genome.fa.s228.2.7.7.80.10.50.1000.24.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   

This is table  24  of  27  ( 3133 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)
3686192--3686221	3	10.0	3	100	0	60	33	0	0	66	0.92
3686685--3686722	3	12.7	3	94	0	67	28	0	2	68	1.03
3687010--3687047	20	1.9	20	84	10	51	28	10	2	57	1.45
3687971--3688032	32	2.0	32	84	9	83	70	0	16	12	1.16
3688981--3689045	16	4.1	16	82	2	78	58	1	0	40	1.07
3689064--3689122	14	4.1	14	75	16	57	55	0	1	42	1.09
3689082--3689123	22	2.0	22	85	4	59	52	0	0	47	1.00
3689704--3689743	3	13.3	3	100	0	80	0	32	0	67	0.91
3690409--3690444	17	2.1	17	90	10	56	58	0	0	41	0.98
3691487--3691511	13	1.9	13	100	0	50	36	16	16	32	1.90
3691500--3691544	19	2.4	19	96	0	81	28	11	20	40	1.86
3691589--3691613	13	1.9	13	100	0	50	32	16	16	36	1.90
3694728--3694772	2	23.0	2	86	4	65	51	0	0	48	1.00
3694943--3694993	23	2.3	23	83	10	61	25	1	3	68	1.17
3695942--3695966	2	12.5	2	100	0	50	48	0	0	52	1.00
3698970--3699008	2	19.5	2	100	0	78	51	0	48	0	1.00
3704900--3704962	16	3.8	16	78	15	65	57	0	0	42	0.99
3704906--3705062	22	7.3	21	68	20	60	55	0	1	43	1.07
3704907--3705009	31	3.2	33	75	14	101	55	0	0	44	0.99
3705011--3705069	21	2.8	21	76	23	61	54	0	3	42	1.17
3705306--3705352	21	2.4	19	80	16	51	40	2	0	57	1.11
3706458--3706496	21	2.0	20	85	10	53	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3706623--3706674	16	3.2	16	75	24	56	40	0	0	59	0.97
3706619--3706671	17	3.2	16	78	19	56	39	0	0	60	0.97
3708670--3708695	13	2.0	13	100	0	52	23	46	15	15	1.83
3709887--3710163	140	2.0	142	81	2	326	37	17	15	29	1.91
3709866--3710203	71	4.8	69	77	8	306	37	15	15	31	1.89
3710700--3710764	22	3.0	22	90	0	103	24	4	33	36	1.76
3713404--3713452	26	1.9	25	84	12	64	77	2	2	18	0.96
3713404--3713454	12	4.2	12	76	16	52	76	1	1	19	0.98
3713546--3713589	19	2.4	18	85	7	61	20	22	11	45	1.83
3714517--3714558	22	1.9	22	85	0	57	28	35	9	26	1.88
3715688--3715732	23	1.9	24	82	13	58	26	13	8	51	1.70
3725400--3725467	32	2.1	32	88	0	100	35	11	17	35	1.87
3725515--3725539	13	1.9	13	100	0	50	32	16	16	36	1.90
3732553--3732585	13	2.6	13	90	4	50	75	0	15	9	1.03
3732580--3732609	13	2.3	13	94	0	51	83	16	0	0	0.65
3733897--3734063	61	2.7	60	80	9	176	24	29	13	32	1.94
3733897--3734309	34	12.8	31	80	10	148	20	31	14	34	1.92
3733957--3734345	34	11.9	32	79	10	265	19	32	14	33	1.92
3733891--3734103	30	7.1	29	74	13	130	23	30	13	33	1.93
3734015--3734103	27	3.1	28	85	4	126	23	35	12	28	1.91
3734072--3734327	69	3.7	68	87	2	334	18	32	13	35	1.90
3734337--3734421	27	2.9	30	77	15	88	36	29	12	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3734432--3734957	49	10.8	49	86	4	663	25	26	16	31	1.97
3734710--3734789	27	3.1	27	60	23	64	28	26	12	32	1.93
3734432--3734957	97	5.4	98	90	2	663	25	26	16	31	1.97
3734772--3734957	92	2.0	94	91	3	304	25	26	17	30	1.97
3734915--3735020	55	1.9	55	86	0	149	23	24	15	36	1.93
3736083--3736107	13	1.9	13	100	0	50	32	16	16	36	1.90
3741882--3741992	42	2.7	41	87	4	152	15	31	18	35	1.92
3741928--3742168	84	2.9	84	84	3	306	16	27	19	36	1.93
3741928--3742253	42	7.8	42	73	5	203	16	27	19	36	1.93
3742225--3742278	26	2.1	26	92	0	90	16	29	24	29	1.97
3742141--3742365	109	2.1	110	88	0	335	16	28	20	34	1.95
3742331--3743125	83	9.4	81	73	10	459	16	28	19	35	1.94
3742251--3743127	42	20.7	42	74	7	540	16	28	19	35	1.94
3742331--3743125	125	6.2	125	74	10	488	16	28	19	35	1.94
3742375--3743041	294	2.2	294	83	5	777	16	27	19	35	1.94
