genome.fa.s10.2.7.7.80.10.50.1000.22.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: Scaffold10
Parameters: 2 7 7 80 10 50 1000
Length:  3842500

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   

This is table  22  of  25  ( 2970 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)
3346071--3346155	30	2.9	29	77	16	86	48	0	1	50	1.08
3346082--3346142	30	2.0	32	87	6	90	49	0	0	50	1.00
3346305--3346352	12	4.0	12	83	0	60	37	0	0	62	0.95
3346308--3346424	24	4.7	24	69	17	87	37	0	0	60	1.09
3346305--3346376	31	2.3	32	86	11	96	40	0	0	59	0.97
3346316--3346380	26	2.6	24	78	14	69	43	0	0	56	0.99
3346311--3346394	19	4.7	18	70	20	70	39	0	1	59	1.05
3346720--3346760	2	20.5	2	94	0	73	46	0	2	51	1.14
3351293--3351372	27	3.0	27	78	10	92	55	2	1	41	1.21
3351358--3351417	23	2.7	22	73	19	61	45	0	1	53	1.10
3352156--3352189	2	17.0	2	87	0	50	50	0	2	47	1.16
3352583--3352615	13	2.6	13	95	4	59	57	0	0	42	0.98
3352593--3352673	33	2.5	33	82	11	107	54	0	0	45	0.99
3352593--3352723	33	3.9	33	75	16	103	56	0	0	43	0.99
3352586--3352713	27	4.5	29	71	22	78	55	0	0	44	0.99
3354333--3354501	84	2.0	84	100	0	338	26	21	14	37	1.92
3358900--3358949	24	2.1	23	82	10	57	44	0	0	56	0.99
3359714--3359738	4	6.2	4	100	0	50	76	0	0	24	0.80
3359900--3359939	2	20.0	2	94	0	71	52	0	47	0	1.00
3361441--3361473	11	3.0	11	86	13	50	69	0	0	30	0.88
3361854--3361916	31	2.0	31	84	6	83	33	4	1	60	1.27
3362373--3362419	20	2.3	20	88	0	67	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3362427--3362463	9	4.2	9	86	6	58	56	0	0	43	0.99
3362427--3362485	25	2.3	26	82	2	66	52	5	1	40	1.33
3362837--3362937	17	5.9	16	72	17	78	36	0	0	63	0.95
3362854--3362932	24	3.4	24	72	21	71	34	0	0	65	0.93
3362835--3362911	35	2.1	37	84	15	108	35	0	0	64	0.93
3362837--3362932	34	2.8	34	83	10	117	35	0	0	64	0.94
3362850--3362955	52	2.1	51	81	12	119	38	0	0	61	0.96
3363374--3363484	49	2.3	49	80	10	115	45	0	0	54	1.00
3364308--3364332	13	1.9	13	100	0	50	64	0	0	36	0.94
3364814--3364869	11	5.1	11	83	12	55	28	3	0	67	1.07
3364812--3364895	32	2.6	31	81	12	89	32	3	0	64	1.11
3365497--3365615	59	2.0	59	84	9	154	57	0	2	39	1.18
3365492--3365614	30	4.2	28	80	12	122	56	0	3	39	1.21
3366419--3366470	23	2.3	23	86	6	70	44	0	1	53	1.11
3374069--3374125	2	28.5	2	89	0	87	5	50	0	43	1.24
3380231--3380265	2	17.5	2	100	0	70	51	0	0	48	1.00
3387906--3387930	11	2.3	11	100	0	50	92	0	8	0	0.40
3390966--3390999	3	11.3	3	100	0	68	35	0	32	32	1.58
3393289--3393315	7	3.9	7	100	0	54	70	0	0	29	0.88
3393463--3393527	28	2.3	29	82	14	84	52	4	3	40	1.38
3394230--3394264	12	2.8	13	86	8	54	25	34	17	22	1.96
3394654--3394684	2	15.5	2	100	0	62	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3396732--3396780	20	2.4	21	80	6	66	38	0	4	57	1.18
3398166--3398210	21	2.1	22	83	4	56	60	0	2	37	1.09
3399230--3399257	13	2.2	13	100	0	56	21	7	0	71	1.09
3401408--3401477	30	2.4	30	81	13	83	30	27	7	35	1.83
3403904--3403955	25	2.1	25	100	0	104	46	11	17	25	1.81
3404929--3404971	21	2.1	21	95	4	79	37	0	0	62	0.95
3404935--3404989	21	2.6	21	82	2	65	32	0	0	67	0.91
3405530--3405689	10	16.2	9	70	18	70	41	1	2	54	1.22
3405571--3405648	28	2.6	28	76	17	77	41	1	1	56	1.15
3405643--3405699	21	2.5	24	76	21	61	45	0	1	52	1.11
3413542--3413579	19	2.0	19	89	0	58	47	5	0	47	1.24
3413925--3413987	21	3.0	21	75	6	58	39	1	1	57	1.18
3413945--3413974	15	1.9	16	93	6	53	46	3	3	46	1.35
3414304--3414368	24	2.5	27	79	20	77	41	0	6	52	1.26
