genome.fa.s26.2.7.7.80.10.50.1000.2.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: Scaffold26
Parameters: 2 7 7 80 10 50 1000
Length:  1656043

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 947 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)
156062--156166	30	3.2	30	80	19	138	26	3	36	33	1.75
156040--156166	68	1.9	67	98	1	245	26	3	33	35	1.75
160648--160703	22	2.5	22	85	0	76	21	1	37	39	1.64
160669--160771	34	3.0	34	91	2	161	20	0	38	39	1.59
160671--160788	34	3.4	34	89	2	155	22	2	37	38	1.68
164293--164342	21	2.3	21	80	10	57	56	4	18	22	1.58
166141--166170	15	2.0	15	93	0	51	50	13	23	13	1.77
168251--168288	13	2.9	13	96	0	67	34	18	15	31	1.92
168400--168445	21	2.2	20	81	11	58	32	19	4	43	1.71
172667--172707	18	2.2	19	86	4	57	70	0	2	26	0.99
172260--172786	283	1.9	280	82	7	665	50	5	7	36	1.53
172820--172872	14	3.8	14	78	16	65	3	24	0	71	1.02
172816--172875	28	2.1	29	84	9	79	5	21	0	73	1.02
175365--175408	21	2.1	21	95	0	79	22	31	4	40	1.74
179101--179229	52	2.5	52	92	0	213	28	18	17	35	1.93
179101--179249	52	2.9	51	85	4	199	30	18	17	34	1.94
179238--179262	13	1.9	13	100	0	50	36	16	16	32	1.90
179307--179358	13	3.5	13	73	26	50	36	17	13	32	1.89
185470--185497	13	2.2	13	100	0	56	39	0	0	60	0.97
190991--191024	13	2.5	13	85	4	50	88	11	0	0	0.52
190988--191024	16	2.4	15	86	8	56	86	13	0	0	0.57
192456--192539	28	2.9	30	77	10	86	28	32	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
192450--192537	29	3.1	27	76	13	72	28	34	15	21	1.94
192507--192675	68	2.4	70	81	10	193	20	30	11	36	1.89
192541--192665	34	3.7	32	79	9	117	20	30	9	39	1.85
192770--193051	49	5.8	49	78	9	238	25	26	18	29	1.98
193056--193350	154	1.9	154	95	0	527	23	27	15	33	1.95
193992--194057	19	3.8	19	77	22	90	33	12	18	36	1.88
193993--194055	32	2.0	32	100	0	126	33	12	19	34	1.89
194012--194036	13	1.9	13	100	0	50	36	16	16	32	1.90
194099--194123	13	1.9	13	100	0	50	32	16	16	36	1.90
194132--194257	52	2.4	52	95	0	225	34	17	20	26	1.95
199409--199434	9	2.9	9	100	0	52	57	7	0	34	1.27
202255--202287	1	33.0	1	93	0	57	0	0	96	3	0.20
202255--202292	12	3.2	12	92	7	60	2	0	92	5	0.47
202254--202298	22	2.0	22	82	0	54	6	0	84	8	0.78
541873--541915	2	22.5	2	90	9	72	51	0	0	48	1.00
542372--542410	15	2.7	14	84	4	51	46	2	0	51	1.14
542584--542643	31	2.0	31	84	9	81	56	0	0	43	0.99
543395--543424	14	2.1	15	93	6	53	43	6	0	50	1.28
543554--543597	21	2.1	21	87	8	63	63	2	0	34	1.07
543895--543919	13	1.9	13	100	0	50	40	4	0	56	1.18
544464--544502	3	13.0	3	88	0	60	64	30	2	2	1.21
546267--546339	14	5.0	15	70	20	57	64	1	0	34	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546267--546304	20	1.9	19	89	5	58	65	0	0	34	0.93
546279--546341	9	7.0	9	71	20	51	63	1	0	34	1.04
546272--546351	25	3.4	25	73	23	82	63	1	0	35	1.02
554172--554212	21	2.0	21	85	9	57	36	7	4	51	1.51
555753--555795	17	2.4	18	88	3	61	34	0	0	65	0.93
555765--555827	18	3.5	19	77	10	62	42	0	0	57	0.99
557096--557132	2	18.5	2	88	0	56	56	0	0	43	0.99
557782--557829	14	3.4	13	76	18	51	50	0	0	50	1.00
557783--557857	29	2.6	26	82	16	78	54	0	0	45	0.99
557795--557891	11	9.4	11	69	18	57	57	0	0	42	0.98
557796--557899	21	4.6	22	72	20	65	56	0	0	42	1.05
559093--559160	19	3.9	18	76	23	83	35	11	16	36	1.85
559095--559157	32	2.0	32	96	0	117	34	12	17	34	1.88
559114--559138	13	1.9	13	100	0	50	36	16	16	32	1.90
