genome.fa.s64.2.7.7.80.10.50.1000.14.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  14  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)
2639247--2639282	3	12.0	3	87	0	54	27	0	5	66	1.13
2639497--2639535	19	2.1	19	85	9	53	64	0	0	35	0.94
2640896--2640940	16	2.7	17	82	3	56	2	20	2	75	1.01
2643753--2643813	26	2.4	25	76	13	61	37	3	0	59	1.14
2643837--2643872	14	2.5	14	86	4	54	72	2	0	25	0.98
2646148--2646184	16	2.3	17	81	13	51	37	13	18	29	1.90
2646268--2646327	29	2.0	29	81	15	70	45	3	6	45	1.46
2646973--2647027	15	3.4	16	80	9	67	63	1	0	34	1.05
2646973--2647024	16	3.2	17	89	5	72	63	1	0	34	1.06
2646973--2647034	32	1.9	33	83	3	81	61	4	0	33	1.17
2648222--2648253	16	2.0	16	100	0	64	31	25	12	31	1.92
2655436--2655480	19	2.5	19	85	7	58	68	0	0	31	0.89
2655436--2655486	18	2.9	17	75	13	59	66	0	0	33	0.92
2655657--2655715	11	5.6	11	74	11	52	66	0	0	33	0.92
2655656--2655730	30	2.5	30	78	4	80	68	0	0	32	0.90
2655692--2655735	17	2.5	17	81	3	52	68	0	0	31	0.90
2656394--2656457	22	3.0	22	75	22	64	40	0	1	57	1.08
2656394--2656434	20	2.0	21	85	9	57	41	0	2	56	1.13
2660588--2660617	15	2.0	15	100	0	60	0	20	0	80	0.72
2660582--2660619	17	2.1	19	90	9	62	0	21	0	78	0.74
2660593--2660634	21	2.0	21	85	0	57	2	9	4	83	0.88
2660862--2660908	15	2.9	16	79	17	60	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2660862--2660907	18	2.7	18	87	12	71	39	0	0	60	0.97
2661096--2661145	20	2.5	21	81	15	61	38	0	0	62	0.96
2661079--2661154	12	6.2	12	73	18	50	36	0	0	63	0.95
2661310--2661338	15	1.9	15	100	0	58	13	0	3	82	0.79
2661448--2661510	20	3.4	20	66	20	64	46	6	4	42	1.50
2661444--2661523	35	2.2	36	95	4	144	48	5	6	40	1.50
2662189--2662219	2	15.5	2	100	0	62	48	0	0	51	1.00
2673606--2673633	2	14.0	2	100	0	56	50	0	0	50	1.00
2676021--2676068	19	2.9	16	77	19	53	47	0	0	52	1.00
2679562--2679593	2	16.0	2	100	0	64	50	0	0	50	1.00
2682332--2682367	16	2.2	16	90	0	54	27	0	2	69	1.02
2682372--2682446	18	3.9	18	70	26	57	45	0	0	54	0.99
2682362--2682452	32	2.7	33	84	6	112	45	0	0	54	0.99
2683526--2683575	23	2.3	21	82	6	64	46	2	0	52	1.12
2683926--2683950	13	1.9	13	100	0	50	8	0	12	80	0.92
2687458--2687497	19	2.0	20	85	4	55	52	2	0	45	1.14
2688867--2688899	2	16.5	2	100	0	66	48	0	0	51	1.00
2692491--2692591	30	3.2	32	74	8	98	24	11	18	44	1.84
2696128--2696152	10	2.5	10	100	0	50	52	8	0	40	1.31
2697183--2697231	20	2.5	19	78	12	55	55	0	6	38	1.25
2697392--2697440	14	3.6	13	78	8	53	48	2	0	48	1.12
2700738--2700770	16	2.0	17	88	5	50	39	3	0	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2703904--2703937	5	6.6	5	93	6	59	41	0	0	58	0.98
2703893--2703937	21	2.1	21	84	8	56	46	0	0	53	1.00
2703904--2703937	16	2.2	16	94	5	61	41	0	0	58	0.98
2703907--2703950	21	2.1	21	82	0	52	36	0	0	63	0.95
2704505--2704531	1	27.0	1	100	0	54	0	100	0	0	0.00
2705806--2705948	17	8.3	18	65	25	51	58	0	0	41	1.03
2705836--2705891	18	3.0	19	84	5	78	51	0	1	46	1.11
2705890--2705948	29	2.0	30	86	3	84	59	0	0	40	0.97
2705882--2705948	11	6.5	11	75	15	54	59	0	0	40	0.97
2713713--2713750	18	2.1	19	80	14	53	44	0	0	55	0.99
2713732--2713779	24	2.0	23	88	4	69	41	0	0	58	0.98
2714288--2714317	11	2.7	11	94	0	51	46	0	0	53	1.00
2719214--2719252	20	2.1	18	90	9	60	53	0	0	46	1.00
2720693--2720807	36	3.2	33	74	18	97	46	0	0	52	1.06
2720688--2720783	35	3.0	30	76	19	95	45	0	0	54	0.99
2732547--2732627	20	3.8	21	65	23	53	39	0	2	58	1.12
