genome.fa.s220.2.7.7.80.10.50.1000.18.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

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

This is table  18  of  19  ( 2201 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)
3776451--3776506	28	2.0	28	100	0	112	14	17	21	46	1.84
3776878--3776929	26	2.0	26	100	0	104	26	15	7	50	1.71
3778042--3778075	16	2.1	16	94	0	59	58	0	0	41	0.98
3778625--3778694	31	2.1	31	84	12	86	61	4	0	34	1.16
3778838--3778889	18	2.8	19	78	16	56	73	3	1	21	1.10
3778958--3778998	11	3.7	11	86	0	64	70	2	0	26	0.99
3779044--3779135	26	3.5	25	76	21	91	55	0	0	44	0.99
3779068--3779145	21	3.4	22	71	15	59	58	0	0	41	0.98
3779403--3779459	13	4.5	13	78	10	64	45	0	3	50	1.18
3780054--3780121	28	2.4	29	83	9	88	38	2	0	58	1.13
3781518--3781559	2	21.0	2	100	0	84	50	0	0	50	1.00
3783747--3783787	17	2.3	18	87	4	57	65	0	0	34	0.93
3783791--3783824	14	2.5	13	86	9	50	55	0	0	44	0.99
3785905--3785954	18	2.8	18	96	0	91	44	0	0	56	0.99
3786220--3786267	2	24.0	2	100	0	96	50	0	0	50	1.00
3786393--3786446	27	2.1	24	83	10	63	44	0	1	53	1.11
3787417--3787450	7	4.9	7	85	0	50	70	0	2	26	1.01
3787725--3787775	22	2.2	23	86	6	68	41	7	1	49	1.43
3787725--3787803	25	3.3	25	84	8	85	40	7	1	50	1.39
3788127--3788152	2	13.0	2	100	0	52	50	0	0	50	1.00
3788447--3788538	23	4.0	24	75	18	81	58	0	0	41	0.98
3788451--3788544	32	2.8	34	81	12	113	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3788901--3788952	3	17.3	3	100	0	104	67	0	0	32	0.91
3792659--3792709	25	2.0	25	92	0	84	27	13	17	41	1.87
3797438--3797486	15	3.4	14	83	13	64	38	0	0	61	0.96
3797438--3797512	29	2.6	28	79	8	78	41	0	1	57	1.07
3800509--3800577	27	2.4	28	85	7	86	47	0	0	52	1.00
3800508--3800573	13	4.8	13	77	9	60	48	0	0	51	1.00
3800529--3800586	27	2.1	27	84	6	73	48	1	0	50	1.11
3801210--3801262	24	2.2	24	80	9	65	45	0	3	50	1.19
3802834--3802881	14	3.6	14	74	25	50	60	0	0	39	0.97
3802834--3802868	17	2.1	16	89	5	52	60	0	0	40	0.97
3803634--3803672	3	13.0	3	94	0	69	2	33	0	64	1.08
3810810--3810847	13	3.0	13	84	3	51	71	0	0	28	0.87
3810813--3810842	15	1.9	15	93	6	51	66	0	0	33	0.92
3812078--3812128	18	2.8	18	85	5	59	68	0	1	29	1.00
3812074--3812145	16	4.6	16	70	15	60	69	0	1	29	0.97
3815052--3815093	2	21.0	2	100	0	84	50	0	0	50	1.00
3816023--3816064	20	2.1	20	90	0	66	28	0	7	64	1.20
3816574--3816621	2	24.5	2	82	4	62	45	0	4	50	1.21
3828538--3828594	29	1.9	29	85	3	78	40	14	19	26	1.89
3829590--3829684	39	2.4	38	79	10	102	30	14	30	24	1.95
3836627--3836686	23	2.6	22	76	10	66	61	0	1	36	1.06
3838466--3838526	32	1.9	32	86	0	86	11	11	29	47	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3841524--3841549	4	6.5	4	100	0	52	46	0	0	53	1.00
3842691--3842734	20	2.2	20	84	8	54	45	0	0	54	0.99
3842754--3842795	11	3.9	11	75	6	50	23	2	0	73	0.94
3845264--3845301	2	19.5	2	94	5	69	47	0	0	52	1.00
3847362--3847401	2	20.0	2	94	0	71	47	50	2	0	1.14
3850985--3851028	23	1.9	23	85	0	61	40	0	0	59	0.98
3850988--3851020	15	2.1	16	88	11	50	42	0	0	57	0.98
3857353--3857416	28	2.6	23	74	16	65	50	0	1	48	1.10
3859485--3859534	22	2.3	22	85	0	64	42	0	2	56	1.11
3860943--3860983	2	20.5	2	100	0	82	51	0	0	48	1.00
3862334--3862402	23	3.0	22	72	17	61	60	0	1	37	1.06
3862333--3862423	38	2.2	42	81	11	109	57	0	1	41	1.06
3862364--3862429	27	2.4	29	82	12	77	54	0	0	45	0.99
3863002--3863034	14	2.4	14	94	0	57	24	0	0	75	0.80
3863308--3863335	2	14.0	2	100	0	56	0	50	0	50	1.00
