genome.fa.s409.2.7.7.80.10.50.1000.22.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

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  ( 2882 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)
3369351--3369614	50	5.3	50	93	0	456	15	26	14	43	1.85
3369351--3369614	100	2.6	100	98	0	510	15	26	14	43	1.85
3370403--3370428	13	2.0	13	100	0	52	30	15	15	38	1.88
3370383--3370453	19	4.0	18	72	25	53	26	12	21	39	1.89
3370933--3370958	13	2.0	13	100	0	52	38	15	15	30	1.88
3370915--3370978	32	2.0	33	90	3	103	42	15	14	28	1.86
3376232--3376257	13	2.0	13	100	0	52	38	15	15	30	1.88
3376214--3376277	32	2.0	33	87	3	94	42	14	15	28	1.86
3379549--3379579	14	2.1	15	94	5	55	16	12	0	70	1.16
3381757--3381782	13	2.0	13	100	0	52	38	15	15	30	1.88
3381737--3381802	32	2.1	32	88	11	100	34	12	16	36	1.86
3384699--3384735	18	2.0	19	94	5	67	5	24	5	64	1.36
3386562--3386637	20	3.8	20	79	8	73	28	15	14	40	1.87
3391174--3391204	15	2.1	15	93	0	53	12	22	16	48	1.80
3395271--3395296	13	2.0	13	100	0	52	30	15	15	38	1.88
3395335--3395410	20	3.8	20	79	8	73	28	15	14	40	1.87
3398089--3398130	21	2.0	21	86	9	59	73	0	4	21	1.01
3401466--3401579	20	5.7	20	87	2	149	40	12	14	32	1.84
3401466--3401579	60	1.9	60	88	0	174	40	12	14	32	1.84
3402520--3403088	28	20.0	28	87	2	744	23	16	31	28	1.96
3402516--3403093	85	6.8	85	88	3	806	23	16	31	28	1.96
3407290--3407418	52	2.5	52	94	0	222	28	18	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3407290--3407438	52	2.9	52	90	2	201	30	18	18	32	1.95
3407496--3407566	32	2.2	32	92	0	115	36	18	11	33	1.86
3408256--3408370	47	2.4	47	84	2	151	32	18	26	23	1.97
3408404--3409209	49	16.9	49	78	9	803	31	17	26	24	1.97
3408715--3409209	43	10.9	43	77	11	495	30	16	26	26	1.97
3408563--3409209	92	7.0	92	90	2	931	31	17	26	25	1.97
3409237--3409378	34	4.3	35	78	15	149	38	12	28	21	1.90
3409287--3409482	31	6.2	31	82	7	182	33	16	27	22	1.95
3409333--3409484	30	4.9	31	85	8	202	32	16	28	23	1.96
3409313--3409484	63	2.8	60	84	7	204	33	16	27	22	1.95
3409635--3409685	13	3.9	13	77	10	50	0	5	9	84	0.78
3409647--3409680	16	2.1	17	94	5	61	0	2	5	91	0.51
3409616--3409684	11	7.0	9	80	16	50	2	7	7	82	0.92
3413851--3413899	1	49.0	1	83	0	62	0	4	4	91	0.49
3427725--3427751	12	2.2	12	100	0	54	29	14	18	37	1.91
3435174--3435248	19	3.8	19	83	5	87	32	16	17	34	1.92
3441472--3441500	13	2.2	13	100	0	58	27	13	17	41	1.87
3443325--3443382	19	3.1	18	85	7	80	55	0	31	13	1.39
3443387--3443455	18	3.7	18	70	12	59	34	1	30	33	1.67
3443378--3443454	37	2.1	37	92	0	127	35	2	29	32	1.71
3444011--3444062	21	2.6	21	87	6	72	34	15	17	32	1.91
3445211--3445262	19	2.7	20	87	3	70	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3448071--3448125	20	2.7	21	88	8	78	36	14	12	36	1.84
3448942--3448967	13	2.0	13	100	0	52	30	15	15	38	1.88
3452069--3452113	21	2.1	21	84	8	56	22	20	4	53	1.63
3454159--3454194	14	2.6	14	100	0	72	19	0	36	44	1.51
3454336--3454361	13	2.0	13	100	0	52	30	15	15	38	1.88
3454316--3454379	32	2.0	33	90	3	103	28	14	18	39	1.90
3454316--3454386	19	4.0	18	72	25	62	26	12	21	39	1.89
3455626--3455770	20	6.7	20	73	18	121	42	11	15	30	1.82
3455737--3455878	47	2.9	47	85	9	169	44	12	16	26	1.84
3455831--3455868	20	1.9	20	100	0	76	42	10	15	31	1.81
3460443--3460495	17	3.0	17	77	5	52	45	5	0	49	1.26
3461389--3461413	13	1.9	13	100	0	50	32	16	16	36	1.90
3464137--3464168	3	10.7	3	100	0	64	0	34	0	65	0.93
3468439--3468480	3	14.0	3	100	0	84	33	0	0	66	0.92
3468643--3468673	15	2.1	15	93	0	53	48	3	12	35	1.58