2732580--2732628	20	2.4	21	80	10	66	34	0	4	61	1.15
2732593--2732653	26	2.3	26	83	8	70	34	0	1	63	1.04
2732698--2732752	11	4.9	11	75	16	51	45	0	1	52	1.11
2732708--2732753	7	6.7	7	77	22	53	43	0	2	54	1.12
2732720--2732761	21	2.1	20	82	8	50	50	0	2	47	1.14
2732704--2732764	27	2.3	27	77	5	70	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2734122--2734157	16	2.2	17	95	5	65	52	0	0	47	1.00
2734277--2734323	15	3.0	15	84	12	51	38	0	0	61	0.96
2738314--2738359	13	3.5	13	100	0	92	34	15	17	32	1.91
2738404--2738428	13	1.9	13	100	0	50	32	16	16	36	1.90
2743164--2743230	21	3.0	22	75	16	66	53	0	1	44	1.09
2743143--2743211	22	2.8	26	70	18	67	59	0	0	40	0.97
2743147--2743215	20	3.4	20	73	11	59	59	0	0	40	0.97
2743259--2743314	17	3.3	17	75	7	51	37	0	1	60	1.07
2744208--2744349	42	3.4	42	84	1	176	50	7	11	31	1.65
2745816--2745886	25	2.8	25	72	6	63	42	2	0	54	1.14
2749252--2749299	17	2.8	18	76	23	50	39	0	0	60	0.97
2750410--2750435	1	26.0	1	100	0	52	0	100	0	0	0.00
2752313--2752402	32	2.7	32	78	10	92	51	0	0	48	1.00
2752331--2752412	33	2.4	33	80	11	94	53	0	0	46	1.00
2753536--2753564	2	14.5	2	100	0	58	51	0	0	48	1.00
2758920--2758965	14	3.1	14	84	6	56	52	0	0	47	1.00
2759740--2759799	28	2.1	29	82	14	72	30	13	8	48	1.71
2762813--2762894	21	3.9	21	68	19	62	57	0	6	36	1.24
2763007--2763036	4	7.5	4	100	0	60	26	0	0	73	0.84
2769570--2769608	11	3.7	11	80	13	55	51	5	0	43	1.24
2769566--2769632	11	6.7	9	73	20	53	47	2	0	49	1.16
2769566--2769616	20	2.5	20	100	0	102	47	3	0	49	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2770587--2770624	8	4.8	8	87	9	51	50	0	0	50	1.00
2770593--2770625	17	1.9	17	93	0	57	51	0	0	48	1.00
2771126--2771168	9	4.3	10	83	16	54	72	0	0	27	0.85
2771130--2771177	14	3.4	14	83	8	62	68	0	0	31	0.90
2771130--2771210	29	2.7	30	77	12	85	61	0	1	37	1.04
2771173--2771223	16	3.1	16	75	13	50	50	0	1	47	1.12
2772226--2772347	64	1.9	64	83	5	156	29	13	7	50	1.68
2772961--2773012	26	2.0	25	81	7	59	71	1	1	25	1.07
2773564--2773594	2	15.5	2	100	0	62	0	48	0	51	1.00
2775676--2775716	18	2.3	18	82	0	55	26	31	21	19	1.97
2777020--2777065	8	5.2	9	84	7	51	2	86	0	10	0.64
2777022--2777065	5	8.8	5	87	9	54	2	86	0	11	0.66
2777399--2777446	22	2.2	22	85	3	62	47	0	12	39	1.41
2779052--2779102	23	2.2	23	82	0	57	56	0	0	43	0.99
2780503--2780551	20	2.4	21	80	13	57	53	4	0	42	1.20
2784902--2784958	13	4.5	13	72	12	55	40	1	0	57	1.09
2785771--2785813	20	2.2	20	83	8	52	39	2	0	58	1.11
2786762--2786794	2	17.0	2	93	6	59	51	0	0	48	1.00
2787406--2787451	15	3.0	16	84	9	60	60	0	6	32	1.22
2787931--2787973	2	22.0	2	80	4	52	46	4	0	48	1.22
2789318--2789395	40	2.0	40	85	7	106	38	1	1	58	1.14
2789592--2789618	6	4.5	6	100	0	54	14	0	0	85	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2790285--2790380	5	20.2	5	70	18	53	60	0	0	39	0.97
2790288--2790375	17	4.9	19	73	18	64	60	0	0	39	0.97
2790288--2790378	24	4.1	22	74	23	84	60	0	0	39	0.97
2790661--2790701	3	13.7	3	100	0	82	31	0	0	68	0.90
2795952--2795992	2	21.0	2	90	5	66	48	2	0	48	1.14
2796997--2797048	24	2.1	25	82	10	63	36	7	0	55	1.29
2799005--2799029	2	12.5	2	100	0	50	52	0	0	48	1.00
2799440--2799483	2	22.0	2	100	0	88	50	0	50	0	1.00
2799857--2799908	24	2.2	24	86	6	70	57	0	0	42	0.98
2808584--2808647	32	2.0	33	96	3	121	34	4	6	54	1.46

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