genome.fa.s16.2.7.7.80.10.50.1000.24.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   27   28   29   30   31   32   
          33   34   35   

This is table  24  of  35  ( 4175 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)
3592443--3592672	43	5.1	43	72	9	172	23	25	19	31	1.98
3592626--3592966	52	6.7	51	75	7	284	24	27	15	31	1.95
3592443--3593067	101	6.4	100	83	6	612	24	26	17	31	1.97
3594081--3594377	34	9.1	33	75	12	265	20	30	12	36	1.89
3594155--3594278	33	3.9	30	78	12	106	18	31	14	35	1.91
3594315--3594370	27	2.1	27	89	0	85	23	28	12	35	1.91
3594078--3594401	97	3.3	97	76	10	270	21	30	12	34	1.91
3594438--3594945	43	11.0	43	78	12	494	24	25	19	30	1.98
3594438--3595097	92	7.0	92	88	3	899	24	26	18	30	1.98
3594694--3594761	21	3.2	21	61	19	50	26	26	17	29	1.98
3594438--3595097	187	3.5	183	88	4	901	24	26	18	30	1.98
3594438--3595097	279	2.3	280	89	2	982	24	26	18	30	1.98
3598165--3598292	52	2.5	52	97	1	240	32	17	17	33	1.93
3598165--3598312	52	2.9	51	91	5	201	33	16	17	32	1.93
3598366--3598432	33	2.0	33	88	0	98	40	13	11	34	1.81
3598388--3598412	13	1.9	13	100	0	50	32	16	16	36	1.90
3599704--3599853	31	4.9	31	74	11	121	24	29	17	28	1.97
3599740--3599822	30	2.7	31	83	1	105	25	27	20	26	1.99
3599827--3599881	28	2.0	28	88	0	83	25	36	14	23	1.93
3599858--3600122	34	7.9	33	79	8	261	21	30	12	35	1.90
3599856--3600154	33	9.2	33	76	12	260	20	30	12	36	1.90
3600092--3600147	27	2.1	27	86	0	76	25	26	12	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3600215--3600735	49	10.9	49	78	10	551	24	26	18	31	1.97
3600215--3600779	92	5.9	92	88	4	754	24	26	18	30	1.98
3600490--3600779	49	5.8	50	78	6	291	23	27	17	31	1.97
3601610--3601659	19	2.6	19	96	0	91	32	12	18	38	1.87
3606771--3606825	20	2.6	22	88	5	78	34	14	9	41	1.77
3606793--3606924	51	2.6	51	92	0	210	32	15	12	40	1.84
3609279--3609641	79	4.6	79	81	4	374	28	23	12	34	1.92
3609279--3609642	157	2.3	158	84	2	446	28	23	12	34	1.92
3609576--3609693	51	2.3	51	82	2	139	28	25	12	33	1.93
3609627--3609850	79	2.8	79	85	5	310	29	25	12	33	1.92
3609498--3609776	130	2.2	129	79	6	296	29	24	12	34	1.92
3609422--3609906	209	2.3	208	83	5	588	29	24	11	34	1.91
3609787--3609952	51	3.3	51	80	5	176	32	25	7	34	1.85
3610779--3610870	30	3.4	30	63	27	78	27	18	16	38	1.92
3610859--3610910	20	2.6	20	81	0	68	30	15	9	44	1.78
3610757--3610887	50	2.6	50	95	0	235	29	17	13	39	1.88
3610809--3610960	70	2.2	70	87	0	232	28	16	13	41	1.86
3613288--3613620	79	4.2	79	85	0	405	28	24	13	32	1.94
3617738--3617791	21	2.6	21	88	2	83	27	22	14	35	1.93
3624458--3624586	51	2.6	50	81	12	149	36	8	23	31	1.85
3624599--3624774	79	2.2	79	79	6	194	33	15	23	27	1.95
3624711--3624824	51	2.2	51	87	3	158	35	13	23	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3632296--3632512	79	2.7	78	80	5	249	35	12	23	28	1.92
3632450--3632565	51	2.3	51	83	10	148	31	9	24	35	1.87
3632501--3632697	107	1.8	107	86	2	288	30	13	24	30	1.94
3632707--3632804	51	1.9	51	81	4	117	34	11	24	29	1.90
3634011--3634064	20	2.7	20	97	0	99	42	11	11	35	1.76
3634051--3634079	13	2.2	13	100	0	58	41	13	13	31	1.84
3634031--3634100	33	2.1	33	89	5	106	41	12	14	31	1.83
3634063--3634117	20	2.8	18	89	10	74	43	16	14	25	1.86
3634011--3634117	53	2.0	52	85	7	144	42	13	13	30	1.81
3634156--3634181	13	2.0	13	100	0	52	38	7	15	38	1.76
3634152--3634199	20	2.3	21	89	3	71	37	8	16	37	1.79
3636383--3636484	25	4.4	25	66	28	80	20	0	38	41	1.53
3636361--3636507	68	2.2	68	94	0	249	21	0	37	40	1.54
3636356--3636492	34	4.0	34	100	0	274	20	0	37	41	1.53
3637341--3637436	48	2.0	48	100	0	192	43	18	12	25	1.85
