genome.fa.s57.2.7.7.80.10.50.1000.22.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  22  of  27  ( 3137 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)
3071432--3071470	20	2.0	20	89	0	60	66	0	2	30	1.05
3071504--3071541	19	2.1	17	90	9	58	63	0	0	36	0.95
3073303--3073327	13	1.9	13	100	0	50	72	4	0	24	1.02
3073599--3073630	2	16.0	2	100	0	64	50	0	0	50	1.00
3073827--3073858	13	2.4	14	90	10	50	37	0	0	62	0.95
3077866--3078811	72	13.1	72	83	4	912	15	31	9	43	1.79
3080338--3080380	16	2.8	16	85	3	61	60	0	0	39	0.97
3081669--3081709	21	2.0	20	85	4	55	34	0	0	65	0.93
3081871--3081901	7	4.4	7	100	0	62	38	0	0	61	0.96
3083012--3083058	22	2.1	22	88	7	69	38	2	0	59	1.09
3083395--3083436	2	21.0	2	95	0	75	47	0	0	52	1.00
3084644--3084687	22	2.0	22	82	8	54	38	6	2	52	1.41
3090286--3094681	549	8.0	548	92	1	6580	22	25	14	38	1.92
3098548--3098585	2	19.0	2	94	0	67	47	0	52	0	1.00
3099167--3099201	17	2.0	18	88	5	54	42	5	11	40	1.65
3099537--3099840	153	2.0	153	92	1	502	17	33	13	36	1.88
3112857--3112889	2	16.5	2	100	0	66	51	0	0	48	1.00
3114102--3114182	28	3.0	27	72	18	80	54	0	0	45	0.99
3114113--3114164	23	2.2	25	89	6	81	51	0	0	48	1.00
3114088--3114175	25	3.5	24	70	22	65	51	0	0	48	1.00
3114121--3114207	29	3.4	25	77	16	70	58	1	0	40	1.05
3114385--3114444	22	3.0	21	81	16	65	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115621--3115692	32	2.2	33	87	7	103	56	0	0	43	0.99
3115615--3115698	40	2.1	40	84	10	109	58	0	0	41	0.98
3115640--3115717	32	2.6	28	82	8	75	51	0	0	48	1.00
3115660--3115724	28	2.4	27	81	2	76	49	0	0	50	1.00
3116087--3116152	19	3.4	18	76	17	62	34	0	1	63	1.04
3116105--3116148	11	3.9	11	82	14	54	36	0	0	63	0.95
3116144--3116227	32	2.6	33	81	9	95	44	0	1	54	1.07
3116204--3116255	11	4.8	11	75	11	54	30	0	1	67	1.02
3116164--3116252	16	5.4	16	73	17	58	39	0	1	59	1.05
3116198--3116253	28	2.0	28	82	6	69	30	0	1	67	1.01
3116212--3116259	21	2.1	24	85	11	66	29	0	4	66	1.10
3116464--3116506	18	2.4	19	85	11	56	30	0	0	69	0.88
3116998--3117067	24	3.0	23	76	18	72	44	0	2	52	1.15
3119241--3119284	12	3.8	12	77	17	56	27	0	0	72	0.85
3122317--3122357	4	10.0	4	97	2	73	24	0	0	75	0.80
3122448--3122524	6	13.2	6	70	15	54	42	0	0	57	0.99
3122466--3122518	19	2.9	18	80	11	63	47	0	0	52	1.00
3122625--3122668	22	2.0	22	86	8	63	50	2	0	47	1.13
3122714--3122757	21	2.0	21	87	12	63	65	0	0	34	0.93
3122695--3122757	32	2.0	30	85	11	83	61	0	0	38	0.96
3126197--3126230	13	2.6	13	100	0	68	70	0	0	29	0.87
3126197--3126230	7	5.1	7	86	13	54	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127076--3127169	21	4.6	20	69	22	61	38	0	0	61	0.96
3127132--3127176	17	2.9	15	78	12	54	40	0	0	60	0.97
3128382--3128418	3	12.3	3	100	0	74	64	0	0	35	0.94
3128685--3128721	15	2.4	16	82	13	51	48	2	0	48	1.15
3134606--3134667	31	2.0	31	100	0	124	45	12	6	35	1.68
3139398--3139462	5	13.0	5	78	18	73	38	0	1	60	1.07
3139404--3139461	14	3.9	14	81	16	64	39	0	0	60	0.97
3139398--3139462	19	3.5	19	82	14	82	38	0	1	60	1.07
3139479--3139523	21	2.1	21	84	8	56	37	2	0	60	1.09
3139441--3139549	52	2.1	52	81	10	134	44	0	0	55	1.06
3140237--3140346	33	3.5	33	72	19	99	46	2	2	48	1.31
3140226--3140346	32	3.8	32	73	14	90	45	3	3	47	1.35
3140302--3140361	30	2.0	30	84	15	79	43	1	1	53	1.20
3141869--3141924	14	4.1	14	75	9	53	35	17	16	30	1.92
3142219--3142311	13	7.2	13	68	13	66	31	17	21	30	1.96
