genome.fa.s2294.2.7.7.80.10.50.1000.13.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: scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  4312818

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  13  of  14  ( 1587 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)
4034266--4034326	14	4.4	14	76	17	56	19	1	26	52	1.55
4034312--4034369	21	3.0	20	76	16	59	13	0	32	53	1.40
4040128--4040259	71	1.9	71	100	0	264	40	18	17	23	1.91
4040503--4040535	14	2.3	15	89	5	50	27	12	33	27	1.92
4041877--4042624	88	8.5	88	92	0	1208	27	27	24	19	1.99
4042625--4042723	44	2.2	44	84	7	121	25	20	24	30	1.99
4042709--4043525	44	18.9	43	68	14	310	30	20	22	27	1.98
4042706--4043208	172	2.9	172	96	0	898	29	20	22	27	1.98
4042882--4043426	128	4.2	126	70	13	399	29	20	22	28	1.98
4042706--4043307	172	3.5	172	92	2	888	30	20	21	27	1.98
4043055--4043468	217	1.9	218	88	2	627	29	20	21	28	1.98
4043993--4044185	19	9.9	19	82	3	233	39	7	13	39	1.73
4043993--4044162	38	4.5	38	97	0	313	40	8	12	38	1.74
4044256--4044397	27	5.3	27	86	1	169	19	17	21	41	1.90
4047015--4047097	43	1.9	43	83	9	107	33	26	20	19	1.96
4048287--4048347	23	2.6	24	84	5	88	39	32	11	16	1.84
4052003--4052030	13	2.2	13	100	0	56	21	7	0	71	1.09
4052186--4052211	13	2.0	13	100	0	52	23	0	0	76	0.78
4053240--4053270	9	3.4	9	90	0	53	38	22	12	25	1.90
4059528--4059727	45	4.5	45	79	1	179	33	26	16	24	1.96
4059565--4059729	90	1.8	90	85	0	231	33	24	16	25	1.96
4066603--4066692	45	2.0	45	86	4	128	34	25	14	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4069366--4069418	25	2.1	25	85	0	70	35	11	24	28	1.90
4070510--4070554	23	2.0	23	95	0	81	24	15	8	51	1.72
4071742--4071801	30	2.0	30	84	12	79	33	23	16	26	1.96
4073011--4073121	6	18.0	6	71	5	69	69	2	22	5	1.22
4072998--4073027	15	1.9	16	93	6	53	80	0	16	3	0.85
4073011--4073070	24	2.5	24	86	5	86	73	1	21	3	1.07
4072999--4073121	18	6.8	18	69	14	76	69	2	21	5	1.21
4073109--4073143	18	1.9	18	88	11	54	57	0	20	22	1.41
4079208--4079389	25	7.3	25	76	2	159	35	17	14	32	1.90
4079208--4079402	50	3.9	51	80	5	220	35	17	14	31	1.90
4079209--4079391	100	1.8	100	84	2	251	35	18	14	32	1.90
4081313--4081377	32	2.0	32	100	0	130	23	18	27	30	1.97
4081320--4081392	32	2.6	27	85	12	85	23	21	27	27	1.99
4087269--4087335	35	1.9	35	84	0	89	26	29	23	19	1.98
4090619--4090684	33	2.0	33	100	0	132	12	24	21	42	1.86
4093567--4093603	11	3.4	11	92	0	56	21	5	43	29	1.75
4099270--4099344	39	1.9	39	86	5	107	16	25	18	40	1.91
4101075--4101109	17	2.1	17	89	5	54	54	14	0	31	1.40
4104392--4104469	41	1.9	41	83	0	102	47	24	10	17	1.79
4110468--4110493	8	3.2	8	100	0	52	11	73	15	0	1.11
4112039--4112109	35	2.0	35	86	0	97	26	21	12	39	1.89
4117124--4117212	25	3.6	25	73	13	85	33	29	14	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4117124--4117242	50	2.4	50	88	2	168	35	26	14	23	1.93
4119076--4119143	26	2.7	25	82	6	93	35	25	16	23	1.95
4121419--4121461	20	2.2	20	95	0	77	25	9	13	51	1.71
4124361--4124462	50	2.0	50	96	0	186	15	32	15	36	1.90
4129524--4129591	21	3.3	21	70	12	59	32	16	30	20	1.94
4129525--4129667	41	3.5	41	85	0	196	37	14	26	21	1.92
4131948--4132039	46	2.0	46	80	4	105	50	21	4	23	1.67
4132518--4132590	28	2.6	28	86	2	101	35	4	36	23	1.74
4133548--4133610	28	2.2	28	91	0	99	38	1	36	23	1.65
4135088--4135151	26	2.5	26	89	5	94	34	14	17	34	1.89
4153437--4153554	9	13.6	9	70	13	70	33	1	16	47	1.57
4153425--4153493	36	2.0	34	88	5	102	34	1	17	46	1.57
4153425--4153532	18	6.2	17	68	14	67	35	1	15	47	1.57
4153437--4153555	52	2.3	52	94	2	204	34	1	16	47	1.57