3641290--3641367	34	2.3	34	97	0	147	20	1	39	38	1.61
3641272--3641383	34	3.3	34	86	3	118	25	1	35	37	1.66
3645877--3645941	22	3.0	22	81	0	85	27	33	4	33	1.78
3647822--3647848	13	2.1	13	100	0	54	40	14	14	29	1.86
3654082--3654156	19	3.9	19	91	1	114	37	14	16	32	1.89
3654141--3654167	13	2.1	13	100	0	54	40	14	14	29	1.86
3655536--3655681	51	3.1	50	71	20	159	41	13	17	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3655576--3655646	20	3.5	20	86	0	106	42	12	12	32	1.81
3656376--3656427	19	2.8	19	97	2	97	57	11	15	15	1.65
3658505--3658534	3	10.0	3	100	0	60	66	0	0	33	0.92
3659748--3659775	2	14.0	2	100	0	56	50	0	0	50	1.00
3660267--3660332	16	4.1	16	82	0	78	53	4	3	39	1.37
3667692--3668236	79	7.0	77	76	9	419	36	12	22	29	1.90
3667692--3668222	155	3.4	153	77	9	499	35	12	22	29	1.91
3667692--3668234	234	2.3	233	82	5	652	36	12	22	28	1.90
3670213--3670238	13	2.0	13	100	0	52	38	15	15	30	1.88
3682796--3682823	13	2.2	13	100	0	56	39	17	14	28	1.89
3682868--3682919	13	3.5	13	73	26	50	36	17	13	32	1.89
3682876--3682938	19	3.7	18	76	24	73	36	17	12	33	1.88
3682868--3682938	32	2.2	32	97	0	133	36	18	12	32	1.88
3684039--3684096	20	2.8	20	87	10	73	31	13	13	41	1.84
3685116--3685172	30	1.9	29	86	10	80	38	1	1	57	1.19
3685199--3685238	18	2.2	18	86	8	55	50	2	2	45	1.28
3689517--3689715	85	2.3	85	79	4	213	48	13	20	18	1.81
3689919--3690115	82	2.4	81	85	4	245	42	14	25	17	1.87
3689870--3690133	41	6.5	41	72	7	162	43	13	24	18	1.86
3689870--3690117	81	3.0	81	81	4	286	42	14	24	18	1.87
3690242--3690991	35	21.2	35	76	8	556	40	13	24	20	1.89
3690982--3691029	22	2.2	22	81	7	53	41	6	27	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3690955--3691064	58	1.9	56	85	3	148	40	9	25	25	1.85
3690873--3691130	128	2.0	127	82	5	306	38	10	27	24	1.87
3690845--3691143	163	1.8	162	82	5	379	38	11	27	22	1.89
3691001--3691279	35	8.0	35	83	3	301	39	10	27	23	1.87
3691521--3691775	90	2.8	90	91	0	411	29	16	26	27	1.97
3691803--3691968	77	2.2	77	96	0	305	50	10	13	25	1.74
3692180--3692344	75	2.2	76	82	3	190	46	14	15	23	1.83
3692495--3692626	61	2.2	61	80	4	151	48	17	15	18	1.81
3693213--3693448	87	2.7	87	79	7	248	46	15	15	22	1.83
3693313--3693384	20	3.5	20	76	10	72	43	12	16	27	1.84
3694571--3694640	6	10.8	6	75	17	52	1	8	8	81	0.94
3694571--3694640	13	5.4	12	73	21	52	1	8	8	81	0.94
3694583--3694634	9	5.3	9	78	15	50	1	11	5	80	0.96
3694571--3694643	20	3.7	19	74	15	60	1	9	8	80	0.95
3697436--3697613	89	2.0	90	93	1	304	40	13	21	24	1.89
3697594--3697656	11	5.5	11	79	5	63	74	3	20	1	1.04
3697596--3697644	24	2.0	24	88	8	71	77	2	20	0	0.87
3698679--3698749	27	2.6	27	100	0	142	12	19	45	22	1.84
3703776--3703801	13	2.0	13	100	0	52	38	15	15	30	1.88
3704832--3704859	13	2.2	13	100	0	56	39	17	14	28	1.89
3705638--3706173	53	10.4	52	76	9	252	33	17	25	23	1.96
3705685--3706879	49	24.8	49	79	10	1133	32	18	24	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3705733--3706879	92	12.0	92	92	2	1520	32	18	24	23	1.97
3706978--3707264	71	4.0	71	90	2	396	35	10	32	21	1.88
3706979--3707257	105	2.6	103	78	8	258	34	10	32	22	1.88
3706926--3707257	34	9.4	34	77	10	310	34	10	32	22	1.88
3707241--3707443	61	3.3	62	86	6	281	29	15	30	24	1.96
3707241--3707443	92	2.2	92	89	4	304	29	15	30	24	1.96
3707241--3707443	31	6.6	31	87	5	281	29	15	30	24	1.96
3707543--3707572	8	3.6	8	91	8	51	26	0	23	50	1.50
3708449--3708489	20	2.1	20	86	4	57	0	7	12	80	0.90
3708730--3708774	11	3.9	11	91	5	63	0	0	17	82	0.68

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   27   28   29   30   31   32   
          33   34   35