genome.fa.s89.2.7.7.80.10.50.1000.20.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  20  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)
3326998--3327045	23	2.1	22	88	3	69	31	0	4	64	1.12
3331137--3331182	14	3.4	14	80	14	51	52	0	0	47	1.00
3331137--3331189	27	1.9	27	84	3	70	50	0	0	49	1.00
3331162--3331207	22	2.1	22	84	8	58	54	0	0	45	0.99
3331152--3331189	14	2.7	15	84	12	53	50	0	0	50	1.00
3331933--3331977	22	2.2	20	88	11	65	57	2	0	40	1.11
3332661--3332712	24	2.1	25	82	10	63	34	3	1	59	1.27
3339205--3339229	2	12.5	2	100	0	50	48	0	0	52	1.00
3339566--3339646	28	2.9	27	82	12	83	62	0	0	37	0.95
3339536--3339646	27	4.1	27	70	19	79	61	1	0	36	1.07
3339833--3339916	40	2.1	41	84	6	109	61	0	0	38	0.96
3342784--3342829	6	7.5	6	77	22	51	67	0	0	32	0.91
3342786--3342838	15	3.5	16	76	19	60	67	0	0	32	0.91
3342792--3342831	21	1.9	21	85	10	55	70	0	0	30	0.88
3342784--3342835	25	2.0	27	88	7	81	69	0	0	30	0.89
3342896--3342937	13	3.1	15	77	22	56	66	0	0	33	0.92
3342895--3342953	21	2.5	25	78	13	72	67	1	0	30	1.00
3342880--3342935	18	3.3	17	78	14	62	64	0	0	35	0.94
3343551--3343590	2	20.0	2	100	0	80	50	0	0	50	1.00
3345068--3345107	20	2.0	20	100	0	80	45	0	15	40	1.46
3345441--3345467	2	13.5	2	100	0	54	51	0	0	48	1.00
3345501--3345539	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346371--3346462	29	3.2	29	88	0	130	17	17	19	45	1.85
3347561--3347594	2	17.0	2	87	0	50	55	0	0	44	0.99
3352117--3352195	33	2.4	33	82	2	95	35	5	12	46	1.64
3352173--3352219	22	2.1	22	88	7	69	27	4	17	51	1.64
3352070--3352261	89	2.2	89	94	0	339	33	3	16	46	1.65
3352206--3352330	34	3.7	34	79	4	135	31	4	20	44	1.72
3352216--3352344	68	1.9	68	88	0	195	29	3	22	44	1.71
3352643--3352699	19	3.0	19	86	0	78	33	14	15	36	1.88
3356782--3356828	22	2.1	22	92	0	76	14	8	27	48	1.73
3356806--3356938	34	3.9	34	81	0	158	24	6	26	42	1.79
3356804--3356952	68	2.2	67	91	1	235	22	6	27	43	1.77
3358121--3358153	2	16.5	2	93	0	57	54	0	0	45	0.99
3364451--3364497	19	2.4	20	85	7	69	59	0	0	40	0.97
3364745--3364792	19	2.6	18	83	12	53	41	2	2	54	1.24
3364776--3364826	20	2.5	20	81	15	59	45	0	0	54	0.99
3364863--3364931	11	6.5	11	81	3	79	37	0	0	62	0.96
3364837--3364923	42	2.1	41	81	12	99	37	0	1	60	1.04
3364863--3364930	5	12.8	5	77	10	64	38	0	0	61	0.96
3365051--3365108	14	3.9	14	78	17	55	27	0	1	70	0.97
3365349--3365436	38	2.3	40	84	11	114	60	0	0	39	0.97
3374562--3374586	2	12.5	2	100	0	50	48	0	52	0	1.00
3376930--3376969	2	20.0	2	100	0	80	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)
3379202--3379238	2	18.5	2	100	0	74	51	0	0	48	1.00
3381901--3382094	11	17.8	11	67	19	88	60	0	0	38	1.05
3381973--3382026	16	3.4	16	78	19	67	48	1	0	50	1.11
3381927--3382035	32	3.8	27	73	18	87	55	0	0	44	1.06
3381965--3382034	32	2.2	32	97	0	131	50	1	0	48	1.09
3382031--3382106	26	2.9	27	82	9	86	67	0	0	32	0.91
3382568--3382606	18	2.2	17	90	4	60	41	2	0	56	1.13
3386685--3386726	21	2.0	21	86	9	59	64	0	0	35	0.94
3392474--3392511	3	12.7	3	100	0	76	68	0	0	31	0.90
3402100--3402128	2	14.5	2	100	0	58	51	0	0	48	1.00
3404294--3404327	8	4.2	8	84	0	50	41	0	0	58	0.98
3413406--3413467	3	19.7	3	77	9	61	61	0	0	38	0.96
3413428--3413469	7	6.3	7	88	5	61	61	0	0	38	0.96
3413420--3413467	13	3.7	13	86	10	71	64	0	0	35	0.94
3413641--3413671	2	15.5	2	100	0	62	48	0	0	51	1.00
3420057--3420106	2	25.0	2	100	0	100	50	0	0	50	1.00
