genome.fa.s4079.2.7.7.80.10.50.1000.10.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: scaffold84
Parameters: 2 7 7 80 10 50 1000
Length:  4163231

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  10  of  11  ( 1218 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)
3684515--3684607	19	5.1	19	70	12	77	47	11	10	30	1.74
3684506--3684630	54	2.3	54	94	0	223	44	14	10	31	1.79
3688467--3688550	25	3.4	24	77	8	87	27	22	23	26	2.00
3705744--3705811	16	4.2	16	96	0	127	38	38	0	23	1.55
3707446--3707479	12	2.8	12	86	0	50	44	2	0	52	1.16
3712745--3712775	16	1.9	16	93	0	53	70	9	9	9	1.33
3726232--3727056	413	2.0	412	99	0	1623	31	26	16	25	1.97
3727297--3727331	18	2.0	18	88	5	54	17	45	25	11	1.81
3730073--3730173	43	2.4	42	80	15	118	29	25	21	22	1.99
3754956--3755069	42	2.7	42	77	10	117	43	18	20	17	1.88
3754956--3755009	21	2.6	21	72	0	54	42	20	22	14	1.88
3757721--3758107	197	2.0	196	96	0	720	33	18	17	31	1.94
3763298--3763350	23	2.4	23	87	6	74	22	13	22	41	1.88
3766614--3766728	40	2.9	39	80	3	140	8	26	24	40	1.84
3766588--3766747	20	7.9	20	76	7	101	10	26	21	41	1.84
3772131--3772193	20	3.2	20	82	8	85	60	1	0	38	1.07
3772133--3772207	18	4.1	18	82	5	71	54	4	0	41	1.19
3772203--3772239	19	2.0	18	89	5	56	43	2	2	51	1.30
3772691--3772770	38	2.1	38	83	4	99	46	1	3	48	1.28
3772715--3772773	18	3.2	18	75	17	66	42	1	3	52	1.28
3776416--3776445	14	2.1	15	93	6	53	76	3	6	13	1.11
3776395--3776450	17	3.5	16	80	14	62	73	3	7	16	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3778121--3778169	25	2.0	25	100	0	98	32	6	28	32	1.82
3788071--3788108	10	3.5	11	86	13	53	63	2	0	34	1.09
3794838--3794898	29	2.1	29	100	0	122	55	8	6	29	1.54
3795013--3795057	17	2.6	17	89	0	54	33	17	17	31	1.94
3812444--3812604	45	3.6	45	82	5	155	36	27	14	21	1.92
3824154--3824211	27	2.1	27	84	6	73	22	25	13	37	1.91
3824175--3824229	27	2.0	27	82	6	67	25	23	10	40	1.87
3824299--3824425	27	4.7	27	85	2	157	29	28	14	27	1.95
3826887--3826916	10	2.9	10	95	5	51	36	13	0	50	1.42
3833627--3833665	6	6.5	6	87	0	51	58	2	25	12	1.47
3837688--3837719	6	5.7	6	85	14	50	65	0	0	34	0.93
3840209--3840461	82	3.1	82	98	0	488	28	21	13	36	1.91
3842909--3842954	20	2.3	20	85	10	60	10	21	45	21	1.82
3843216--3843279	28	2.3	28	81	2	76	39	23	10	26	1.88
3843470--3843530	25	2.3	26	86	5	79	36	0	1	62	1.05
3843735--3843815	26	3.1	26	83	3	101	20	20	23	34	1.97
3866862--3866900	20	2.0	20	90	10	62	56	5	23	15	1.59
3877718--3877758	18	2.3	18	86	0	55	12	14	9	63	1.52
3883471--3883499	14	2.0	15	93	6	51	41	3	6	48	1.47
3883618--3883654	19	1.9	19	89	10	58	43	10	24	21	1.84
3883976--3884089	61	1.9	61	87	5	171	41	2	5	50	1.38
3883976--3884110	58	2.3	59	82	13	161	40	2	6	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3887001--3887050	26	1.9	26	84	8	66	28	16	8	48	1.74
3887632--3887675	22	2.0	23	82	13	56	29	0	11	59	1.32
3891312--3891349	15	2.7	15	84	8	53	55	0	2	42	1.14
3894204--3894254	22	2.3	21	80	9	57	35	1	5	56	1.35
3903253--3903388	9	15.1	9	86	3	94	55	11	1	31	1.45
3903261--3903304	3	14.7	3	95	0	79	36	29	0	34	1.58
3903303--3903397	3	31.3	3	87	2	136	64	2	2	31	1.17
3903304--3903449	9	14.4	10	75	15	99	63	3	3	30	1.27
3912966--3913018	20	2.7	20	84	0	70	28	22	28	20	1.99
3918113--3918151	13	2.9	14	80	7	53	74	0	2	23	0.94
3920826--3920850	12	2.1	12	100	0	50	48	0	44	8	1.32
3953131--3953163	14	2.3	15	94	5	59	75	0	18	6	1.00
3953129--3953164	15	2.4	14	86	13	54	77	0	16	5	0.94
3963608--3963678	31	2.3	31	87	4	99	42	14	11	32	1.81
