genome.fa.s228.2.7.7.80.10.50.1000.23.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   

This is table  23  of  27  ( 3133 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)
3517266--3517339	16	4.5	16	75	12	53	44	6	10	37	1.66
3518097--3518135	18	2.2	18	85	0	51	30	20	10	38	1.86
3519608--3519669	16	3.9	16	82	0	70	40	4	9	45	1.58
3519665--3519712	19	2.6	19	86	3	62	54	2	2	41	1.24
3519665--3519712	18	2.6	19	87	9	64	54	2	2	41	1.24
3519604--3519729	16	7.4	17	72	16	64	46	4	6	42	1.50
3520151--3520184	13	2.7	13	90	4	52	64	0	5	29	1.17
3521646--3521685	2	20.0	2	100	0	80	50	0	0	50	1.00
3521854--3521891	19	2.0	19	94	0	67	23	10	18	47	1.79
3525790--3525925	68	2.0	68	92	0	227	32	15	22	30	1.95
3528465--3528666	73	2.8	72	87	3	273	38	14	21	25	1.91
3528464--3528701	73	3.2	72	84	7	271	38	13	21	26	1.90
3528636--3528753	51	2.3	51	91	0	191	35	11	25	27	1.90
3528684--3528950	78	3.4	78	77	5	263	35	12	24	28	1.91
3528684--3528894	80	2.7	79	79	5	221	36	11	22	29	1.89
3531356--3531395	20	2.0	20	95	0	71	30	17	10	42	1.82
3531436--3531487	20	2.5	20	75	9	52	32	15	9	42	1.79
3532758--3532822	21	3.2	20	78	10	69	72	10	13	3	1.23
3532755--3532836	17	4.4	17	77	11	65	74	8	10	6	1.22
3534165--3534354	28	7.0	28	74	9	133	31	29	16	22	1.96
3534365--3534464	28	3.6	27	74	6	92	30	32	18	20	1.96
3540350--3540393	22	2.0	23	90	4	72	70	2	0	27	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3543760--3543812	27	2.0	27	92	0	88	50	0	0	49	1.00
3543754--3543820	27	3.0	21	74	25	66	46	0	0	53	1.00
3543794--3543842	9	5.0	9	79	16	53	38	2	0	59	1.09
3543754--3543849	21	4.9	20	68	17	76	44	1	0	54	1.07
3548944--3549263	72	4.5	72	90	1	466	43	20	5	30	1.76
3549037--3549225	33	5.4	33	66	14	99	43	20	4	31	1.73
3549523--3549581	27	2.2	27	90	6	93	30	1	40	27	1.66
3554582--3554648	32	2.1	31	81	13	75	52	13	1	32	1.50
3554747--3554796	21	2.4	21	83	10	66	72	2	2	24	1.06
3556808--3556841	2	17.0	2	100	0	68	50	0	0	50	1.00
3557154--3557212	25	2.4	24	80	5	64	35	0	1	62	1.05
3564031--3564210	28	6.7	26	74	11	130	31	29	16	23	1.96
3564031--3564210	54	3.3	53	75	9	159	31	29	16	23	1.96
3564214--3564292	28	2.8	28	82	3	97	35	34	15	15	1.89
3564062--3564264	82	2.5	81	80	4	235	32	30	15	21	1.94
3564231--3564314	28	3.0	29	81	10	77	33	32	17	16	1.93
3564638--3564664	4	6.8	4	100	0	54	77	0	0	22	0.76
3580089--3580246	63	2.5	63	87	3	210	29	20	17	31	1.96
3580261--3580666	62	6.7	61	76	9	187	32	23	17	26	1.97
3580247--3580666	61	7.0	60	76	5	382	31	23	17	27	1.97
3580250--3580703	179	2.5	178	76	10	451	30	24	17	27	1.97
3580675--3580793	32	3.7	32	78	6	125	29	31	15	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3580809--3581015	52	4.0	51	79	4	218	22	27	17	32	1.96
3582438--3582478	13	3.3	13	76	13	50	19	2	0	78	0.87
3589130--3589168	3	12.7	3	84	15	53	69	2	0	28	1.02
3589355--3589407	27	2.0	27	85	7	72	66	5	3	24	1.31
3589583--3589621	20	2.0	20	100	0	78	53	10	10	25	1.66
3590038--3590602	284	2.0	282	88	3	839	43	6	8	41	1.61
3591309--3591356	24	2.0	24	88	8	71	29	16	14	39	1.88
3593051--3593102	23	2.1	26	86	10	74	55	0	1	42	1.10
3593061--3593129	26	2.7	25	77	16	63	57	0	0	42	0.98
3593342--3593406	19	3.1	21	74	14	64	36	0	4	58	1.19
3593502--3593550	9	5.2	9	79	15	55	34	0	0	65	0.93
3593513--3593555	20	2.1	21	91	8	72	39	0	0	60	0.97
3598178--3598202	13	1.9	13	100	0	50	64	0	8	28	1.22
3599189--3599258	37	2.0	36	83	13	92	45	2	1	50	1.25
3599211--3599274	33	1.9	33	84	6	85	46	3	1	48	1.27