4155230--4155285	29	1.9	29	82	13	71	50	8	1	39	1.44
4155882--4155935	24	2.2	25	86	3	74	24	14	46	14	1.83
4158509--4158536	14	2.0	14	100	0	56	21	35	14	28	1.92
4158673--4158718	6	7.5	6	83	13	58	76	0	2	21	0.90
4164541--4164586	15	3.1	15	87	9	60	52	30	2	15	1.55
4164522--4164614	7	13.0	7	75	4	60	48	30	1	20	1.57
4164556--4164614	21	2.8	21	87	5	75	50	27	0	22	1.49
4164522--4164614	14	6.5	14	76	8	71	48	30	1	20	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4164816--4165044	124	1.8	124	90	0	368	31	21	16	31	1.95
4164947--4165126	86	2.1	86	90	0	279	30	21	17	31	1.96
4164823--4165250	210	2.0	210	87	1	608	31	19	17	31	1.95
4165033--4165344	124	2.5	123	84	1	408	31	18	18	32	1.95
4178065--4178256	44	4.4	43	68	11	138	28	17	26	27	1.98
4178025--4178629	132	4.6	131	91	2	934	27	19	25	27	1.98
4178025--4178629	262	2.3	262	90	4	959	27	19	25	27	1.98
4178973--4180466	132	11.3	131	87	3	1966	28	18	24	28	1.98
4181928--4181993	3	21.3	3	73	17	55	34	0	3	62	1.11
4181928--4181993	7	10.7	6	73	16	55	34	0	3	62	1.11
4183188--4183231	22	2.1	21	83	8	54	40	0	2	56	1.11
4186844--4186893	22	2.3	22	92	0	82	4	12	14	70	1.31
4187405--4187454	22	2.3	20	77	12	55	20	2	12	66	1.34
4187706--4187756	26	2.0	25	88	7	75	60	7	5	25	1.47
4191128--4191194	20	3.4	19	80	10	80	35	19	28	16	1.93
4193571--4193596	5	5.2	5	100	0	52	80	0	0	19	0.71
4194503--4194688	83	2.4	79	85	8	247	27	13	16	41	1.87
4194545--4194718	83	2.1	82	79	6	181	27	12	12	47	1.78
4195253--4195301	20	2.4	20	80	13	55	46	0	8	44	1.33
4195263--4195300	20	1.9	20	89	10	60	52	0	5	42	1.24
4195534--4195558	12	2.1	12	100	0	50	92	0	8	0	0.40
4195627--4195661	9	3.8	9	85	7	52	77	5	2	14	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4199167--4199226	20	2.8	24	79	20	64	8	21	3	66	1.33
4199189--4199226	20	1.9	20	100	0	76	10	21	5	63	1.46
4199360--4199477	21	5.7	21	91	2	186	39	11	8	39	1.72
4199337--4199471	42	3.2	42	91	6	204	40	13	7	38	1.72
4199681--4199765	44	1.9	44	85	4	118	28	24	17	29	1.97
4199799--4200115	44	7.2	44	64	12	157	24	23	20	31	1.98
4199763--4200160	132	3.0	132	94	1	690	24	23	20	31	1.98
4200078--4200389	88	3.6	88	85	3	220	23	22	24	29	1.99
4200234--4200377	44	3.3	44	66	7	121	20	22	31	25	1.98
4207772--4207825	22	2.5	22	90	6	83	7	24	5	62	1.42
4207959--4208055	21	4.7	21	92	2	153	39	11	9	40	1.73
4208362--4208413	13	3.9	13	85	5	52	73	1	1	23	1.04
4208359--4208412	22	2.5	22	82	8	74	72	1	1	24	1.05
4210186--4210258	33	2.2	33	85	0	92	15	10	34	39	1.82
4219178--4219419	50	4.7	50	82	6	238	27	21	27	23	1.99
4219622--4219660	20	2.0	20	90	10	62	56	5	23	15	1.59
4234940--4235063	30	4.2	28	86	5	97	41	25	12	20	1.88
4234961--4235070	30	3.7	30	93	0	184	39	27	10	22	1.88
4235179--4235329	55	2.7	54	80	8	171	25	26	15	32	1.95
4235999--4236068	34	2.1	34	91	0	113	31	20	24	24	1.98
4238601--4238654	28	2.0	27	85	10	74	20	27	20	31	1.97
4239922--4239970	18	2.6	18	83	6	53	38	18	18	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4240704--4240756	27	2.0	27	100	0	106	20	11	7	60	1.55
4240861--4240885	8	3.1	8	100	0	50	60	0	0	40	0.97
4241092--4241127	17	2.1	17	100	0	72	36	5	5	52	1.48
4244550--4245139	37	15.9	37	99	0	1153	34	5	13	46	1.65
4245140--4245268	9	13.6	9	81	11	132	21	6	31	39	1.80
4245140--4245270	20	6.8	20	86	6	164	21	6	31	40	1.79
4245140--4245268	29	4.5	28	79	12	120	21	6	31	39	1.80
4248443--4248467	9	2.8	9	100	0	50	56	0	0	44	0.99
4256467--4256533	10	6.7	10	71	23	52	70	4	0	25	1.06
4256601--4256657	21	2.8	20	79	15	64	28	5	1	64	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14