genome.fa.s53.2.7.7.80.10.50.1000.22.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

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   

This is table  22  of  28  ( 3325 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)
3314819--3314845	13	2.1	13	100	0	54	29	14	14	40	1.86
3314800--3314861	33	1.9	32	90	3	97	29	16	14	40	1.88
3314911--3314963	20	2.7	20	75	0	52	35	11	22	30	1.89
3316546--3316580	12	2.9	12	86	0	52	45	0	28	25	1.54
3317284--3317310	13	2.1	13	100	0	54	29	14	14	40	1.86
3317244--3317408	81	2.0	81	97	0	312	32	18	15	34	1.92
3323821--3323947	52	2.4	53	93	2	211	28	18	18	35	1.94
3323821--3323967	54	2.8	54	87	6	194	30	17	17	34	1.94
3323953--3323980	13	2.2	13	100	0	56	39	17	14	28	1.89
3324021--3324087	33	2.0	33	88	0	98	40	14	11	32	1.83
3324043--3324067	13	1.9	13	100	0	50	32	16	16	36	1.90
3324928--3325720	49	16.9	48	80	10	812	30	17	25	25	1.97
3324981--3325725	92	8.1	91	85	7	802	30	17	26	25	1.97
3324981--3325720	141	5.3	140	88	4	918	30	17	26	25	1.97
3325720--3325880	32	4.9	34	91	5	237	18	18	34	29	1.94
3325883--3325984	34	2.9	36	87	5	131	34	11	34	19	1.88
3325890--3326119	32	7.2	31	81	10	180	31	14	31	22	1.94
3325964--3326111	62	2.4	63	87	3	210	26	16	31	25	1.97
3325958--3326119	32	5.2	30	83	9	182	29	15	31	24	1.95
3334246--3334394	54	2.8	53	88	7	214	31	16	17	34	1.93
3334246--3334372	52	2.4	52	93	2	209	29	17	18	35	1.93
3334378--3334405	13	2.2	13	100	0	56	39	17	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3334446--3334512	33	2.0	33	88	0	98	40	14	11	32	1.83
3334468--3334492	13	1.9	13	100	0	50	32	16	16	36	1.90
3335786--3335840	27	2.0	27	96	0	101	38	14	18	29	1.90
3341521--3341547	13	2.1	13	100	0	54	29	14	14	40	1.86
3343319--3343397	34	2.3	34	93	0	131	44	3	17	34	1.67
3343983--3344039	19	2.9	19	86	2	78	33	17	14	35	1.90
3344089--3344113	13	1.9	13	100	0	50	36	16	16	32	1.90
3352007--3352079	34	2.1	35	84	2	94	20	15	9	54	1.68
3355432--3355925	148	3.3	147	82	5	573	36	18	19	25	1.94
3357468--3357501	13	2.5	14	90	4	52	2	8	5	82	0.93
3358552--3358582	14	2.1	15	94	5	55	41	0	0	58	0.98
3358557--3358597	20	2.0	20	95	0	73	39	0	2	58	1.11
3358566--3358613	20	2.4	18	78	18	51	43	0	2	54	1.12
3391091--3391141	23	2.1	25	92	7	88	74	3	0	21	0.98
3392527--3392569	17	2.7	15	80	16	50	25	4	11	58	1.52
3404168--3404213	24	1.9	24	100	0	92	73	0	0	26	0.83
3405775--3405818	22	2.0	23	90	4	72	22	6	27	43	1.78
3407938--3408348	138	3.0	138	86	2	576	31	18	17	32	1.94
3408754--3408896	55	2.6	55	91	2	216	25	28	22	23	1.99
3409629--3409686	21	2.8	21	84	7	82	37	15	13	32	1.87
3409722--3409789	19	3.9	19	78	21	85	35	11	14	38	1.83
3409724--3409786	32	2.0	32	96	0	117	34	12	15	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3409743--3409767	13	1.9	13	100	0	50	36	16	16	32	1.90
3409829--3409854	13	2.0	13	100	0	52	30	15	15	38	1.88
3409809--3409872	33	1.9	33	87	0	92	25	15	17	42	1.88
3412204--3412545	52	6.5	53	70	14	208	28	25	12	32	1.93
3412212--3412544	104	3.2	103	71	13	291	29	25	13	32	1.93
3424535--3424612	17	4.5	16	73	20	59	84	7	7	0	0.77
3424549--3424612	22	3.0	21	82	15	69	84	7	7	0	0.78
3424535--3424612	12	6.3	12	79	10	68	84	7	7	0	0.77
3425575--3426376	55	14.4	54	85	8	995	27	28	20	23	1.99
3425577--3426376	164	4.8	162	87	7	1041	27	28	20	22	1.99
3427207--3427231	13	1.9	13	100	0	50	36	16	16	32	1.90
3429657--3429998	52	6.5	53	69	16	210	29	26	12	32	1.93
3429771--3429821	27	1.9	26	95	0	84	27	33	17	21	1.96
3429720--3430112	107	3.7	105	74	11	332	27	27	14	30	1.95
3429665--3429997	104	3.2	103	71	13	300	29	25	12	31	1.93
