genome.fa.s82.2.7.7.80.10.50.1000.4.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: Scaffold82
Parameters: 2 7 7 80 10 50 1000
Length:  2626005

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  4  of  17  ( 2012 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)
425104--425155	23	2.3	22	87	6	77	59	0	1	38	1.08
428146--428180	18	1.9	18	94	0	61	48	0	5	45	1.26
429665--429711	2	23.0	2	95	4	85	48	0	2	48	1.13
430499--430535	2	18.5	2	100	0	74	51	0	0	48	1.00
430839--430894	22	2.5	24	82	8	57	39	0	1	58	1.08
432936--432982	2	23.5	2	82	0	58	51	8	0	40	1.33
434251--434275	13	1.9	13	100	0	50	52	8	0	40	1.31
436500--436549	23	2.4	21	84	15	68	32	4	2	62	1.25
436500--436545	22	2.1	22	92	8	76	32	4	2	60	1.28
442820--442859	13	2.9	14	85	7	55	40	0	2	57	1.12
442950--443004	26	2.2	26	87	9	78	63	1	0	34	1.05
443729--443820	34	2.5	37	74	15	91	42	0	2	55	1.12
443805--443845	22	1.9	21	85	14	57	56	0	2	41	1.13
444393--444437	23	2.0	23	86	8	65	42	0	2	55	1.12
444484--444519	19	1.9	18	88	5	54	47	8	5	38	1.57
445479--445529	20	2.5	21	80	6	59	35	9	3	50	1.54
445743--445798	21	2.7	20	78	10	58	32	3	7	57	1.43
445862--445960	42	2.4	42	79	6	103	41	4	6	48	1.47
445900--445960	21	2.9	21	83	9	88	36	4	8	50	1.54
446195--446238	21	2.2	20	83	4	52	27	0	4	68	1.09
446409--446464	21	2.7	22	83	8	64	35	8	8	46	1.67
446844--446943	21	4.8	21	77	6	87	38	2	4	56	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446996--447081	21	4.0	21	72	11	66	33	3	5	56	1.40
447007--447110	42	2.4	44	83	4	122	32	2	5	58	1.36
450502--450624	29	3.9	32	78	18	134	40	0	0	58	1.04
450515--450631	19	5.9	20	74	16	93	37	0	0	60	1.09
451075--451186	41	2.8	41	72	15	106	47	0	0	52	1.00
454151--454196	3	15.7	3	95	4	85	67	0	0	32	0.91
456106--456161	27	2.0	28	82	3	69	33	3	3	58	1.32
456106--456161	28	2.0	28	83	10	71	33	3	3	58	1.32
459637--459683	16	2.8	16	81	15	51	55	2	2	40	1.24
459691--459739	20	2.6	18	81	12	53	55	0	0	44	0.99
459967--459998	2	16.0	2	100	0	64	50	0	0	50	1.00
460265--460329	9	6.9	9	74	20	53	53	0	1	44	1.09
460525--460558	2	17.0	2	93	0	59	50	2	0	47	1.16
460941--460989	16	3.2	15	80	5	55	44	16	4	34	1.66
460941--460988	22	2.3	20	89	7	69	45	14	4	35	1.64
461047--461080	2	17.0	2	100	0	68	50	0	0	50	1.00
462351--462404	21	2.5	21	77	14	56	55	3	0	40	1.17
463326--463405	42	1.9	42	92	0	133	17	21	13	47	1.82
467864--467897	2	17.0	2	100	0	68	0	50	0	50	1.00
470951--471020	36	1.9	36	91	0	113	41	4	8	45	1.54
471291--471327	19	1.9	19	94	0	65	29	8	21	40	1.82
471298--471338	19	2.3	18	84	12	50	29	4	19	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471375--471455	16	5.1	16	85	5	110	45	0	3	50	1.19
471377--471474	32	3.1	31	82	5	115	45	1	6	46	1.34
471366--471471	48	2.2	48	84	3	142	42	1	7	48	1.42
472161--472190	2	15.0	2	100	0	60	50	0	0	50	1.00
472556--472597	22	1.9	22	90	9	68	38	0	0	61	0.96
472713--472767	16	3.1	17	84	12	67	52	1	1	43	1.22
473187--473247	24	2.4	25	83	8	70	42	0	0	57	0.98
473257--473307	22	2.3	23	86	10	70	72	0	0	27	0.85
473267--473316	22	2.3	21	83	16	59	66	0	0	34	0.92
473324--473359	15	2.3	15	85	4	54	55	0	0	44	0.99
474988--475028	18	2.2	18	86	8	55	43	0	2	53	1.13
476141--476193	27	1.9	28	84	3	72	62	0	0	37	0.96
476174--476218	23	2.0	23	95	0	81	51	0	0	48	1.00
476434--476465	2	16.0	2	100	0	64	0	50	0	50	1.00
