genome.fa.s407.2.7.7.80.10.50.1000.24.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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  24  of  28  ( 3302 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)
3688594--3688683	11	8.8	10	80	10	85	86	8	4	0	0.69
3688594--3688686	28	3.4	25	81	14	96	86	9	4	0	0.71
3688594--3688686	27	3.3	26	82	11	105	86	9	4	0	0.71
3689764--3690708	61	16.0	61	81	9	951	26	28	20	25	1.99
3689759--3690698	120	7.9	120	82	7	984	26	28	20	25	1.99
3690590--3690671	27	3.0	27	64	3	74	28	21	21	28	1.99
3690589--3690674	28	3.1	28	63	9	77	26	23	20	29	1.99
3690709--3690850	60	2.3	60	87	3	205	26	30	18	24	1.98
3690921--3691152	61	3.8	61	82	7	283	25	25	19	28	1.99
3690917--3691152	122	1.9	122	86	5	334	25	25	19	29	1.98
3691141--3691287	42	3.4	42	80	9	161	21	26	14	37	1.92
3691136--3691317	42	4.2	42	78	8	159	18	25	13	42	1.86
3691338--3691436	40	2.4	40	83	9	112	18	26	13	42	1.86
3692085--3692178	20	4.7	20	88	5	120	27	18	13	40	1.88
3694202--3694270	28	2.5	28	85	0	102	23	30	14	31	1.94
3694302--3694356	28	2.0	28	85	0	74	20	25	20	34	1.96
3694170--3694454	108	2.6	109	85	6	350	25	23	15	35	1.94
3694330--3694532	79	2.6	78	86	3	266	26	24	15	33	1.95
3694334--3694546	78	2.7	78	83	2	266	25	24	15	34	1.94
3695380--3695431	19	2.7	20	84	6	70	40	17	13	28	1.87
3696709--3703241	952	6.9	951	83	4	7387	36	13	18	31	1.89
3697798--3703255	476	11.5	474	82	3	6110	36	13	18	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3697890--3702982	159	32.2	157	67	12	1544	36	13	18	31	1.90
3703978--3704041	33	1.9	32	84	12	85	31	15	14	39	1.87
3704072--3704127	19	2.9	19	89	2	76	33	17	17	30	1.94
3704112--3704136	13	1.9	13	100	0	50	36	16	16	32	1.90
3704848--3705068	79	2.8	80	80	10	229	33	13	24	28	1.93
3705003--3705118	51	2.3	51	90	3	180	29	12	26	31	1.92
3705101--3705169	28	2.5	28	75	0	75	28	14	31	24	1.95
3705134--3705345	79	2.7	78	83	3	237	33	15	24	26	1.95
3707833--3707884	21	2.6	21	90	6	81	32	15	13	38	1.86
3708727--3709429	55	12.3	58	81	9	681	25	19	26	28	1.99
3708727--3709631	171	5.4	170	82	8	974	25	20	26	27	1.99
3709450--3709635	54	3.4	54	96	2	338	23	22	26	27	1.99
3709232--3709756	202	2.6	202	93	2	872	25	19	28	27	1.99
3709652--3709756	54	1.9	54	92	5	176	24	21	24	28	1.99
3715953--3716172	79	2.8	78	82	8	273	33	11	25	29	1.91
3716112--3716223	51	2.2	51	90	3	172	31	11	25	31	1.91
3716210--3716279	28	2.5	28	85	2	95	34	18	24	22	1.96
3716239--3716442	79	2.6	79	88	1	266	32	14	25	26	1.95
3718899--3718951	20	2.7	20	100	0	106	22	15	26	35	1.93
3727556--3727586	13	2.4	13	94	0	53	35	12	16	35	1.87
3727536--3727602	33	2.0	33	88	11	102	32	17	13	35	1.89
3728243--3728289	18	2.6	18	96	0	85	36	8	29	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3728284--3729362	475	2.3	475	87	2	1544	36	13	18	31	1.90
3728604--3729313	158	4.5	157	67	14	341	37	13	17	31	1.89
3730915--3731011	20	4.8	20	67	26	69	38	14	12	35	1.84
3730977--3731030	20	2.7	20	88	5	74	37	18	11	33	1.86
3731058--3731131	20	3.8	19	84	8	87	33	17	17	31	1.93
3738637--3738842	78	2.6	78	82	2	234	29	16	29	24	1.97
3738797--3738865	28	2.5	28	87	0	93	27	18	30	23	1.98
3738853--3739074	52	4.3	51	78	2	210	32	13	25	28	1.94
3738743--3739240	263	1.9	263	87	3	734	32	13	25	28	1.94
3739057--3739129	27	2.6	29	82	10	98	23	20	32	23	1.98
3741563--3741629	33	2.0	33	85	0	89	43	14	16	25	1.86
3741584--3741609	13	2.0	13	100	0	52	38	15	15	30	1.88
3741652--3741676	13	1.9	13	100	0	50	32	16	16	36	1.90
3742438--3743448	60	17.4	56	82	8	1037	24	20	29	25	1.99