3868371--3868412	21	2.0	22	85	4	59	54	0	0	45	0.99
3868418--3868485	6	12.0	6	81	10	81	32	1	0	66	1.01
3868418--3868485	17	4.0	17	83	7	75	32	1	0	66	1.01
3869372--3869408	3	12.3	3	100	0	74	32	0	0	67	0.91
3873025--3873062	16	2.4	17	86	8	53	60	0	2	36	1.11
3873129--3873168	19	2.1	19	90	9	64	70	0	0	30	0.88
3875239--3875274	2	18.0	2	88	0	54	44	0	5	50	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3875413--3875447	2	17.5	2	100	0	70	48	0	0	51	1.00
3875615--3875653	2	19.5	2	100	0	78	51	0	0	48	1.00
3877171--3877220	23	2.3	22	86	10	68	62	2	4	32	1.25
3877451--3877498	21	2.2	22	82	10	55	41	0	2	56	1.11
3878780--3878815	18	2.1	17	89	5	54	55	0	0	44	0.99
3878869--3878899	16	2.0	16	93	6	55	48	0	0	51	1.00
3878873--3878908	16	2.2	16	90	5	54	47	0	0	52	1.00
3885488--3885513	2	13.0	2	100	0	52	50	0	0	50	1.00
3886038--3886066	2	14.5	2	100	0	58	51	0	48	0	1.00
3886084--3886114	15	2.1	15	94	5	55	19	3	6	70	1.22
3886630--3886660	2	15.5	2	100	0	62	48	0	0	51	1.00
3886660--3886692	2	16.5	2	100	0	66	0	0	48	51	1.00
3886975--3887192	108	2.0	108	100	0	436	26	21	11	40	1.86
3887250--3887291	2	21.0	2	100	0	84	50	0	0	50	1.00
3887560--3887607	19	2.5	20	86	10	64	56	2	0	41	1.11
3887711--3887743	13	2.6	13	90	4	50	54	3	0	42	1.15
3887704--3887743	17	2.3	17	86	4	53	55	5	0	40	1.22
3887704--3887744	19	2.2	19	86	4	57	53	4	0	41	1.22
3888033--3888148	32	3.5	32	75	18	112	43	0	0	56	1.05
3888079--3888128	22	2.2	24	74	25	56	42	2	0	56	1.11
3888040--3888151	36	3.2	36	77	15	101	41	0	0	57	1.05
3888081--3888152	37	2.0	35	84	10	92	37	1	0	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3888613--3888652	18	2.1	20	86	9	57	50	0	2	47	1.14
3889948--3889982	18	1.9	18	100	0	70	74	2	0	22	0.95
3890615--3890672	23	2.4	25	78	16	70	46	0	1	51	1.11
3891259--3891303	20	2.3	19	80	3	54	66	0	2	31	1.04
3891250--3891326	36	2.2	34	78	14	86	59	0	1	38	1.06
3891283--3891340	14	4.5	14	75	14	54	58	0	0	41	0.98
3891302--3891355	21	2.4	23	78	6	67	53	0	0	46	1.00
3891369--3891428	26	2.2	27	82	14	70	60	0	0	40	0.97
3891371--3891415	11	4.1	11	80	11	56	62	0	0	37	0.96
3891316--3891428	8	14.5	8	69	18	53	57	0	0	42	0.98
3892618--3892682	21	3.0	20	72	18	51	56	0	1	41	1.08
3892635--3892715	23	3.5	23	73	8	58	56	0	0	43	0.99
3892894--3892939	24	2.0	23	86	4	65	54	0	0	45	0.99
3893205--3893322	58	2.0	58	98	0	227	34	3	14	47	1.61
3893449--3893485	6	6.2	6	96	0	65	37	0	13	48	1.43
3894808--3894850	2	21.0	2	85	4	59	46	4	0	48	1.22
3895272--3895372	47	2.2	46	84	10	129	37	0	0	61	1.03
3895621--3895670	21	2.3	22	83	10	68	24	2	6	68	1.23
3895628--3895662	10	3.4	10	84	7	52	22	0	2	74	0.95
3896590--3896674	28	3.0	29	76	6	86	47	2	0	50	1.14
3897756--3897801	19	2.4	18	83	16	58	80	0	17	2	0.81
3897821--3897859	19	2.1	19	86	13	55	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3898186--3898215	15	1.9	16	93	6	53	60	0	0	40	0.97
3898176--3898218	16	2.6	17	82	10	54	53	0	0	46	1.00
3899399--3899439	20	2.0	20	85	0	55	58	0	0	41	0.98
3910370--3910408	2	19.5	2	94	0	69	51	0	0	48	1.00
3912195--3912291	33	2.8	35	78	10	103	45	0	0	54	0.99
3912214--3912291	33	2.4	33	86	0	111	43	0	0	56	0.99
3912198--3912257	23	2.5	24	74	10	61	45	0	0	55	0.99
3912274--3912326	11	4.9	11	86	2	72	30	1	0	67	1.01
3912280--3912332	22	2.4	23	84	6	74	32	1	0	66	1.03
3912278--3912324	16	2.9	16	79	14	51	31	2	0	65	1.04

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