3964859--3965201	175	2.0	175	95	0	614	24	17	23	34	1.96
3965805--3965845	20	2.0	20	100	0	82	51	4	4	39	1.45
3970425--3970467	22	2.0	22	85	0	59	11	18	25	44	1.84
3970568--3970775	43	4.8	43	85	2	265	23	27	17	31	1.97
3972964--3973042	25	3.2	24	79	13	88	34	2	18	44	1.64
3973031--3973138	34	3.1	33	73	14	83	29	1	18	50	1.58
3972935--3973113	9	21.0	9	70	16	105	31	2	19	46	1.62
3973314--3973360	24	1.9	25	86	4	69	34	4	17	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3973327--3973403	16	4.5	16	76	19	75	31	1	19	48	1.57
3973296--3973409	9	13.2	9	67	18	64	30	2	19	47	1.63
3973327--3973390	33	1.9	33	90	0	101	31	1	18	48	1.58
3974902--3975091	84	2.3	84	88	3	301	31	21	18	28	1.97
3974910--3975116	84	2.5	84	88	3	265	30	20	17	31	1.96
3975540--3975781	82	2.9	81	80	8	286	42	24	4	28	1.73
3975544--3975874	95	3.8	85	82	10	330	41	25	3	29	1.72
3975867--3975969	15	7.1	15	72	16	74	41	35	0	22	1.54
3976118--3976812	114	6.1	114	86	5	948	28	24	22	25	2.00
3976120--3976785	224	2.9	225	88	4	959	28	24	22	25	1.99
3976120--3976785	338	2.0	341	88	3	993	28	24	22	25	1.99
3983137--3983191	27	1.9	28	89	10	85	21	32	30	14	1.93
3984267--3984309	6	7.5	6	79	10	54	23	0	0	76	0.78
3984261--3984308	22	2.2	22	84	0	60	22	2	2	72	1.05
3984271--3984305	16	2.2	16	89	0	52	22	0	0	77	0.78
3984267--3984309	22	2.0	22	90	0	68	23	0	0	76	0.78
3986800--3986824	12	2.1	12	100	0	50	44	16	8	32	1.76
4003564--4003700	50	2.7	51	85	1	186	30	27	18	23	1.97
4010516--4010570	26	2.2	26	93	3	94	43	5	18	32	1.73
4010528--4010586	26	2.3	26	88	5	84	42	5	20	32	1.74
4027388--4027429	20	2.2	18	87	8	57	42	9	0	47	1.36
4028148--4028204	24	2.4	24	82	5	62	47	12	5	35	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4028164--4028210	24	2.0	24	82	0	58	48	10	4	36	1.57
4032491--4032648	43	3.7	42	72	11	142	25	17	25	32	1.97
4035564--4035610	24	2.0	24	87	8	69	48	6	6	38	1.54
4035576--4035627	24	2.2	24	82	0	59	50	5	3	40	1.45
4038212--4038245	8	4.0	8	85	14	50	64	0	0	35	0.94
4038215--4038250	18	2.0	18	94	0	63	66	2	0	30	1.06
4048457--4048487	12	2.6	12	94	0	53	6	22	41	29	1.78
4051389--4051426	14	2.9	13	88	11	60	0	28	2	68	1.03
4052332--4052369	5	7.6	5	87	0	58	23	15	0	60	1.35
4052333--4052369	10	3.7	10	92	0	65	24	13	0	62	1.31
4053116--4053180	31	2.1	32	82	8	80	58	18	6	16	1.58
4054098--4054162	31	2.1	31	100	0	130	36	9	3	50	1.50
4054092--4054164	31	2.4	29	89	8	119	36	9	2	50	1.49
4057687--4057760	19	3.9	19	83	0	103	17	22	27	32	1.97
4057677--4057770	38	2.5	38	87	0	134	20	23	24	31	1.98
4061168--4061254	43	2.0	44	86	6	124	24	20	3	51	1.62
4064186--4064387	33	5.6	32	68	25	111	20	18	27	34	1.96
4064182--4064465	75	3.8	74	88	3	406	21	17	27	33	1.96
4071721--4071771	27	1.9	26	92	4	84	15	21	31	31	1.95
4071750--4071990	33	6.7	33	74	16	185	21	18	26	33	1.96
4071746--4071952	75	2.8	75	92	0	342	21	17	27	33	1.96
4073462--4073578	35	3.3	35	82	1	135	13	11	31	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4076062--4076103	20	2.1	20	100	0	84	19	19	35	26	1.95
4079850--4079908	15	3.9	16	78	8	61	16	13	0	69	1.19
4080368--4080445	3	25.3	3	73	12	61	30	2	2	64	1.21
4080364--4080456	10	9.1	10	72	13	66	30	3	3	63	1.26
4083370--4083395	11	2.4	11	100	0	52	57	0	0	42	0.98
4092050--4092089	9	4.4	9	87	0	53	15	2	60	22	1.47
4097769--4097873	52	2.0	52	98	0	201	38	4	20	37	1.73
4100084--4100135	25	2.1	25	92	0	86	48	9	7	34	1.65
4100179--4100210	14	2.3	14	94	0	55	37	6	25	31	1.81
4106987--4107040	22	2.5	22	90	0	81	40	24	11	24	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11