genome.fa.s127.2.7.7.80.10.50.1000.3.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  3  of  26  ( 3103 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)
518401--518452	5	10.4	5	95	0	95	38	0	0	61	0.96
519961--519994	16	2.0	18	88	11	54	67	5	0	26	1.13
523250--523301	21	2.5	21	84	12	63	46	0	1	51	1.12
528953--528977	2	12.5	2	100	0	50	52	0	0	48	1.00
529183--529212	2	15.5	2	93	6	53	50	0	0	50	1.00
529750--529789	16	2.4	18	76	23	52	50	0	0	50	1.00
531643--531701	30	1.9	31	86	3	84	33	0	1	64	1.04
532530--532568	19	2.1	19	85	9	53	33	0	0	66	0.92
532879--532919	3	13.7	3	100	0	82	34	0	0	65	0.93
533196--533240	21	2.2	21	88	4	65	35	0	4	60	1.17
534164--534201	2	19.0	2	100	0	76	50	0	0	50	1.00
543853--543888	2	18.0	2	100	0	72	50	0	0	50	1.00
545181--545205	5	5.0	5	100	0	50	40	20	20	20	1.92
545423--545459	19	2.0	19	94	5	67	64	0	2	32	1.07
545423--545564	18	7.7	18	66	16	76	61	1	0	36	1.10
545441--545541	28	3.5	27	74	21	89	57	1	0	39	1.17
545461--545515	17	3.4	17	70	25	55	54	3	0	41	1.18
545501--545564	24	2.7	23	79	18	60	67	0	0	32	0.91
546307--546370	24	2.6	25	73	9	60	29	0	4	65	1.13
546305--546381	38	2.0	38	80	9	86	29	1	9	59	1.36
548677--548721	2	22.5	2	100	0	90	51	0	0	48	1.00
551419--551450	15	2.0	17	88	11	50	12	31	6	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555357--555425	24	2.9	23	75	14	77	46	0	2	50	1.16
555574--555610	4	9.0	4	94	5	65	0	27	0	72	0.84
556201--556299	22	4.3	24	70	21	77	50	4	0	45	1.20
556204--556244	19	2.2	19	86	0	55	48	2	0	48	1.14
556231--556298	23	3.0	22	77	14	61	51	4	0	44	1.21
556586--556637	26	2.0	27	85	11	72	55	0	0	44	0.99
556655--556710	21	2.6	21	80	8	60	50	0	1	48	1.11
556953--557003	16	3.1	16	75	16	50	52	0	0	47	1.00
556962--557020	25	2.4	25	82	5	75	57	0	0	42	0.98
558108--558152	23	2.0	23	82	8	56	48	13	2	35	1.54
562968--563043	20	3.7	21	74	12	59	44	1	2	51	1.23
577346--577396	21	2.5	20	84	9	68	45	0	0	54	0.99
577355--577393	5	7.8	5	91	8	62	41	0	0	58	0.98
577334--577396	21	3.0	22	75	20	62	47	0	0	52	1.00
577355--577393	16	2.6	16	92	8	64	41	0	0	58	0.98
577340--577407	21	3.2	20	76	15	59	41	1	0	57	1.08
578082--578138	28	2.0	27	86	6	78	47	0	3	49	1.18
593688--594029	171	2.0	171	100	0	684	26	21	10	40	1.86
594486--594510	13	1.9	13	100	0	50	0	8	0	92	0.40
596386--596458	25	3.0	23	77	13	76	50	2	2	43	1.30
596678--596711	3	11.7	3	87	6	52	32	29	2	35	1.73
599515--599557	2	21.5	2	100	0	86	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)
601648--601688	2	20.5	2	100	0	82	0	48	0	51	1.00
604146--604213	6	11.8	6	71	20	56	36	0	0	63	0.95
604157--604214	7	7.5	8	71	21	52	37	0	0	62	0.96
604145--604245	18	5.9	18	73	20	83	38	0	0	60	1.04
604145--604221	31	2.6	29	82	13	86	38	0	0	61	0.96
604193--604274	32	2.8	28	73	22	78	42	0	1	56	1.07
604201--604279	34	2.4	32	80	6	86	40	0	1	58	1.06
608510--608582	5	15.0	5	72	16	55	36	1	1	60	1.14
608540--608603	16	3.9	16	73	18	51	35	0	0	64	0.94
608555--608605	19	2.8	19	77	22	65	37	0	0	62	0.95
609365--609404	19	2.2	19	90	4	64	45	0	0	55	0.99
609658--609697	12	3.6	11	86	10	55	37	0	0	62	0.95
610668--610726	29	2.1	28	84	9	75	45	0	1	52	1.10
611124--611154	4	7.8	4	100	0	62	22	0	0	77	0.77
620218--620249	2	16.0	2	100	0	64	50	0	50	0	1.00
621487--621824	173	2.0	173	85	2	464	39	9	10	40	1.71
