genome.fa.s89.2.7.7.80.10.50.1000.21.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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  21  of  27  ( 3236 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)
3512727--3515698	738	4.0	740	91	2	4361	37	10	8	43	1.70
3516736--3516786	21	2.4	21	86	0	75	9	29	17	43	1.81
3517608--3517778	91	1.9	91	87	0	252	37	18	18	25	1.94
3519216--3519308	18	5.4	17	79	13	91	44	1	7	47	1.38
3519216--3519249	16	2.1	16	94	0	59	38	0	8	52	1.33
3519216--3519320	18	6.2	16	71	22	65	42	1	6	48	1.40
3519558--3519594	15	2.7	14	88	12	51	2	43	5	48	1.40
3519562--3519594	15	2.2	15	94	0	57	3	45	6	45	1.43
3519590--3519630	6	6.8	6	88	0	64	0	39	14	46	1.45
3521294--3521339	23	2.0	23	83	8	58	43	13	2	41	1.55
3521422--3523384	744	2.7	740	92	2	3227	37	11	8	42	1.72
3523722--3523773	21	2.5	21	80	0	68	9	30	15	44	1.78
3524055--3524134	18	4.6	17	81	4	90	46	0	3	50	1.19
3524397--3524428	15	2.1	15	94	0	55	0	43	6	50	1.27
3525339--3525390	21	2.5	21	80	0	68	9	30	15	44	1.78
3525386--3525427	21	2.0	21	85	0	57	7	28	14	50	1.69
3525391--3525439	21	2.3	21	82	0	53	12	22	12	53	1.71
3525671--3525750	18	4.6	17	81	4	90	46	0	3	50	1.19
3526012--3526043	15	2.1	15	94	0	55	0	43	6	50	1.27
3526950--3527021	21	3.4	21	78	0	72	8	29	16	45	1.76
3527285--3527370	17	5.0	17	73	13	54	47	0	3	48	1.18
3527304--3527370	16	4.1	15	75	19	55	49	0	1	49	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3527286--3527370	18	5.1	16	77	8	66	47	0	3	49	1.18
3527622--3527655	9	3.9	9	84	7	52	0	47	5	47	1.26
3527624--3527657	17	2.0	17	100	0	68	0	47	5	47	1.26
3529367--3529470	21	5.0	21	84	2	93	6	26	16	50	1.70
3534511--3534595	5	14.8	6	70	20	58	49	0	0	50	1.00
3534513--3534595	11	7.8	11	73	17	68	49	0	0	50	1.00
3534516--3534572	24	2.4	24	82	2	71	50	0	0	49	1.00
3535255--3535291	5	7.2	5	96	3	65	59	2	0	37	1.12
3537287--3537316	2	15.0	2	100	0	60	50	0	0	50	1.00
3545565--3545600	19	1.9	19	88	5	56	77	5	2	13	1.05
3549700--3549745	3	15.7	3	95	4	85	67	0	0	32	0.91
3551043--3551078	18	1.9	19	88	5	56	38	0	2	58	1.13
3551253--3551298	21	2.3	19	85	7	56	58	0	0	41	0.98
3551794--3551845	21	2.4	23	81	12	65	53	0	1	44	1.11
3551790--3551845	22	2.6	23	80	11	73	51	0	1	46	1.11
3552277--3552358	28	3.0	28	70	29	77	40	0	2	57	1.12
3552277--3552372	28	3.6	26	72	22	65	40	0	2	57	1.10
3552275--3552375	23	4.4	22	72	14	69	41	0	1	56	1.10
3554117--3554146	2	15.0	2	100	0	60	50	0	0	50	1.00
3557626--3557695	27	2.5	28	79	9	81	25	4	22	47	1.70
3557772--3557813	20	2.1	20	90	0	66	14	47	4	33	1.65
3560270--3560315	21	2.1	22	84	4	58	30	19	30	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3560678--3560723	21	2.2	21	100	0	92	41	13	23	21	1.88
3562203--3562273	27	2.6	27	86	6	90	23	4	25	46	1.70
3563052--3563087	2	18.5	2	94	5	65	52	0	0	47	1.00
3563498--3563546	21	2.4	22	80	13	59	40	0	4	55	1.19
3567757--3567792	2	18.0	2	100	0	72	50	0	0	50	1.00
3568079--3569198	560	2.0	560	99	0	2195	32	16	19	32	1.94
3569869--3569912	12	3.8	12	75	6	54	25	0	0	75	0.81
3573951--3573988	13	3.0	13	81	18	53	68	0	0	31	0.90
3574085--3574117	12	2.5	14	90	9	52	57	6	0	36	1.23
3577108--3577165	30	1.9	30	89	0	89	41	15	22	20	1.90
3581092--3581124	17	1.9	17	88	11	50	60	6	0	33	1.21
3581799--3581840	22	1.9	22	85	0	57	57	2	0	40	1.12
3583682--3583725	16	2.8	16	82	6	54	34	0	0	65	0.93
3583705--3583776	26	2.8	27	70	16	71	41	2	5	50	1.40
3584381--3584424	19	2.4	19	88	3	63	25	0	2	72	0.96
