genome.fa.s223.2.7.7.80.10.50.1000.23.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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  ( 3021 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)
3648107--3648213	55	1.9	55	83	3	135	26	8	6	58	1.51
3649329--3649364	18	1.9	19	88	5	56	66	8	8	16	1.42
3649872--3649901	2	15.0	2	92	0	51	53	0	0	46	1.00
3651035--3651076	19	2.2	20	86	4	59	38	0	0	61	0.96
3655653--3655724	32	2.2	32	85	9	92	55	0	2	41	1.14
3655690--3655751	23	2.6	24	75	10	65	46	0	3	50	1.17
3655718--3655764	18	2.5	20	77	19	57	38	0	2	59	1.09
3656078--3656110	15	2.1	17	88	11	52	45	0	0	54	0.99
3656673--3656745	22	3.3	21	78	14	76	56	2	0	41	1.14
3656838--3656917	28	2.9	27	83	10	117	56	0	0	43	0.99
3656836--3656917	27	3.0	26	83	15	112	54	0	0	45	0.99
3657308--3657350	20	2.1	21	87	12	63	62	0	0	37	0.95
3657313--3657354	21	2.1	20	83	16	52	64	0	0	35	0.94
3659369--3659439	16	4.6	16	68	18	51	57	1	2	38	1.22
3659401--3659435	17	2.0	18	88	5	54	68	0	0	31	0.90
3659890--3659929	20	2.0	21	85	5	55	55	0	2	42	1.13
3662131--3662184	22	2.5	22	84	6	74	35	3	7	53	1.47
3662348--3662406	24	2.6	22	78	10	57	33	3	10	52	1.52
3662819--3662867	16	3.0	16	80	14	55	67	0	0	32	0.91
3662827--3662893	21	3.0	22	83	12	75	62	0	0	37	0.95
3662795--3662927	11	11.7	11	72	13	83	60	0	0	39	0.97
3662795--3662927	38	3.4	38	74	16	103	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3663679--3663720	19	2.3	18	88	8	59	28	0	2	69	1.01
3663920--3663973	16	3.4	16	76	19	51	27	0	3	68	1.06
3664495--3664527	17	1.9	17	93	0	57	60	0	0	39	0.97
3664805--3664891	21	3.9	21	71	18	61	47	1	1	50	1.16
3669457--3669490	16	2.2	16	89	5	52	32	0	2	64	1.08
3669554--3669600	19	2.4	19	76	16	51	44	0	2	53	1.12
3670859--3670920	31	2.0	32	84	9	83	43	1	6	48	1.38
3670943--3670967	13	1.9	13	100	0	50	36	0	0	64	0.94
3671601--3671654	16	3.4	15	78	12	54	25	7	7	59	1.51
3671877--3671931	25	2.2	25	87	9	76	38	12	0	49	1.41
3674322--3674360	20	2.0	20	85	10	53	46	0	0	53	1.00
3677770--3677928	54	3.0	54	88	0	239	55	5	13	25	1.60
3678381--3678421	19	2.2	19	86	8	57	21	4	9	63	1.44
3686239--3686309	25	2.8	25	75	16	65	52	1	0	46	1.09
3688513--3688544	16	2.1	16	94	5	57	56	0	0	43	0.99
3692950--3693055	20	5.7	19	71	18	73	54	0	0	43	1.13
3693609--3693635	2	13.5	2	100	0	54	48	0	0	51	1.00
3696692--3696717	2	13.0	2	100	0	52	50	0	0	50	1.00
3699525--3699567	22	2.0	20	82	8	50	48	4	0	46	1.22
3700086--3700112	14	1.9	14	100	0	54	37	0	0	62	0.95
3704921--3704977	28	1.9	31	86	10	84	42	0	1	56	1.10
3705620--3705657	12	3.2	12	81	11	51	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3705617--3705672	24	2.4	23	80	19	64	44	0	0	55	0.99
3705680--3705731	27	2.0	26	84	3	68	44	3	0	51	1.19
3707555--3707630	38	2.0	38	92	0	125	26	22	15	35	1.94
3712400--3712446	2	23.5	2	100	0	94	51	0	0	48	1.00
3712623--3713070	54	8.0	54	72	14	284	39	3	6	50	1.46
3712730--3712804	27	2.8	28	71	6	73	41	4	6	48	1.48
3712729--3713090	121	3.1	118	73	16	318	38	4	7	49	1.51
3712624--3713066	175	2.7	164	80	14	457	39	3	6	49	1.46
3712850--3713066	54	3.9	53	89	6	299	39	3	7	49	1.50
3713178--3713259	43	1.9	43	87	0	119	45	3	9	41	1.55
3713142--3713397	135	1.8	136	90	5	415	42	3	8	46	1.49
3713604--3713644	15	2.9	15	79	17	52	53	4	0	41	1.22
3713591--3713650	23	2.6	23	71	10	59	48	5	0	46	1.24
3718120--3718159	20	2.0	20	85	5	53	25	0	2	72	0.97
3718046--3718190	73	2.0	72	94	4	256	34	1	6	57	1.34
