genome.fa.s247.2.7.7.80.10.50.1000.22.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   28   29   

This is table  22  of  29  ( 3470 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)
3422612--3422948	154	2.2	151	83	2	415	27	22	13	36	1.92
3432134--3432191	20	2.9	20	97	0	107	43	6	18	31	1.77
3432225--3432262	20	1.9	20	94	0	67	39	13	18	28	1.88
3432090--3432262	91	1.9	89	90	3	276	39	9	19	31	1.84
3433360--3433411	20	2.7	19	82	5	68	32	13	15	38	1.86
3433439--3433492	20	2.7	20	88	0	72	31	14	18	35	1.91
3435086--3435122	15	2.5	15	90	0	56	45	0	24	29	1.53
3441567--3441650	29	2.8	28	87	7	105	38	8	20	33	1.82
3442242--3442266	13	1.9	13	100	0	50	36	16	16	32	1.90
3443959--3444013	14	4.0	14	77	9	51	52	1	1	43	1.22
3444082--3444150	8	8.9	8	71	23	58	47	0	1	50	1.09
3444090--3444158	29	2.3	30	80	11	81	46	0	1	52	1.09
3444102--3444145	21	2.1	20	83	8	52	45	0	2	52	1.13
3444128--3444174	19	2.4	18	80	19	51	46	2	2	48	1.25
3444252--3444322	18	3.8	18	71	15	63	32	0	0	67	0.91
3454157--3454199	21	2.0	21	95	0	77	4	34	9	51	1.55
3454567--3454595	2	14.5	2	100	0	58	51	0	0	48	1.00
3455413--3455976	78	7.1	78	74	10	387	33	10	4	51	1.56
3455423--3455808	157	2.5	154	78	8	386	33	9	4	51	1.57
3455304--3455814	233	2.2	231	80	9	531	35	8	4	52	1.52
3456924--3456970	16	2.9	16	90	0	76	12	17	29	40	1.86
3456989--3457029	16	2.6	16	88	0	55	12	9	29	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3458204--3458242	20	2.0	20	100	0	78	30	15	10	43	1.80
3458207--3458262	19	2.9	19	86	2	67	35	14	14	35	1.86
3460827--3460851	13	1.9	13	100	0	50	28	16	16	40	1.89
3471965--3472091	65	2.0	65	96	0	236	53	7	16	22	1.68
3472362--3472440	21	3.8	21	80	9	83	39	15	11	34	1.83
3473078--3473116	21	1.9	20	84	5	51	12	2	28	56	1.50
3477747--3477800	21	2.6	21	82	11	67	35	12	16	35	1.87
3477770--3477900	59	2.2	59	100	0	262	32	18	18	31	1.95
3479958--3479995	20	1.9	20	88	0	58	31	13	10	44	1.77
3486906--3486939	10	3.1	11	87	12	52	50	2	8	38	1.49
3491603--3491643	19	2.2	19	86	8	57	43	0	4	51	1.23
3492294--3492370	32	2.3	35	82	14	92	44	1	5	49	1.33
3492722--3492746	2	12.5	2	100	0	50	52	0	0	48	1.00
3492736--3492776	21	1.9	22	90	5	66	56	7	2	34	1.40
3493792--3493833	9	4.7	9	82	8	50	85	4	9	0	0.72
3493792--3493831	20	2.0	20	90	5	62	87	5	7	0	0.66
3495446--3495512	33	2.0	33	100	0	134	20	11	14	52	1.74
3501487--3501515	2	14.5	2	100	0	58	0	0	48	51	1.00
3505295--3505407	50	2.3	50	86	4	149	25	16	16	40	1.90
3505315--3505428	49	2.3	50	80	4	133	30	15	14	38	1.88
3507714--3507845	50	2.6	50	85	3	167	23	25	15	35	1.94
3507778--3508154	79	4.8	77	78	9	336	27	24	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3507781--3508154	158	2.4	156	79	6	389	27	24	14	32	1.95
3508799--3508865	33	2.0	33	88	0	98	34	11	13	40	1.81
3508819--3508843	13	1.9	13	100	0	50	36	16	16	32	1.90
3508909--3508933	13	1.9	13	100	0	50	32	16	16	36	1.90
3508942--3509062	52	2.3	52	97	0	224	34	18	18	28	1.94
3517333--3517419	33	3.0	27	81	11	84	22	35	14	26	1.94
3517311--3518638	34	40.6	32	80	12	964	20	34	12	31	1.91
3517758--3517812	28	2.0	28	89	3	85	23	40	14	21	1.90
3517300--3518636	359	3.7	361	81	11	1567	20	34	12	31	1.91
3517338--3518638	393	3.3	393	93	3	2096	20	34	12	31	1.91
3518476--3518529	27	2.0	27	92	0	90	22	40	14	22	1.90
3517333--3518605	97	13.1	95	78	14	994	20	34	12	31	1.91
3518504--3518638	35	3.9	34	80	9	137	20	30	10	38	1.86
3518502--3518645	36	4.1	34	79	7	137	19	32	9	38	1.84
3518509--3518658	71	2.1	70	81	6	169	22	33	10	34	1.87
