410796--410828	15	2.1	16	88	5	50	39	0	0	60	0.97
411009--411059	20	2.6	19	79	14	59	52	0	1	45	1.12
411060--411181	5	24.8	5	68	15	76	37	1	0	60	1.07
411067--411172	28	3.6	28	78	17	90	38	0	0	60	1.03
415934--416073	66	2.1	67	86	4	194	30	7	25	36	1.84
416212--416295	24	3.5	24	68	27	63	52	0	3	44	1.18
416600--416664	15	4.1	16	76	21	66	60	0	1	38	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417226--417267	15	2.6	17	88	7	61	47	0	2	50	1.14
420051--420094	21	2.1	21	86	0	61	43	2	2	52	1.26
421598--421633	11	3.3	11	84	0	54	33	0	0	66	0.92
421609--421682	37	2.0	36	82	7	87	43	1	1	54	1.17
421791--421820	2	15.0	2	100	0	60	50	0	0	50	1.00
424330--424558	81	2.8	81	85	0	289	26	30	16	27	1.96
426879--426933	10	5.4	11	76	10	55	32	0	1	65	1.03
427171--427215	23	2.0	23	81	0	54	44	0	2	53	1.13
428650--428694	19	2.3	20	82	17	60	57	0	2	40	1.11
428650--428701	19	2.7	20	77	14	56	57	0	1	40	1.10
429036--429104	32	2.1	33	81	5	77	56	2	1	39	1.23
429062--429116	27	2.0	28	86	10	78	54	3	0	41	1.18
429857--429919	33	1.9	33	83	6	83	39	0	9	50	1.35
430423--430479	23	2.6	21	81	15	62	57	0	0	42	0.98
430423--430465	22	2.0	21	86	13	61	60	0	0	39	0.97
431525--431562	17	2.4	17	91	8	62	36	7	0	55	1.29
431560--431611	12	4.6	12	81	16	58	34	5	1	57	1.33
431566--431604	21	1.9	21	94	5	71	33	2	0	64	1.08
431566--431616	11	4.7	11	83	16	63	33	3	0	62	1.13
431567--431616	21	2.3	21	86	10	66	34	4	0	62	1.14
432628--432656	3	9.7	3	100	0	58	31	0	0	68	0.89
432694--432748	25	2.2	25	93	0	92	36	1	10	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432690--432746	29	2.0	28	86	10	80	35	1	10	52	1.46
433100--433187	36	2.4	37	94	3	151	35	6	10	47	1.64
433461--433493	14	2.4	14	94	0	57	54	0	0	45	0.99
434442--434487	21	2.3	20	81	7	58	36	2	0	60	1.09
434985--435024	20	2.0	21	85	5	55	60	2	0	37	1.11
435016--435056	16	2.5	17	80	15	50	43	0	2	53	1.13
436161--436231	36	2.0	36	84	10	94	50	0	1	47	1.09
438774--438806	2	17.0	2	87	6	50	45	3	0	51	1.16
446555--446584	15	2.0	15	93	0	51	50	0	0	50	1.00
448208--448264	2	28.5	2	89	0	87	45	0	0	54	0.99
450343--450391	15	3.2	16	80	11	59	65	0	0	34	0.93
450333--450381	17	2.9	17	82	8	64	65	0	0	34	0.93
450347--450391	22	2.0	22	87	8	65	66	0	0	33	0.92
451084--451156	24	3.2	24	73	7	62	49	0	0	50	1.00
454897--454928	3	10.7	3	100	0	64	0	31	0	68	0.90
458976--459016	21	1.9	21	85	14	57	39	0	2	58	1.11
461229--461274	20	2.3	19	85	7	56	52	0	2	45	1.13
461576--461613	17	2.3	16	86	8	58	47	0	2	50	1.15
461565--461646	25	3.4	23	78	16	78	45	0	4	50	1.23
461692--461755	13	4.8	13	78	12	60	45	3	1	50	1.27
461713--461761	15	3.5	14	83	8	55	44	2	2	51	1.24
463936--463973	11	3.5	11	80	20	53	28	0	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464120--464149	15	2.0	15	100	0	60	13	13	46	26	1.80
464464--464504	15	2.7	16	85	7	50	39	7	0	53	1.29
