genome.fa.s35.2.7.7.80.10.50.1000.23.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   

This is table  23  of  30  ( 3549 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)
3620492--3620516	13	1.9	13	100	0	50	32	16	16	36	1.90
3620525--3620653	52	2.5	52	94	0	222	34	17	17	30	1.94
3624626--3624670	22	2.0	22	100	0	90	26	4	31	37	1.76
3625772--3625834	19	3.6	19	76	24	84	36	15	19	28	1.92
3625790--3625847	13	4.0	13	76	23	62	37	15	17	29	1.90
3625772--3625847	32	2.4	32	100	0	152	36	15	18	28	1.92
3626864--3626910	13	3.8	12	91	8	76	82	12	2	2	0.84
3626864--3626926	13	4.8	13	81	9	74	82	14	1	1	0.82
3626868--3626952	28	2.8	32	79	13	83	81	15	1	2	0.86
3626863--3626952	12	7.9	11	76	13	76	81	15	1	2	0.86
3626911--3626949	4	9.8	4	88	0	60	79	17	0	2	0.84
3626906--3626949	16	2.8	16	93	3	72	81	15	0	2	0.78
3628205--3628971	28	26.4	29	80	9	700	29	32	16	21	1.96
3629085--3629206	48	2.6	47	83	3	131	23	26	15	34	1.95
3629119--3629250	48	2.8	48	89	0	192	19	25	18	36	1.94
3630017--3630091	20	3.8	19	80	7	87	32	13	13	41	1.83
3630037--3630212	71	2.5	71	85	1	228	29	15	13	42	1.84
3630108--3630162	20	2.8	20	80	0	65	34	10	12	41	1.78
3629986--3630163	91	2.0	91	91	0	293	30	15	12	41	1.84
3634421--3634473	22	2.4	22	96	0	97	37	13	22	26	1.91
3634625--3634665	21	2.0	21	85	9	57	36	12	14	36	1.84
3635497--3635522	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635476--3635541	33	2.0	33	96	0	123	31	12	16	39	1.85
3635477--3635541	20	3.6	20	71	26	72	32	12	16	38	1.86
3635600--3635658	22	2.7	22	100	0	118	28	23	11	35	1.91
3636099--3636165	37	1.9	35	88	11	102	32	11	25	29	1.92
3636906--3637205	165	1.8	164	86	2	440	40	12	11	36	1.78
3638858--3639297	227	1.9	227	86	1	614	52	7	8	32	1.58
3639068--3639623	161	3.4	162	80	7	646	51	7	8	32	1.60
3640354--3640929	301	1.9	300	92	0	972	39	12	19	27	1.88
3640921--3641123	79	2.6	79	82	1	237	35	11	22	30	1.90
3641017--3641245	107	2.2	106	82	6	293	30	14	26	28	1.95
3641100--3641165	28	2.4	28	78	0	69	28	19	25	25	1.99
3641126--3641306	78	2.3	79	86	4	242	31	14	25	28	1.95
3646446--3647100	28	23.0	28	88	2	842	23	18	29	28	1.98
3646447--3647105	85	7.7	85	86	4	871	23	18	29	28	1.98
3646448--3647100	113	5.7	113	88	2	909	23	18	29	28	1.98
3648318--3648369	19	2.7	19	82	8	61	1	3	9	84	0.82
3648335--3648365	16	1.9	16	93	0	53	0	3	6	90	0.55
3662292--3662590	79	3.8	79	84	3	365	27	27	13	30	1.94
3662529--3662647	51	2.3	50	86	9	161	29	31	9	29	1.88
3662574--3662723	79	1.9	79	88	0	228	26	29	14	30	1.95
3662653--3662774	51	2.4	51	94	0	208	27	27	14	31	1.95
3662706--3662853	79	1.9	79	82	2	190	27	24	14	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3662447--3662854	130	3.1	128	79	4	426	27	26	13	32	1.93
3666640--3666715	20	3.8	20	87	0	107	40	13	13	32	1.83
3667819--3667953	50	2.7	50	87	2	182	40	12	18	28	1.87
3671476--3671729	79	3.2	78	78	10	266	30	19	11	39	1.86
3671460--3671762	79	3.8	79	76	8	260	29	19	10	40	1.85
3671460--3671760	158	1.9	158	81	6	369	29	19	10	40	1.85
3678316--3678345	15	2.0	15	93	0	51	56	0	0	43	0.99
3680462--3680505	19	2.3	19	100	0	88	50	0	4	45	1.22
3682765--3682790	13	2.0	13	100	0	52	30	15	15	38	1.88
3682745--3682808	32	2.0	33	87	3	94	28	14	17	40	1.88
3685317--3685745	156	2.6	164	80	10	513	27	12	8	50	1.69
3693612--3693639	13	2.2	13	100	0	56	28	14	14	42	1.84
3696193--3696219	13	2.1	13	100	0	54	29	14	14	40	1.86
3696203--3696258	19	2.9	19	83	2	67	35	17	10	35	1.85
3698883--3699397	154	3.3	154	82	5	572	22	17	21	38	1.93
