genome.fa.s10.2.7.7.80.10.50.1000.23.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  23  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)
3476767--3476808	16	2.6	16	85	10	59	61	0	0	38	0.96
3477196--3477274	28	2.7	28	73	9	70	39	1	0	59	1.06
3477360--3477388	13	2.1	14	93	6	51	27	0	3	68	1.05
3477349--3477393	20	2.4	19	85	7	56	31	0	2	66	1.04
3479477--3479518	17	2.5	17	76	3	50	57	0	2	40	1.12
3482254--3482297	23	2.0	23	86	8	65	45	6	0	47	1.29
3482824--3482864	17	2.3	19	80	16	52	39	0	7	53	1.29
3482992--3483033	16	2.6	16	88	7	59	38	0	2	59	1.10
3483097--3483139	20	2.2	20	100	0	86	25	4	20	48	1.69
3487841--3487881	14	3.0	14	82	10	50	51	0	0	48	1.00
3487906--3487930	12	2.1	12	100	0	50	60	0	0	40	0.97
3487907--3487946	10	3.8	10	86	6	53	60	0	0	40	0.97
3488062--3488116	10	5.5	10	79	16	60	30	0	0	69	0.89
3488032--3488118	40	2.2	37	77	16	86	35	0	3	60	1.13
3488083--3488134	23	2.5	23	76	20	60	36	0	0	63	0.95
3488059--3488119	28	2.1	30	82	11	83	36	0	0	63	0.94
3488083--3488136	21	2.6	21	75	13	58	35	0	0	64	0.94
3488515--3488560	24	2.0	24	86	4	67	67	0	0	32	0.91
3488604--3488668	33	2.0	33	85	11	89	47	0	0	52	1.00
3488618--3488682	27	2.3	28	81	5	78	49	0	0	50	1.00
3490008--3490034	7	3.9	7	100	0	54	29	29	0	40	1.57
3493703--3493785	31	2.7	32	71	17	77	51	1	0	46	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3493768--3493803	15	2.4	15	95	0	63	55	0	0	44	0.99
3494166--3494196	2	15.0	2	93	6	53	48	3	0	48	1.17
3495556--3495602	13	3.8	13	75	11	53	63	0	2	34	1.06
3496368--3496426	16	3.6	16	80	13	66	40	0	0	59	0.97
3496376--3496417	12	3.4	12	93	3	66	38	0	0	61	0.96
3496368--3496426	8	7.1	8	75	19	50	40	0	0	59	0.97
3496628--3496686	18	3.2	19	76	13	70	59	0	0	40	0.97
3496630--3496699	36	2.0	35	88	2	104	55	1	2	40	1.23
3496956--3497012	24	2.6	23	82	17	77	54	3	0	42	1.17
3497516--3497568	2	26.5	2	100	0	106	50	0	49	0	1.00
3498055--3498119	22	2.9	22	80	13	78	43	0	3	53	1.16
3498182--3498213	10	3.2	10	100	0	64	59	9	0	31	1.29
3498643--3498696	21	2.5	22	72	3	56	46	0	3	50	1.19
3502676--3502717	18	2.4	18	80	15	52	50	2	0	47	1.14
3502765--3502800	6	5.8	6	87	6	54	80	0	19	0	0.71
3503025--3503067	21	2.0	22	86	4	61	46	4	0	48	1.22
3503144--3503198	19	2.9	19	84	10	60	47	3	0	49	1.19
3503525--3503581	28	2.0	29	86	3	80	56	0	1	42	1.10
3503587--3503624	19	2.0	19	90	10	60	52	0	0	47	1.00
3504480--3504508	2	14.5	2	100	0	58	51	0	0	48	1.00
3505442--3505471	14	2.2	13	94	5	51	40	0	0	60	0.97
3507239--3507322	27	3.1	26	77	6	87	48	4	2	44	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3508386--3508433	26	1.9	26	83	8	64	66	0	0	33	0.92
3508647--3508695	2	24.5	2	100	0	98	48	0	51	0	1.00
3509250--3509303	17	3.1	17	86	2	63	53	1	1	42	1.22
3509605--3509631	2	13.5	2	100	0	54	48	0	0	51	1.00
3509848--3509891	22	2.0	22	95	0	79	34	13	29	22	1.93
3517614--3517649	18	2.1	18	89	5	56	0	27	0	72	0.85
3517612--3517653	22	1.9	22	90	0	66	0	26	0	73	0.83
3518662--3518754	16	5.8	16	71	13	66	53	3	1	41	1.24
3520047--3520099	26	2.1	24	82	6	61	41	0	1	56	1.10
3521448--3521498	24	2.1	24	82	7	59	60	3	0	35	1.15
3521421--3521497	21	3.5	21	71	16	59	55	3	0	40	1.18
3521473--3521525	28	1.9	28	88	3	81	62	1	0	35	1.06
3521837--3521889	26	2.1	25	89	10	81	43	0	0	56	0.99
3521842--3521900	25	2.5	23	78	8	73	42	0	0	57	0.98
3521868--3521943	19	4.0	19	73	13	59	35	1	1	61	1.12
