genome.fa.s64.2.7.7.80.10.50.1000.40.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   36   37   38   39   40   41   42   43   44   45   

This is table  40  of  45  ( 5312 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)
7049548--7049591	15	2.9	15	75	0	52	54	0	0	45	0.99
7049544--7049610	22	3.0	23	78	10	66	52	0	1	46	1.09
7051718--7051836	34	3.5	34	97	0	220	41	37	0	21	1.53
7056533--7056651	34	3.5	34	94	0	202	42	35	0	22	1.54
7058387--7058624	129	1.8	129	81	3	300	58	10	12	18	1.61
7059507--7059540	17	2.1	16	88	5	50	67	0	0	32	0.91
7060688--7060720	15	2.1	16	88	5	50	27	21	0	51	1.48
7061241--7061311	27	2.6	27	88	6	99	46	23	7	22	1.76
7065694--7065739	20	2.3	20	84	0	56	32	4	52	10	1.56
7065816--7065886	27	2.6	27	84	6	90	46	22	7	23	1.76
7066083--7066109	5	5.4	5	100	0	54	59	40	0	0	0.98
7067619--7067652	16	2.1	16	88	0	50	64	5	0	29	1.17
7068217--7068262	24	1.9	24	90	0	74	56	2	0	41	1.11
7069595--7069634	2	20.0	2	100	0	80	50	0	0	50	1.00
7070620--7070711	45	2.1	44	89	2	139	52	17	10	19	1.74
7074780--7074825	23	2.0	23	100	0	92	47	0	17	34	1.48
7076933--7076963	16	1.9	16	100	0	62	32	12	19	35	1.90
7081413--7081438	13	2.0	13	100	0	52	30	15	15	38	1.88
7082137--7082180	21	2.1	21	83	8	54	25	31	4	38	1.76
7083985--7084010	13	2.0	13	100	0	52	38	15	15	30	1.88
7086081--7086111	15	2.1	15	93	0	53	12	22	16	48	1.80
7090184--7090209	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)
7093475--7093523	17	2.9	18	85	11	61	69	2	0	28	1.00
7093474--7093541	22	3.0	22	74	18	61	66	1	0	32	1.01
7094240--7094295	29	2.0	28	89	3	85	39	3	8	48	1.52
7097974--7098421	152	3.0	150	81	5	426	36	19	18	25	1.95
7098066--7098422	150	2.4	150	81	5	391	34	19	19	26	1.95
7098412--7098962	145	3.8	145	81	5	607	37	16	17	28	1.91
7098415--7098962	291	1.9	290	83	3	726	37	16	17	28	1.91
7099222--7099274	21	2.5	20	85	8	70	24	1	0	73	0.93
7099234--7099275	11	3.9	11	76	17	52	23	0	0	76	0.79
7099878--7099936	20	3.1	19	82	2	73	37	15	11	35	1.84
7106208--7106247	21	2.0	21	90	5	64	32	20	0	47	1.50
7108662--7108721	30	2.0	30	87	6	86	35	10	16	38	1.82
7110116--7110159	22	2.0	22	82	8	54	31	13	9	45	1.75
7111232--7111271	21	1.9	21	85	10	55	70	7	10	12	1.35
7111259--7111543	154	1.8	156	84	7	393	48	6	11	32	1.65
7114892--7115066	33	5.7	30	76	10	138	25	32	11	31	1.91
7115066--7115431	30	12.3	30	79	7	239	27	28	12	31	1.92
7115060--7115307	60	4.2	60	83	5	263	25	30	10	32	1.90
7115335--7115977	30	21.1	30	75	8	358	30	27	14	26	1.95
7115512--7115735	32	6.9	32	76	12	176	30	26	16	26	1.96
7115575--7115752	97	1.8	96	86	4	259	33	29	14	23	1.94
7115575--7115774	33	6.2	32	78	9	176	32	28	14	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7115717--7115970	88	2.9	89	82	5	280	30	30	15	23	1.95
7115684--7115974	118	2.4	118	82	2	330	29	31	15	23	1.95
7116706--7116758	20	2.6	21	79	11	65	43	11	15	30	1.81
7116726--7116779	20	2.6	21	82	2	65	40	12	14	31	1.84
7128053--7128150	35	2.7	34	86	12	117	41	0	1	57	1.05
7128083--7128150	35	1.9	35	93	3	118	45	0	1	52	1.09
7129227--7129260	17	1.9	18	88	5	52	50	2	0	47	1.16
7136843--7136918	16	4.9	15	80	13	82	71	0	2	26	1.00
7136858--7136917	25	2.5	25	84	7	63	73	0	3	23	0.98
7136843--7136903	8	7.5	8	88	3	86	72	0	0	27	0.85
7137190--7137223	17	2.0	17	94	0	59	55	0	44	0	0.99
7137356--7137399	21	2.2	19	84	8	52	6	6	4	81	0.97
7137402--7137439	20	1.9	20	89	10	60	55	5	0	39	1.23
7137824--7137863	2	20.0	2	100	0	80	0	50	0	50	1.00
7141687--7141715	3	9.7	3	100	0	58	31	0	0	68	0.89
