genome.fa.s74.2.7.7.80.10.50.1000.15.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  15  of  24  ( 2862 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)
3070928--3071002	20	3.8	20	80	3	80	40	12	13	34	1.81
3070925--3071002	40	2.0	39	87	2	111	39	12	12	34	1.82
3071413--3071443	2	15.5	2	100	0	62	51	0	0	48	1.00
3071443--3071469	2	13.5	2	100	0	54	51	0	48	0	1.00
3076949--3076977	2	14.5	2	100	0	58	51	48	0	0	1.00
3078620--3078697	31	2.5	31	86	12	99	65	0	5	29	1.14
3078622--3078675	18	3.0	17	81	8	54	62	0	5	31	1.18
3079347--3079371	12	2.1	12	100	0	50	32	0	0	68	0.90
3085374--3085409	16	2.2	16	90	5	54	30	13	0	55	1.39
3088550--3088584	2	17.5	2	93	0	61	45	0	54	0	0.99
3089373--3089415	2	21.5	2	92	0	68	0	53	2	44	1.13
3089886--3090002	50	2.5	45	73	13	101	49	2	0	47	1.15
3094727--3094793	23	2.9	23	76	10	73	43	0	0	56	0.99
3094719--3094789	15	4.7	15	68	14	56	43	0	0	56	0.99
3094768--3094832	13	5.3	13	68	20	50	43	4	0	52	1.22
3094707--3094789	32	2.7	30	76	10	87	42	0	1	56	1.07
3094922--3094980	21	2.8	21	80	16	61	47	0	0	52	1.00
3094946--3094976	15	2.1	15	94	5	55	45	0	0	54	0.99
3095003--3095062	31	1.9	32	86	3	86	58	0	1	40	1.08
3095004--3095072	32	2.2	32	81	5	77	56	2	1	39	1.23
3095239--3095282	21	2.1	21	91	0	70	54	0	0	45	0.99
3095661--3095694	2	17.0	2	93	0	59	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095718--3095777	31	1.9	32	86	3	86	58	1	0	40	1.08
3097014--3097059	20	2.3	21	82	14	62	60	0	0	39	0.97
3097015--3097054	19	2.2	18	86	4	53	57	0	0	42	0.98
3097616--3097678	19	3.4	19	93	2	101	63	0	0	36	0.95
3097650--3097713	29	2.2	28	86	5	83	56	0	0	43	0.99
3098302--3098338	3	11.7	3	88	11	56	62	0	2	35	1.10
3100000--3100031	2	16.0	2	93	0	55	46	0	3	50	1.17
3100209--3100235	3	9.0	3	100	0	54	33	0	0	66	0.92
3100617--3100665	22	2.1	22	85	7	62	83	0	10	6	0.80
3100626--3100662	19	1.9	19	88	0	56	86	0	8	5	0.70
3100627--3100665	10	3.5	11	83	10	53	89	0	5	5	0.58
3101827--3101852	12	2.2	12	100	0	52	0	7	0	92	0.39
3114160--3114612	226	2.0	226	94	0	789	35	20	10	33	1.86
3116203--3116276	26	2.7	27	77	10	80	56	0	0	43	0.99
3116621--3116696	21	3.5	22	74	16	70	46	0	0	53	1.00
3116640--3116701	11	5.8	10	72	12	52	46	0	0	53	1.00
3116640--3116726	27	3.1	28	73	9	79	49	1	0	49	1.08
3121785--3121820	18	2.1	17	89	5	54	58	2	8	30	1.42
3125307--3125366	10	5.7	11	77	18	58	33	0	1	65	1.03
3125331--3125379	16	2.9	16	82	14	62	30	0	0	69	0.89
3125307--3125405	19	5.3	19	73	20	68	33	2	1	63	1.12
3125332--3125405	21	3.7	19	78	20	64	32	2	0	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127420--3127556	68	2.0	68	97	0	256	35	20	18	24	1.95
3129587--3129654	30	2.2	32	84	12	88	61	0	0	38	0.96
3129615--3129653	19	2.1	19	90	4	62	66	0	0	33	0.92
3130140--3130169	15	2.1	14	93	6	51	40	0	6	53	1.27
3130326--3130376	24	2.2	23	82	6	59	45	0	0	54	0.99
3130396--3130448	20	2.8	18	75	24	56	45	0	0	54	0.99
3130416--3130447	10	3.1	11	82	17	50	46	0	0	53	1.00
3130987--3131052	27	2.4	27	83	11	91	56	0	0	43	0.99
3131843--3131887	18	2.4	19	88	7	65	33	2	2	62	1.20
3133323--3133402	30	2.7	30	86	1	99	41	2	0	56	1.13
3133366--3133415	18	2.8	19	76	11	52	50	0	0	50	1.00
3134655--3134685	7	4.6	7	92	8	55	67	0	0	32	0.91
3134655--3134682	13	2.2	13	100	0	56	71	0	0	28	0.86
3134712--3134783	20	3.6	19	74	12	56	37	2	0	59	1.12
3134788--3134840	12	4.2	12	80	7	61	35	0	0	64	0.94