622951--622986	14	2.7	13	91	8	63	52	0	2	44	1.15
623052--623100	23	2.1	23	82	14	57	40	8	4	46	1.52
623204--623251	20	2.4	20	82	6	62	43	0	0	56	0.99
623243--623316	9	8.8	9	71	14	68	56	4	0	39	1.18
623251--623284	12	2.8	12	90	4	50	58	2	0	38	1.13
623747--623791	23	2.0	23	91	8	74	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623748--623802	14	3.7	14	81	11	65	43	0	0	56	0.99
623747--623815	30	2.3	30	82	5	86	40	1	0	57	1.07
626373--626420	23	2.1	23	84	3	62	43	0	0	56	0.99
626386--626422	15	2.5	15	84	16	51	43	0	0	56	0.99
628400--628460	29	2.1	30	87	9	90	40	0	0	59	0.98
628849--628884	15	2.2	17	90	9	58	58	0	5	36	1.22
636324--636395	36	2.0	36	88	0	108	27	26	13	31	1.94
640581--640639	16	3.8	16	77	8	59	40	1	1	55	1.20
640866--640893	1	28.0	1	100	0	56	0	0	0	100	0.00
645102--645158	24	2.4	24	81	0	69	3	15	33	47	1.63
646822--646854	2	16.5	2	100	0	66	51	0	0	48	1.00
646956--646985	13	2.3	13	94	0	51	46	0	0	53	1.00
648832--648864	2	16.5	2	93	0	57	48	3	0	48	1.17
649217--649243	4	6.8	4	100	0	54	74	0	0	25	0.83
651044--651074	12	2.7	12	95	5	55	6	93	0	0	0.35
653734--653769	2	18.0	2	100	0	72	50	0	0	50	1.00
658426--658459	17	2.0	17	100	0	68	41	11	11	35	1.78
660259--660307	20	2.4	20	82	3	62	57	0	2	40	1.10
660481--660505	1	25.0	1	100	0	50	100	0	0	0	0.00
672200--672226	2	13.5	2	100	0	54	51	0	0	48	1.00
673700--673768	30	2.3	28	75	18	68	57	0	0	42	0.98
673664--673734	35	2.0	35	81	10	83	54	0	1	43	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676043--676092	23	2.2	24	82	13	61	70	14	14	2	1.27
679612--679653	18	2.3	18	87	0	66	14	45	0	40	1.45
684059--684097	16	2.4	16	87	8	53	51	0	0	48	1.00
684061--684109	25	2.0	25	92	8	82	48	0	0	51	1.00
684212--684262	22	2.3	23	83	13	70	50	0	0	49	1.00
684212--684269	23	2.5	23	78	10	66	51	0	0	48	1.00
686713--686750	18	2.1	19	85	5	51	31	0	13	55	1.38
689172--689203	3	11.3	3	87	12	50	71	0	0	28	0.86
691086--691118	17	1.9	17	88	11	50	66	30	3	0	1.06
693008--693053	22	2.1	22	84	8	58	63	2	2	32	1.19
693244--693277	16	2.0	18	88	11	54	52	0	0	47	1.00
697355--697385	2	15.5	2	100	0	62	51	0	0	48	1.00
698435--698501	35	1.9	35	87	6	100	59	0	1	38	1.06
698532--698597	21	2.8	24	76	17	68	36	0	0	63	0.95
698537--698601	15	4.3	15	74	20	55	33	0	0	66	0.92
699133--699186	18	2.9	18	83	10	56	48	1	1	48	1.23
701054--701095	17	2.5	17	81	18	52	54	4	0	40	1.21
704521--704565	23	2.0	23	82	8	56	48	0	0	51	1.00
711100--711134	15	2.3	15	100	0	70	31	0	0	68	0.90
714482--714523	15	2.7	15	85	10	50	26	0	0	73	0.83
715938--715978	12	3.4	12	84	15	50	51	2	0	46	1.14
717007--717035	13	2.2	13	100	0	58	37	0	17	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
719982--720060	20	4.1	19	78	4	77	43	10	3	43	1.56
719987--720076	39	2.3	39	82	0	108	43	10	5	41	1.61
720869--720909	20	2.0	20	90	0	64	43	21	2	31	1.66
720904--720947	20	2.4	19	88	11	65	47	11	4	36	1.60
724334--724364	14	2.2	14	94	0	53	22	0	3	74	0.96
724431--724464	16	2.3	15	90	10	52	32	5	2	58	1.37
724957--724999	16	2.7	16	88	0	59	53	2	2	41	1.26
725355--725723	185	2.0	185	93	0	630	35	20	14	29	1.93
727475--727534	19	3.2	19	77	11	70	43	0	0	56	0.99
728394--728440	17	2.8	17	75	18	53	44	0	4	51	1.21

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26