genome.fa.s92.2.7.7.80.10.50.1000.3.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  3  of  19  ( 2187 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)
423129--423174	22	2.1	22	84	8	58	54	2	0	43	1.12
424882--424922	13	3.1	13	82	6	55	36	0	2	60	1.10
424882--424922	14	3.1	14	86	6	59	36	0	2	60	1.10
425565--425620	26	2.1	26	83	9	69	50	0	0	50	1.00
425575--425660	38	2.3	36	75	11	84	41	0	2	55	1.12
425470--425674	110	1.8	111	90	4	333	40	0	4	54	1.26
425754--425793	14	2.8	14	88	3	53	27	0	0	72	0.85
426391--426485	30	3.0	30	71	26	88	41	1	1	56	1.13
429156--429217	22	2.9	21	76	7	63	61	1	0	37	1.06
432862--432920	23	2.3	26	83	11	70	52	3	0	44	1.17
435406--435431	2	13.0	2	100	0	52	50	0	0	50	1.00
442658--442699	22	1.9	22	90	0	66	38	4	0	57	1.20
442658--442708	22	2.3	22	82	0	57	39	5	1	52	1.37
443065--443131	22	3.2	22	68	20	70	31	8	2	56	1.45
443046--443140	41	2.3	41	96	3	172	31	6	3	58	1.38
448188--448297	41	2.8	39	75	14	100	47	1	1	49	1.23
448367--448419	2	27.0	2	96	3	99	50	0	0	49	1.00
448537--448569	15	2.1	17	88	11	52	48	3	9	39	1.50
448577--448641	34	1.9	34	90	0	103	46	13	1	38	1.53
450587--450623	13	2.7	15	80	20	53	40	0	0	59	0.97
450592--450628	17	2.1	19	90	10	60	40	0	0	59	0.97
453968--453995	14	2.0	14	100	0	56	35	14	28	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455165--455213	17	2.9	17	85	8	57	57	0	0	42	0.99
455566--455605	17	2.4	17	84	12	55	57	0	0	42	0.98
457244--457318	5	15.0	5	73	15	66	60	1	0	38	1.06
457244--457292	11	4.6	11	89	2	66	63	0	0	36	0.95
457332--457376	22	2.0	22	83	8	56	57	0	2	40	1.11
458307--458387	34	2.4	32	76	15	83	53	1	1	44	1.16
458659--458752	26	3.2	31	67	22	76	42	4	5	47	1.45
458929--458993	19	3.4	19	71	23	55	44	0	1	53	1.09
458888--458952	23	2.9	23	71	17	55	50	3	1	44	1.26
459046--459084	19	2.0	20	90	5	62	64	2	0	33	1.08
465620--465661	22	1.9	22	85	9	59	57	2	0	40	1.12
469112--469158	21	2.4	19	80	16	51	57	0	0	42	0.98
474348--474401	29	1.9	29	85	14	78	51	0	0	48	1.00
475867--475931	19	3.6	18	75	6	60	56	0	0	43	0.99
475852--475921	37	1.9	38	85	8	101	58	0	0	41	0.98
475900--475974	17	4.5	17	72	12	66	56	0	0	44	0.99
475878--475933	17	3.3	18	71	19	57	55	0	0	44	0.99
475877--475948	32	2.2	33	85	7	103	56	0	0	43	0.99
475914--475986	27	2.5	28	81	14	78	60	0	0	39	0.97
475903--475988	15	5.9	14	72	20	61	59	0	0	40	0.97
475903--475983	42	1.9	41	85	9	110	59	0	0	40	0.98
476736--476767	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476985--477050	28	2.2	28	84	10	78	28	3	1	66	1.15
477001--477050	15	3.6	14	78	7	57	32	2	0	66	1.03
477001--477058	15	4.0	14	73	13	55	34	1	1	62	1.16
477795--477849	18	3.1	18	82	12	69	38	0	0	61	0.96
477800--477847	8	5.6	8	76	13	51	39	0	0	60	0.97
477773--477863	25	3.7	23	71	20	60	38	0	1	60	1.04
477800--477863	25	2.5	25	85	7	76	39	0	0	60	0.97
478105--478137	15	2.1	16	88	5	50	51	6	0	42	1.26
480346--480386	6	6.5	6	91	8	64	65	4	0	29	1.13
480346--480386	13	3.2	12	90	10	64	65	4	0	29	1.13
480352--480394	19	2.3	19	84	8	52	69	4	0	25	1.07
481116--481153	20	1.9	20	84	10	51	68	0	0	31	0.90
482360--482407	25	2.1	22	85	14	62	56	0	2	41	1.11
483273--483333	30	2.0	30	87	6	88	40	0	0	59	0.98
484001--484030	14	2.1	14	100	0	60	26	0	0	73	0.84