3600564--3600688	43	2.9	43	95	0	214	25	14	24	36	1.93
3603120--3603149	16	1.9	16	93	6	53	26	0	0	73	0.84
3603133--3603460	119	2.7	119	90	5	489	41	2	1	54	1.25
3603051--3603492	119	3.7	119	80	13	421	40	2	1	54	1.25
3605879--3605916	2	19.0	2	100	0	76	50	0	0	50	1.00
3611363--3612018	344	1.9	343	90	1	1046	28	18	21	32	1.97
3616709--3617130	67	6.3	68	70	8	240	26	23	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3616738--3617131	133	3.0	133	76	5	357	26	24	13	35	1.93
3618055--3618131	20	3.8	20	82	0	109	31	12	12	42	1.81
3621472--3621539	29	2.3	29	82	0	73	32	13	14	39	1.85
3622312--3622442	6	20.0	7	67	20	70	41	1	0	57	1.08
3622339--3622479	17	7.6	18	68	21	78	36	2	0	60	1.14
3622313--3622457	39	3.8	38	75	14	122	41	1	0	57	1.07
3622390--3622464	11	6.5	12	76	16	70	34	2	0	62	1.09
3622614--3622644	6	5.2	6	100	0	62	32	0	0	67	0.91
3623533--3623557	2	12.5	2	100	0	50	48	0	0	52	1.00
3623982--3624017	3	12.0	3	100	0	72	0	33	0	66	0.92
3630153--3630346	97	2.0	98	88	4	293	36	11	4	46	1.61
3632150--3632199	26	2.0	26	84	7	68	66	0	6	28	1.15
3632681--3632721	17	2.5	17	81	14	50	41	4	0	53	1.22
3632681--3632724	16	2.6	17	83	13	56	40	4	0	54	1.21
3633252--3633313	16	3.9	16	87	4	81	37	1	3	58	1.24
3635641--3635694	28	1.9	28	88	7	83	31	16	27	24	1.96
3635573--3635773	76	2.6	78	81	5	212	27	15	30	25	1.96
3635731--3635804	28	2.6	28	84	0	85	24	17	32	25	1.97
3635788--3635957	52	3.3	50	79	11	182	32	12	24	29	1.93
3635931--3636012	27	3.0	28	82	10	98	26	21	29	21	1.99
3638435--3638460	13	2.0	13	100	0	52	38	15	15	30	1.88
3638414--3638479	33	2.0	33	87	0	96	42	16	15	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3638500--3638567	19	3.9	18	76	23	83	38	14	11	35	1.83
3638522--3638546	13	1.9	13	100	0	50	32	16	16	36	1.90
3638503--3638565	32	2.0	32	96	0	117	36	15	12	34	1.86
3638653--3638692	19	2.1	19	100	0	80	15	5	0	80	0.88
3640144--3640197	15	3.9	14	76	9	56	66	0	1	31	1.02
3641962--3642014	13	4.5	13	75	22	55	35	15	13	35	1.86
3641962--3642030	33	2.1	33	86	5	95	34	18	13	33	1.90
3642075--3642114	19	2.1	19	95	0	71	35	12	22	30	1.91
3642099--3642130	13	2.5	13	94	0	55	40	12	15	31	1.85
3644722--3644760	20	1.9	21	94	5	71	33	17	12	35	1.88
3652078--3652104	3	9.0	3	100	0	54	66	0	0	33	0.92
3653075--3653116	5	8.4	5	100	0	84	19	0	0	80	0.70
3654383--3654414	5	6.4	5	100	0	64	40	0	0	59	0.97
3654581--3654617	4	9.2	4	100	0	74	27	0	0	72	0.84
3656132--3656164	2	16.5	2	100	0	66	51	0	0	48	1.00
3656548--3656598	17	2.9	17	77	11	50	64	0	1	33	1.05
3656659--3656698	20	2.0	21	95	5	73	30	0	5	65	1.14
3656823--3656864	2	21.0	2	100	0	84	50	0	0	50	1.00
3657132--3657169	20	2.0	20	89	5	60	52	0	0	47	1.00
3657153--3657330	82	2.1	82	81	8	200	53	2	4	39	1.34
3657416--3657441	2	13.0	2	100	0	52	50	0	0	50	1.00
3658163--3658213	26	1.9	27	88	4	77	29	15	23	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3667555--3667595	13	3.1	13	83	16	57	56	0	0	43	0.99
3668293--3668327	2	17.5	2	100	0	70	48	0	0	51	1.00
3670034--3670064	2	15.5	2	100	0	62	48	0	0	51	1.00
3670147--3670180	16	2.1	17	88	5	52	29	0	5	64	1.17
3670436--3670467	15	2.1	16	94	5	57	40	0	0	59	0.97
3670720--3670764	16	2.7	17	82	3	56	60	4	2	33	1.29
3671548--3671603	16	3.5	16	80	7	69	50	3	0	46	1.19
3685507--3685536	3	10.0	3	92	0	51	30	3	0	66	1.07
3685758--3685853	28	3.3	31	77	14	96	52	0	0	47	1.00
3685997--3686032	3	12.0	3	100	0	72	33	0	0	66	0.92

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