genome.fa.s4319.2.7.7.80.10.50.1000.3.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: scaffold287
Parameters: 2 7 7 80 10 50 1000
Length:  1864789

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 730 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)
525446--525492	22	2.1	23	92	4	78	57	21	12	8	1.62
536073--536297	7	31.9	7	70	16	56	45	29	0	24	1.59
536073--536145	29	2.6	28	78	8	76	46	27	1	24	1.61
536073--536310	14	16.9	14	69	13	69	44	31	0	23	1.59
536173--536282	48	2.3	49	80	13	129	49	27	0	22	1.56
536108--536310	7	29.0	7	71	7	74	45	31	0	22	1.57
536557--536690	7	18.7	7	71	13	58	43	34	0	22	1.54
536601--536739	14	9.7	14	67	16	70	46	30	0	22	1.57
536558--536690	50	2.7	49	83	6	153	43	33	0	22	1.54
536603--536663	21	2.9	20	76	9	68	45	36	0	18	1.49
536645--536739	7	13.1	7	70	13	50	47	28	1	23	1.58
536600--536685	15	5.9	15	70	16	56	46	34	0	18	1.50
537156--537199	23	1.9	23	85	0	61	27	22	20	29	1.99
540444--540517	20	3.7	20	92	0	121	24	32	31	12	1.92
541791--541948	77	2.0	78	98	1	309	44	20	3	32	1.67
543162--543190	15	1.9	15	100	0	58	48	0	3	48	1.18
545886--545942	14	3.9	14	73	8	51	22	0	29	47	1.52
545911--545965	22	2.5	22	87	0	83	16	0	30	52	1.44
545927--546021	29	3.3	27	89	4	93	15	1	34	48	1.53
545994--546066	21	3.4	21	84	1	101	23	1	35	39	1.63
546345--546385	21	2.0	21	85	0	55	7	26	39	26	1.82
546647--546686	18	2.2	18	95	0	71	42	5	30	22	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547337--547372	7	5.1	7	100	0	72	58	13	0	27	1.36
549210--549237	9	3.1	9	100	0	56	57	10	0	32	1.33
549151--549457	68	4.5	68	98	0	591	47	8	4	39	1.54
549278--549305	9	3.1	9	100	0	56	57	10	0	32	1.33
549346--549373	9	3.1	9	100	0	56	57	10	0	32	1.33
549446--549487	16	2.6	16	92	0	66	42	7	2	47	1.43
549461--549516	23	2.5	23	82	2	69	44	1	1	51	1.22
550347--550381	3	11.7	3	87	0	52	31	2	2	62	1.24
551337--551379	22	2.0	22	90	0	68	58	0	9	32	1.30
552127--552169	12	3.8	11	82	11	52	0	39	0	60	0.97
553403--553440	19	2.0	20	84	5	51	47	7	10	34	1.67
554191--554229	18	2.2	18	85	0	51	38	0	5	56	1.22
554249--554286	3	12.7	3	100	0	76	65	0	0	34	0.93
558035--558238	40	5.1	40	77	3	149	35	15	25	24	1.94
558034--558238	82	2.5	81	78	4	227	35	15	25	23	1.94
561683--562159	38	12.6	38	84	2	539	44	25	15	14	1.85
561695--562160	188	2.5	189	84	3	614	43	24	16	15	1.86
566133--566163	15	2.1	15	100	0	62	45	0	25	29	1.54
567219--567363	61	2.5	57	82	7	175	44	1	3	51	1.27
568217--568258	21	2.0	21	85	4	57	40	2	0	57	1.12
571588--571622	11	3.2	11	88	11	54	28	0	2	68	1.04
581742--581776	11	3.2	11	88	11	54	28	0	2	68	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582090--582172	41	2.0	42	97	2	159	43	12	19	25	1.85
583220--583268	20	2.7	18	77	22	57	51	4	2	42	1.32
583267--583330	33	1.9	34	84	9	87	45	3	3	48	1.34
585383--585411	14	2.1	14	100	0	58	27	34	20	17	1.95
588859--589038	39	4.6	39	92	0	261	43	21	4	30	1.72
588962--589029	22	3.3	21	69	21	63	45	22	4	27	1.71
592919--593066	35	4.2	34	81	6	154	39	29	12	18	1.88
598432--598499	4	17.5	4	76	11	70	75	1	23	0	0.89
598438--598495	15	3.9	15	81	18	68	74	1	24	0	0.92
598432--598502	23	2.9	23	81	10	79	76	1	22	0	0.87
598438--598498	31	1.9	32	87	9	90	73	1	24	0	0.92
598439--598504	19	3.1	22	70	18	50	77	1	21	0	0.85
599002--599040	18	2.0	20	85	9	55	17	0	5	76	0.96
599373--599419	18	2.7	18	78	15	53	31	12	8	46	1.72
599370--599419	17	2.9	17	78	3	55	30	14	10	46	1.77
