genome.fa.s55.2.7.7.80.10.50.1000.13.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  13  of  21  ( 2443 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)
2839115--2839274	55	2.9	55	84	3	205	35	18	23	23	1.96
2841495--2841607	56	2.0	56	100	0	226	30	19	14	35	1.91
2844097--2845797	159	10.7	158	67	13	549	31	18	13	35	1.91
2844097--2845884	476	3.8	475	87	2	2522	31	18	13	35	1.90
2847425--2847451	13	2.1	13	100	0	54	40	14	14	29	1.86
2849974--2850092	13	10.1	13	68	20	64	38	14	15	31	1.88
2849984--2850079	33	2.9	33	92	0	156	39	14	15	30	1.87
2850007--2850065	20	3.3	20	65	30	60	42	11	16	28	1.84
2850017--2850125	46	2.4	46	90	3	166	38	14	16	30	1.89
2849975--2850145	79	2.2	79	97	0	324	38	14	16	30	1.89
2850063--2850144	33	2.5	33	91	0	146	40	17	15	26	1.89
2850160--2850213	20	2.7	20	91	0	81	33	18	9	38	1.83
2856386--2856438	19	2.7	19	85	2	70	35	15	13	35	1.86
2861386--2861441	28	2.0	28	100	0	112	28	14	21	35	1.92
2866051--2866086	2	18.0	2	100	0	72	50	0	0	50	1.00
2866878--2866902	2	12.5	2	100	0	50	52	0	0	48	1.00
2867581--2867646	20	3.2	22	74	18	61	42	0	0	57	0.98
2868958--2869010	20	2.7	20	81	0	70	41	15	11	32	1.82
2868909--2869062	70	2.2	70	84	2	202	43	12	14	29	1.82
2869612--2934713	475	136.2	475	77	7	45846	31	18	14	34	1.92
2875547--2875591	22	2.0	22	95	0	81	24	13	28	33	1.93
2887204--2888351	159	7.2	157	66	14	413	31	19	14	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2894628--2894689	32	1.9	32	100	0	124	46	17	12	22	1.82
2895085--2895109	13	1.9	13	100	0	50	32	16	16	36	1.90
2900147--2901294	159	7.2	157	66	14	413	31	19	14	34	1.92
2907572--2907633	32	1.9	32	100	0	124	46	17	12	22	1.82
2908029--2908053	13	1.9	13	100	0	50	32	16	16	36	1.90
2908912--2911867	949	3.1	943	82	4	3471	31	18	14	35	1.91
2911673--2912024	160	2.2	159	87	3	512	33	19	11	35	1.88
2911212--2912475	635	2.0	633	86	3	1790	32	18	13	35	1.90
2929138--2929162	13	1.9	13	100	0	50	32	16	16	36	1.90
2929150--2929202	20	2.6	21	82	8	65	37	15	16	30	1.90
2929262--2929287	13	2.0	13	100	0	52	38	15	15	30	1.88
2934717--2941158	476	13.6	475	82	3	7048	31	18	14	35	1.91
2934717--2941158	950	6.8	949	83	3	7046	31	18	14	35	1.91
2941347--2941423	21	3.7	21	89	3	111	35	12	16	35	1.88
2941459--2941526	19	3.9	19	78	21	85	35	11	14	38	1.83
2941480--2941504	13	1.9	13	100	0	50	36	16	16	32	1.90
2941461--2941523	32	2.0	32	96	0	117	34	12	15	36	1.86
2941566--2941591	13	2.0	13	100	0	52	30	15	15	38	1.88
2941546--2941612	33	2.0	33	88	0	98	25	14	16	43	1.86
2943959--2944078	51	2.3	53	83	9	142	30	22	11	35	1.90
2944067--2944138	28	2.6	28	88	0	99	22	34	19	23	1.96
2944013--2944217	107	1.9	107	82	5	252	25	27	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2944092--2944297	80	2.6	79	82	2	225	23	29	16	29	1.97
2945900--2947116	423	3.0	397	81	7	1166	32	18	13	35	1.90
2947315--2947978	159	4.2	156	68	15	412	31	18	14	35	1.92
2946757--2952659	475	12.4	475	83	3	6791	31	19	14	34	1.92
2946757--2952659	952	6.2	949	82	3	6895	31	19	14	34	1.92
2952657--2965203	477	26.4	477	79	5	10122	31	19	14	35	1.92
2965986--2966012	13	2.1	13	100	0	54	29	14	14	40	1.86
2965967--2966030	33	2.0	32	87	9	94	26	14	20	39	1.90
2966094--2966131	20	1.9	19	94	5	67	31	10	23	34	1.89
2966673--2966704	16	2.0	16	100	0	64	37	18	6	37	1.76
2968743--2968774	8	3.9	8	95	4	55	62	25	0	12	1.30
2971808--2974319	477	5.3	473	81	3	2866	30	19	14	35	1.92
2971794--2974316	953	2.7	950	88	1	3614	30	19	14	35	1.92
2974972--2975069	33	3.0	32	86	5	126	31	14	20	33	1.92
2974992--2975016	13	1.9	13	100	0	50	36	16	16	32	1.90