3521906--3521950	11	4.3	11	73	21	51	31	0	0	68	0.89
3522210--3522269	14	4.2	15	78	6	54	56	0	0	43	0.99
3522627--3522659	13	2.5	14	85	14	52	33	0	0	66	0.92
3522824--3522880	21	2.8	19	73	21	53	52	1	1	43	1.21
3523777--3523828	26	2.0	27	85	11	72	42	0	0	57	0.98
3524619--3524668	16	3.2	15	76	23	50	50	0	0	50	1.00
3525745--3525806	27	2.3	27	83	8	72	56	1	0	41	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3525753--3525825	27	2.7	27	81	14	87	54	1	0	43	1.08
3533034--3533091	28	2.0	28	83	3	71	55	0	0	44	0.99
3533308--3533339	6	5.3	6	92	0	55	0	62	0	37	0.95
3536631--3536662	13	2.5	13	95	5	57	31	15	12	40	1.85
3541836--3541898	30	2.1	31	81	3	74	47	7	3	41	1.48
3543864--3543906	18	2.4	18	80	0	50	72	2	0	25	0.97
3544584--3544654	21	3.3	21	70	16	56	52	1	1	45	1.18
3544582--3544627	15	3.1	15	78	18	51	63	0	0	36	0.95
3548588--3548664	37	2.1	37	81	13	88	62	0	1	36	1.04
3548588--3548664	36	2.1	38	83	9	97	62	0	1	36	1.04
3548650--3548691	17	2.6	17	88	7	61	50	2	0	47	1.14
3552906--3552959	22	2.6	22	80	11	60	42	1	0	55	1.10
3553282--3553319	18	2.1	18	90	9	60	68	0	5	26	1.11
3556521--3556555	14	2.8	12	84	16	52	51	31	5	11	1.61
3556524--3556552	14	2.1	14	100	0	58	51	27	6	13	1.66
3558041--3558079	20	2.0	20	89	0	60	43	15	17	23	1.87
3561235--3561273	20	2.0	20	90	9	64	51	0	0	48	1.00
3561511--3561554	20	2.2	20	88	4	63	56	0	0	43	0.99
3561877--3561958	28	2.9	28	76	7	85	53	3	2	40	1.32
3564210--3564253	20	2.2	20	83	4	52	40	2	0	56	1.11
3565323--3565348	12	2.2	12	100	0	52	76	0	0	23	0.78
3566952--3566979	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3570213--3570290	16	4.9	16	69	15	54	41	0	0	58	0.98
3570337--3570423	31	2.8	32	83	11	101	39	2	0	58	1.11
3571461--3571485	13	1.9	13	100	0	50	48	0	0	52	1.00
3574194--3574218	12	2.1	12	100	0	50	92	0	8	0	0.40
3574704--3574749	23	2.0	23	87	8	67	50	2	0	47	1.13
3574893--3574927	17	2.0	18	88	5	54	54	0	0	45	0.99
3575890--3575940	20	2.6	21	87	9	72	45	0	0	54	0.99
3576357--3576417	17	3.5	18	73	13	56	50	0	3	45	1.17
3576422--3576482	5	12.2	5	73	13	54	34	0	0	65	0.93
3576396--3576495	36	2.7	37	79	16	100	40	1	2	57	1.17
3576426--3576484	11	5.3	11	74	11	57	33	0	0	66	0.92
3576372--3576495	35	3.5	35	78	13	112	41	0	1	56	1.14
3576421--3576478	29	2.0	30	83	10	75	36	0	0	63	0.94
3576840--3576887	24	2.1	21	85	11	60	31	0	0	68	0.90
3580728--3580793	21	3.2	21	73	16	57	57	0	0	42	0.98
3584886--3584925	2	20.0	2	100	0	80	50	0	0	50	1.00
3585631--3585669	19	2.1	19	90	9	62	61	0	5	33	1.18
3586030--3586070	18	2.3	19	83	12	59	51	2	4	41	1.36
3585596--3588340	575	4.8	570	85	4	3337	42	9	6	41	1.63
3589011--3589144	67	2.0	67	95	0	241	55	7	5	31	1.50
3592921--3592952	14	2.2	15	94	5	57	78	0	3	18	0.89
3593409--3593447	16	2.4	16	82	0	51	7	15	5	71	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3593544--3593569	4	6.5	4	100	0	52	76	0	0	23	0.78
3597554--3597605	20	2.5	21	84	12	63	59	0	0	40	0.97
3598064--3598125	22	2.8	22	81	13	74	40	0	0	59	0.97
3598381--3598457	36	2.2	36	88	11	115	46	0	0	53	1.00
3604703--3604747	21	2.1	21	88	8	65	51	2	0	46	1.13
3605085--3605110	6	4.3	6	100	0	52	34	0	65	0	0.93
3605186--3605256	22	3.1	22	68	11	54	38	0	0	61	0.96
3605186--3605272	8	11.6	8	67	26	57	37	0	0	62	0.96
3605186--3605273	18	4.8	18	70	21	58	38	0	0	61	0.96
3605790--3605829	20	2.0	20	90	0	62	35	0	0	65	0.93

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