genome.fa.s19.2.7.7.80.10.50.1000.4.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: Scaffold19
Parameters: 2 7 7 80 10 50 1000
Length:  2266706

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  4  of  15  ( 1733 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)
408752--408950	102	2.0	102	91	0	326	41	25	8	25	1.82
413372--413589	34	6.5	33	80	8	233	42	24	6	26	1.79
413372--413589	67	3.2	67	84	2	285	42	24	6	26	1.79
415058--415092	16	2.2	16	100	0	70	17	28	11	42	1.83
417354--417418	25	2.6	24	79	18	71	56	0	1	41	1.08
417817--417876	31	1.9	31	89	0	93	41	3	8	46	1.50
422479--422548	31	2.3	31	85	5	88	22	11	31	34	1.90
431327--431464	69	2.0	69	88	0	204	43	17	15	23	1.87
433321--433360	2	21.0	2	90	10	66	52	0	0	47	1.00
433321--433361	13	3.0	13	92	7	64	53	0	0	46	1.00
433321--433360	17	2.4	17	100	0	80	52	0	0	47	1.00
433311--433361	15	3.4	15	86	13	70	52	0	1	45	1.12
434318--434354	2	18.5	2	94	0	65	45	0	0	54	1.00
435324--435395	11	6.7	11	71	23	55	69	2	1	26	1.10
435323--435374	21	2.5	21	79	17	63	73	0	1	25	0.94
435323--435374	5	10.0	5	76	15	52	73	0	1	25	0.94
436040--436125	43	2.0	43	97	0	163	43	16	10	30	1.81
436535--436587	15	3.7	15	82	12	76	49	0	7	43	1.31
436533--436586	28	2.0	28	96	3	101	48	0	7	44	1.31
437864--437901	18	2.1	18	95	0	67	31	5	23	39	1.77
440638--440683	3	15.3	3	100	0	92	34	32	0	32	1.58
442959--442999	16	2.7	15	84	3	55	36	2	0	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449832--449876	19	2.3	19	85	11	56	57	2	35	4	1.31
451861--451911	17	2.8	18	85	8	59	23	1	5	68	1.22
452184--452221	19	2.0	19	89	0	58	31	10	2	55	1.48
452432--452457	13	2.0	13	100	0	52	46	7	0	46	1.31
452442--452500	31	1.9	32	82	6	77	47	3	3	45	1.36
454002--454032	15	2.1	15	94	5	55	58	0	0	41	0.98
454323--454357	17	2.1	17	88	0	52	28	2	2	65	1.21
467634--467662	3	9.7	3	100	0	58	31	0	0	68	0.89
470211--470259	19	2.5	20	77	9	57	32	8	0	59	1.27
473482--473509	12	2.3	12	100	0	56	78	0	7	14	0.95
473947--474012	16	4.3	15	76	21	66	16	10	0	72	1.11
473958--474003	14	3.3	14	82	11	58	13	6	0	80	0.89
473947--474003	28	2.0	28	89	6	87	15	8	0	75	1.04
473969--474011	15	2.9	14	86	13	59	11	9	0	79	0.95
475052--475192	41	3.5	39	81	8	158	38	14	19	28	1.90
475052--475203	82	1.9	82	84	5	209	37	15	20	26	1.92
479754--479793	17	2.5	17	80	19	50	5	30	0	65	1.14
480736--480776	22	1.9	22	90	5	66	41	0	2	56	1.13
480710--480807	29	3.3	29	78	12	119	44	0	1	54	1.07
480764--480868	50	2.2	45	85	10	129	44	0	0	55	0.99
480847--480889	16	2.6	16	81	3	59	25	2	0	72	0.97
485589--485642	4	13.5	4	88	0	72	42	0	3	53	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485589--485642	6	9.0	6	87	0	72	42	0	3	53	1.18
485589--485642	10	5.4	10	88	0	72	42	0	3	53	1.18
485589--485650	20	3.1	20	92	0	97	40	0	6	53	1.27
488019--488052	16	2.1	16	100	0	68	58	0	11	29	1.33
488047--488087	19	2.0	21	90	9	68	73	0	0	26	0.84
488486--488538	2	26.5	2	100	0	106	50	49	0	0	1.00
488854--488900	3	15.7	3	100	0	94	68	0	0	31	0.90
493323--493355	17	1.9	17	93	0	57	0	15	0	84	0.61
493625--493652	3	9.3	3	100	0	56	32	0	0	67	0.91
494141--494195	20	2.8	20	83	5	58	56	3	0	40	1.17
494159--494196	19	2.0	20	89	5	60	55	2	0	42	1.14
494161--494205	19	2.3	19	84	3	54	60	4	0	35	1.17
501961--501989	2	14.5	2	100	0	58	51	0	0	48	1.00
502374--502423	19	2.7	18	75	6	55	50	4	2	44	1.32