484529--484566	5	7.6	5	91	8	60	42	0	0	57	0.98
484598--484652	27	2.0	27	82	6	67	56	5	1	36	1.33
484629--484668	16	2.4	16	87	4	53	47	10	7	35	1.65
484723--484757	18	1.9	18	94	0	61	65	2	0	31	1.07
485393--485497	53	1.9	55	83	7	135	47	8	5	38	1.58
485581--485624	15	2.9	15	77	12	54	45	13	4	36	1.64
497639--497663	13	1.9	13	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498062--498104	9	5.2	9	91	8	58	32	0	0	67	0.91
516091--516145	19	2.7	21	83	8	78	36	0	3	60	1.15
516814--516893	29	2.6	30	82	11	92	51	1	1	46	1.17
519824--519865	15	2.7	16	79	13	52	57	0	0	42	0.99
520277--520357	13	5.9	13	73	19	58	46	0	0	53	1.00
521572--521637	33	2.0	33	93	0	114	37	33	6	22	1.79
526606--526646	21	2.0	21	95	0	73	14	14	12	58	1.63
532113--532138	6	4.3	6	100	0	52	34	0	0	65	0.93
532131--532194	28	2.3	28	78	5	76	50	0	0	50	1.00
532900--532947	17	2.7	18	78	12	55	31	2	0	66	1.03
532895--532936	13	3.3	13	83	3	50	30	0	2	66	1.04
533072--533124	22	2.4	22	83	0	61	47	7	0	45	1.31
533272--533316	21	2.0	23	91	8	76	40	0	0	60	0.97
535404--535454	12	3.9	12	78	16	57	39	11	5	43	1.66
535457--535482	12	2.2	12	100	0	52	23	26	34	15	1.94
540151--540206	27	2.1	27	93	0	94	41	12	1	44	1.53
540638--540682	13	3.5	13	87	3	65	37	4	2	55	1.32
541889--541942	20	3.2	17	80	20	60	61	0	0	38	0.96
541911--541957	14	3.1	15	87	9	69	57	0	0	42	0.98
542294--542328	18	2.0	17	88	5	52	54	0	0	45	0.99
542797--542843	20	2.4	18	80	19	51	46	2	2	48	1.25
543452--543579	16	8.1	16	68	19	65	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543444--543583	33	4.3	33	75	16	132	55	0	0	44	0.99
543454--543584	32	3.7	38	75	20	113	54	0	0	45	0.99
543826--543901	26	2.9	26	75	9	66	50	1	0	48	1.09
544738--544837	41	2.6	38	80	12	98	61	3	5	31	1.33
545276--545326	18	2.6	19	80	20	61	68	1	3	25	1.17
545276--545329	19	2.9	17	78	15	54	66	1	3	27	1.19
546124--546212	41	2.2	40	82	6	99	57	2	2	38	1.24
546124--546212	20	4.4	20	73	5	72	57	2	2	38	1.24
546513--546597	33	2.5	34	83	9	102	56	0	0	43	0.99
546528--546636	53	2.2	52	82	12	131	55	0	0	44	0.99
546781--546807	2	13.5	2	100	0	54	51	0	0	48	1.00
549404--549443	19	2.2	19	86	4	55	45	7	2	45	1.45
550345--550413	21	3.2	21	73	18	70	37	2	2	56	1.29
555552--555657	11	10.2	11	72	13	73	36	0	0	62	1.02
555580--555675	28	3.6	28	80	12	96	36	0	1	62	1.02
555553--555650	5	19.4	5	66	17	51	37	0	1	61	1.03
555639--555671	12	2.8	12	90	4	50	30	0	0	69	0.88
556007--556064	24	2.3	27	80	14	70	60	1	1	36	1.17
556513--556581	27	2.6	27	83	4	86	47	18	5	27	1.71
558456--558501	21	2.1	22	88	4	67	21	28	17	32	1.96
561244--561300	24	2.2	27	78	9	66	35	1	3	59	1.25
561861--561891	2	15.5	2	93	0	53	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563180--563211	15	2.0	17	88	11	50	59	12	15	12	1.61
568202--568226	13	1.9	13	100	0	50	68	0	16	16	1.22
568709--568747	14	2.7	14	96	4	69	43	5	0	51	1.24
568697--568733	19	1.9	19	100	0	74	43	5	0	51	1.24
568839--568872	17	2.1	16	88	5	50	35	0	2	61	1.11
570923--570953	16	1.9	16	93	0	53	48	0	3	48	1.17
571523--571547	3	8.3	3	100	0	50	32	0	0	68	0.90
576250--576303	25	2.2	25	96	0	99	22	11	18	48	1.79
580197--580221	2	12.5	2	100	0	50	48	0	0	52	1.00
581230--581287	29	2.0	29	100	0	116	37	24	20	17	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19