genome.fa.s127.2.7.7.80.10.50.1000.25.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  25  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)
3921396--3921955	90	6.2	91	82	4	620	34	15	8	41	1.77
3922088--3922398	123	2.5	126	79	10	332	52	1	3	42	1.29
3922765--3922853	23	3.9	23	77	12	76	35	1	2	60	1.16
3922792--3923084	111	2.6	111	85	9	368	44	1	1	52	1.19
3923050--3923109	31	1.9	31	86	6	86	51	1	0	46	1.10
3923097--3923153	27	2.1	27	80	6	62	54	1	1	42	1.21
3923189--3923236	15	3.3	15	77	11	55	56	0	0	43	0.99
3923181--3923236	29	1.9	29	82	13	71	53	1	0	44	1.11
3923928--3923977	19	2.7	19	79	14	59	64	0	0	36	0.94
3924672--3924714	20	2.2	20	83	8	52	46	0	0	53	1.00
3924674--3924714	22	2.0	20	85	9	55	46	0	0	53	1.00
3924693--3924781	32	2.7	32	81	8	90	46	0	1	52	1.07
3927845--3927877	2	16.5	2	100	0	66	48	0	51	0	1.00
3927942--3927970	2	14.5	2	100	0	58	48	0	51	0	1.00
3928544--3928580	15	2.5	15	95	0	65	45	13	5	35	1.66
3930565--3930610	15	3.4	14	82	11	51	63	0	0	36	0.95
3930574--3930610	15	2.3	16	90	9	58	64	0	0	35	0.94
3931683--3931733	21	2.4	21	83	6	59	49	1	1	47	1.24
3931869--3931923	23	2.3	24	90	3	85	45	7	7	40	1.60
3932254--3932321	25	3.0	23	68	27	63	36	2	4	55	1.35
3933805--3933882	39	2.0	39	92	0	129	50	2	3	43	1.34
3934439--3934469	12	2.5	13	94	5	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3935159--3935188	11	2.9	10	90	9	51	43	0	0	56	0.99
3935152--3935207	22	2.5	23	79	5	69	42	0	0	57	0.99
3935194--3935244	16	3.2	16	86	8	77	43	0	0	56	0.99
3935143--3935244	38	2.9	36	82	16	110	44	0	0	55	0.99
3935179--3935241	16	3.8	16	83	10	74	46	0	0	53	1.00
3935162--3935244	32	2.6	31	80	16	91	44	0	0	55	0.99
3935414--3935468	21	2.6	21	78	16	60	32	3	0	63	1.12
3935415--3935491	11	7.1	10	72	19	57	32	3	0	63	1.12
3937165--3937207	22	2.0	21	81	4	50	44	0	0	55	0.99
3937222--3937262	17	2.4	18	84	15	52	60	2	0	36	1.10
3937539--3937603	32	1.9	33	85	14	89	46	0	0	53	1.00
3937764--3937813	6	8.3	6	78	8	57	60	2	2	36	1.20
3937751--3937813	18	3.6	17	78	14	58	60	1	1	36	1.16
3937764--3937819	18	3.1	18	77	10	60	57	1	1	39	1.20
3939090--3939143	20	2.7	18	78	18	54	62	0	0	37	0.95
3940163--3940196	17	1.9	18	88	5	52	55	5	0	38	1.24
3941444--3941487	23	1.9	23	100	0	88	34	0	0	65	0.93
3943800--3943870	35	2.0	35	83	5	90	53	1	2	42	1.24
3946074--3946099	2	13.0	2	100	0	52	50	0	0	50	1.00
3947610--3947693	39	2.2	37	80	16	91	46	0	0	53	1.00
3949597--3949646	24	2.0	25	88	11	75	30	0	4	66	1.10
3949596--3949655	24	2.5	22	73	23	59	26	0	3	70	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3949770--3949815	16	2.9	16	81	15	51	47	0	0	52	1.00
3951017--3951049	6	5.5	6	89	10	50	69	0	15	15	1.19
3951103--3951168	27	2.5	26	83	11	82	54	0	0	45	0.99
3951124--3951166	22	2.0	23	86	13	65	55	0	0	44	0.99
3952056--3952110	23	2.5	21	76	8	56	63	1	3	30	1.22
3952322--3952409	11	8.0	11	68	14	56	62	1	2	34	1.15
3952314--3952371	23	2.5	24	81	16	68	70	0	0	29	0.87
3952329--3952370	21	1.9	23	90	9	70	71	0	0	28	0.86
3953148--3953188	17	2.4	18	80	19	52	34	0	0	65	0.93
3953501--3953540	18	2.3	18	95	4	73	40	32	5	22	1.76
3953501--3953565	17	3.8	17	82	8	69	36	24	10	27	1.89
3953975--3954020	19	2.4	19	82	10	58	34	2	4	58	1.30
3954704--3954754	27	1.9	27	92	4	86	37	0	0	62	0.95
3954685--3954748	34	1.9	33	87	9	94	34	1	1	62	1.14
3955174--3955224	24	2.2	23	85	3	66	58	1	0	39	1.09
3955174--3955236	24	2.7	23	80	4	63	58	1	0	39	1.07