3727446--3727477	2	16.0	2	100	0	64	50	0	0	50	1.00
3727490--3727799	157	2.0	157	85	5	421	31	15	10	41	1.82
3727764--3727809	14	3.2	14	82	14	58	30	4	13	52	1.59
3729739--3729791	17	2.8	20	77	13	58	30	9	1	58	1.40
3739476--3739507	16	2.0	16	93	0	55	15	3	0	81	0.82
3739616--3739662	14	3.6	13	77	8	51	2	19	0	78	0.85
3739621--3739659	18	2.2	18	85	0	51	2	20	0	76	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3741842--3741899	26	2.4	25	77	11	66	3	20	1	74	1.06
3743007--3743069	21	3.0	21	75	8	67	30	11	19	39	1.86
3746463--3746536	36	2.0	37	86	2	105	54	5	4	36	1.43
3748943--3748972	11	2.7	11	100	0	60	70	6	10	13	1.34
3754729--3754795	37	1.9	35	88	11	102	29	25	11	32	1.92
3755254--3755279	13	2.0	13	100	0	52	30	15	15	38	1.88
3755963--3756008	21	2.2	21	84	7	58	26	30	4	39	1.75
3756255--3756314	30	2.0	30	93	0	102	36	30	3	30	1.74
3756901--3756930	13	2.3	13	100	0	60	40	16	13	30	1.87
3760127--3760193	37	1.9	35	88	11	102	29	25	11	32	1.92
3764695--3764735	21	1.9	22	85	5	57	46	2	12	39	1.54
3765707--3765759	22	2.4	22	90	0	79	39	3	1	54	1.29
3766775--3766893	30	4.0	30	73	5	107	49	3	6	40	1.46
3767242--3767280	3	13.0	3	100	0	78	66	0	0	33	0.92
3767331--3767360	16	1.9	15	93	6	51	46	0	3	50	1.18
3767626--3767693	24	2.8	25	73	10	70	54	0	5	39	1.25
3768825--3768858	17	2.1	16	89	10	52	64	0	0	35	0.94
3781446--3781495	4	12.5	4	86	0	73	46	24	4	26	1.70
3782177--3782218	20	2.2	20	79	12	52	47	0	0	52	1.00
3783670--3783724	2	27.5	2	100	0	110	49	0	0	50	1.00
3783775--3784111	166	2.0	171	84	5	443	29	15	15	39	1.88
3789302--3789360	24	2.5	24	83	5	68	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3789313--3789360	14	3.3	14	80	11	60	56	0	0	43	0.99
3789313--3789360	8	6.0	8	85	0	51	56	0	0	43	0.99
3789692--3789728	18	2.0	19	89	5	58	51	5	10	32	1.60
3790004--3790034	4	7.8	4	100	0	62	77	0	0	22	0.77
3790822--3790863	21	2.0	21	86	9	59	33	23	11	30	1.91
3794802--3794851	24	2.1	24	88	7	75	50	18	16	16	1.79
3799333--3799424	45	2.0	45	97	0	175	43	13	16	27	1.84
3801481--3801517	2	18.5	2	100	0	74	48	0	0	51	1.00
3802372--3802431	16	3.8	16	77	0	66	50	5	3	41	1.41
3808261--3808300	19	2.1	19	100	0	80	55	10	10	25	1.64
3809432--3809456	12	2.1	12	100	0	50	48	8	8	36	1.62
3811802--3811921	37	3.2	36	76	9	116	45	5	0	48	1.32
3811814--3811852	20	1.9	21	89	5	62	43	5	2	48	1.38
3812934--3812965	15	2.2	14	94	5	55	62	3	0	34	1.11
3812968--3813029	10	6.1	10	73	16	56	30	0	3	66	1.08
3812970--3813030	15	4.1	15	81	12	63	31	0	3	65	1.09
3812970--3813025	29	2.0	28	86	10	78	30	0	3	66	1.09
3813000--3813029	11	2.7	11	89	0	51	30	0	0	70	0.88
3814152--3814181	2	15.0	2	100	0	60	50	0	0	50	1.00
3814379--3814421	20	2.1	21	80	20	56	58	0	0	41	0.98
3814937--3815026	21	4.3	21	76	9	76	34	3	24	37	1.72
3815064--3815094	16	1.9	16	100	0	62	45	6	12	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3816128--3816154	13	2.1	13	100	0	54	29	14	14	40	1.86
3816140--3816213	20	3.8	20	87	8	107	33	13	16	36	1.88
3821377--3821416	13	3.1	13	96	0	71	32	15	12	40	1.84
3823952--3824003	20	2.7	19	85	11	70	32	15	17	34	1.91
3827993--3828028	18	2.0	18	100	0	72	44	38	5	11	1.63
3828047--3828122	20	3.7	20	81	10	82	36	13	10	39	1.79
3830495--3830665	78	2.2	79	81	9	190	28	24	11	36	1.89
3830651--3830695	20	2.2	20	84	0	54	37	8	4	48	1.55
3830691--3830876	79	2.4	79	83	3	223	24	25	14	34	1.94
3830851--3830910	29	2.1	29	87	0	84	23	33	15	28	1.94

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