genome.fa.s71.2.7.7.80.10.50.1000.23.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   29   30   31   32   
          33   

This is table  23  of  33  ( 3929 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)
3673602--3673650	21	2.4	22	86	10	68	53	0	0	46	1.00
3674253--3674301	15	3.2	15	82	2	62	40	0	0	59	0.98
3674245--3674291	8	6.1	8	75	9	53	34	0	0	65	0.93
3674970--3675076	17	6.1	16	69	20	54	36	0	2	60	1.11
3675142--3675178	14	2.6	15	83	8	51	43	2	0	54	1.14
3675241--3675285	19	2.3	20	84	3	56	57	0	0	42	0.98
3675495--3675525	16	1.9	16	93	0	53	67	0	6	25	1.14
3677999--3678038	14	2.9	14	88	3	55	62	0	0	37	0.95
3678220--3678245	7	3.7	7	100	0	52	15	38	15	30	1.88
3678845--3678885	17	2.4	18	76	12	50	43	4	0	51	1.23
3683562--3683640	15	5.3	15	68	14	56	59	0	1	39	1.06
3683562--3683682	59	2.1	58	83	12	149	58	0	0	39	1.09
3684157--3684356	76	2.6	76	95	2	357	49	3	0	47	1.20
3684269--3684316	21	2.3	21	78	7	53	60	2	0	37	1.09
3684547--3684592	15	2.7	17	74	19	51	73	2	23	0	0.94
3684602--3684675	31	2.4	29	79	16	78	32	0	1	66	1.00
3684688--3684735	21	2.3	21	88	0	69	31	2	6	60	1.33
3684545--3685445	489	1.8	499	85	5	1276	36	5	8	49	1.58
3686156--3686221	17	3.8	17	86	8	71	46	1	0	51	1.10
3686181--3686221	17	2.4	17	95	0	73	48	0	0	51	1.00
3686178--3686307	60	2.3	58	79	14	144	41	0	0	57	1.04
3686210--3686318	20	5.4	20	70	19	84	36	0	0	62	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3686415--3686452	4	10.0	4	86	11	53	78	0	21	0	0.74
3686424--3686458	11	3.2	11	83	0	52	85	0	14	0	0.59
3686416--3686457	19	2.2	20	95	4	77	83	0	16	0	0.65
3686415--3686458	22	2.0	22	95	4	79	81	0	18	0	0.68
3686485--3686554	26	2.7	24	81	14	77	30	1	2	65	1.15
3686629--3686666	17	2.2	17	86	13	51	47	0	5	47	1.24
3690074--3690115	2	21.0	2	100	0	84	50	0	0	50	1.00
3691113--3691151	15	2.7	15	85	14	55	38	0	0	61	0.96
3691513--3691549	19	2.0	19	89	5	58	40	0	0	59	0.97
3693069--3693118	18	2.6	19	81	12	50	34	0	4	62	1.14
3693086--3693175	21	4.4	20	70	18	53	40	1	2	56	1.19
3693106--3693160	17	3.2	17	74	18	51	40	0	1	58	1.09
3693182--3693235	27	2.0	27	89	7	83	29	0	1	68	1.00
3695891--3695965	37	2.0	37	82	10	91	61	0	1	37	1.05
3696391--3696417	2	13.5	2	100	0	54	48	0	0	51	1.00
3699636--3699680	2	22.5	2	100	0	90	51	0	0	48	1.00
3699680--3699724	2	22.5	2	100	0	90	51	0	48	0	1.00
3702071--3702149	38	2.1	38	92	0	131	43	25	6	25	1.78
3703314--3703339	12	2.2	12	100	0	52	65	34	0	0	0.93
3704001--3704030	3	10.0	3	100	0	60	66	0	0	33	0.92
3708202--3708242	2	20.5	2	100	0	82	51	0	48	0	1.00
3713576--3713652	26	3.1	25	81	14	97	50	0	1	48	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3713680--3713735	28	1.9	29	86	13	80	55	1	1	41	1.21
3713676--3713743	14	4.9	13	73	21	50	54	1	1	42	1.18
3714227--3714277	18	2.7	19	79	17	61	43	0	0	56	0.99
3714593--3714630	13	2.8	13	84	15	51	55	0	0	44	0.99
3714616--3714677	16	4.0	14	74	17	52	41	0	0	58	0.98
3714853--3714908	14	4.0	14	80	11	53	55	0	0	44	0.99
3718283--3718900	306	2.0	307	95	0	1105	32	20	11	34	1.89
3720889--3720938	21	2.4	21	76	3	57	12	20	14	54	1.71
3725841--3725870	6	5.0	6	95	0	51	46	0	53	0	1.00
3735170--3735198	10	3.0	10	95	5	51	41	51	0	6	1.28
3743288--3743319	3	10.7	3	93	0	55	62	0	37	0	0.95
3744625--3744668	18	2.3	18	84	7	52	56	4	0	38	1.20
3747627--3747750	24	5.9	23	68	25	69	46	0	1	51	1.10
3747652--3747686	17	2.0	18	88	5	54	54	0	0	45	0.99
3747639--3747688	18	2.9	18	80	11	52	54	0	0	46	1.00