3955350--3955407	27	2.2	26	82	11	73	58	1	3	36	1.25
3962923--3962948	13	2.0	13	100	0	52	30	15	15	38	1.88
3963008--3963080	20	3.6	20	81	3	101	31	19	13	35	1.91
3962987--3963080	41	2.3	41	96	0	170	30	18	12	38	1.88
3962987--3963062	21	3.7	21	78	3	91	30	17	11	40	1.85
3965526--3965564	13	3.0	13	96	0	69	35	15	17	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3965550--3965628	20	3.7	20	78	15	77	44	15	15	25	1.85
3967642--3967672	15	2.1	15	93	0	53	12	22	16	48	1.80
3971735--3971760	13	2.0	13	100	0	52	30	15	15	38	1.88
3971820--3971892	20	3.6	20	81	3	101	31	19	13	35	1.91
3971799--3971892	41	2.3	41	96	0	170	30	18	12	38	1.88
3971799--3971874	21	3.7	21	78	3	91	30	17	11	40	1.85
3983391--3983434	23	1.9	23	100	0	88	25	15	27	31	1.96
3988554--3988632	21	3.8	21	78	6	72	35	10	15	39	1.81
3988553--3988631	41	1.9	41	84	5	106	36	10	15	37	1.81
3989212--3989272	28	2.0	29	81	12	70	47	1	3	47	1.28
3998026--3998098	36	2.0	36	84	5	94	35	13	8	42	1.74
3999852--3999913	20	3.1	20	81	9	65	50	0	0	50	1.00
3999868--3999924	20	2.8	19	84	10	69	54	0	0	45	0.99
4003621--4003653	2	16.5	2	100	0	66	0	48	0	51	1.00
4005280--4005639	179	2.0	183	93	2	629	20	19	20	38	1.93
4005958--4005983	2	13.0	2	100	0	52	50	0	0	50	1.00
4006561--4006592	16	2.0	17	88	11	50	43	12	34	9	1.75
4008068--4008133	13	4.9	13	76	20	64	56	0	0	43	0.99
4008070--4008155	26	3.3	26	71	20	65	55	1	0	43	1.07
4008112--4008167	24	2.3	24	81	6	69	51	5	0	42	1.24
4008252--4008283	3	10.7	3	100	0	64	68	0	0	31	0.90
4011297--4011330	2	17.0	2	87	0	50	50	5	0	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4013213--4013278	27	2.4	27	90	7	98	22	7	22	46	1.77
4017782--4017847	27	2.4	27	90	7	98	22	7	22	46	1.77
4017839--4017899	24	2.5	24	89	5	88	22	8	24	44	1.80
4017854--4017905	24	2.2	24	100	0	104	15	9	30	44	1.78
4024714--4024800	16	5.4	16	70	10	52	11	16	27	44	1.81
4025162--4025204	11	4.2	10	83	16	61	60	0	0	39	0.97
4025702--4025732	16	2.0	15	93	6	53	29	12	0	58	1.35
4026231--4026283	16	3.3	16	74	10	54	5	16	33	43	1.72
4030657--4030807	58	2.6	58	82	2	178	45	14	11	28	1.81
4030813--4030909	48	2.0	47	88	2	140	51	13	12	22	1.74
4030877--4030931	21	2.7	21	76	18	62	56	9	14	20	1.65
4031572--4031602	16	2.0	15	93	6	53	0	19	3	77	0.90
4033057--4034096	524	2.0	522	89	2	1480	33	14	14	37	1.86
4034493--4034944	78	5.8	78	74	3	343	34	16	10	38	1.83
4035195--4035280	29	3.0	29	71	6	75	53	15	9	22	1.69
4035195--4035325	59	2.2	59	82	1	147	48	15	9	25	1.75
4035235--4035359	59	2.1	58	80	11	130	47	14	12	26	1.79
4035513--4035540	3	9.3	3	100	0	56	32	32	0	35	1.58
4049281--4049371	47	1.9	47	88	4	139	39	20	6	32	1.79
4050466--4050507	21	2.0	21	95	0	75	45	0	0	54	0.99
4051082--4051130	20	2.5	19	77	9	53	55	2	2	40	1.23
4054969--4055002	2	16.5	2	93	6	59	47	2	0	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4057814--4057852	20	1.9	19	85	10	51	28	5	7	58	1.47
4058437--4058472	16	2.2	16	90	0	54	27	0	13	58	1.36
4058490--4058522	2	16.5	2	93	0	57	51	0	0	48	1.00
4066813--4066867	16	3.4	16	74	0	56	47	1	0	50	1.11
4067047--4067081	15	2.2	16	90	5	54	48	2	2	45	1.32
4068091--4068185	47	2.1	47	83	13	119	7	16	2	73	1.15
4068907--4068936	2	14.5	2	93	6	51	46	0	3	50	1.18
4069860--4069912	26	2.0	27	82	10	65	50	0	0	49	1.00
4077242--4077295	24	2.2	24	83	9	65	29	0	3	66	1.09
4077532--4077561	13	2.3	13	100	0	60	60	6	0	33	1.23

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