3422753--3422834	37	2.3	37	80	16	100	35	3	2	58	1.29
3423251--3423280	2	15.0	2	92	0	51	50	3	0	46	1.18
3424935--3425030	42	2.3	42	82	10	108	37	4	0	58	1.18
3425527--3425568	2	21.0	2	100	0	84	50	0	0	50	1.00
3431826--3431850	12	2.1	12	100	0	50	76	0	0	24	0.80
3435704--3435758	27	2.0	27	100	0	110	40	0	16	43	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3436029--3436072	23	1.9	23	95	0	79	22	18	4	54	1.61
3437956--3437981	2	13.0	2	100	0	52	50	0	0	50	1.00
3438479--3438507	2	14.5	2	100	0	58	51	0	0	48	1.00
3444131--3444165	18	1.9	18	88	0	52	62	0	5	31	1.18
3447879--3447913	6	5.8	6	96	0	52	0	60	0	40	0.97
3450830--3450867	2	19.0	2	100	0	76	0	50	0	50	1.00
3452386--3452417	2	16.0	2	100	0	64	50	0	0	50	1.00
3453875--3453908	2	17.5	2	93	6	61	50	0	0	50	1.00
3453876--3453905	15	2.0	15	100	0	60	53	0	0	46	1.00
3453875--3453907	17	1.9	17	100	0	66	51	0	0	48	1.00
3453870--3453908	19	2.1	19	95	0	69	48	0	0	51	1.00
3454330--3454379	20	2.5	20	93	3	82	18	4	4	74	1.14
3454397--3454424	2	14.0	2	100	0	56	50	0	0	50	1.00
3468151--3468223	37	2.1	35	82	14	89	36	2	0	60	1.11
3468792--3468824	13	2.4	14	90	5	50	42	0	0	57	0.98
3468808--3468852	20	2.2	20	84	8	54	53	0	0	46	1.00
3470353--3470408	19	2.9	19	76	5	60	46	0	0	53	1.00
3470728--3470760	13	2.4	14	95	5	59	51	0	0	48	1.00
3470728--3470766	13	2.9	13	85	7	51	53	0	0	46	1.00
3470824--3470877	24	2.2	23	78	12	54	42	0	0	57	0.98
3470890--3470964	39	1.9	39	88	0	114	60	8	0	32	1.26
3476714--3476771	28	2.1	28	93	0	98	32	18	15	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3477225--3477249	13	1.9	13	100	0	50	64	4	0	32	1.12
3477254--3477318	29	2.2	30	78	10	71	44	0	0	55	0.99
3478189--3478221	15	2.1	16	88	5	50	45	0	0	54	0.99
3480514--3480568	21	2.6	21	91	2	92	20	23	12	43	1.86
3483570--3483618	27	1.9	25	88	12	73	46	24	4	24	1.69
3486029--3486054	4	6.5	4	100	0	52	73	0	26	0	0.84
3486246--3486295	19	2.7	20	81	9	61	44	0	0	56	0.99
3486246--3486296	20	2.6	20	84	9	61	43	0	0	56	0.99
3486317--3486360	20	2.2	20	88	8	63	22	0	2	75	0.92
3486324--3486360	20	1.9	20	94	5	67	24	0	0	75	0.80
3486679--3486708	2	15.0	2	100	0	60	50	0	0	50	1.00
3487685--3487722	2	19.0	2	94	0	67	47	2	0	50	1.15
3487775--3487808	5	6.8	5	100	0	68	41	20	38	0	1.53
3489068--3489121	20	2.6	20	75	16	56	51	0	0	48	1.00
3489096--3489129	16	2.2	15	89	5	50	41	0	0	58	0.98
3491608--3491655	24	2.0	24	100	0	96	41	12	4	41	1.62
3491609--3491661	24	2.2	24	93	0	88	39	15	5	39	1.70
3491609--3491672	24	2.7	24	87	0	65	42	12	4	40	1.64
3492557--3492609	18	3.1	17	81	15	56	54	0	0	45	0.99
3492541--3492601	17	3.6	16	74	20	52	62	0	0	37	0.96
3492968--3493007	7	5.7	7	91	8	64	55	0	0	45	0.99
3492956--3493005	14	3.7	13	84	10	64	56	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3493684--3493747	32	2.0	32	100	0	128	50	15	15	18	1.79
3494382--3494413	12	2.6	13	85	14	50	59	0	0	40	0.97
3494571--3494623	23	2.3	24	78	18	60	43	0	3	52	1.19
3494579--3494627	23	2.1	23	85	14	66	38	0	4	57	1.18
3494608--3494649	15	3.0	14	78	21	52	42	0	0	57	0.99
3494607--3494650	13	3.2	13	80	20	54	45	0	0	54	0.99
3502753--3502791	2	19.5	2	89	0	60	46	48	5	0	1.24
3503596--3503629	15	2.3	15	90	5	52	50	20	0	29	1.49
3509253--3509284	14	2.1	16	88	11	50	59	0	0	40	0.97
3510962--3511008	23	2.0	23	84	8	60	48	8	0	42	1.33

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