3748417--3748465	24	2.0	25	88	4	73	34	0	0	65	0.93
3748817--3748869	27	2.0	27	85	7	72	54	0	1	43	1.11
3749432--3749501	16	4.0	18	72	24	69	48	0	0	51	1.00
3749428--3749503	32	2.7	27	76	21	84	46	0	0	53	1.00
3749440--3749510	32	2.2	33	85	7	101	42	0	0	57	0.98
3749491--3749558	6	11.3	6	74	12	50	32	0	0	67	0.91
3749493--3749542	21	2.5	20	87	12	75	26	0	0	74	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3751899--3751971	20	3.7	20	78	7	69	42	0	0	57	0.98
3751921--3751973	16	3.1	17	81	13	65	39	0	0	60	0.97
3751900--3751959	12	4.5	13	74	24	54	43	0	0	56	0.99
3751938--3751986	18	2.7	18	75	15	55	40	0	0	59	0.98
3753080--3753128	16	3.2	17	72	24	54	55	0	0	44	0.99
3753071--3753172	15	7.2	13	72	22	55	57	1	2	37	1.25
3754506--3754566	25	2.5	24	79	10	70	39	0	0	60	0.97
3754506--3754583	16	4.5	17	72	17	54	39	1	0	58	1.06
3766404--3766512	14	7.7	14	69	18	66	38	0	0	60	1.03
3766413--3766494	22	3.8	21	72	18	53	39	1	0	59	1.05
3766424--3766466	20	2.2	20	91	4	70	44	0	0	55	0.99
3766477--3766560	39	2.1	40	84	2	107	32	1	2	64	1.14
3766722--3766768	11	4.1	12	86	8	62	27	0	2	70	0.99
3766724--3766769	23	2.0	22	87	4	65	28	0	2	69	1.00
3766978--3767011	16	2.1	17	88	5	52	67	2	0	29	1.05
3767686--3767716	15	2.0	16	93	6	55	38	0	0	61	0.96
3767822--3767868	18	2.5	19	89	6	69	10	8	10	70	1.35
3767920--3767968	24	2.0	24	88	7	73	38	0	0	61	0.96
3768271--3768323	21	2.5	21	74	20	56	18	0	9	71	1.12
3768974--3769060	13	6.2	13	72	19	50	40	1	1	57	1.14
3769033--3769085	15	3.5	15	76	14	56	49	0	0	50	1.00
3769011--3769071	14	4.3	15	76	15	58	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3770850--3770924	29	2.5	29	81	14	82	46	0	0	53	1.00
3770862--3770958	34	2.7	34	78	12	90	49	1	0	49	1.07
3770934--3771031	37	2.8	36	78	10	98	44	0	1	54	1.07
3771046--3771087	17	2.5	16	78	21	50	47	2	2	47	1.28
3779886--3780055	89	1.9	90	87	3	254	30	10	17	41	1.82
3780853--3780901	21	2.3	21	82	6	55	51	4	38	6	1.46
3784724--3784765	3	14.0	3	100	0	84	66	0	0	33	0.92
3789782--3789823	2	21.5	2	90	4	68	52	0	0	47	1.00
3792331--3792369	11	3.3	12	86	13	55	38	0	0	61	0.96
3792367--3792404	20	1.9	20	84	10	51	31	0	2	65	1.06
3795349--3795393	2	22.5	2	100	0	90	51	0	0	48	1.00
3803918--3803973	20	2.7	21	77	20	64	23	1	5	69	1.18
3803897--3803973	24	3.5	22	75	14	63	24	2	5	67	1.24
3804435--3804484	20	2.5	20	83	3	64	84	0	12	4	0.76
3804438--3804482	15	2.9	15	83	6	54	82	0	13	4	0.82
3804571--3804636	21	3.2	21	79	14	75	25	3	3	68	1.19
3804571--3804621	21	2.4	22	90	3	77	27	1	3	66	1.20
3804550--3804636	21	4.3	20	75	15	72	26	3	3	66	1.23
3804557--3804638	22	3.8	21	66	26	55	25	3	3	67	1.24
3803763--3805019	670	1.9	665	82	8	1597	43	4	6	46	1.49
3804840--3804880	15	2.7	15	82	17	57	63	0	0	36	0.95
3804972--3805031	21	3.2	20	80	15	67	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3805855--3805888	2	17.0	2	100	0	68	50	0	0	50	1.00
3807200--3807265	28	2.3	29	84	10	82	43	0	0	56	0.99
3812598--3812707	23	4.6	25	68	17	63	39	0	0	60	1.03
3813934--3813977	20	2.2	20	83	0	52	47	0	2	50	1.13
3814042--3814066	13	1.9	13	100	0	50	68	0	0	32	0.90
3814054--3814088	18	1.9	18	88	0	52	68	0	2	28	1.04
3817793--3817819	2	13.5	2	100	0	54	51	0	0	48	1.00
3826468--3826592	63	2.0	63	93	0	214	21	30	14	33	1.93
3829644--3829712	35	2.0	35	85	0	93	31	21	18	27	1.97
3831667--3831691	1	25.0	1	100	0	50	0	0	0	100	0.00

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   29   30   31   32   
          33