7142192--7142243	23	2.3	23	80	9	54	51	0	0	48	1.00
7143009--7143081	13	5.6	14	75	15	52	47	0	2	49	1.15
7143060--7143103	22	2.0	23	86	4	63	56	0	0	43	0.99
7145065--7145118	22	2.5	22	81	6	74	1	20	1	75	0.98
7145716--7145773	30	1.9	30	82	0	71	34	6	0	58	1.25
7146380--7146452	20	3.5	20	84	3	83	39	9	16	34	1.81
7148829--7149012	98	1.9	98	81	2	226	30	17	11	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7153215--7153263	24	2.0	24	100	0	98	40	24	4	30	1.74
7154219--7156390	728	3.0	728	89	3	3366	38	14	14	32	1.86
7161816--7161874	31	1.9	31	89	6	93	57	5	13	23	1.56
7162395--7162466	20	3.5	21	78	16	80	41	15	12	30	1.84
7162513--7162567	21	2.6	21	97	0	101	41	14	10	32	1.81
7166918--7166948	9	3.4	9	95	0	53	19	3	0	77	0.90
7166918--7166967	18	2.7	19	82	11	52	18	4	0	78	0.91
7167960--7168007	25	1.9	25	86	0	69	54	0	0	45	0.99
7167983--7168025	14	3.0	14	80	12	52	58	0	2	39	1.11
7168574--7168623	16	2.9	16	80	11	55	50	2	2	46	1.24
7169661--7169712	22	2.4	22	83	6	61	38	0	3	57	1.17
7169680--7169726	11	4.2	11	78	5	58	40	4	2	53	1.32
7187376--7187443	31	2.2	31	86	0	100	44	4	20	30	1.71
7187570--7187684	43	2.6	43	79	6	124	80	0	9	9	0.96
7194640--7194699	19	3.0	20	76	9	61	43	13	13	30	1.82
7198960--7198992	16	2.1	16	88	11	50	42	0	6	51	1.26
7207488--7207714	114	2.0	114	92	0	373	20	16	11	52	1.73
7209275--7209307	6	5.5	6	100	0	66	84	0	0	15	0.61
7210847--7210890	12	3.8	11	82	8	52	31	0	0	68	0.90
7210835--7210898	23	2.8	22	84	13	76	31	0	0	68	0.90
7210836--7210896	11	5.4	11	76	18	54	29	0	0	70	0.88
7211449--7211501	14	4.0	14	83	11	76	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7212302--7212345	17	2.5	17	82	10	54	47	0	0	52	1.00
7213033--7213092	29	2.0	30	84	9	79	43	0	1	55	1.10
7213499--7213553	16	3.5	16	73	14	51	47	0	0	52	1.00
7213490--7213559	26	2.6	27	82	8	88	45	0	0	54	0.99
7213736--7213760	6	4.2	6	100	0	50	64	0	0	36	0.94
7214599--7214850	92	2.8	90	97	2	479	26	13	11	49	1.74
7215025--7215066	16	2.8	15	86	10	59	38	4	7	50	1.51
7215382--7215423	22	1.9	22	90	9	68	61	0	0	38	0.96
7216804--7216831	2	14.0	2	100	0	56	50	0	0	50	1.00
7216988--7217048	23	2.5	24	76	12	63	37	3	1	57	1.25
7218322--7218357	16	2.2	17	90	5	56	63	2	11	22	1.39
7222213--7222283	28	2.5	28	88	0	106	26	16	28	28	1.97
7222320--7222919	79	7.6	79	80	7	528	35	12	23	28	1.91
7222320--7222919	158	3.8	157	82	6	680	35	12	23	28	1.91
7222320--7222919	237	2.5	235	81	5	708	35	12	23	28	1.91
7223404--7223500	41	2.3	42	92	1	160	32	15	29	21	1.94
7223569--7224080	237	2.1	237	88	3	749	28	18	25	27	1.98
7223476--7224106	61	10.5	61	83	6	709	28	18	25	27	1.98
7234509--7234641	67	2.0	67	96	0	248	33	18	13	34	1.90
7237397--7237525	19	7.8	18	70	28	108	34	12	17	36	1.87
7237399--7237533	32	4.2	32	98	0	252	34	12	17	35	1.88
7237418--7237506	13	5.9	13	72	27	70	34	13	17	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7237577--7237602	13	2.0	13	100	0	52	30	15	15	38	1.88
7237398--7237623	32	7.0	33	79	7	119	31	14	17	35	1.90
7239970--7240086	51	2.4	51	84	12	147	30	22	12	34	1.91
7240066--7240121	28	2.0	28	96	0	103	21	30	17	30	1.96
7240073--7240144	28	2.6	28	84	0	81	23	33	20	22	1.97
7240100--7240304	79	2.6	78	79	7	191	25	29	16	28	1.97
7242851--7242875	13	1.9	13	100	0	50	32	16	16	36	1.90
7242925--7242977	19	2.7	20	91	2	81	35	16	16	30	1.92
7243878--7243981	52	2.0	52	98	0	199	25	22	7	44	1.79
7243904--7243984	25	3.2	25	63	6	63	25	24	7	41	1.81

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   36   37   38   39   40   41   42   43   44   45