3142217--3142330	39	2.9	39	81	10	135	30	18	21	28	1.97
3142278--3142387	13	8.7	12	68	10	58	27	16	25	30	1.96
3142217--3142389	26	6.7	26	70	12	108	28	16	23	31	1.96
3144443--3144471	2	14.5	2	100	0	58	48	0	0	51	1.00
3147172--3147287	61	1.9	61	94	0	205	30	23	24	22	1.99
3149028--3149058	15	2.1	15	93	0	53	29	9	25	35	1.88
3150718--3150775	26	2.4	25	81	16	68	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3150761--3150821	14	4.3	15	72	17	51	60	0	0	39	0.97
3150762--3150821	21	2.9	20	79	20	70	61	0	0	38	0.96
3150773--3150815	19	2.3	18	81	14	52	62	0	0	37	0.95
3150816--3150886	27	2.7	25	82	8	70	59	0	0	40	0.98
3150959--3150996	2	19.0	2	100	0	76	50	0	0	50	1.00
3151190--3151257	35	2.0	32	83	8	82	54	0	1	44	1.09
3151401--3151433	11	3.0	11	86	13	50	60	0	3	36	1.12
3152396--3152437	20	2.1	20	86	0	57	4	11	0	83	0.79
3152409--3152433	11	2.3	11	100	0	50	0	8	0	92	0.40
3152462--3152511	23	2.2	23	88	0	73	56	0	0	44	0.99
3153390--3153416	2	13.5	2	100	0	54	51	0	0	48	1.00
3154371--3154463	8	11.4	8	73	20	68	40	0	0	59	0.98
3154368--3154457	43	2.1	42	82	13	112	41	0	0	58	0.98
3155642--3155681	11	3.9	11	81	15	50	67	0	0	32	0.91
3155648--3155704	2	30.5	2	76	13	50	59	0	0	40	0.97
3155645--3155704	19	3.2	19	83	9	77	60	0	0	40	0.97
3156735--3156785	2	25.5	2	91	0	57	41	0	7	50	1.31
3159366--3159397	2	16.0	2	100	0	64	50	0	0	50	1.00
3160886--3160924	12	3.4	11	86	10	51	48	0	0	51	1.00
3161285--3161347	35	1.9	31	81	12	72	42	6	1	49	1.37
3161311--3161419	29	3.7	28	76	13	87	49	2	0	46	1.22
3161360--3161419	30	2.0	31	84	9	81	50	0	1	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3161416--3161478	20	3.2	19	73	15	56	53	3	0	42	1.16
3161971--3162019	17	2.9	17	81	3	55	42	0	2	55	1.11
3162274--3162327	22	2.3	23	81	15	67	42	0	1	55	1.10
3162376--3162420	15	3.2	14	78	9	56	55	2	0	42	1.12
3164629--3164668	18	2.2	19	86	8	57	35	2	5	57	1.34
3165779--3165826	12	4.2	11	76	7	51	47	2	0	50	1.12
3165781--3165824	23	1.9	23	90	0	70	52	2	0	45	1.13
3166432--3166471	21	1.9	21	85	10	55	52	0	0	47	1.00
3167022--3167082	31	2.0	29	84	15	79	49	0	8	42	1.32
3167771--3167801	2	15.5	2	100	0	62	0	48	0	51	1.00
3168597--3168625	2	14.5	2	100	0	58	0	48	0	51	1.00
3181812--3181930	62	1.9	62	94	3	213	51	0	3	45	1.18
3181912--3181942	16	2.0	15	93	6	53	58	0	6	35	1.24
3181814--3181947	62	2.2	62	87	5	191	52	0	3	43	1.19
3183387--3183425	12	3.1	12	88	7	51	48	0	0	51	1.00
3183378--3183425	20	2.3	20	82	10	62	52	0	0	47	1.00
3183381--3183430	14	3.5	14	81	18	59	50	2	0	48	1.12
3185827--3185874	16	3.0	16	90	0	78	43	0	2	54	1.12
3185844--3185903	22	2.8	21	80	9	59	45	0	1	53	1.10
3187523--3187549	14	1.9	14	100	0	54	66	0	0	33	0.92
3187499--3187560	12	4.9	12	75	14	54	61	0	3	35	1.12
3187785--3187827	21	2.0	21	86	0	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3188170--3188209	21	2.0	20	85	5	53	20	5	47	27	1.70
3190588--3190641	24	2.4	24	87	9	78	70	0	0	29	0.88
3190736--3190836	19	5.7	19	65	24	51	65	1	0	31	1.10
3190781--3190839	28	2.1	28	87	12	86	69	0	0	30	0.89
3191420--3191469	19	2.8	17	77	11	55	64	0	0	36	0.94
3191420--3191469	17	2.8	18	80	14	59	64	0	0	36	0.94
3191822--3191854	14	2.3	15	85	15	52	75	0	0	24	0.80
3192312--3192351	2	20.0	2	84	0	53	50	7	0	42	1.30
3193107--3193159	27	2.0	27	92	0	88	39	11	5	43	1.64
3193158--3193189	12	2.7	12	95	0	55	18	25	37	18	1.94

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