3700991--3701065	39	1.9	39	83	0	96	34	16	16	33	1.90
3702614--3702671	21	2.8	21	89	0	80	36	10	12	41	1.76
3704973--3704998	13	2.0	13	100	0	52	30	15	15	38	1.88
3707396--3707496	28	3.6	28	89	5	141	23	30	19	25	1.98
3707453--3707733	79	3.6	79	82	2	325	26	25	15	32	1.96
3707453--3707750	158	1.9	158	82	5	379	27	25	14	32	1.95
3709918--3709942	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709898--3709963	32	2.0	33	88	2	98	34	12	13	39	1.82
3710004--3710028	13	1.9	13	100	0	50	32	16	16	36	1.90
3710037--3710161	52	2.4	52	95	0	223	36	18	17	28	1.94
3723788--3723839	10	5.0	10	80	15	52	84	5	0	9	0.77
3723800--3723846	13	3.8	12	88	8	67	87	8	0	4	0.67
3723812--3723850	6	6.5	6	82	11	53	87	12	0	0	0.55
3723812--3723850	13	3.2	12	85	7	53	87	12	0	0	0.55
3723800--3723850	24	2.0	24	88	7	75	86	9	0	3	0.70
3723789--3723856	19	3.6	17	76	18	55	85	7	1	5	0.80
3724803--3725123	55	5.6	56	84	11	359	24	25	21	28	1.99
3726024--3726051	13	2.2	13	100	0	56	28	14	17	39	1.89
3726004--3726069	33	2.0	33	85	5	89	25	15	15	43	1.85
3728419--3728748	79	4.2	79	81	1	353	26	24	14	33	1.95
3728438--3728743	158	2.0	155	84	4	400	27	23	14	35	1.93
3736266--3736309	6	7.3	6	92	7	72	29	0	2	68	1.02
3736249--3736309	18	3.4	17	86	11	77	31	0	3	65	1.09
3736976--3737318	154	2.2	156	84	6	430	31	10	17	40	1.83
3738228--3738285	29	2.0	28	90	3	89	34	5	25	34	1.78
3738373--3739048	154	4.4	151	78	5	543	24	15	20	39	1.91
3742869--3743086	112	1.9	112	84	1	285	32	13	14	38	1.86
3743564--3743787	88	2.5	87	81	2	234	24	16	12	46	1.82
3744259--3744351	28	3.2	28	77	14	91	17	15	15	52	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3744259--3744351	30	3.2	28	78	17	84	17	15	15	52	1.75
3744247--3744691	60	7.4	59	75	8	305	20	13	16	49	1.79
3744326--3744649	120	2.7	118	78	6	337	19	12	18	49	1.79
3744337--3744668	180	1.8	180	80	3	400	19	13	18	49	1.80
3744537--3744633	30	3.2	29	71	17	83	21	10	16	51	1.74
3744825--3745001	76	2.3	76	86	7	243	25	15	11	46	1.80
3744986--3745150	67	2.5	67	82	5	199	21	16	17	44	1.87
3745598--3745678	40	2.0	40	90	0	126	20	25	9	43	1.83
3745613--3745741	40	3.2	40	79	4	118	16	20	12	50	1.77
3746149--3746276	67	1.9	65	83	9	161	14	21	14	49	1.79
3747252--3747292	20	2.0	21	86	9	59	41	4	7	46	1.53
3747403--3747483	5	15.8	5	74	14	60	24	1	2	71	1.05
3748152--3748455	155	2.0	155	81	5	364	29	12	17	40	1.87
3749795--3750200	153	2.6	154	79	6	412	24	16	19	39	1.92
3755427--3755469	19	2.2	20	84	12	54	23	6	2	67	1.27
3757233--3757607	142	2.6	143	82	4	445	33	10	11	44	1.75
3758538--3758588	24	2.1	24	100	0	102	39	7	3	49	1.51
3763239--3763620	192	2.0	192	91	2	624	35	16	13	35	1.87
3766318--3766468	78	1.9	79	82	6	191	27	21	13	36	1.92
3768546--3768582	13	2.8	13	92	8	58	18	0	2	78	0.87
3768546--3768582	17	2.2	17	95	0	65	18	0	2	78	0.87
3773754--3773842	20	4.8	20	72	20	77	32	16	12	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3773756--3773822	33	2.0	33	88	0	98	29	17	13	38	1.88
3773776--3773803	13	2.2	13	100	0	56	28	14	17	39	1.89
3776298--3776367	26	2.6	26	84	15	90	22	28	21	27	1.99
3776248--3776524	106	2.6	106	81	6	346	27	24	14	33	1.94
3776461--3776579	51	2.3	51	82	0	157	30	26	11	31	1.92
3776512--3776730	79	2.8	79	82	3	217	27	24	14	33	1.94
3778795--3778821	4	6.8	4	100	0	54	22	0	0	77	0.76
3789144--3789182	8	4.6	8	84	9	51	87	10	2	0	0.65
3789137--3789177	13	3.2	13	86	13	59	87	12	0	0	0.53
3789137--3789185	22	2.2	22	88	3	71	87	10	2	0	0.62

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