481344--481387	2	22.0	2	100	0	88	50	0	0	50	1.00
481938--482024	32	2.7	32	85	0	120	50	3	2	43	1.31
481959--482012	22	2.3	23	84	12	67	53	0	1	44	1.11
483121--483158	11	3.5	11	88	0	58	42	0	0	57	0.98
483121--483153	12	2.8	12	90	9	50	36	0	0	63	0.95
484078--484123	19	2.4	19	85	3	56	36	4	13	45	1.63
485228--485265	20	2.0	19	85	10	51	36	18	7	36	1.80
485976--486036	30	2.0	31	81	12	74	59	1	1	37	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486695--486747	20	2.7	20	90	0	79	35	24	13	26	1.92
486755--486809	19	2.8	19	83	5	65	32	14	16	36	1.89
487668--487706	20	1.9	21	89	5	62	38	0	0	61	0.96
488635--488718	16	5.2	16	67	22	50	48	0	2	48	1.14
494898--494944	13	3.7	13	74	5	51	44	2	0	53	1.12
495810--496037	124	1.9	120	84	8	304	48	5	5	40	1.49
501394--501452	15	4.0	15	73	10	59	49	3	1	45	1.28
501994--502033	12	3.3	12	89	10	64	72	2	0	25	0.97
502068--502106	16	2.4	16	91	0	60	56	10	7	25	1.59
502566--502616	2	25.5	2	95	0	93	49	0	1	49	1.12
502740--502765	13	2.0	13	100	0	52	7	7	0	84	0.77
503930--503961	4	7.8	4	93	6	55	78	0	0	21	0.76
504329--504379	24	2.1	25	85	10	70	68	1	3	25	1.17
504823--504953	39	3.2	39	72	17	113	57	0	3	38	1.20
504823--504998	84	2.1	84	83	2	219	59	0	2	36	1.16
504965--505035	11	6.2	11	77	6	61	67	0	2	29	1.05
504943--505027	35	2.4	36	84	5	111	69	0	1	29	0.96
504943--505028	18	4.5	19	74	25	67	68	0	1	30	0.97
504975--505040	23	2.7	27	73	20	56	66	0	1	31	1.01
504947--505035	47	1.9	46	84	6	117	68	0	2	29	1.02
505285--505325	3	13.7	3	100	0	82	34	0	0	65	0.93
510069--510108	2	20.0	2	100	0	80	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510108--510133	2	13.0	2	100	0	52	50	0	0	50	1.00
520299--520378	17	4.9	16	73	13	65	31	6	3	58	1.40
521721--521752	12	2.6	13	90	9	50	68	0	0	31	0.90
521776--521805	14	2.1	15	93	6	53	53	3	0	43	1.17
526284--526320	2	19.5	2	89	10	60	51	0	0	48	1.00
526291--526320	15	2.0	15	100	0	60	53	0	0	46	1.00
526284--526320	17	2.2	17	95	0	65	51	0	0	48	1.00
531248--531296	27	2.0	24	84	15	64	18	8	14	59	1.59
531750--531795	16	2.9	16	80	20	53	34	0	0	65	0.93
531750--531809	20	3.0	19	81	13	59	33	0	0	66	0.92
531761--531811	9	5.4	9	77	13	50	27	0	0	72	0.85
532507--532550	21	2.1	21	87	4	63	50	0	6	43	1.29
532481--532675	104	1.9	103	88	3	293	48	2	5	43	1.38
537484--537509	13	2.0	13	100	0	52	84	0	0	15	0.62
537945--537989	3	15.3	3	86	4	65	28	2	2	66	1.15
540230--540263	17	1.9	18	94	5	61	50	0	0	50	1.00
543371--543409	20	1.9	20	89	5	60	43	5	0	51	1.24
543355--543409	20	2.9	18	79	12	58	40	3	0	56	1.17
543614--543661	23	2.2	22	88	7	71	43	6	2	47	1.40
545057--545087	16	2.0	16	93	6	55	54	0	0	45	0.99
545329--545367	15	2.6	15	80	15	53	61	0	0	38	0.96
545320--545361	16	2.4	18	81	18	54	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549647--549691	2	22.5	2	100	0	90	51	0	0	48	1.00
553834--553872	2	19.5	2	100	0	78	51	0	48	0	1.00
555422--555469	2	24.5	2	82	4	62	52	0	6	41	1.27
556368--556548	91	2.0	90	92	1	299	34	14	10	39	1.81
556860--556926	20	3.4	20	78	15	68	56	0	1	41	1.08
559543--559583	2	20.5	2	89	0	64	0	48	4	46	1.23
559889--559922	7	4.7	7	92	7	59	85	0	0	14	0.60
560748--560772	2	12.5	2	100	0	50	48	0	0	52	1.00
562268--562333	18	3.5	19	80	14	66	69	0	1	28	0.97
562274--562368	10	9.4	10	70	20	56	63	1	1	34	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17