2981160--2981212	20	2.6	21	90	3	81	26	16	15	41	1.88
2981200--2981228	13	2.2	13	100	0	58	37	13	17	31	1.89
2981214--2981264	20	2.5	20	87	0	66	33	15	15	35	1.90
2983672--2983697	13	2.0	13	100	0	52	30	15	23	30	1.95
2983899--2983924	8	3.2	8	100	0	52	61	23	0	15	1.33
2984730--2984821	45	2.0	45	100	0	184	39	17	14	29	1.89
2988296--2988330	12	2.9	12	95	0	61	34	34	0	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2990020--2990075	20	2.8	20	91	2	85	25	16	14	44	1.84
2991964--2992030	33	2.0	33	85	5	91	26	28	16	28	1.97
2993836--3005091	476	23.6	475	77	6	9622	32	19	14	34	1.91
2993836--3005091	953	11.8	952	79	7	10209	32	19	14	34	1.91
3001237--3005091	475	8.2	474	82	4	4174	33	18	14	33	1.91
3005067--3005110	22	2.0	22	90	0	70	38	4	22	34	1.75
3005089--3006668	476	3.3	474	84	3	2012	31	19	14	33	1.92
3006675--3011385	475	10.0	474	80	4	4583	31	18	14	34	1.91
3011342--3011416	34	2.2	34	83	4	98	30	16	20	33	1.94
3011766--3011806	21	2.0	21	85	9	57	39	12	9	39	1.76
3011846--3011916	20	3.6	19	77	7	70	40	16	12	29	1.86
3011886--3012022	53	2.6	53	96	1	247	37	18	17	27	1.93
3012055--3012096	21	2.0	22	95	4	77	30	19	9	40	1.83
3012057--3012109	21	2.5	22	87	6	72	30	22	9	37	1.86
3012099--3012145	23	2.0	23	83	0	58	27	27	10	34	1.90
3012199--3012224	13	2.0	13	100	0	52	30	15	23	30	1.95
3013028--3020958	475	16.6	475	84	4	8870	31	19	14	34	1.92
3017580--3017646	34	2.0	34	90	0	107	28	10	22	38	1.87
3018050--3020600	158	16.0	158	64	15	403	31	19	14	34	1.92
3020652--3021291	349	1.8	349	85	4	896	32	20	12	34	1.90
3020136--3021767	824	2.0	824	86	2	2294	32	20	13	34	1.91
3020960--3024160	476	6.7	474	87	3	3895	31	19	14	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023807--3024510	349	2.0	352	82	3	857	32	20	13	33	1.91
3023332--3024983	825	2.0	825	89	2	2568	31	20	14	34	1.92
3024158--3026388	475	4.7	475	81	2	2545	30	19	14	35	1.92
3024157--3026388	949	2.3	948	90	2	3460	30	19	14	35	1.92
3031336--3031363	13	2.2	13	100	0	56	28	14	14	42	1.84
3033945--3033975	13	2.4	13	94	0	53	35	16	12	35	1.87
3033929--3033997	33	2.1	32	89	10	104	34	13	18	33	1.90
3034720--3036669	476	4.1	477	83	3	2338	30	19	14	34	1.92
3036580--3036757	95	1.9	95	88	2	268	33	15	15	35	1.90
3036675--3037630	474	2.0	475	84	3	1262	31	19	14	34	1.92
3037024--3038248	636	1.9	632	84	3	1647	32	19	15	33	1.92
3037024--3038385	636	2.1	631	82	4	1522	32	19	14	33	1.92
3037642--3039747	476	4.4	472	80	5	2139	31	18	14	35	1.91
3041064--3041104	18	2.5	15	85	14	55	19	0	2	78	0.87
3042390--3042438	9	5.2	9	77	18	55	22	2	2	73	1.04
3042385--3042442	16	3.6	16	77	11	55	22	1	1	74	1.01
3042785--3042816	17	2.0	17	88	11	50	62	12	21	3	1.43
3042931--3043093	43	3.8	43	82	7	181	38	22	26	13	1.91
3042931--3043092	85	1.9	84	85	6	220	37	22	26	13	1.91
3043108--3043241	42	3.2	43	77	7	139	38	19	30	11	1.88
3043108--3043255	43	3.5	43	77	6	122	39	18	30	11	1.86
3043149--3043360	106	2.0	105	80	4	239	41	17	28	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3043234--3043274	21	2.0	21	95	0	73	51	9	31	7	1.62
3042958--3043375	149	2.8	147	82	5	448	40	19	28	12	1.87
3043255--3043945	42	16.2	42	79	5	685	40	19	28	12	1.87
3043255--3043943	131	5.4	129	83	4	751	40	19	28	12	1.87
3054676--3054896	121	1.8	120	87	4	329	29	19	14	37	1.91
3054772--3058249	475	7.3	475	84	2	4230	31	19	14	34	1.92
3054772--3058243	951	3.7	948	84	2	4298	31	19	14	34	1.92
3058012--3058496	240	2.0	241	84	2	634	32	18	14	34	1.91
3059507--3061261	476	3.7	477	86	3	2329	31	18	14	35	1.91
3058255--3061443	158	20.2	157	65	14	610	31	19	14	35	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21