3134755--3134852	40	2.3	46	82	16	117	37	0	0	62	0.96
3134772--3134833	33	1.9	31	90	6	97	38	0	0	61	0.96
3134778--3134855	19	4.1	19	79	14	81	37	0	0	62	0.95
3138528--3138557	15	2.0	15	93	0	51	53	10	0	36	1.35
3140089--3140162	38	1.9	38	97	0	139	33	21	12	32	1.90
3143497--3143565	26	2.6	26	82	13	70	47	0	0	52	1.00
3143500--3143548	22	2.3	21	86	10	64	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3144559--3144594	13	2.6	14	91	8	65	63	0	0	36	0.94
3145119--3145191	23	3.2	23	74	16	71	53	1	0	45	1.09
3145202--3145240	17	2.4	17	86	4	53	69	0	0	30	0.89
3145599--3145649	2	26.5	2	88	7	79	49	1	0	49	1.12
3146809--3146837	3	9.7	3	100	0	58	0	34	31	34	1.58
3148184--3148238	23	2.4	23	96	0	101	36	18	23	21	1.95
3161153--3161195	3	14.3	3	95	0	77	67	2	0	30	1.03
3165025--3165439	100	4.1	102	76	4	324	25	21	20	32	1.97
3166022--3166336	159	2.0	159	94	0	558	35	21	15	26	1.94
3170966--3171009	2	22.0	2	100	0	88	50	0	50	0	1.00
3171485--3171519	18	1.9	18	88	0	52	20	14	37	28	1.91
3172054--3172114	15	4.2	15	76	17	58	40	0	0	59	0.98
3172543--3172599	17	3.3	17	76	11	53	50	3	1	43	1.29
3174519--3174550	16	2.0	16	93	0	55	31	15	6	46	1.71
3184529--3184587	29	2.0	29	86	3	82	62	0	1	35	1.05
3186187--3186242	16	3.5	17	73	24	59	58	0	1	39	1.08
3186855--3186879	2	12.5	2	100	0	50	48	0	0	52	1.00
3187299--3187346	15	3.1	15	72	21	53	41	0	0	58	0.98
3187299--3187347	16	3.1	16	75	18	57	40	0	0	59	0.98
3188714--3188803	39	2.4	38	74	15	87	37	1	1	60	1.12
3189096--3189131	18	2.0	18	89	10	56	44	0	5	50	1.25
3189801--3189850	24	2.1	24	88	0	73	54	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3191166--3191215	22	2.3	22	86	10	75	68	0	0	32	0.90
3192684--3192721	15	2.5	15	83	8	51	2	31	2	63	1.22
3192721--3192874	77	2.0	77	93	0	263	25	25	9	38	1.86
3196102--3196136	2	17.5	2	87	0	52	48	5	0	45	1.26
3198449--3198489	5	8.6	5	86	5	50	2	82	0	14	0.76
3199326--3199354	2	14.5	2	100	0	58	48	0	0	51	1.00
3202348--3202381	15	2.2	16	89	5	52	5	11	0	82	0.83
3205765--3205804	21	1.9	21	90	10	64	35	0	0	65	0.93
3205793--3205833	20	2.1	19	86	9	55	53	0	0	46	1.00
3206118--3206175	21	2.8	21	84	2	73	58	8	6	25	1.53
3207734--3207790	25	2.2	26	84	12	73	56	3	1	38	1.27
3207755--3207842	39	2.3	38	80	3	104	57	7	7	26	1.54
3208353--3208386	15	2.3	15	90	10	52	44	0	0	55	0.99
3210655--3210703	17	2.7	19	79	20	61	44	0	2	53	1.12
3210896--3210925	2	15.0	2	100	0	60	50	0	0	50	1.00
3216138--3216171	17	2.0	17	88	0	50	38	2	0	58	1.13
3216157--3216187	16	1.9	16	93	0	53	38	0	0	61	0.96
3217274--3217318	23	2.0	23	82	8	56	26	26	33	13	1.93
3220779--3220818	3	13.3	3	100	0	80	32	0	0	67	0.91
3220904--3221007	32	2.9	36	73	23	96	35	0	1	62	1.06
3221880--3221941	4	16.8	4	74	12	53	80	0	19	0	0.71
3221886--3221945	21	2.8	20	82	9	75	81	0	18	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3221884--3221945	29	2.1	30	87	3	90	82	0	17	0	0.67
3221880--3221945	11	6.0	11	76	5	71	81	0	18	0	0.68
3222777--3222814	18	2.1	18	85	9	51	42	0	0	57	0.98
3222839--3222889	16	3.4	16	78	15	54	31	1	1	64	1.15
3222873--3222927	22	2.5	22	82	8	58	34	3	0	61	1.13
3222919--3223021	14	7.0	15	71	19	58	44	0	0	54	1.06
3223305--3223351	22	2.1	22	92	0	76	53	2	0	44	1.12
3225785--3225980	99	1.9	102	87	4	290	36	19	11	31	1.88
3225973--3226000	2	14.0	2	100	0	56	50	0	50	0	1.00
3226164--3226211	19	2.5	20	76	13	55	43	0	6	50	1.27

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