559179--559233	20	2.8	20	81	13	69	30	14	12	41	1.83
561578--561751	52	3.3	51	77	7	179	29	24	11	34	1.90
561737--561813	28	2.7	29	84	4	86	24	33	18	23	1.96
567087--567113	13	2.1	13	100	0	54	29	7	0	62	1.22
568601--568625	11	2.3	11	100	0	50	80	0	8	12	0.92
571771--571842	35	2.1	35	94	0	126	45	9	16	27	1.79
571874--571911	19	2.0	19	100	0	76	42	15	15	26	1.87
573417--573443	4	6.8	4	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574350--574388	17	2.3	16	86	8	51	30	2	0	66	1.05
575409--575476	25	2.6	25	78	13	75	23	2	4	69	1.21
575424--575484	27	2.3	27	88	2	88	24	3	6	65	1.32
577543--577571	13	2.2	13	100	0	58	17	0	6	75	1.01
582537--582575	20	1.9	21	84	5	53	51	0	0	48	1.00
582609--582654	24	1.9	24	82	8	58	45	2	0	52	1.13
582695--582746	25	2.2	24	83	10	63	57	5	1	34	1.33
582918--582957	18	2.2	19	86	4	55	45	0	2	52	1.14
582990--583046	28	2.0	28	96	0	105	52	10	0	36	1.36
583955--583991	12	3.0	12	92	7	65	75	0	0	24	0.80
583955--583990	13	2.8	13	95	4	65	77	0	0	22	0.76
593706--593774	17	3.6	18	72	16	59	72	0	24	2	0.98
593717--593758	18	2.3	18	84	8	50	73	0	21	4	1.01
594208--594273	33	1.9	35	84	6	91	43	7	3	45	1.47
596062--596094	2	17.0	2	93	6	59	48	0	0	51	1.00
596236--596306	18	3.9	18	68	3	52	22	4	8	64	1.38
597232--597261	14	2.1	14	93	0	51	60	0	0	40	0.97
598607--598654	2	24.0	2	95	0	87	0	47	0	52	1.00
598654--598679	2	13.0	2	100	0	52	50	0	0	50	1.00
598938--599172	114	2.0	115	84	5	303	41	8	10	40	1.68
598938--599172	116	2.0	117	84	5	307	41	8	10	40	1.68
607315--607439	52	2.4	52	94	0	214	28	16	18	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607315--607460	52	2.8	51	88	4	204	29	16	18	35	1.93
607448--607501	21	2.6	21	100	0	108	33	11	18	37	1.86
607488--607514	13	2.1	13	100	0	54	40	14	14	29	1.86
607467--607535	34	2.0	34	100	0	138	36	11	17	34	1.86
607555--607621	33	2.0	33	85	5	91	41	13	11	32	1.81
612061--612098	13	2.8	14	84	4	51	21	2	2	73	1.07
612141--612213	26	2.7	25	74	14	65	27	5	2	64	1.29
612415--613399	203	4.9	203	93	1	1602	37	10	12	39	1.78
616174--616208	2	17.5	2	100	0	70	0	0	48	51	1.00
617945--617984	21	1.9	21	89	0	62	40	10	15	35	1.80
618600--618653	15	3.5	15	79	2	63	48	0	1	50	1.11
623761--623830	13	5.3	12	75	18	59	34	11	10	44	1.74
623757--623830	27	2.7	27	97	0	139	33	12	10	43	1.77
623757--623825	14	5.1	14	73	19	74	36	11	11	40	1.78
628487--628536	15	3.5	15	71	15	52	38	12	10	40	1.76
628474--628545	27	2.7	27	91	0	117	34	11	9	44	1.73
629686--629737	2	29.0	2	75	21	53	48	0	1	50	1.12
629686--629762	35	2.3	34	82	14	90	48	0	3	48	1.20
632975--633015	16	2.5	17	80	15	50	24	2	14	58	1.49
633066--633117	16	3.2	16	83	0	77	19	23	17	40	1.91
633050--633133	32	2.6	31	87	10	116	19	20	19	41	1.90
633075--633136	16	3.9	16	73	14	56	20	19	17	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633299--633357	18	3.2	18	86	13	77	45	1	0	52	1.10
633269--633381	16	7.2	14	70	24	59	42	1	0	54	1.16
634273--634316	22	2.0	22	90	0	70	38	6	6	47	1.57
647561--647651	1	91.0	1	77	0	74	0	7	5	86	0.69
647560--647650	33	2.8	33	93	5	150	0	8	5	85	0.73
657526--657560	17	2.0	18	88	5	54	65	2	0	31	1.07
660151--660175	11	2.3	11	100	0	50	52	16	0	32	1.44
660188--660280	28	3.3	27	75	20	93	39	16	4	39	1.68
660184--660303	56	2.1	56	87	0	177	41	16	3	38	1.65
661880--662298	226	1.9	224	84	2	561	20	21	31	26	1.98

Tables:   1   2   3   4   5   6   7   8