3743716--3743798	43	2.0	41	86	9	114	26	24	20	28	1.99
3743895--3743932	19	2.0	19	94	0	67	18	21	10	50	1.76
3753119--3753190	27	2.6	27	80	8	74	50	0	2	47	1.15
3753138--3753190	13	4.0	13	76	13	54	47	0	1	50	1.12
3753145--3753196	27	1.9	27	84	0	68	48	0	1	50	1.12
3753179--3753231	20	2.6	21	87	6	65	54	0	0	45	0.99
3753190--3753232	20	2.2	19	95	4	77	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)
3753203--3753281	16	4.9	15	73	19	54	55	1	0	43	1.07
3753242--3753277	18	2.0	18	94	0	63	58	0	0	41	0.98
3753245--3753288	18	2.5	17	79	13	54	56	0	0	43	0.99
3753319--3753356	16	2.4	16	82	13	51	55	0	0	44	0.99
3755679--3755709	14	2.2	14	94	0	53	70	0	3	25	1.02
3756035--3756100	21	3.1	21	73	4	62	54	0	4	40	1.21
3756218--3756316	29	3.0	35	74	19	104	54	0	2	43	1.11
3757262--3757300	18	2.1	19	85	4	53	58	25	5	10	1.51
3757759--3757830	34	2.2	32	85	9	94	36	0	1	62	1.04
3757759--3757832	32	2.3	32	80	15	82	36	0	1	62	1.04
3759463--3759487	2	12.5	2	100	0	50	48	0	0	52	1.00
3760584--3760623	2	20.0	2	100	0	80	50	0	0	50	1.00
3761580--3761614	3	12.0	3	87	6	54	34	0	2	62	1.10
3761819--3761866	23	2.0	24	88	4	71	45	4	2	47	1.33
3762050--3762083	2	17.0	2	100	0	68	50	0	0	50	1.00
3763590--3763623	17	2.0	17	94	0	59	55	0	0	44	0.99
3763670--3763723	23	2.2	25	90	6	85	46	0	0	53	1.00
3764248--3764280	11	2.8	12	86	9	50	36	0	0	63	0.95
3764330--3764372	22	2.0	22	90	9	70	41	0	0	58	0.98
3764900--3764946	21	2.2	21	88	7	69	55	0	0	44	0.99
3764915--3764943	14	2.0	15	93	6	51	51	0	0	48	1.00
3766360--3766396	16	2.2	16	90	9	56	43	2	0	54	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3766358--3766399	18	2.3	20	76	23	56	40	2	0	57	1.12
3767075--3767114	13	2.9	14	81	7	55	72	5	0	22	1.04
3767112--3767175	28	2.3	28	80	17	71	46	3	3	46	1.34
3767529--3767570	3	14.0	3	100	0	84	33	0	0	66	0.92
3768185--3768234	21	2.3	22	80	16	59	48	6	0	46	1.27
3768688--3768720	3	11.0	3	100	0	66	0	0	66	33	0.92
3770203--3770280	9	8.6	9	69	12	52	23	0	1	75	0.87
3770205--3770277	28	2.6	27	82	12	76	23	0	1	75	0.88
3770209--3770278	18	3.9	17	77	14	61	24	0	1	74	0.90
3770209--3770278	19	4.0	17	78	12	79	24	0	1	74	0.90
3770736--3770788	18	2.9	18	81	13	63	47	1	0	50	1.12
3772771--3772813	2	21.5	2	100	0	86	51	0	0	48	1.00
3773127--3773386	133	2.0	133	94	0	457	36	14	16	32	1.89
3777549--3777580	16	2.0	16	100	0	64	31	25	31	12	1.92
3780796--3781034	59	4.0	59	85	2	293	36	28	15	19	1.93
3780792--3781020	118	1.9	119	86	4	329	35	27	16	20	1.94
3786661--3786789	52	2.5	52	93	0	222	29	17	17	35	1.93
3786798--3786822	13	1.9	13	100	0	50	36	16	16	32	1.90
3786867--3786918	13	3.5	13	73	26	50	36	17	13	32	1.89
3787712--3788269	49	11.5	51	80	11	403	32	18	25	24	1.97
3787815--3788282	49	9.9	47	83	10	573	31	18	25	23	1.98
3787915--3788287	43	8.1	43	82	11	395	31	19	26	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3787915--3788287	92	4.1	92	89	4	506	31	19	26	23	1.98
3788282--3788348	33	2.0	33	97	0	125	22	17	31	28	1.97
3788354--3788913	34	16.7	35	76	10	494	35	11	32	20	1.89
3788354--3788874	102	5.2	101	81	10	595	35	11	33	20	1.88
3788859--3788978	31	3.9	31	80	7	118	29	16	30	24	1.97
3788859--3788972	30	3.7	30	81	8	106	27	17	29	25	1.97
3790252--3790293	15	2.9	15	85	3	59	0	0	19	80	0.70
3797244--3797357	52	2.2	52	90	3	176	29	18	19	32	1.96
3797346--3797370	13	1.9	13	100	0	50	36	16	16	32	1.90
3797357--3797415	21	2.8	21	97	0	109	35	10	15	38	1.81

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