503866--503902	13	2.8	13	91	4	56	8	13	0	78	0.96
504084--504129	16	2.9	17	79	20	55	65	0	0	34	0.93
504109--504149	12	3.0	15	83	16	54	70	0	0	29	0.87
504109--504149	7	6.0	7	81	16	50	70	0	0	29	0.87
504091--504148	19	3.0	19	78	14	64	70	0	0	29	0.87
505613--505645	9	3.7	9	88	12	50	42	0	3	54	1.15
505656--505701	20	2.3	20	92	7	76	52	0	0	47	1.00
505987--506070	10	8.8	10	65	10	50	36	1	2	59	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505987--506134	19	8.2	19	69	23	70	37	1	1	59	1.14
506092--506150	18	3.1	19	77	18	61	33	0	0	66	0.92
506653--506741	19	4.5	19	76	13	65	50	0	0	49	1.00
506642--506686	15	2.9	15	80	3	54	55	0	0	44	0.99
506656--506731	20	3.9	18	80	11	71	51	0	0	48	1.00
506652--506743	20	4.6	19	75	11	60	50	0	0	50	1.00
520866--520899	3	11.3	3	93	0	59	67	2	0	29	1.05
522771--522813	17	2.6	17	85	3	61	41	18	16	23	1.89
525207--525250	19	2.4	18	88	7	70	29	2	0	68	1.02
525916--525946	4	7.5	4	92	7	53	74	0	25	0	0.82
527746--527785	17	2.3	18	91	4	64	67	2	0	30	1.04
527745--527787	18	2.4	19	84	11	63	67	2	0	30	1.03
528064--528100	17	2.1	18	95	5	67	67	0	0	32	0.91
531014--531083	21	3.2	21	76	11	61	57	0	1	41	1.08
531017--531073	23	2.5	23	80	13	64	54	0	1	43	1.10
531047--531085	15	2.6	15	75	0	51	66	0	0	33	0.92
531066--531132	24	2.7	24	79	6	71	62	0	4	32	1.15
531217--531431	34	6.0	38	67	23	144	55	0	1	42	1.08
531221--531431	104	2.0	105	83	10	263	55	0	1	43	1.08
531232--531427	71	2.8	69	86	8	270	54	0	1	44	1.09
531217--531428	37	6.2	31	71	19	145	55	0	1	42	1.08
531381--531430	24	2.0	25	84	7	66	54	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531365--531438	25	2.9	26	73	13	73	52	1	0	45	1.09
531451--531516	29	2.3	28	82	14	82	54	0	1	43	1.09
531444--531516	28	2.5	29	84	10	96	56	0	1	42	1.08
531231--531526	143	2.1	143	80	8	318	54	0	1	43	1.13
531444--531518	27	2.7	26	76	21	71	56	0	1	42	1.08
531487--531528	14	3.1	14	86	3	50	47	0	0	52	1.00
533933--533962	15	2.0	15	100	0	60	60	13	0	26	1.34
538162--538197	16	2.2	16	90	0	54	33	22	8	36	1.84
541674--541704	15	2.1	15	100	0	62	41	6	19	32	1.77
541925--541949	3	8.3	3	100	0	50	68	0	0	32	0.90
544046--544102	7	8.4	7	71	21	50	45	0	0	54	0.99
544046--544135	27	3.3	27	77	12	78	44	0	0	55	0.99
544049--544117	26	2.7	26	80	10	81	44	0	0	55	0.99
544049--544134	26	3.2	27	77	9	79	45	0	0	54	0.99
544187--544222	16	2.2	16	90	0	54	30	0	5	63	1.17
550377--550405	2	14.5	2	100	0	58	51	0	0	48	1.00
551800--551864	12	5.3	12	75	15	62	32	0	1	66	1.01
556388--556443	20	2.9	20	81	5	62	39	8	0	51	1.33
561208--561285	32	2.7	28	74	18	79	56	0	1	42	1.07
565811--565887	15	5.7	15	68	22	71	49	0	0	50	1.00
565821--565889	18	3.9	17	71	17	52	46	0	0	53	1.00
565823--565883	22	2.8	22	83	14	81	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565776--565899	25	4.8	24	73	20	83	47	0	0	51	1.06
567107--567143	11	3.5	11	88	3	58	0	10	0	89	0.49
567107--567147	15	2.7	15	89	10	66	0	12	0	87	0.53
567109--567147	20	1.9	21	94	5	71	0	12	0	87	0.55
567116--567165	20	2.4	20	83	6	55	2	20	0	78	0.86
568871--568914	23	2.0	21	86	8	61	45	0	2	52	1.13
569455--569508	26	2.1	26	92	0	90	48	7	0	44	1.31
570264--570309	3	15.3	3	90	0	74	60	0	4	34	1.16
571023--571096	38	1.9	39	86	8	107	54	1	0	44	1.08
579147--579184	15	2.4	17	86	8	53	44	10	18	26	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15