3742442--3743421	235	4.2	234	87	6	1252	24	20	29	25	1.99
3742437--3743440	176	5.8	174	86	6	1185	24	20	29	25	1.99
3756858--3757064	79	2.6	79	82	3	229	29	16	29	24	1.96
3757021--3757087	28	2.4	28	87	0	89	25	19	31	23	1.98
3757149--3757258	52	2.1	51	83	3	139	34	12	24	28	1.92
3757715--3757788	20	3.7	20	78	3	94	35	14	20	29	1.93
3757733--3757808	21	3.7	21	78	3	100	40	13	18	27	1.88
3757717--3757808	41	2.2	41	98	0	175	39	14	18	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3757847--3757872	13	2.0	13	100	0	52	38	15	15	30	1.88
3760078--3760122	21	2.1	21	84	8	56	53	4	20	22	1.63
3761926--3761956	15	2.1	15	93	0	53	48	16	22	12	1.80
3763970--3764049	20	3.8	20	75	15	79	26	15	15	43	1.85
3764035--3764073	13	3.0	13	96	0	69	30	17	15	35	1.91
3764194--3764240	21	2.3	21	79	20	55	34	19	4	42	1.70
3764196--3764238	20	2.2	19	84	16	52	32	18	4	44	1.71
3766617--3766642	13	2.0	13	100	0	52	38	15	15	30	1.88
3769800--3769825	13	2.0	13	100	0	52	38	15	15	30	1.88
3769779--3769845	33	2.0	33	85	0	89	44	16	13	25	1.84
3769887--3769911	13	1.9	13	100	0	50	32	16	16	36	1.90
3770576--3770609	9	3.8	9	88	11	52	29	26	0	44	1.55
3776572--3776612	11	3.6	11	83	6	55	0	26	0	73	0.84
3777262--3777671	167	2.5	163	83	5	502	51	6	12	29	1.64
3778258--3778399	28	5.0	28	80	3	142	23	15	30	30	1.95
3778257--3778899	56	11.5	56	77	8	512	25	17	28	28	1.97
3778376--3778492	42	2.8	42	97	0	216	23	17	29	29	1.97
3778457--3778900	195	2.3	195	84	5	576	25	18	28	27	1.98
3778457--3778900	28	15.9	28	86	3	522	25	18	28	27	1.98
3785867--3785911	15	3.0	15	76	0	54	15	0	42	42	1.47
3791216--3791252	14	2.6	14	95	0	65	62	13	0	24	1.31
3792086--3792135	20	2.5	21	87	9	77	36	18	12	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3792164--3792218	19	2.8	20	80	5	67	38	16	12	32	1.86
3792772--3792847	22	3.5	22	85	0	107	28	34	2	34	1.71
3794595--3795412	409	2.0	409	98	0	1564	42	14	15	27	1.86
3800067--3800091	13	1.9	13	100	0	50	36	16	16	32	1.90
3800048--3800118	32	2.2	32	89	0	106	33	12	18	35	1.89
3800163--3800187	13	1.9	13	100	0	50	32	16	16	36	1.90
3800197--3800320	48	2.5	50	88	5	180	36	17	18	27	1.94
3806574--3806667	19	4.8	20	86	5	138	36	18	14	30	1.91
3806574--3806667	39	2.4	39	100	0	188	36	18	14	30	1.91
3806653--3806678	13	2.0	13	100	0	52	38	15	15	30	1.88
3809226--3809266	13	3.2	13	92	0	73	29	12	14	43	1.82
3810043--3810106	33	1.9	32	84	12	85	32	17	12	37	1.87
3810155--3810181	13	2.1	13	100	0	54	40	14	14	29	1.86
3810136--3810200	32	2.0	32	84	3	85	43	16	13	26	1.86
3813350--3813403	19	2.8	20	91	2	83	37	18	14	29	1.91
3813392--3813416	13	1.9	13	100	0	50	40	20	16	24	1.91
3813373--3813435	33	1.9	32	87	9	92	41	17	15	25	1.89
3815628--3815671	13	3.6	12	79	14	54	2	25	0	72	0.96
3815629--3815670	12	3.5	12	81	12	50	2	26	0	71	0.98
3816617--3816659	13	3.3	12	81	15	50	2	20	0	76	0.89
3817111--3817155	21	2.3	19	84	7	54	68	2	0	28	1.01
3817120--3817156	19	1.9	19	89	10	58	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3818420--3818458	19	2.1	19	85	9	53	74	2	10	12	1.17
3819085--3819124	21	2.0	20	85	5	53	67	2	0	30	1.04
3815577--3821513	988	6.0	990	91	2	9311	42	11	12	33	1.78
3820539--3820607	13	5.5	13	69	11	54	5	18	2	72	1.18
3820537--3820607	24	3.0	23	81	8	70	7	18	2	71	1.21
3821257--3821654	160	2.4	164	82	6	463	51	8	12	28	1.67
3824873--3824948	12	5.9	12	70	23	57	11	44	0	43	1.41
3824876--3824957	41	2.1	39	88	9	121	10	42	0	46	1.39
3826526--3829962	476	7.2	474	83	3	4240	37	13	18	30	1.90
3826526--3829962	475	7.2	474	83	3	4224	37	13	18	30	1.90

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