genome.fa.s1.2.7.7.80.10.50.1000.48.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: Scaffold1
Parameters: 2 7 7 80 10 50 1000
Length:  8764944

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   

This is table  48  of  52  ( 6211 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)
7750768--7750818	20	2.6	21	81	9	63	27	1	1	68	1.11
7750747--7750842	31	3.2	29	75	12	79	28	1	4	66	1.16
7752014--7752056	22	2.0	22	95	0	77	46	18	23	11	1.82
7755658--7755692	3	11.7	3	100	0	70	68	0	31	0	0.90
7756131--7756194	27	2.4	27	100	0	128	20	34	12	32	1.90
7758355--7758398	20	2.2	20	84	4	54	52	0	0	47	1.00
7759474--7759516	2	21.5	2	100	0	86	48	0	0	51	1.00
7759800--7759845	22	2.0	24	83	8	60	60	2	0	36	1.09
7759844--7759889	17	2.8	17	87	6	60	45	0	0	54	0.99
7771314--7771351	2	19.0	2	94	0	67	0	52	0	47	1.00
7813949--7813973	2	12.5	2	100	0	50	52	0	48	0	1.00
7814213--7814243	15	2.0	16	93	6	55	0	19	0	80	0.71
7815124--7815157	2	17.0	2	100	0	68	50	0	0	50	1.00
7819429--7819464	16	2.2	17	90	5	56	72	0	0	27	0.85
7819894--7819946	19	2.9	18	76	20	56	60	0	0	39	0.97
7819894--7819941	20	2.6	18	78	18	53	60	0	0	39	0.97
7823170--7823215	24	1.9	24	95	0	83	47	10	8	32	1.69
7824685--7824738	18	2.8	19	78	13	65	66	1	0	31	1.02
7824676--7824730	19	2.9	19	83	5	60	69	1	0	29	0.99
7824751--7824792	21	2.0	21	100	0	84	52	0	0	47	1.00
7824758--7824824	21	3.2	20	75	10	64	52	1	0	46	1.09
7825149--7825221	20	3.7	20	76	12	62	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)
7826703--7826824	35	3.4	34	75	13	88	41	1	0	55	1.15
7829172--7829219	13	3.6	13	81	10	53	54	0	2	43	1.12
7829849--7829888	19	2.1	19	90	9	64	2	30	40	27	1.70
7831835--7832197	189	1.9	189	89	2	568	31	14	16	37	1.90
7835673--7835734	2	31.0	2	96	0	115	48	1	0	50	1.10
7836349--7836378	2	15.0	2	92	0	51	46	0	0	53	1.00
7836506--7836553	2	24.0	2	100	0	96	50	0	0	50	1.00
7837416--7837449	2	17.0	2	100	0	68	50	0	0	50	1.00
7843495--7843543	23	2.0	26	84	11	68	65	0	2	32	1.04
7843505--7843543	12	3.0	13	85	11	53	66	0	0	33	0.92
7843501--7843540	18	2.2	19	86	4	55	65	0	0	35	0.93
7843492--7843556	28	2.6	25	80	14	71	60	0	1	38	1.07
7845384--7845421	12	2.9	13	84	7	51	57	0	0	42	0.98
7845592--7845637	20	2.3	20	82	10	58	32	6	0	60	1.22
7846226--7846259	16	2.3	15	90	10	52	67	0	0	32	0.91
7847113--7847137	8	3.1	8	100	0	50	28	0	0	72	0.86
7849257--7849286	2	15.0	2	100	0	60	50	0	0	50	1.00
7850039--7850096	26	2.2	27	84	9	84	41	1	0	56	1.09
7850048--7850103	26	2.2	26	83	3	69	46	1	0	51	1.11
7850094--7850145	18	2.9	18	82	0	50	51	0	0	48	1.00
7851064--7851118	20	2.6	21	80	8	67	30	5	0	63	1.17
7857259--7857283	2	12.5	2	100	0	50	48	0	52	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7857615--7857667	27	2.0	25	82	13	63	67	0	0	32	0.91
7857621--7857690	34	2.0	35	83	13	90	64	1	0	34	1.03
7857697--7857742	18	2.6	18	86	3	58	43	2	0	54	1.12
7858368--7858424	14	3.9	14	72	22	55	59	0	1	38	1.08
7859791--7859824	12	2.8	12	86	0	50	38	0	0	61	0.96
7860711--7860758	16	3.1	16	80	14	64	37	0	0	62	0.95
7860843--7860885	12	3.6	12	75	12	52	37	4	2	55	1.33
7860842--7860891	24	2.1	24	92	0	82	40	6	2	52	1.38
7861081--7861110	2	15.0	2	92	0	51	53	0	0	46	1.00
7861549--7861584	3	12.0	3	100	0	72	33	0	0	66	0.92
7862623--7862684	29	2.2	26	78	18	70	38	0	0	61	0.96
7863431--7863456	12	2.2	12	100	0	52	92	7	0	0	0.39
7866245--7866306	27	2.3	28	83	8	76	50	1	0	48	1.10
7867784--7867875	16	5.5	17	77	16	52	52	0	0	47	1.00