3429982--3430058	28	2.8	28	87	0	100	23	33	19	23	1.97
3429660--3430065	212	1.9	212	88	3	620	27	27	13	31	1.94
3431440--3431699	133	2.0	133	82	3	326	33	9	7	48	1.64
3432608--3432659	21	2.5	21	81	9	63	30	5	28	34	1.81
3433436--3433475	21	1.9	21	100	0	80	47	7	5	40	1.54
3433586--3433728	67	2.1	67	93	0	250	39	17	18	25	1.92
3438790--3438824	14	2.6	13	86	8	52	0	5	2	91	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3447962--3448020	22	2.8	21	82	7	66	33	3	27	35	1.74
3447984--3448028	22	2.0	22	82	0	54	35	4	20	40	1.72
3449336--3449628	79	3.7	79	83	1	338	36	11	23	29	1.89
3449336--3449628	158	1.9	158	83	1	381	36	11	23	29	1.89
3450106--3450132	13	2.1	13	100	0	54	29	14	14	40	1.86
3450118--3450192	20	3.8	20	94	1	125	33	13	18	34	1.90
3450222--3450274	20	2.7	20	88	5	72	33	13	18	33	1.90
3458865--3458914	19	2.5	20	83	3	66	34	12	16	38	1.85
3458963--3458993	13	2.4	13	94	0	53	35	16	12	35	1.87
3458947--3459013	33	2.0	33	88	5	100	32	13	17	35	1.89
3462023--3462109	39	2.2	39	93	0	147	21	13	22	41	1.89
3462116--3462176	13	5.1	13	71	18	60	29	13	16	40	1.86
3462094--3462177	34	2.5	34	96	0	159	28	13	16	41	1.86
3463594--3463894	154	2.0	154	82	5	367	39	16	17	26	1.91
3465086--3465369	152	1.9	154	86	3	412	39	16	14	29	1.88
3467096--3467451	154	2.3	154	81	4	403	37	16	18	27	1.93
3467154--3467467	155	2.0	154	82	4	373	36	18	18	26	1.94
3469219--3469726	166	3.0	163	81	5	495	50	10	10	28	1.68
3469219--3469928	167	4.3	168	76	8	472	50	10	10	29	1.69
3475110--3475226	39	3.0	39	100	0	234	30	38	5	25	1.78
3478322--3478361	21	1.9	21	84	0	53	20	20	2	57	1.52
3480658--3480710	21	2.5	21	96	0	97	37	18	13	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481029--3481063	5	7.0	5	90	9	54	77	0	0	22	0.78
3481029--3481063	9	3.5	10	88	11	54	77	0	0	22	0.78
3481035--3481062	14	2.0	14	100	0	56	78	0	0	21	0.75
3481028--3481091	5	11.3	6	79	14	50	68	3	1	26	1.13
3481029--3481082	19	2.9	18	81	13	56	74	1	1	22	1.02
3482205--3482236	16	2.0	16	100	0	64	56	12	18	12	1.67
3482329--3482462	67	2.0	67	80	7	148	45	11	24	18	1.82
3482339--3482562	68	3.4	67	80	7	242	43	9	25	20	1.83
3482339--3482594	66	3.8	66	77	9	234	44	11	24	19	1.84
3482350--3482594	134	1.8	135	83	6	327	44	11	24	19	1.83
3482657--3482863	81	2.5	82	78	4	204	42	13	26	17	1.86
3482765--3482863	41	2.4	41	81	3	119	44	15	24	16	1.85
3482847--3483478	41	15.6	41	69	12	252	44	15	23	16	1.86
3482683--3483716	82	12.7	82	74	8	479	42	15	24	17	1.87
3483038--3483716	82	8.4	82	76	6	490	41	15	24	17	1.88
3482847--3483649	41	19.8	40	69	13	239	42	15	24	17	1.88
3484258--3484600	77	4.5	77	84	3	372	45	11	16	27	1.81
3484258--3484600	153	2.2	153	80	4	388	45	11	16	27	1.81
3485808--3485855	20	2.2	22	85	14	73	37	2	6	54	1.38
3486706--3486736	15	2.0	16	93	6	55	0	19	3	77	0.90
3487028--3487111	32	2.7	30	78	12	89	2	15	9	72	1.20
3487090--3487124	13	2.8	12	87	12	52	0	11	2	85	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3487091--3487166	24	3.3	22	74	15	73	6	9	6	77	1.12
3487475--3487532	30	1.9	30	89	6	91	18	17	12	51	1.75
3487732--3487839	19	5.7	19	67	25	68	44	12	22	20	1.85
3487981--3488021	9	4.3	10	78	12	50	29	0	0	70	0.87
3488649--3488876	61	3.8	59	76	7	181	49	17	14	17	1.80
3489491--3489628	44	3.1	43	71	20	115	47	14	15	23	1.82
3491255--3491326	20	3.5	20	77	7	74	33	18	13	34	1.90
3491398--3491424	13	2.1	13	100	0	54	40	14	14	29	1.86
3492058--3492101	21	2.0	22	86	4	63	29	29	0	40	1.57
3492316--3492348	16	2.0	17	88	5	50	51	18	15	15	1.77

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