genome.fa.s55.2.7.7.80.10.50.1000.19.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  19  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)
3915253--3915302	23	2.2	23	85	3	75	68	10	6	16	1.38
3915806--3915969	47	3.6	46	76	11	167	22	21	18	37	1.94
3916184--3917364	393	3.0	392	91	1	1909	33	15	13	37	1.86
3917718--3918137	166	2.5	166	81	4	467	29	11	10	48	1.72
3918808--3918878	11	6.6	11	75	16	51	74	1	19	4	1.06
3918844--3918877	9	3.7	9	92	7	59	79	0	11	8	0.94
3918843--3918878	10	3.7	10	88	7	56	80	0	11	8	0.90
3931782--3931982	52	3.9	52	92	1	323	30	17	18	33	1.94
3931971--3931995	13	1.9	13	100	0	50	36	16	16	32	1.90
3932059--3932083	13	1.9	13	100	0	50	32	16	16	36	1.90
3932141--3932182	21	2.0	21	90	0	66	35	14	14	35	1.86
3932495--3932542	19	2.5	20	82	6	62	43	18	10	27	1.82
3932992--3933406	62	6.8	61	84	5	471	25	25	18	30	1.98
3932993--3933406	122	3.4	120	84	3	504	25	24	18	30	1.98
3933425--3935468	62	33.1	62	82	3	2216	26	23	18	31	1.97
3933425--3935468	245	8.3	248	82	4	2217	26	23	18	31	1.97
3935455--3935541	31	2.8	32	82	6	92	24	28	27	19	1.98
3935646--3935714	34	2.1	34	86	8	97	23	23	20	33	1.97
3935753--3935918	32	5.1	32	77	5	145	30	30	15	24	1.95
3935728--3935911	32	5.6	35	77	7	117	30	29	14	25	1.95
3935726--3935918	64	3.0	65	75	8	178	30	29	15	25	1.95
3935929--3936027	52	1.9	52	85	4	137	24	27	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3942775--3943257	164	2.9	162	79	5	524	36	11	12	40	1.78
3943419--3943476	3	19.3	3	100	0	116	67	0	0	32	0.91
3947884--3947908	13	1.9	13	100	0	50	32	16	16	36	1.90
3947945--3948031	42	2.1	42	97	0	165	32	17	14	35	1.90
3947945--3948011	22	3.1	22	75	16	86	31	19	13	35	1.90
3947958--3948033	20	3.7	20	78	13	91	32	14	17	35	1.90
3949548--3949588	20	2.0	20	95	0	73	56	2	4	36	1.34
3953938--3954280	61	5.6	62	75	7	263	36	14	25	22	1.93
3954395--3955145	32	24.0	31	76	10	534	22	18	29	29	1.97
3954395--3955024	63	10.1	62	78	9	500	22	18	30	28	1.97
3954395--3955093	97	7.4	95	76	11	516	21	18	30	29	1.97
3954723--3954768	24	1.9	24	95	0	83	17	21	36	23	1.94
3954444--3954929	184	2.6	180	84	7	591	22	19	29	28	1.98
3954658--3954831	87	2.0	89	82	6	212	22	19	31	26	1.98
3954629--3954863	119	2.0	121	82	6	291	22	20	30	27	1.98
3954407--3955077	129	5.3	126	78	10	473	22	18	30	28	1.97
3955118--3955817	28	24.5	28	78	8	535	23	17	31	27	1.97
3955086--3955803	143	5.0	140	79	6	624	23	18	30	27	1.97
3955086--3955779	171	4.0	168	79	8	686	23	18	30	27	1.98
3955770--3955904	32	4.3	31	76	7	94	18	19	31	30	1.96
3960206--3960312	52	2.1	52	83	0	133	32	15	22	28	1.95
3960258--3960533	62	4.5	62	76	6	233	37	15	23	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3960326--3960554	121	1.9	121	83	3	300	37	15	23	24	1.93
3960720--3961184	64	7.3	63	82	4	459	20	17	32	29	1.96
3960728--3960982	95	2.6	96	81	3	298	23	18	29	28	1.98
3960917--3961169	97	2.6	94	82	9	280	16	16	34	31	1.92
3960722--3961184	32	14.4	33	78	9	408	20	17	32	29	1.96
3961130--3961255	28	4.3	28	82	6	135	21	16	30	30	1.95
3962254--3962894	166	3.9	165	82	5	686	29	11	8	49	1.69
3968287--3968341	20	2.8	20	88	0	74	32	21	10	34	1.89
3968780--3968804	12	2.1	12	100	0	50	36	0	16	48	1.46
3978032--3978148	51	2.3	51	86	0	162	41	10	17	30	1.83
3978114--3978169	20	2.8	20	88	0	76	39	10	12	37	1.78
3978896--3979004	49	2.3	48	84	6	143	31	19	28	21	1.97
3979084--3979485	28	13.9	28	84	5	482	20	17	32	29	1.96
3979159--3979483	172	1.9	172	90	1	526	20	17	32	29	1.95
3980734--3980814	7	10.9	7	76	16	56	3	3	7	85	0.83