7867794--7867880	23	3.7	24	81	9	99	50	0	0	49	1.00
7867793--7867893	46	2.2	47	81	15	129	51	0	0	48	1.00
7867848--7867908	18	3.3	19	75	13	56	45	1	0	52	1.10
7867793--7867896	23	4.5	23	72	15	81	50	0	0	49	1.00
7868552--7868576	6	4.2	6	100	0	50	36	0	0	64	0.94
7868865--7868895	2	15.5	2	100	0	62	0	48	0	51	1.00
7869688--7869735	2	24.0	2	100	0	96	50	0	0	50	1.00
7880877--7880937	12	5.0	12	74	9	52	47	1	1	49	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7892603--7892658	20	2.7	21	76	15	55	42	0	0	57	0.99
7892865--7892913	19	2.7	18	87	6	64	61	0	0	38	0.96
7892896--7892921	13	2.0	13	100	0	52	53	0	0	46	1.00
7892864--7892919	19	3.0	18	77	15	60	58	0	0	41	0.98
7892966--7893023	5	12.2	5	72	17	52	37	1	0	60	1.07
7892955--7893000	23	2.0	24	91	4	76	41	0	0	58	0.98
7894912--7894948	17	2.1	18	90	5	58	59	0	0	40	0.97
7895830--7895891	20	3.0	20	78	2	70	46	0	0	53	1.00
7896534--7896610	40	1.9	41	81	7	95	41	0	2	55	1.13
7896606--7896655	23	2.1	24	85	7	66	36	0	0	64	0.94
7896691--7896726	18	2.0	18	88	0	54	50	5	0	44	1.25
7896706--7896752	23	2.0	24	83	4	60	57	2	0	40	1.11
7905737--7905770	13	2.5	13	90	4	50	29	0	0	70	0.87
7907044--7907068	3	8.3	3	100	0	50	32	68	0	0	0.90
7907519--7907572	18	3.2	17	80	19	53	27	0	1	70	0.98
7907893--7907954	21	3.0	20	74	23	56	62	1	0	35	1.05
7907901--7907934	15	2.4	14	90	5	50	64	2	0	32	1.08
7907895--7907958	22	2.9	22	73	19	60	60	1	0	37	1.06
7908490--7908540	22	2.4	22	86	3	77	50	0	0	49	1.00
7909853--7909903	15	3.4	15	73	10	59	47	3	0	49	1.20
7910308--7910385	34	2.1	34	84	11	93	48	0	1	50	1.09
7910315--7910385	36	2.0	35	83	13	83	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7914410--7914468	14	3.9	14	75	16	55	61	3	0	35	1.13
7914435--7914486	21	2.4	22	87	6	70	51	3	3	40	1.38
7923148--7923236	36	2.4	36	81	15	103	56	0	0	43	0.99
7923192--7923240	18	2.8	17	78	9	53	63	0	0	36	0.95
7923190--7923257	18	3.7	18	75	13	50	57	0	2	39	1.14
7923463--7923514	19	2.8	18	79	5	50	48	0	0	51	1.00
7923462--7923522	18	3.3	18	79	6	61	45	0	0	54	1.00
7923494--7923552	25	2.5	24	88	5	93	35	0	0	64	0.94
7925253--7925308	17	3.4	16	74	20	53	48	0	0	51	1.00
7925245--7925303	21	3.0	21	76	19	63	47	0	0	52	1.00
7925253--7925300	17	3.0	16	82	11	55	47	0	0	52	1.00
7929864--7929960	33	2.9	33	73	14	85	56	0	0	43	0.99
7929873--7929976	18	6.4	16	66	25	58	54	0	0	45	0.99
7931157--7931213	25	2.3	25	82	14	73	43	1	0	54	1.10
7931394--7931441	23	2.0	23	84	8	60	50	4	0	45	1.21
7931478--7931520	18	2.3	19	84	15	63	58	0	0	41	0.98
7932149--7932179	3	10.3	3	100	0	62	67	0	32	0	0.91
7932636--7932669	6	5.7	6	85	0	50	0	50	0	50	1.00
7935322--7935359	20	1.9	20	84	10	51	34	0	5	60	1.19
7935994--7936018	1	25.0	1	100	0	50	0	0	0	100	0.00
7939417--7939448	2	16.0	2	93	0	55	46	0	53	0	1.00
7939754--7939813	21	2.8	21	73	12	59	35	1	0	63	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7939776--7939824	12	4.0	12	73	5	53	44	0	0	55	0.99
7940384--7940432	23	2.2	22	79	17	57	55	0	2	42	1.11
7941660--7941703	22	2.0	22	82	8	54	56	0	0	43	0.99
7946426--7946451	11	2.4	11	100	0	52	26	0	0	73	0.84
7946642--7946730	41	2.1	42	82	10	112	58	0	0	41	0.98
7946659--7946730	33	2.2	32	85	7	92	55	0	0	44	0.99
7946687--7946746	18	3.3	18	79	11	52	53	0	0	46	1.00
7946674--7946746	17	4.2	17	68	15	60	53	0	0	46	1.00
7946677--7946750	18	4.2	18	65	22	50	51	0	0	48	1.00
7947695--7947740	18	2.7	16	78	15	56	41	0	2	56	1.11

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52