3471480--3471586	40	2.7	41	79	12	100	33	0	3	62	1.13
3471504--3471574	28	2.4	30	81	6	92	29	0	4	66	1.11
3471522--3471580	28	2.1	28	87	3	84	33	0	1	64	1.04
3472405--3472438	17	1.9	17	88	5	50	55	0	2	41	1.15
3473134--3473306	90	1.9	89	81	4	206	31	8	5	54	1.54
3473223--3473689	162	2.8	163	86	5	638	27	10	7	53	1.62
3473223--3473774	162	3.4	161	80	9	573	28	10	8	52	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3474320--3474364	9	4.9	9	82	15	56	77	0	13	8	0.98
3475257--3475568	159	2.0	156	87	5	448	35	10	13	40	1.79
3477247--3477337	47	1.9	47	84	0	119	35	9	16	38	1.82
3479293--3479882	300	2.0	298	83	5	753	28	10	16	43	1.82
3480761--3480895	51	2.6	51	80	0	171	28	14	14	42	1.86
3484584--3484719	20	6.8	20	78	12	136	29	16	11	42	1.83
3484592--3484685	29	3.1	30	82	10	111	29	17	10	42	1.82
3484602--3484660	13	4.3	13	76	19	66	32	15	10	42	1.80
3487000--3487178	51	3.5	51	80	2	182	26	25	14	33	1.94
3487165--3487294	56	2.3	56	93	2	217	21	31	20	26	1.98
3487164--3487294	28	4.7	27	82	11	167	21	31	20	26	1.98
3487277--3487393	51	2.3	51	90	0	189	31	26	11	30	1.91
3488457--3488737	155	1.8	155	85	3	404	28	16	15	38	1.90
3489581--3489640	29	2.1	28	81	9	68	56	8	10	25	1.60
3496121--3496187	20	3.4	19	75	8	62	38	10	16	34	1.83
3497048--3500324	28	114.9	28	82	3	3542	23	17	30	28	1.97
3497045--3500324	57	57.5	57	82	4	3592	23	17	30	28	1.97
3501456--3501519	19	3.4	18	85	6	83	3	1	10	84	0.81
3501456--3501519	9	6.9	9	83	5	83	3	1	10	84	0.81
3511174--3511219	22	2.1	22	84	8	58	65	8	15	10	1.47
3516576--3516608	15	2.2	15	100	0	66	36	6	21	36	1.78
3517436--3517907	165	2.8	164	81	10	498	31	10	8	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3517436--3517957	166	3.1	162	79	10	486	31	10	8	50	1.65
3519776--3519821	3	15.3	3	100	0	92	67	0	0	32	0.91
3522642--3522726	6	13.7	6	70	18	50	5	15	3	75	1.13
3524004--3524068	32	2.0	32	85	8	87	38	16	15	29	1.90
3524583--3524634	26	2.0	26	84	0	68	23	23	5	48	1.72
3524620--3524695	22	3.5	22	72	15	68	35	28	3	31	1.76
3529366--3529390	13	1.9	13	100	0	50	36	16	8	40	1.77
3535550--3535599	24	2.2	22	82	7	55	64	18	4	14	1.44
3538317--3538377	20	3.1	19	85	4	68	29	9	13	47	1.74
3539095--3539192	43	2.3	43	84	5	119	45	14	26	13	1.81
3539257--3539538	42	6.7	41	74	13	152	43	14	21	19	1.87
3539275--3539516	86	2.9	84	84	7	294	44	14	21	19	1.87
3539261--3539522	128	2.0	129	85	5	354	45	14	22	18	1.85
3539548--3539630	42	2.0	42	83	9	107	38	14	26	20	1.91
3539590--3540088	62	8.0	61	83	4	538	34	18	23	24	1.96
3539649--3540088	122	3.6	123	86	3	566	34	18	22	24	1.96
3540091--3540187	32	3.2	31	82	7	126	35	13	28	22	1.92
3541404--3541463	24	2.6	22	75	12	57	6	13	3	76	1.11
3541405--3541468	25	2.7	23	77	18	67	7	12	3	76	1.11
3545594--3545646	20	2.7	20	100	0	106	30	15	15	39	1.87
3545614--3545781	52	3.2	51	90	5	248	29	18	18	33	1.95
3545632--3545801	52	3.3	52	92	1	270	30	18	19	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3545790--3545814	13	1.9	13	100	0	50	36	16	16	32	1.90
3545876--3545900	13	1.9	13	100	0	50	32	16	16	36	1.90
3551966--3552037	21	3.5	21	80	14	78	36	12	19	31	1.89
3559533--3559586	15	3.5	15	75	7	54	51	3	3	40	1.37
3560023--3560061	17	2.1	17	86	13	51	41	0	0	58	0.98
3563661--3563719	28	2.1	29	83	3	75	33	1	1	62	1.15
3563856--3563894	20	2.0	20	90	10	62	41	0	0	58	0.98
3563923--3563974	15	3.5	15	72	15	54	63	3	0	32	1.12
3564885--3564920	3	12.0	3	100	0	72	66	0	0	33	0.92
3566646--3566704	5	11.6	5	85	10	84	38	1	1	57	1.19

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