genome.fa.s247.2.7.7.80.10.50.1000.26.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  26  of  29  ( 3470 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)
4056989--4057027	20	2.0	19	95	5	69	35	23	10	30	1.88
4057037--4057061	13	1.9	13	100	0	50	32	16	16	36	1.90
4060052--4060120	32	2.2	32	94	5	122	23	30	20	26	1.98
4060062--4060133	32	2.2	32	92	0	117	22	29	23	25	1.99
4060059--4060246	33	5.8	33	80	5	156	23	27	19	29	1.98
4060363--4060671	52	5.9	51	74	4	224	25	24	15	34	1.95
4060361--4060598	104	2.3	104	78	5	250	26	23	15	33	1.95
4061346--4061399	20	2.6	21	88	2	74	38	11	16	33	1.84
4065698--4065737	19	2.1	19	85	0	53	12	10	7	70	1.35
4073724--4074136	221	1.9	221	96	0	772	30	21	19	27	1.98
4075464--4075550	1	87.0	1	76	0	84	88	8	1	2	0.65
4075465--4075550	9	9.6	9	85	9	113	88	8	1	2	0.65
4075465--4075550	26	3.3	26	87	9	122	88	8	1	2	0.65
4075466--4075550	17	4.8	17	87	9	116	88	8	1	2	0.66
4076735--4077588	28	30.2	28	83	5	945	28	29	17	24	1.97
4076739--4077588	57	15.0	57	83	6	957	28	29	17	23	1.97
4077398--4077434	19	1.9	19	100	0	74	27	32	24	16	1.96
4077343--4077489	75	1.9	76	88	1	224	28	28	19	23	1.98
4077317--4077507	104	1.8	104	85	4	269	29	28	17	24	1.98
4078466--4078570	20	4.7	20	70	22	84	28	15	13	42	1.84
4081335--4081391	13	3.9	13	74	24	51	33	14	19	33	1.91
4081315--4081412	32	3.0	32	95	1	169	33	12	18	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4081313--4081410	19	5.8	18	69	28	81	32	12	18	36	1.88
4081432--4081456	13	1.9	13	100	0	50	32	16	16	36	1.90
4081315--4081476	32	5.0	31	77	8	137	35	14	16	33	1.89
4082946--4082997	19	2.7	20	84	6	70	40	15	15	28	1.88
4083030--4083067	18	2.1	19	95	5	69	42	15	10	31	1.81
4085195--4085244	21	2.3	21	80	10	57	56	4	18	22	1.58
4087042--4087072	15	2.1	15	93	0	53	48	16	22	12	1.80
4089152--4089215	13	4.9	13	90	0	101	34	17	15	32	1.91
4089152--4089215	26	2.5	26	97	0	119	34	17	15	32	1.91
4091751--4091802	19	2.7	20	87	6	79	42	15	13	28	1.85
4098096--4098133	20	1.9	20	94	0	67	39	2	18	39	1.65
4101199--4101237	18	2.2	18	100	0	78	53	10	0	35	1.35
4104395--4104420	13	2.0	13	100	0	52	30	15	15	38	1.88
4110295--4110329	13	2.7	13	100	0	70	20	17	14	48	1.81
4110625--4110690	13	5.1	13	84	0	87	34	18	10	36	1.85
4110626--4110690	26	2.5	26	92	0	103	35	18	10	35	1.86
4113197--4113223	13	2.1	13	100	0	54	29	14	14	40	1.86
4113209--4113264	19	2.9	19	89	5	85	33	12	17	35	1.88
4113209--4113263	20	2.8	20	91	2	85	32	12	18	36	1.88
4118530--4118564	3	11.7	3	100	0	70	68	0	0	31	0.90
4119364--4119399	6	6.0	6	93	0	63	36	16	33	13	1.89
4120310--4120349	18	2.2	19	86	4	55	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4120528--4120588	27	2.2	27	85	8	79	44	11	0	44	1.40
4120527--4120587	28	2.2	28	82	5	79	44	11	0	44	1.40
4121590--4121640	24	2.2	22	83	13	59	56	0	0	43	0.99
4122716--4122745	11	2.6	12	94	5	53	26	6	10	56	1.57
4125519--4125575	20	2.8	20	83	2	69	43	8	12	35	1.73
4125503--4125575	21	3.5	20	78	10	76	43	9	13	32	1.77
4125612--4125749	52	2.7	52	85	4	181	28	14	11	44	1.80
4129955--4130025	20	3.5	20	78	0	88	33	11	12	42	1.79
4129955--4130032	40	2.0	39	92	2	129	33	11	12	42	1.79
4134276--4134318	20	2.2	20	86	0	59	11	9	6	72	1.29
4141740--4141769	15	1.9	16	93	6	53	10	30	33	26	1.89
4143999--4144038	10	4.0	10	90	9	64	80	17	2	0	0.83
4144000--4144038	19	2.0	20	95	5	71	82	15	2	0	0.79
4145260--4146052	28	27.5	29	85	6	999	28	31	16	23	1.96
4145257--4146052	57	13.8	57	86	5	1003	28	31	16	23	1.96
4146628--4146702	20	3.8	20	80	0	96	33	13	12	41	1.81
