genome.fa.s5.2.7.7.80.10.50.1000.8.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   

This is table  8  of  85  ( 10117 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)
2872323--2872439	59	2.0	59	84	3	155	25	19	5	49	1.69
2872320--2872443	29	4.2	29	79	3	149	28	18	4	48	1.68
2873896--2873937	22	2.0	21	86	9	59	40	7	9	42	1.65
2874005--2874044	18	2.2	18	86	8	55	22	12	12	52	1.72
2874023--2874080	27	2.2	26	81	3	62	24	15	6	53	1.66
2873948--2874109	61	2.6	62	83	6	195	28	12	9	48	1.73
2874065--2874145	17	4.6	18	72	17	71	30	12	11	45	1.76
2874567--2874631	29	2.2	28	89	10	96	40	4	9	46	1.57
2874575--2874639	29	2.2	31	88	5	98	38	7	12	41	1.71
2876907--2877019	17	6.4	18	71	16	60	41	9	11	37	1.74
2876909--2877133	18	11.9	18	70	18	113	44	10	11	33	1.75
2876980--2877042	17	3.6	17	77	8	63	44	7	6	41	1.59
2877029--2877096	23	2.8	25	77	16	63	50	10	11	27	1.71
2877204--2877251	22	2.2	22	88	7	71	35	6	10	47	1.63
2877130--2877479	105	3.5	97	87	9	486	44	12	12	30	1.80
2877237--2877267	16	1.9	16	93	0	53	48	16	9	25	1.76
2877230--2877277	17	2.8	17	78	9	53	45	14	10	29	1.78
2877297--2877341	20	2.2	21	88	7	67	35	13	17	33	1.89
2877348--2877382	17	2.0	17	88	5	52	45	14	11	28	1.79
2877432--2877558	17	7.2	17	71	11	69	40	10	14	34	1.79
2877411--2877558	19	8.2	19	73	15	111	39	10	14	35	1.79
2878158--2878186	15	1.9	15	100	0	58	6	20	48	24	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2878289--2878344	11	4.9	12	77	16	57	3	16	1	78	0.97
2878283--2878342	17	3.5	17	78	13	70	3	15	1	80	0.93
2878268--2878345	27	2.9	27	83	9	95	3	14	2	79	0.98
2878266--2878342	34	2.3	34	84	13	97	3	12	2	80	0.95
2878266--2878331	23	2.9	22	82	8	69	3	12	3	81	0.91
2878436--2878490	21	2.7	21	78	13	62	0	34	0	65	0.93
2878642--2878689	22	2.2	22	88	0	69	6	10	12	70	1.32
2878982--2879089	30	3.6	30	76	9	96	43	3	20	32	1.69
2879086--2879124	18	2.2	18	86	9	53	15	0	7	76	0.99
2879453--2880117	79	8.3	77	78	16	633	35	19	16	28	1.94
2879470--2880117	163	4.0	163	91	3	1006	34	19	16	28	1.94
2879470--2880117	327	2.0	321	89	3	996	34	19	16	28	1.94
2880978--2881028	15	3.5	15	82	15	61	0	3	13	82	0.81
2891690--2891740	23	2.2	23	100	0	102	25	27	31	15	1.96
2891890--2892051	17	8.8	19	69	19	69	41	9	12	36	1.75
2891860--2891989	17	7.3	18	68	19	51	45	10	12	32	1.75
2891890--2892113	18	11.9	19	67	20	82	43	9	12	33	1.76
2892066--2892262	44	4.3	45	73	13	152	48	13	11	26	1.76
2892217--2892250	17	1.9	17	88	5	50	47	14	8	29	1.75
2892096--2892271	95	1.8	98	87	3	268	48	13	9	28	1.74
2892270--2892306	19	1.9	19	94	0	65	29	10	21	37	1.88
2892374--2892418	20	2.2	21	88	7	67	35	13	17	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2892180--2892460	104	2.7	105	90	1	465	45	13	12	29	1.80
2892417--2892539	17	6.9	17	75	11	97	40	12	15	31	1.84
2892481--2892539	19	3.2	18	92	7	84	38	10	15	35	1.81
2893263--2893318	11	4.9	12	77	16	57	3	17	0	78	0.89
2893248--2893305	23	2.6	23	84	10	75	1	15	1	81	0.86
2893257--2893321	34	1.9	35	87	12	100	3	18	0	78	0.88
2893255--2893319	27	2.4	28	87	10	91	3	16	0	80	0.85
2893258--2893321	17	3.7	18	82	15	82	3	18	0	78	0.89
2893942--2893999	30	1.9	30	89	6	91	41	0	22	36	1.54
2898046--2898656	304	2.0	304	91	0	990	36	13	23	27	1.92
2903477--2903510	16	2.1	17	88	5	52	47	8	2	41	1.50
2903645--2903683	19	2.2	17	86	9	51	43	0	0	56	0.99
2904189--2905091	150	6.0	150	98	0	1736	37	15	21	26	1.93
2906273--2906318	19	2.5	19	80	16	60	54	0	4	41	1.20
2907856--2907905	16	3.1	16	88	11	75	62	0	30	8	1.24
2929713--2929783	20	3.6	19	77	12	72	33	11	11	43	1.76