464989--465056	27	2.4	30	76	11	72	55	4	8	30	1.50
466263--466318	26	2.2	26	86	0	76	42	12	7	37	1.70
467212--467250	2	19.5	2	100	0	78	51	0	0	48	1.00
471895--471969	20	3.8	20	80	3	80	40	12	13	34	1.81
471892--471969	40	2.0	39	87	2	111	39	12	12	34	1.82
472498--473131	32	19.8	32	96	0	1081	14	18	35	31	1.91
473114--473653	27	19.7	27	88	4	717	27	14	34	23	1.93
473114--473661	82	6.7	81	89	3	810	27	14	34	23	1.94
473099--473661	219	2.6	218	90	5	857	27	14	34	24	1.94
482118--482192	20	3.8	20	80	3	80	40	12	13	34	1.81
482115--482192	40	2.0	39	87	2	111	39	12	12	34	1.82
484091--484134	23	2.0	23	82	13	56	20	2	2	75	1.03
491556--492672	27	41.0	27	91	2	1761	22	34	14	28	1.94
491556--492672	300	3.7	299	94	1	1859	22	34	14	28	1.94
492655--493386	32	22.8	32	93	2	1231	31	33	18	16	1.94
493407--493537	45	2.8	47	80	7	133	21	26	21	30	1.98
495021--495064	23	2.0	23	82	13	56	20	2	2	75	1.03
497379--497427	22	2.2	23	82	7	66	46	0	2	51	1.12
497483--498090	175	3.5	173	90	0	932	35	18	9	36	1.83
498066--498104	11	3.5	11	82	0	51	48	0	7	43	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498065--498112	22	2.2	22	96	0	87	52	0	6	41	1.27
500867--500915	22	2.2	22	82	7	55	59	0	10	30	1.31
504339--504423	11	7.5	11	75	12	75	64	0	0	35	0.94
504339--504427	17	5.2	17	75	13	85	64	0	0	35	0.94
504331--504427	27	3.9	23	77	17	88	62	0	0	37	0.95
504348--504447	27	3.7	27	76	11	98	62	0	0	38	0.96
504665--504714	11	4.5	11	80	5	64	38	0	0	62	0.96
504669--504712	23	1.9	23	90	9	72	36	0	0	63	0.95
504709--504760	16	3.2	16	77	17	63	40	0	1	57	1.10
506222--506257	12	3.0	12	87	0	54	19	0	8	72	1.10
506569--506593	2	12.5	2	100	0	50	48	0	52	0	1.00
512001--512045	21	2.0	23	83	8	58	33	4	6	55	1.46
518766--518816	24	2.1	24	85	7	68	47	0	1	50	1.12
519539--519582	22	2.0	22	82	8	54	54	0	0	45	0.99
520630--520680	23	2.3	22	74	19	52	41	0	1	56	1.10
521412--521491	40	2.0	39	88	7	117	41	7	8	42	1.64
521740--521789	15	3.3	14	76	17	55	56	0	0	44	0.99
521730--521797	26	2.5	28	76	7	68	50	0	0	50	1.00
522095--522127	17	1.9	17	100	0	66	60	0	0	39	0.97
522550--522613	22	2.9	22	81	11	85	42	0	0	57	0.98
524069--524106	20	1.9	20	94	0	67	52	2	10	34	1.50
525229--525285	23	2.3	25	85	8	73	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525229--525294	23	2.6	25	76	13	64	56	0	0	43	0.99
525261--525314	19	2.7	20	80	11	65	64	3	0	31	1.11
529311--529340	2	15.0	2	100	0	60	50	0	0	50	1.00
533688--533722	16	2.2	16	89	0	52	42	0	0	57	0.99
533942--533985	23	2.0	22	86	4	61	40	0	2	56	1.11
540133--540204	29	2.4	30	79	9	67	54	0	0	45	0.99
540134--540212	30	2.5	32	76	18	83	55	0	0	44	0.99
540207--540243	15	2.5	15	87	12	58	78	0	0	21	0.75
540536--540579	22	2.0	21	86	4	61	29	0	0	70	0.88
543557--543630	6	11.8	6	73	13	60	44	0	0	55	0.99

Tables:   1   2   3   4   5   6   7   8   9