genome.fa.s127.2.7.7.80.10.50.1000.23.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  23  of  26  ( 3103 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)
3633533--3633576	13	3.3	13	79	14	54	27	0	2	70	0.99
3633553--3633589	18	2.0	19	89	5	58	32	0	0	67	0.91
3633817--3633845	7	4.1	7	100	0	58	58	0	13	27	1.36
3636977--3637028	23	2.2	24	83	6	63	38	1	0	59	1.08
3639286--3639420	73	1.9	72	93	1	234	28	11	8	51	1.68
3641798--3641831	7	4.9	7	100	0	68	44	0	0	55	0.99
3643423--3643452	3	10.0	3	100	0	60	33	0	0	66	0.92
3651448--3651538	1	91.0	1	77	0	74	0	7	5	86	0.69
3651448--3651540	33	3.0	31	92	7	161	0	9	5	84	0.75
3663645--3663764	52	2.3	52	97	0	222	29	17	18	35	1.94
3663645--3663784	52	2.7	51	90	4	210	30	17	18	33	1.94
3663773--3663797	13	1.9	13	100	0	50	36	16	16	32	1.90
3663861--3663885	13	1.9	13	100	0	50	32	16	16	36	1.90
3663943--3663984	21	2.0	21	90	0	66	35	14	14	35	1.86
3666026--3666184	52	3.2	52	76	16	192	32	16	26	24	1.96
3666080--3666169	43	2.1	43	93	0	153	28	17	26	26	1.98
3666175--3666432	88	3.0	87	90	5	380	21	17	29	31	1.96
3666175--3666646	58	8.0	59	75	10	346	24	16	29	29	1.97
3666505--3666651	29	5.1	27	80	9	105	23	18	29	28	1.97
3666354--3666637	121	2.4	117	80	5	320	26	16	29	27	1.97
3666173--3666646	30	16.1	30	78	10	381	24	16	29	29	1.97
3668084--3668247	1	164.0	1	74	0	103	1	3	9	84	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3668084--3668247	11	16.2	10	74	14	117	1	3	9	84	0.81
3668084--3668248	28	5.9	27	79	11	140	1	3	10	84	0.83
3668084--3668249	66	2.6	63	82	12	178	1	3	10	83	0.84
3668084--3668242	45	3.5	45	79	14	125	1	3	9	84	0.81
3679995--3680114	52	2.3	52	97	0	222	29	17	18	35	1.94
3679995--3680134	52	2.7	51	90	4	210	30	17	18	33	1.94
3680123--3680147	13	1.9	13	100	0	50	36	16	16	32	1.90
3680211--3680235	13	1.9	13	100	0	50	32	16	16	36	1.90
3680293--3680334	21	2.0	21	90	0	66	35	14	14	35	1.86
3683510--3683681	66	2.6	64	83	5	218	44	24	16	14	1.85
3686641--3686683	21	2.0	21	86	0	59	27	23	16	32	1.96
3689205--3689238	12	2.9	12	91	4	52	67	0	0	32	0.91
3689275--3689372	43	2.3	44	79	13	114	55	3	0	41	1.15
3689302--3689373	20	3.5	19	72	22	56	58	1	0	40	1.07
3689309--3689368	30	1.9	30	83	6	75	56	1	0	41	1.09
3690140--3690164	10	2.5	10	100	0	50	28	0	0	72	0.86
3690659--3690690	13	2.3	15	89	10	50	68	0	0	31	0.90
3691067--3691111	2	22.5	2	100	0	90	48	0	0	51	1.00
3691127--3691183	24	2.5	24	85	5	82	56	0	0	43	0.99
3691129--3691179	16	3.1	16	77	5	57	52	0	0	47	1.00
3691672--3691710	20	2.0	20	85	10	53	58	5	0	35	1.20
3692575--3692631	27	2.1	28	80	9	73	49	1	1	47	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3692682--3692748	32	2.1	32	83	10	84	55	0	0	44	0.99
3693232--3693308	15	5.3	14	76	20	61	45	0	0	54	0.99
3693231--3693305	33	2.3	33	84	6	91	44	0	0	56	0.99
3693242--3693306	33	2.0	33	87	6	96	43	0	0	56	0.99
3693242--3693289	18	2.9	17	84	9	64	45	0	0	54	0.99
3694463--3694513	19	2.7	18	82	11	57	72	1	5	19	1.15
3694853--3694900	20	2.3	20	82	10	53	45	0	0	54	0.99
3695273--3695304	2	16.0	2	100	0	64	50	0	0	50	1.00
3703815--3703845	2	15.5	2	100	0	62	48	0	51	0	1.00
3704970--3705019	26	1.9	26	83	0	64	40	6	6	48	1.52
3705388--3705416	14	2.0	15	93	6	51	62	0	3	34	1.12
3706454--3706479	2	13.0	2	100	0	52	50	0	0	50	1.00
3706663--3706718	16	3.4	16	72	18	53	39	0	0	60	0.97
3706658--3706712	22	2.5	21	75	18	58	38	0	0	61	0.96
3706619--3706717	32	3.1	32	84	7	103	41	2	0	56	1.11