3518643--3518712	33	2.1	35	94	5	126	25	37	17	20	1.94
3518712--3519186	49	9.9	49	79	11	536	25	24	17	32	1.97
3518712--3519120	92	4.4	88	91	4	435	25	24	18	31	1.97
3518712--3519076	141	2.6	141	92	2	598	25	25	18	30	1.98
3519034--3519182	52	2.8	54	80	3	176	26	23	16	34	1.95
3519034--3519428	171	2.3	171	94	1	691	24	24	14	36	1.93
3520227--3520293	33	2.0	33	88	0	98	34	11	13	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520247--3520271	13	1.9	13	100	0	50	36	16	16	32	1.90
3520337--3520361	13	1.9	13	100	0	50	32	16	16	36	1.90
3520370--3520490	52	2.3	52	97	0	224	34	18	18	28	1.94
3522179--3522245	33	2.0	33	88	0	98	34	11	13	40	1.81
3522199--3522223	13	1.9	13	100	0	50	36	16	16	32	1.90
3522289--3522313	13	1.9	13	100	0	50	32	16	16	36	1.90
3532899--3532928	13	2.3	13	94	0	51	40	16	13	30	1.87
3532850--3532978	62	2.1	63	89	1	197	40	15	16	27	1.89
3533022--3533067	21	2.2	21	88	0	65	32	17	17	32	1.93
3540278--3540352	20	3.8	20	80	3	80	40	12	13	34	1.81
3540275--3540352	40	2.0	39	87	2	111	39	12	12	34	1.82
3540866--3541764	229	3.9	229	90	3	1339	21	17	32	28	1.96
3540878--3541764	28	30.9	29	89	4	1252	21	17	32	28	1.96
3542400--3542435	18	2.0	18	94	0	63	0	2	8	88	0.59
3542389--3542435	10	4.7	10	79	15	53	2	4	8	85	0.81
3556429--3556506	40	2.0	39	87	2	111	38	12	12	35	1.82
3556432--3556506	20	3.8	20	80	3	80	38	12	13	36	1.82
3558519--3558553	13	2.8	12	87	12	52	88	8	2	0	0.61
3559661--3560005	60	5.9	60	82	7	383	26	29	20	23	1.99
3559754--3560275	269	1.9	271	87	0	760	27	29	18	24	1.98
3560106--3560474	61	6.0	62	80	6	385	26	27	18	28	1.98
3560048--3560472	184	2.3	183	83	5	535	26	27	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3560048--3560473	123	3.5	122	78	7	392	26	26	18	28	1.98
3560106--3560474	123	3.0	121	78	5	400	26	27	18	28	1.98
3560469--3560687	45	5.0	43	73	16	182	21	25	11	42	1.86
3560464--3560687	85	2.6	87	83	7	285	20	25	11	42	1.85
3561375--3561483	50	2.2	49	91	1	173	27	19	15	37	1.92
3563793--3564179	79	4.9	78	78	9	318	25	24	16	34	1.95
3563794--3564179	158	2.4	156	80	6	406	25	24	16	34	1.95
3566548--3566572	13	1.9	13	100	0	50	32	16	16	36	1.90
3566528--3566594	33	2.0	33	85	5	91	28	17	14	38	1.90
3566621--3566671	19	2.6	20	81	3	68	33	9	21	35	1.86
3578203--3578270	11	6.4	10	81	9	73	13	8	1	76	1.08
3582673--3582725	21	2.6	21	80	14	65	37	24	0	37	1.56
3584216--3584468	126	2.0	126	94	0	443	33	13	21	30	1.93
3590319--3590412	6	15.7	6	75	16	54	78	0	20	1	0.81
3590324--3590412	22	4.1	21	75	18	76	78	0	20	1	0.81
3590319--3590420	28	3.7	27	77	6	98	78	0	19	1	0.85
3590331--3590422	36	2.6	36	81	10	102	79	0	18	2	0.84
3590331--3590411	34	2.3	36	83	6	114	79	0	19	1	0.81
3590319--3590421	7	14.6	7	70	17	70	78	0	19	1	0.84
3595151--3595175	13	1.9	13	100	0	50	32	16	16	36	1.90
3595855--3595898	21	2.1	21	83	8	54	25	31	4	38	1.76
3597703--3597740	13	3.0	13	96	3	69	39	13	15	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3599819--3599849	15	2.1	15	93	0	53	12	22	16	48	1.80
3601651--3601695	21	2.1	21	84	8	56	22	20	4	53	1.63
3603913--3603937	13	1.9	13	100	0	50	32	16	16	36	1.90
3607379--3607433	20	2.6	22	88	11	80	38	14	18	29	1.90
3607379--3607433	22	2.7	20	88	11	76	38	14	18	29	1.90
3607474--3607527	21	2.7	20	77	8	65	35	14	12	37	1.85
3610972--3611005	12	3.0	12	91	8	54	76	0	0	23	0.79
3611477--3611805	155	2.1	153	80	7	378	31	14	16	37	1.90
3612792--3613687	154	5.9	154	78	5	786	25	14	18	40	1.89
3612792--3613694	307	3.0	305	79	7	940	25	14	18	40	1.89

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   28   29