2939077--2939135	29	2.0	31	83	6	77	38	6	10	44	1.65
2940076--2940132	29	2.0	29	86	6	82	52	14	0	33	1.41
2942853--2942978	30	4.2	30	80	9	150	32	23	5	38	1.78
2942863--2942976	59	1.9	60	87	5	169	34	22	4	38	1.74
2943329--2943377	25	2.0	25	95	0	89	73	16	10	0	1.09
2943512--2943562	17	2.9	18	82	8	70	72	0	27	0	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2943505--2943569	17	3.9	17	75	15	64	76	0	23	0	0.78
2943497--2943568	31	2.3	30	83	4	90	75	0	25	0	0.81
2944023--2944073	17	3.1	17	81	10	54	17	0	5	76	0.98
2944047--2944073	5	5.4	5	100	0	54	18	0	0	81	0.69
2944378--2944423	17	2.6	18	80	16	60	32	13	8	45	1.73
2944480--2944706	37	6.2	36	74	14	144	31	13	10	44	1.76
2944476--2944703	17	12.5	18	71	15	157	30	13	10	45	1.76
2944728--2944792	22	3.2	21	80	12	64	43	6	9	41	1.61
2952207--2952233	14	1.9	14	100	0	54	29	7	0	62	1.22
2952236--2952729	75	6.5	75	95	0	817	25	16	21	36	1.94
2952924--2953049	30	4.2	30	78	11	134	30	23	5	40	1.77
2952931--2953047	59	2.0	60	86	5	166	32	23	4	39	1.74
2953411--2953461	24	2.1	24	92	0	84	74	15	9	0	1.06
2953582--2953650	30	2.3	29	74	13	70	73	0	23	2	0.96
2953618--2954089	237	2.0	237	99	0	926	31	36	23	9	1.86
2954347--2954397	17	3.1	17	81	10	54	17	0	5	76	0.98
2954371--2954397	5	5.4	5	100	0	54	18	0	0	81	0.69
2954700--2954745	17	2.6	18	80	16	60	32	13	8	45	1.73
2954794--2955006	17	11.8	17	68	15	106	30	13	10	45	1.77
2954786--2954932	54	2.7	54	74	13	149	30	14	10	44	1.78
2954783--2955024	37	6.6	37	71	13	180	32	13	10	44	1.77
2955072--2955132	19	3.4	18	73	15	63	44	4	9	40	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2955074--2955130	17	3.3	16	74	11	51	40	5	10	43	1.62
2955107--2955150	23	2.0	23	86	8	65	50	6	11	31	1.65
2955053--2955164	57	2.0	57	85	5	156	41	4	10	43	1.59
2955724--2955762	20	1.9	20	84	5	51	71	5	7	15	1.26
2956779--2956835	28	2.0	29	93	3	98	12	22	26	38	1.89
2957887--2957921	10	3.2	11	88	12	54	31	0	0	68	0.90
2958110--2958197	30	2.8	30	79	8	79	36	2	6	54	1.40
2958228--2958279	19	2.8	19	94	5	90	50	11	0	38	1.39
2958490--2958530	19	2.2	19	95	0	73	51	17	0	31	1.46
2958547--2958622	27	2.8	27	89	0	125	21	38	23	17	1.93
2964303--2964467	41	4.0	41	100	0	330	34	16	12	36	1.86
2971387--2971447	26	2.3	26	86	5	79	14	22	24	37	1.92
2971489--2971550	24	2.5	24	84	7	72	19	25	19	35	1.95
2971535--2971605	24	2.9	24	73	10	63	21	21	19	38	1.94
2972715--2972760	20	2.3	20	96	0	83	36	4	6	52	1.47
2973539--2973590	19	2.7	19	77	14	54	71	3	0	25	1.03
2978912--2978953	21	2.0	21	85	0	57	54	2	2	40	1.26
2984201--2984265	30	2.1	31	82	2	78	44	16	4	33	1.69
2984475--2984528	19	2.8	19	94	0	90	40	11	14	33	1.82
2985396--2985645	24	10.7	24	70	15	148	34	6	4	55	1.46
2985394--2985561	70	2.4	69	78	9	180	32	6	4	55	1.46
2985369--2985636	69	3.9	68	74	13	201	33	6	5	54	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2985694--2985738	23	2.0	23	90	0	72	31	6	4	57	1.44
2990369--2990515	73	2.0	74	98	1	287	30	2	2	63	1.22
2990704--2990741	1	38.0	1	94	0	67	97	2	0	0	0.18
2996129--2996192	31	2.1	31	87	0	92	32	12	10	43	1.77
2996688--2996747	27	2.2	28	84	3	77	33	13	0	53	1.40
3007689--3007717	2	14.5	2	100	0	58	51	0	0	48	1.00
3007743--3007937	97	2.0	98	98	1	383	43	15	22	18	1.87
3014853--3014918	31	2.1	31	85	0	87	33	9	12	45	1.73
3015067--3015159	45	2.0	46	97	2	179	38	15	7	38	1.75
3016406--3016452	2	23.5	2	95	0	85	46	0	2	51	1.13

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   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85