4146628--4146705	40	2.0	39	89	2	120	33	12	12	41	1.82
4151940--4152337	80	5.0	79	77	7	281	28	29	11	30	1.92
4157184--4157928	49	15.9	48	82	9	741	30	17	26	24	1.97
4157237--4157928	92	7.5	90	84	8	685	30	17	26	25	1.98
4157939--4158065	33	3.9	32	81	5	148	22	19	29	29	1.98
4157939--4158060	65	1.9	65	92	0	208	19	20	29	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4158099--4158330	27	7.9	27	74	18	187	29	13	37	19	1.90
4158126--4158314	34	6.0	34	75	16	199	31	12	36	19	1.89
4158079--4158334	61	4.2	61	96	1	471	29	12	37	20	1.90
4158323--4158458	62	2.2	61	92	2	220	27	13	29	28	1.95
4158323--4158458	30	4.5	29	84	10	166	27	13	29	28	1.95
4166688--4166815	52	2.5	52	88	1	186	25	16	18	39	1.91
4166688--4166835	52	2.9	52	85	3	165	27	16	18	37	1.92
4166824--4166848	13	1.9	13	100	0	50	36	16	16	32	1.90
4166890--4166952	19	3.7	18	76	24	73	36	14	14	34	1.86
4166892--4166954	32	2.0	32	96	0	117	36	15	14	33	1.88
4170807--4170947	52	2.7	52	83	5	178	43	12	13	29	1.81
4170986--4171038	20	2.6	21	84	6	72	35	16	7	39	1.78
4171003--4171057	20	2.7	20	94	2	92	34	18	7	40	1.78
4172098--4172152	19	2.8	20	86	2	76	30	16	18	34	1.93
4180007--4180031	13	1.9	13	100	0	50	36	16	16	32	1.90
4180094--4180118	13	1.9	13	100	0	50	32	16	16	36	1.90
4180950--4181161	52	4.2	52	76	12	208	33	16	25	24	1.96
4181057--4181146	43	2.1	43	93	0	153	31	17	24	26	1.97
4181150--4181409	30	9.0	29	84	5	269	23	17	28	31	1.97
4181152--4181413	58	4.5	58	83	5	307	23	17	28	31	1.97
4181152--4181415	88	3.1	87	87	2	354	23	17	28	31	1.96
4182849--4182956	1	108.0	1	75	0	63	2	3	9	84	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4182849--4182918	24	2.8	24	82	10	79	2	2	8	85	0.79
4182849--4182955	32	3.4	30	72	19	83	2	3	9	84	0.85
4182850--4182956	29	3.8	28	81	6	90	2	3	9	84	0.85
4192644--4192670	10	2.7	10	100	0	54	77	22	0	0	0.76
4196905--4196929	13	1.9	13	100	0	50	36	16	16	32	1.90
4196992--4197016	13	1.9	13	100	0	50	32	16	16	36	1.90
4199088--4199144	19	2.9	19	84	2	69	29	14	19	36	1.91
4200014--4200078	16	4.2	16	72	21	66	47	1	4	46	1.32
4199993--4200042	23	2.2	23	81	0	55	42	4	6	48	1.46
4200142--4200200	31	1.9	31	85	0	82	35	25	18	20	1.95
4200478--4200634	55	2.9	55	83	1	181	22	21	19	36	1.95
4206830--4206902	20	3.6	20	81	3	101	35	13	19	31	1.91
4206848--4206923	21	3.7	21	80	3	100	42	11	17	28	1.84
4206830--4206923	41	2.3	41	98	0	179	39	12	18	29	1.88
4206962--4206987	13	2.0	13	100	0	52	38	15	15	30	1.88
4211049--4211079	15	2.1	15	93	0	53	48	16	22	12	1.80
4213093--4213171	20	3.7	21	75	15	72	26	13	15	44	1.84
4213158--4213196	13	3.0	13	96	0	69	30	17	15	35	1.91
4214989--4215050	32	1.9	32	100	0	124	25	3	25	45	1.69
4215671--4215743	20	3.6	20	77	3	92	36	13	17	31	1.89
4215689--4215764	21	3.7	21	78	3	91	43	11	15	28	1.83
4215671--4215764	41	2.3	41	96	0	170	40	12	17	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4215803--4215828	13	2.0	13	100	0	52	38	15	15	30	1.88
4216622--4216661	20	2.1	19	86	9	55	47	0	0	52	1.00
4217189--4217319	43	3.0	43	83	6	151	52	3	5	38	1.40
4217409--4217450	18	2.4	18	88	4	59	57	0	0	42	0.99
4217410--4217450	19	2.2	19	86	4	57	58	0	0	41	0.98
4218868--4219184	163	1.9	164	84	6	421	30	10	10	48	1.71
4219675--4219708	13	2.5	13	90	4	50	85	0	14	0	0.60
4219677--4219718	21	2.0	21	85	0	57	83	0	16	0	0.65
4228172--4228214	22	1.9	23	85	4	61	32	9	4	53	1.53
4233357--4233513	79	2.0	79	89	2	244	26	24	14	35	1.93

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