3980734--3980801	15	4.4	15	83	5	73	4	2	5	86	0.77
3980734--3980803	1	70.0	1	73	0	59	4	2	5	87	0.75
3980734--3980814	14	5.9	14	77	14	64	3	3	7	85	0.83
3995208--3995303	31	3.5	31	68	28	97	41	11	18	28	1.85
3995238--3995343	20	4.8	20	70	22	77	42	13	16	28	1.85
3995208--3995323	51	2.3	51	92	0	187	40	12	17	29	1.87
3995289--3995415	40	3.4	40	67	20	128	42	13	14	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3995361--3995415	20	2.8	20	85	0	74	40	12	12	34	1.82
3995239--3995426	72	2.6	72	94	0	342	42	12	16	28	1.85
3996850--3996883	17	2.0	17	94	0	59	35	20	23	20	1.96
3998367--3998396	13	2.3	13	100	0	60	36	13	16	33	1.88
3998768--3998834	33	2.0	33	88	0	98	34	11	13	40	1.81
3998788--3998812	13	1.9	13	100	0	50	36	16	16	32	1.90
3998851--3998930	21	3.8	21	100	0	160	38	17	10	33	1.83
3998917--3998941	13	1.9	13	100	0	50	32	16	16	36	1.90
3998950--3999079	52	2.5	52	91	3	201	33	19	16	31	1.94
4004513--4004551	19	2.1	19	90	0	60	23	7	17	51	1.71
4006046--4006071	2	13.0	2	100	0	52	50	0	0	50	1.00
4007486--4007521	17	2.1	17	100	0	72	52	25	5	16	1.65
4008346--4008375	13	2.3	13	100	0	60	40	6	6	46	1.56
4011267--4011298	15	2.1	15	100	0	64	50	12	25	12	1.75
4013812--4013983	88	2.0	86	85	4	229	32	25	10	31	1.89
4020357--4020426	27	2.6	27	86	0	95	20	14	37	28	1.91
4020258--4020521	122	2.2	122	88	1	395	30	11	29	28	1.92
4022711--4022786	20	3.7	20	79	6	80	40	11	15	31	1.84
4023102--4023152	25	2.0	25	92	7	86	25	7	15	50	1.71
4026303--4026361	29	2.0	29	96	0	109	28	10	1	59	1.40
4026307--4026368	29	2.1	29	90	0	97	29	11	3	56	1.50
4028070--4028648	156	3.7	154	84	4	691	39	19	17	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4028050--4028707	313	2.1	309	81	3	800	38	19	17	24	1.92
4032729--4033177	135	3.4	134	85	3	591	25	13	20	40	1.89
4032764--4033147	132	2.9	134	85	6	528	24	13	21	40	1.89
4033079--4033290	113	1.9	113	84	2	282	25	12	20	41	1.88
4034927--4034976	20	2.4	21	90	3	75	38	12	20	30	1.88
4035028--4035079	20	2.6	20	84	6	61	40	13	13	32	1.83
4035407--4035458	22	2.4	22	100	0	104	23	36	13	26	1.92
4044456--4044573	52	2.3	52	77	5	123	38	11	16	33	1.85
4044672--4044723	21	2.6	20	76	8	61	38	15	9	36	1.80
4046068--4046350	79	3.6	79	82	0	343	30	15	27	26	1.96
4046305--4046378	28	2.6	28	93	0	121	21	21	33	22	1.97
4046226--4046454	104	2.2	105	87	2	316	30	16	27	25	1.97
4046337--4046505	76	2.2	76	81	3	194	31	15	26	26	1.96
4046159--4046505	183	1.9	185	84	4	477	32	15	25	26	1.95
4046365--4046647	130	2.2	127	81	7	354	32	14	26	26	1.94
4049003--4049028	13	2.0	13	100	0	52	38	15	15	30	1.88
4048983--4049048	33	2.0	33	87	0	96	42	15	16	25	1.87
4050018--4050238	122	1.8	121	93	2	381	26	23	26	23	2.00
4050017--4050251	61	3.9	61	82	6	291	26	22	27	24	2.00
4050316--4050467	63	2.5	60	81	3	169	27	19	29	23	1.98
4050408--4050543	55	2.5	55	90	0	200	21	22	30	26	1.99
4050017--4050671	272	2.4	271	86	3	888	25	20	29	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4050621--4050752	51	2.5	52	86	7	178	21	22	26	28	1.99
4050359--4050764	205	2.0	207	86	5	570	25	19	29	25	1.99
4051730--4051792	1	63.0	1	74	0	54	3	0	9	87	0.65
4051736--4051789	6	9.5	6	84	11	62	1	0	11	87	0.63
4051730--4051792	26	2.5	26	84	7	76	3	0	9	87	0.65
4051730--4051793	17	3.9	17	79	8	69	4	0	9	85	0.72
4051730--4051792	32	1.9	32	90	3	99	3	0	9	87	0.65
4055095--4055119	13	1.9	13	100	0	50	36	16	16	32	1.90
4055075--4055144	33	2.1	33	89	0	104	34	11	14	40	1.82
4055185--4055209	13	1.9	13	100	0	50	32	16	16	36	1.90

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