3584381--3584424	18	2.3	20	88	7	65	25	0	2	72	0.96
3584390--3584429	19	2.1	19	90	0	62	30	0	0	70	0.88
3584390--3584458	23	3.1	23	80	10	65	33	0	4	62	1.15
3584410--3584468	23	2.6	23	89	5	84	38	0	6	54	1.27
3584553--3584615	9	7.0	9	73	20	51	50	3	1	44	1.27
3584600--3584635	18	1.9	19	88	5	56	38	2	0	58	1.13
3592012--3592053	2	21.0	2	100	0	84	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)
3592673--3592717	21	2.1	21	83	0	54	48	4	4	42	1.43
3592988--3593041	21	2.5	21	77	14	56	50	3	3	42	1.38
3593901--3593941	17	2.4	16	84	11	55	46	2	0	51	1.14
3595147--3595182	2	18.0	2	94	0	63	50	2	0	47	1.15
3598217--3598251	16	2.2	16	90	10	54	62	2	5	28	1.32
3599725--3599775	26	2.0	26	85	14	70	56	0	0	43	0.99
3600384--3600429	24	1.9	24	81	0	56	50	0	0	50	1.00
3604210--3604328	29	4.0	30	73	20	108	36	0	0	62	1.01
3605220--3605260	21	2.0	21	85	9	57	46	0	0	53	1.00
3605310--3605371	23	2.5	25	82	12	74	53	1	0	45	1.10
3608086--3608118	2	16.5	2	100	0	66	0	48	0	51	1.00
3608579--3608603	12	2.1	12	100	0	50	60	0	0	40	0.97
3613368--3613442	17	4.5	17	75	15	50	42	0	0	57	0.98
3613399--3613457	20	3.2	18	77	17	68	38	0	0	61	0.96
3613709--3613746	19	2.1	19	90	5	60	55	5	0	39	1.23
3615225--3615250	9	2.9	9	100	0	52	7	11	0	80	0.89
3615349--3615422	31	2.4	29	79	16	78	32	0	1	66	1.00
3615292--3616192	488	1.8	500	84	5	1253	36	5	8	49	1.59
3616902--3616980	17	4.6	17	82	7	72	45	1	0	53	1.08
3616927--3616991	10	7.2	9	81	10	71	46	0	0	53	1.00
3616927--3616987	17	3.4	17	86	6	77	45	0	0	54	1.00
3616927--3617024	26	3.8	26	67	16	62	45	0	1	53	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3617021--3617064	17	2.4	19	88	11	65	29	2	0	68	1.02
3617161--3617196	4	9.2	4	87	6	56	77	0	22	0	0.76
3617163--3617198	16	2.2	17	95	5	65	80	0	19	0	0.71
3617161--3617200	19	2.0	20	95	4	73	80	0	20	0	0.72
3617229--3617297	26	2.7	24	80	14	75	30	1	2	65	1.16
3617371--3617408	17	2.2	17	86	13	51	47	0	5	47	1.24
3623046--3623095	24	2.0	25	85	11	68	40	2	4	54	1.31
3632744--3633690	360	2.7	353	85	5	1237	26	22	24	25	2.00
3641379--3641425	22	2.1	22	84	7	60	34	2	0	63	1.06
3641417--3641468	25	2.2	23	82	6	59	26	0	1	71	0.97
3642027--3642072	16	2.8	16	87	9	58	60	0	4	34	1.16
3643309--3643345	2	19.5	2	89	10	60	51	0	0	48	1.00
3647666--3647723	29	2.0	29	83	6	73	43	1	0	55	1.10
3648087--3648156	26	2.7	25	83	14	81	62	1	0	35	1.04
3649844--3649868	3	8.3	3	100	0	50	36	0	0	64	0.94
3653343--3653386	24	2.0	21	82	13	52	47	4	2	45	1.35
3653435--3653471	18	2.0	19	85	15	51	32	5	0	62	1.18
3653475--3653508	14	2.5	14	85	4	52	50	0	2	47	1.16
3661082--3661124	3	14.3	3	100	0	86	32	0	0	67	0.91
3661671--3661723	4	13.2	4	100	0	106	24	0	24	50	1.49
3661734--3661783	2	25.0	2	100	0	100	50	0	0	50	1.00
3664315--3664370	16	3.6	16	75	22	57	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3665712--3665750	18	2.1	19	86	13	55	56	0	5	38	1.22
3666662--3666716	17	3.2	16	75	12	56	45	0	0	54	0.99
3667257--3667285	7	4.3	7	95	4	51	86	0	0	13	0.58
3674761--3674847	45	1.9	45	90	0	138	16	26	20	36	1.93
3678325--3678390	19	3.3	22	73	23	65	43	0	0	56	0.99
3679007--3679040	14	2.5	14	95	4	61	44	0	0	55	0.99
3679024--3679079	29	1.9	29	85	7	78	41	1	0	57	1.09
3679049--3679107	25	2.3	26	85	2	75	42	0	1	55	1.09
3682354--3682410	25	2.2	24	81	9	60	47	5	1	45	1.35
3683785--3683815	2	15.5	2	93	0	53	45	0	0	54	0.99

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