genome.fa.s11.2.7.7.80.10.50.1000.19.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   

This is table  19  of  29  ( 3461 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)
2790168--2790192	2	12.5	2	100	0	50	48	0	0	52	1.00
2791020--2791050	11	2.7	11	95	5	53	32	0	25	41	1.56
2792445--2792470	2	13.0	2	100	0	52	50	0	0	50	1.00
2794085--2794117	2	16.5	2	93	0	57	45	0	0	54	0.99
2795444--2795477	2	17.0	2	100	0	68	50	0	0	50	1.00
2797453--2797483	3	10.3	3	100	0	62	32	0	0	67	0.91
2802793--2802826	2	17.0	2	100	0	68	50	0	0	50	1.00
2806219--2806248	2	15.0	2	100	0	60	0	50	0	50	1.00
2815176--2815317	52	2.7	50	73	12	126	51	0	2	46	1.12
2815521--2815547	2	13.5	2	100	0	54	51	0	0	48	1.00
2817592--2817714	59	2.1	59	100	0	246	44	4	17	33	1.70
2818113--2818161	14	3.5	14	78	8	55	61	0	2	36	1.08
2818913--2818942	10	3.0	10	95	0	51	56	0	0	43	0.99
2822577--2822608	10	3.2	10	90	0	55	40	0	50	9	1.35
2824083--2824122	15	2.8	14	81	7	53	65	0	2	32	1.06
2824510--2824553	24	1.9	22	90	9	70	47	2	4	45	1.35
2824510--2824560	25	2.2	22	86	10	66	43	1	5	49	1.38
2828194--2828236	21	2.0	21	86	0	59	25	18	30	25	1.98
2828213--2828266	28	1.9	28	88	0	81	27	16	25	29	1.97
2828539--2828577	2	19.5	2	83	0	51	51	2	0	46	1.14
2829051--2829154	29	3.4	31	76	18	85	60	0	0	38	1.03
2829057--2829181	14	8.6	15	68	26	56	59	1	0	39	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2829089--2829143	17	3.4	17	72	27	57	52	1	0	45	1.11
2829089--2829158	18	4.1	18	72	22	60	52	1	0	45	1.09
2829123--2829171	19	2.5	20	80	12	57	55	0	0	44	0.99
2829491--2829579	5	17.2	5	72	18	58	33	2	1	62	1.15
2829497--2829565	26	2.7	25	84	6	84	33	1	0	65	1.02
2829487--2829564	32	2.5	32	86	14	101	32	2	0	65	1.06
2829514--2829586	35	2.1	35	85	10	96	32	1	1	64	1.11
2829720--2829749	2	15.0	2	100	0	60	50	0	0	50	1.00
2830026--2830063	2	19.5	2	89	5	60	50	0	2	47	1.15
2840059--2840088	2	15.0	2	100	0	60	0	0	50	50	1.00
2841930--2842001	36	2.0	36	94	0	126	31	11	11	45	1.75
2847766--2847797	16	1.9	17	93	6	57	31	6	37	25	1.81
2848115--2848164	21	2.4	22	80	6	59	60	2	0	38	1.09
2848113--2848205	26	3.8	25	72	10	77	56	1	0	41	1.06
2849583--2849613	6	5.2	6	100	0	62	16	64	0	19	1.29
2849906--2849962	24	2.2	26	84	12	73	43	0	1	54	1.10
2856533--2856563	16	1.9	16	93	0	53	51	9	9	29	1.66
2860997--2861027	16	1.9	16	100	0	62	51	9	6	32	1.60
2861014--2861081	19	3.8	18	80	9	77	39	14	20	25	1.91
2863266--2863291	13	2.0	13	100	0	52	30	7	15	46	1.74
2865618--2865653	2	18.0	2	94	0	63	47	0	2	50	1.15
2865779--2865830	25	2.1	25	92	0	86	53	3	3	38	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2869395--2869445	20	2.5	21	90	6	86	17	21	15	45	1.86
2871061--2871098	15	2.4	16	86	4	51	60	2	2	34	1.24
2883417--2883452	17	2.1	17	89	0	54	41	19	2	36	1.66
2883559--2883744	31	6.0	31	81	0	183	31	23	18	26	1.97
2883556--2883730	93	1.9	93	83	2	226	33	24	16	26	1.96
2884023--2884078	29	1.9	29	82	7	69	57	19	0	23	1.41
2889263--2889323	31	2.0	31	87	6	88	37	21	13	27	1.90
2889272--2889444	31	5.6	31	85	1	204	31	25	17	25	1.97
2892359--2892427	16	4.2	16	83	5	77	15	11	26	46	1.80
2893072--2893109	17	2.2	17	86	9	51	36	0	0	63	0.95
2893508--2893578	16	4.4	16	80	5	81	26	14	15	43	1.85
2896384--2896486	14	8.2	12	72	17	68	33	2	0	62	1.17
2896372--2896430	19	3.2	19	76	13	52	33	3	0	62	1.12
2896384--2896484	5	21.2	5	70	25	60	33	2	0	62	1.17