599483--599564	21	4.1	20	75	15	89	35	6	10	47	1.64
599483--599565	38	2.1	40	84	8	109	34	6	10	48	1.63
599483--599922	17	24.2	18	72	15	284	31	11	11	45	1.76
599601--599922	35	9.1	35	76	11	257	30	11	12	44	1.78
599573--599963	34	10.9	35	75	10	267	32	11	11	44	1.76
599689--599863	18	9.8	20	76	14	74	30	12	12	45	1.78
599630--599958	106	3.1	105	77	10	321	32	10	12	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599516--599923	53	7.5	53	72	16	279	31	11	12	44	1.78
603629--603653	9	2.8	9	100	0	50	48	0	44	8	1.32
611672--612447	74	10.4	74	88	3	1047	28	14	20	36	1.92
611672--612795	150	7.4	149	81	8	1165	30	14	20	34	1.93
612371--612543	93	1.9	93	95	0	310	35	13	22	28	1.93
612458--612765	76	4.0	76	90	2	467	31	15	21	31	1.94
612459--612795	75	4.5	75	88	4	457	31	15	22	31	1.94
613119--613205	30	3.0	29	74	12	79	31	17	6	44	1.75
613486--613549	32	2.0	33	81	9	78	71	7	20	0	1.10
613659--613694	4	9.2	4	93	6	65	75	0	25	0	0.81
613658--613724	19	3.6	19	80	7	75	73	0	25	1	0.92
613663--613695	15	2.2	15	100	0	66	72	0	27	0	0.85
614216--614254	18	2.0	20	85	9	55	17	0	5	76	0.96
614591--614629	18	2.2	19	86	9	55	23	15	7	53	1.67
614671--614751	21	4.1	20	79	14	96	34	7	8	49	1.62
614692--615057	17	20.2	18	71	15	148	31	10	11	46	1.75
614772--615057	17	16.2	17	72	13	188	30	11	12	45	1.78
614679--615096	36	11.5	34	73	15	256	31	10	11	46	1.74
614831--614989	71	2.3	70	82	9	182	31	12	13	42	1.81
614671--615095	35	11.7	35	76	10	311	32	10	11	46	1.73
614772--615096	53	6.2	51	74	12	221	31	11	12	45	1.77
614772--615096	18	18.5	16	70	19	188	31	11	12	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623496--623537	12	3.8	11	78	9	50	66	2	2	28	1.16
623497--623556	21	2.9	21	87	7	79	63	3	3	30	1.27
623497--623568	21	3.4	21	79	7	76	59	4	4	31	1.35
624495--624519	2	12.5	2	100	0	50	52	0	0	48	1.00
624679--624743	26	2.4	27	84	2	78	32	12	12	43	1.79
626949--626976	12	2.3	12	100	0	56	21	28	0	50	1.49
626948--627014	11	6.3	10	86	13	66	25	31	0	43	1.55
626972--627016	11	4.2	11	94	5	83	24	37	0	37	1.56
626972--627016	21	2.1	22	95	4	83	24	37	0	37	1.56
627186--627250	18	3.6	18	69	19	55	35	0	3	61	1.12
628195--628219	7	3.6	7	100	0	50	28	0	16	56	1.41
628750--628833	44	1.9	44	92	0	141	22	21	28	27	1.99
628907--629003	44	2.2	44	88	0	140	23	19	26	29	1.98
628766--629129	170	2.1	170	97	0	692	25	20	22	31	1.98
628951--629252	126	2.4	126	87	1	417	26	21	19	32	1.97
629296--629515	95	2.3	96	85	1	289	37	18	3	40	1.66
629296--629561	95	2.8	95	81	3	248	40	16	3	39	1.66
642612--642671	22	2.7	23	82	7	61	43	13	5	38	1.66
645658--645721	31	2.1	31	87	0	92	48	7	4	39	1.53
646027--646064	3	12.7	3	100	0	76	65	0	0	34	0.93
649915--650077	80	2.0	80	98	0	317	46	12	6	34	1.68
652751--652800	25	2.0	25	100	0	100	24	24	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655008--655060	22	2.4	22	83	0	70	35	18	16	28	1.93
655184--655249	35	1.9	35	87	3	98	25	21	21	31	1.98
658655--658707	25	2.2	24	93	3	88	13	22	26	37	1.91
664950--665057	40	2.6	42	75	2	121	34	16	19	29	1.94
665100--665157	3	19.3	3	90	0	89	1	27	0	70	0.97
665100--665158	15	3.9	15	90	0	100	1	27	0	71	0.96
666350--666405	29	1.9	29	85	0	76	33	16	16	33	1.91
680052--680097	22	2.0	23	95	4	85	58	19	8	13	1.60
680743--680835	25	3.7	25	75	5	82	35	19	22	22	1.96
685478--685528	21	2.4	21	80	6	59	3	45	13	37	1.63

Tables:   1   2   3   4   5   6   7