3706651--3706707	11	5.3	11	73	23	50	36	0	0	63	0.95
3707488--3707519	15	2.1	16	94	5	57	59	0	0	40	0.97
3708705--3708743	18	2.2	18	86	9	53	61	0	0	38	0.96
3708732--3708782	26	2.0	25	84	3	66	56	0	0	43	0.99
3708712--3708787	28	2.8	28	80	6	75	56	0	0	43	0.99
3708903--3708935	12	2.8	12	90	4	50	54	0	0	45	0.99
3709013--3709082	24	2.9	24	79	14	72	37	1	2	58	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709007--3709079	13	5.8	13	74	18	64	38	1	2	57	1.22
3709038--3709082	14	2.9	16	80	16	58	37	0	0	62	0.96
3709007--3709085	17	5.0	16	76	13	65	36	1	2	59	1.19
3710517--3710550	16	2.1	17	88	5	52	85	0	14	0	0.60
3711113--3711150	11	3.4	11	88	3	58	86	0	13	0	0.56
3711113--3711148	18	1.9	18	88	5	54	86	0	13	0	0.58
3711607--3711653	18	2.6	18	83	16	53	42	2	2	53	1.25
3711778--3711869	37	2.7	35	80	14	95	32	2	1	64	1.13
3711809--3711871	10	6.5	10	69	20	53	31	3	0	65	1.09
3711777--3711857	34	2.4	34	76	16	78	32	2	1	64	1.15
3711846--3711887	14	2.9	15	79	13	61	33	0	0	66	0.92
3713065--3713094	4	7.8	4	92	7	53	76	0	23	0	0.78
3713246--3713271	12	2.2	12	100	0	52	23	0	0	76	0.78
3715521--3715558	2	19.0	2	100	0	76	50	0	0	50	1.00
3716547--3716603	16	3.5	17	75	22	59	66	0	0	33	0.92
3716569--3716612	16	2.6	17	82	10	63	65	0	0	34	0.93
3716798--3716836	15	2.6	15	84	15	62	69	0	0	30	0.89
3716789--3716845	13	4.1	13	78	14	51	70	0	0	29	0.88
3717526--3717560	6	6.2	6	93	6	56	82	0	17	0	0.66
3723372--3723452	30	2.6	33	78	19	93	49	1	1	48	1.17
3723588--3723671	24	3.5	24	81	10	100	58	1	40	0	1.06
3723956--3724004	8	5.8	9	80	7	50	81	0	8	10	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3723956--3724001	18	2.8	17	81	12	51	84	0	6	8	0.77
3723965--3724001	18	2.1	17	90	5	56	86	0	5	8	0.70
3724482--3724521	21	2.0	20	90	5	62	15	2	5	77	1.04
3730226--3730260	17	2.1	17	100	0	70	28	25	22	22	1.99
3730275--3730304	15	2.0	15	93	0	51	16	0	23	60	1.36
3730687--3730850	88	1.9	88	86	0	238	48	12	14	25	1.78
3731913--3731963	27	1.9	28	84	11	72	43	0	0	56	0.99
3731949--3731982	17	2.1	17	89	10	54	26	0	0	73	0.83
3731946--3732010	12	5.4	12	73	16	55	29	1	0	69	0.98
3731951--3732010	23	2.6	24	84	10	88	28	1	0	70	0.97
3732702--3732739	18	2.1	18	100	0	76	47	5	10	36	1.61
3734992--3735022	15	2.1	15	93	0	53	22	0	0	77	0.77
3735296--3735369	21	3.4	22	73	5	69	50	8	0	41	1.32
3735378--3735402	11	2.3	11	100	0	50	64	8	0	28	1.22
3736319--3736366	19	2.5	19	100	0	96	20	10	16	52	1.73
3736819--3736862	18	2.3	18	84	11	52	34	0	4	61	1.16
3739037--3739080	17	2.6	17	80	20	56	59	0	0	40	0.98
3739787--3739811	2	12.5	2	100	0	50	48	0	0	52	1.00
3739894--3740049	77	2.0	77	89	0	240	42	3	6	48	1.45
3741468--3741506	21	1.9	21	89	5	62	38	0	0	61	0.96
3741558--3741590	16	2.1	16	88	5	50	51	0	0	48	1.00
3742880--3742934	24	2.3	24	84	12	69	50	0	1	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3743812--3743844	2	17.0	2	87	6	50	45	0	0	54	0.99
3745514--3745547	7	4.9	7	89	10	52	44	0	0	55	0.99
3745518--3745548	13	2.3	14	94	5	55	41	0	0	58	0.98
3745621--3745646	2	13.0	2	100	0	52	50	0	0	50	1.00
3745891--3745937	25	2.0	25	83	8	62	46	0	0	53	1.00
3745897--3745951	26	2.1	26	83	6	67	47	0	0	52	1.00
3746475--3746575	41	2.3	44	80	11	102	54	0	0	45	0.99
3746624--3746674	14	3.9	14	75	12	54	66	0	0	33	0.92
3746631--3746672	21	2.0	20	86	4	57	69	0	0	30	0.89
3746628--3746685	26	2.2	27	78	9	66	63	1	0	34	1.04

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