3414684--3414751	17	3.8	17	71	21	66	33	0	0	66	0.92
3415368--3415396	15	1.9	15	100	0	58	62	10	0	27	1.28
3415941--3416009	32	2.1	32	86	2	93	39	4	8	47	1.54
3417076--3417115	20	2.0	20	95	0	71	52	0	0	47	1.00
3418039--3418076	18	2.1	18	100	0	76	47	0	0	52	1.00
3418599--3418640	22	1.9	22	90	9	68	40	0	0	59	0.97
3418597--3418646	22	2.3	22	79	6	66	48	0	0	52	1.00
3428640--3428703	29	2.2	29	86	10	87	51	1	0	46	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3431165--3431210	23	2.0	23	82	0	56	41	0	2	56	1.11
3431194--3431279	33	2.5	35	78	14	99	53	0	1	45	1.07
3431203--3431280	39	2.0	38	83	14	97	55	0	0	44	0.99
3431722--3431897	20	8.9	21	69	19	103	58	1	1	39	1.13
3431747--3431797	22	2.2	22	93	6	84	64	0	1	33	1.05
3431769--3431877	14	6.9	16	66	29	58	60	1	0	36	1.14
3431803--3431883	32	2.6	32	74	12	89	58	1	0	40	1.06
3431846--3431955	46	2.4	46	81	7	116	53	1	0	43	1.17
3432541--3432610	33	2.2	32	82	14	83	50	0	0	50	1.00
3432874--3432917	18	2.4	18	82	10	54	52	0	4	43	1.22
3432881--3432917	19	2.0	18	89	5	56	51	0	5	43	1.24
3433351--3433412	23	2.8	21	80	9	61	24	4	4	66	1.31
3433362--3433408	23	2.2	23	85	11	64	27	2	6	63	1.30
3434123--3434207	27	3.2	26	75	6	82	52	0	0	47	1.00
3434134--3434169	18	2.0	18	89	10	56	52	0	0	47	1.00
3434119--3434237	54	2.2	54	82	10	145	56	0	0	43	0.99
3434215--3434274	17	3.7	17	79	16	65	63	0	0	36	0.95
3434231--3434276	15	2.9	17	81	12	62	65	0	0	34	0.93
3434334--3434363	2	15.0	2	100	0	60	50	0	0	50	1.00
3434712--3434756	2	22.5	2	100	0	90	0	48	0	51	1.00
3440361--3440399	2	19.5	2	100	0	78	48	0	0	51	1.00
3441905--3442049	77	1.9	77	94	2	256	31	15	20	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3446294--3446331	2	19.0	2	100	0	76	50	0	0	50	1.00
3446399--3446444	17	2.8	17	80	9	51	28	0	13	58	1.35
3447757--3447819	29	2.2	29	83	8	76	52	1	1	44	1.20
3447798--3447855	19	3.0	19	80	7	55	56	0	1	41	1.09
3448043--3448071	14	2.0	15	93	6	51	44	0	0	55	0.99
3448343--3448387	19	2.4	19	88	7	65	31	2	2	64	1.18
3448353--3448394	19	2.2	19	83	8	50	42	2	2	52	1.27
3448446--3448482	17	2.1	19	90	10	60	48	0	0	51	1.00
3454846--3454917	30	2.3	30	79	9	74	52	2	1	43	1.24
3458222--3458250	3	9.7	3	100	0	58	68	0	0	31	0.89
3458959--3459035	33	2.3	34	93	4	131	40	1	0	58	1.06
3459187--3459233	23	2.1	22	84	11	60	53	2	0	44	1.12
3464257--3464286	2	15.0	2	100	0	60	50	0	50	0	1.00
3465491--3465520	2	15.0	2	100	0	60	50	0	50	0	1.00
3465696--3465732	18	2.1	18	89	0	56	0	21	2	75	0.92
3465946--3465992	20	2.2	21	85	7	60	55	0	2	42	1.12
3466108--3466165	15	3.7	15	73	15	55	41	5	1	51	1.34
3472092--3472172	38	2.0	40	83	9	103	53	0	0	46	1.00
3472107--3472162	14	4.3	14	73	17	57	55	0	0	44	0.99
3472174--3472203	16	1.9	16	93	6	53	63	0	0	36	0.95
3472645--3472673	2	14.5	2	100	0	58	48	0	0	51	1.00
3472951--3472990	21	1.9	21	85	10	55	57	0	2	40	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473251--3473284	10	3.3	10	91	4	50	35	2	2	58	1.28
3473245--3473378	66	2.0	65	81	9	155	41	2	0	54	1.21
3473343--3473395	25	2.1	24	82	10	61	35	3	0	60	1.15
3473877--3473910	14	2.2	16	90	10	54	38	0	0	61	0.96
3473868--3473963	28	3.2	29	70	16	72	45	0	0	54	0.99
3475015--3475054	15	2.5	16	88	8	55	57	0	0	42	0.98
3475015--3475057	16	2.6	17	85	10	63	55	0	0	44	0.99
3475573--3475609	15	2.5	14	87	12	56	0	16	0	83	0.64
3476460--3476522	28	2.2	28	80	0	72	46	3	3	47	1.34
3476478--3476533	28	2.0	28	89	3	87	42	0	1	55	1.10

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