2896361--2896459	36	2.6	39	83	12	109	34	2	0	63	1.06
2896397--2896490	24	3.8	24	75	14	82	34	2	1	62	1.14
2896350--2896482	43	3.2	42	76	16	109	36	2	0	60	1.14
2896708--2896760	2	26.5	2	96	0	97	49	1	0	49	1.12
2897433--2897466	4	8.5	4	100	0	68	0	23	0	76	0.79
2901803--2901839	2	18.5	2	100	0	74	51	0	0	48	1.00
2906912--2906962	26	2.0	26	88	0	75	5	13	1	78	1.02
2909872--2909901	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2920811--2920853	22	1.9	23	85	4	61	44	0	0	55	0.99
2923646--2923674	2	14.5	2	100	0	58	48	0	0	51	1.00
2925934--2925963	2	15.0	2	100	0	60	50	0	0	50	1.00
2933354--2933378	11	2.3	11	100	0	50	88	0	12	0	0.53
2935653--2935702	2	25.0	2	87	0	73	50	0	6	44	1.26
2942559--2942583	13	1.9	13	100	0	50	40	0	0	60	0.97
2944433--2944458	3	8.7	3	100	0	52	65	0	34	0	0.93
2949402--2949440	13	3.2	12	89	7	53	69	2	28	0	1.02
2950931--2950999	36	1.9	36	100	0	138	44	15	8	30	1.77
2952738--2952777	2	20.0	2	100	0	80	50	0	0	50	1.00
2956397--2956450	24	2.2	26	86	6	76	42	1	0	55	1.10
2956402--2956460	30	1.9	31	86	3	84	42	1	0	55	1.09
2956409--2956468	29	2.1	29	81	6	68	43	3	0	53	1.17
2956474--2956527	17	3.4	16	72	12	58	55	0	0	44	0.99
2956427--2956509	39	2.1	40	82	6	98	46	2	0	50	1.14
2956549--2956601	23	2.2	25	86	6	74	60	0	1	37	1.08
2957283--2957334	14	4.0	13	77	22	56	69	0	0	30	0.89
2957286--2957321	19	1.9	18	94	5	63	66	0	0	33	0.92
2957284--2957336	12	4.2	12	76	9	52	71	0	0	28	0.86
2960217--2960258	2	21.5	2	95	4	77	50	0	0	50	1.00
2964632--2964714	42	2.0	42	90	0	130	27	22	21	27	1.99
2967981--2968038	28	2.2	27	79	11	66	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2973593--2973618	2	13.0	2	100	0	52	0	0	50	50	1.00
2976504--2976555	22	2.5	21	71	6	52	57	0	0	42	0.98
2977457--2977519	17	3.7	17	70	21	51	52	0	0	47	1.00
2977464--2977541	33	2.4	32	85	8	95	53	0	0	46	1.00
2977483--2977533	14	3.3	15	75	19	52	49	0	0	50	1.00
2977476--2977563	20	4.8	20	72	22	61	55	0	0	44	0.99
2977549--2977594	17	2.8	17	83	3	58	76	2	0	21	0.90
2977721--2977752	16	2.1	16	94	5	57	68	0	0	31	0.90
2978579--2978637	21	2.9	20	70	22	59	55	3	0	40	1.16
2978579--2978637	22	2.9	19	74	13	64	55	3	0	40	1.16
2978683--2978734	22	2.3	23	81	15	65	51	3	0	44	1.19
2980699--2980752	18	2.9	18	76	10	56	35	0	0	64	0.94
2980694--2980753	24	2.5	24	73	13	68	36	0	0	63	0.95
2980694--2980770	37	2.1	36	83	7	93	38	0	0	61	0.96
2980720--2980772	19	2.8	19	75	13	56	43	0	0	56	0.99
2986775--2986820	3	15.3	3	100	0	92	67	0	0	32	0.91
2987047--2987111	22	2.8	24	76	21	68	50	0	0	49	1.00
2989751--2989799	22	2.3	20	83	12	71	61	18	0	20	1.35
2989756--2989802	22	2.1	22	96	0	85	57	21	0	21	1.41
2991875--2991902	2	14.0	2	100	0	56	50	0	0	50	1.00
2994748--2994776	2	14.5	2	100	0	58	51	0	0	48	1.00
2994776--2994813	2	19.0	2	100	0	76	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3002898--3002938	2	20.5	2	100	0	82	51	0	0	48	1.00
3003281--3003312	2	16.0	2	93	0	55	46	50	3	0	1.17
3006068--3006122	24	2.2	24	87	9	74	60	0	0	40	0.97
3006213--3006272	17	3.5	17	76	13	59	55	1	1	41	1.20
3006225--3006311	29	3.0	28	75	20	90	56	0	3	40	1.16
3006194--3006271	35	2.3	32	84	8	93	52	1	2	43	1.23
3006280--3006320	17	2.3	18	91	4	66	60	0	2	36	1.10
3006225--3006320	18	5.2	18	70	20	72	57	0	3	39	1.15
3006673--3006769	16	6.1	16	82	2	124	55	3	2	39	1.27
3006711--3006763	10	5.1	10	74	17	54	60	3	0	35	1.15

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