genome.fa.s412.2.7.7.80.10.50.1000.3.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   

This is table  3  of  32  ( 3728 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)
537565--537611	24	2.0	24	82	0	58	46	4	2	46	1.34
537604--537678	32	2.3	32	79	4	78	38	0	4	57	1.18
537661--537750	19	4.6	20	69	23	66	33	3	0	63	1.11
537697--537746	21	2.3	23	80	16	63	34	0	0	66	0.92
537842--537978	8	15.8	8	71	22	66	40	2	0	56	1.16
537825--537919	28	3.5	26	75	18	86	43	2	0	54	1.12
537842--537922	19	4.3	19	71	25	57	41	1	0	56	1.07
537941--537987	12	3.9	12	81	8	60	36	2	0	61	1.08
538229--538258	15	2.0	15	100	0	60	46	0	0	53	1.00
538491--538550	11	5.6	11	75	9	54	61	0	0	38	0.96
538493--538550	21	2.7	21	86	7	73	60	0	0	39	0.97
538776--538812	14	2.9	14	84	15	53	37	0	0	62	0.96
538879--539051	93	1.9	93	93	0	301	36	6	22	33	1.81
541739--541850	41	2.8	40	71	20	101	48	0	0	50	1.06
541985--542018	14	2.4	14	90	0	50	58	0	0	41	0.98
542012--542046	16	2.1	17	89	5	54	57	0	0	42	0.99
543346--543381	16	2.2	17	90	9	58	69	0	0	30	0.89
544360--544399	15	2.7	15	84	0	53	42	0	0	57	0.98
545124--545161	2	19.0	2	94	0	67	52	0	0	47	1.00
548012--548101	37	2.6	34	83	13	96	52	0	1	46	1.07
548052--548099	16	3.0	16	80	17	55	50	0	0	50	1.00
558188--558229	3	14.0	3	89	0	66	0	38	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558493--558565	21	3.5	21	75	15	71	61	0	0	38	0.96
558496--558561	19	3.3	19	73	21	53	60	0	0	39	0.97
558510--558566	24	2.5	23	78	15	64	63	0	0	36	0.95
558726--558771	16	2.9	15	81	12	56	43	0	0	56	0.99
561339--561387	24	2.0	24	100	0	98	44	16	4	34	1.66
568503--568539	2	18.5	2	100	0	74	51	0	48	0	1.00
568937--569005	28	2.4	27	79	9	75	46	1	0	52	1.09
568952--569014	25	2.8	22	72	27	60	52	0	0	47	1.00
570006--570063	19	3.3	19	76	13	61	39	0	0	60	0.97
570031--570089	19	3.1	18	80	11	55	50	0	0	49	1.00
570280--570309	15	2.0	15	100	0	60	60	0	0	40	0.97
570407--570464	18	3.4	17	76	21	59	60	0	0	39	0.97
570380--570480	15	6.3	16	72	23	72	58	0	0	40	1.05
570399--570479	31	2.7	31	81	14	82	59	0	1	39	1.05
570433--570490	29	2.0	29	83	6	73	58	3	1	36	1.25
572044--572117	8	9.0	8	72	16	62	40	0	0	59	0.97
572049--572101	13	3.3	17	75	22	51	41	0	0	58	0.98
572036--572150	33	3.4	33	75	15	103	40	0	0	57	1.11
572045--572117	18	4.4	17	72	16	64	39	0	0	60	0.97
572259--572288	3	10.0	3	100	0	60	66	0	0	33	0.92
572958--573006	26	1.9	25	84	12	64	55	2	0	42	1.11
572958--573006	25	1.9	26	84	12	66	55	2	0	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573047--573108	16	3.9	16	70	10	56	50	0	1	48	1.10
573051--573109	31	1.9	31	86	6	84	47	0	1	50	1.11
573197--573268	30	2.3	31	80	11	83	50	0	1	48	1.09
573270--573307	11	3.7	10	83	16	51	34	0	0	65	0.93
573261--573307	20	2.4	19	86	13	60	38	0	0	61	0.96
573627--573745	23	5.0	24	70	17	79	60	0	0	38	1.03
573683--573750	11	5.8	11	74	19	66	64	1	0	33	1.02
573767--573846	22	3.4	22	71	20	72	63	0	0	36	0.94
573760--573847	18	4.7	19	71	12	67	62	0	0	37	0.95
573805--573858	27	2.0	27	85	7	74	61	3	0	35	1.14
574099--574174	24	3.2	24	77	17	77	51	0	0	48	1.00
574101--574195	24	3.7	25	72	18	72	50	0	0	49	1.00
576947--577002	27	2.0	28	86	10	78	66	3	5	25	1.29
581081--581128	25	2.0	25	87	4	71	33	2	0	64	1.05
581799--581861	28	2.2	29	77	8	67	19	6	14	60	1.55
590798--590878	17	4.8	17	71	13	60	38	2	0	59	1.11
590787--590878	34	2.6	34	80	11	107	39	2	0	58	1.10
592689--592734	16	2.8	17	78	21	53	36	0	0	63	0.95
592688--592748	28	2.2	28	80	11	74	40	0	0	59	0.98
592721--592776	19	3.1	18	76	16	55	46	0	1	51	1.11
592801--592850	18	2.7	19	87	6	68	36	0	0	64	0.94
594226--594253	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594642--594695	22	2.4	23	81	9	58	48	5	1	44	1.37
595958--596015	21	2.7	21	76	10	64	46	6	0	46	1.29
596729--596772	17	2.5	17	85	7	52	52	0	0	47	1.00
596756--596837	25	3.2	25	74	17	78	41	1	1	56	1.15
596756--596831	23	3.0	23	73	25	73	40	1	1	56	1.16
596799--596843	22	2.0	23	86	4	65	37	0	0	62	0.96
596694--596852	25	6.6	25	64	18	68	42	0	0	55	1.08
597206--597272	27	2.4	29	80	14	79	44	1	0	53	1.09
597227--597274	18	2.7	17	75	18	53	47	0	0	52	1.00
598282--598320	20	2.0	19	85	5	51	28	0	0	71	0.86
598880--598920	13	3.2	13	76	16	50	36	0	0	63	0.95
599465--599511	24	2.0	24	91	8	78	38	0	2	59	1.09
599465--599510	11	3.9	12	81	16	60	36	0	2	60	1.09
600396--600428	5	6.6	5	100	0	66	36	0	0	63	0.95
600799--600843	15	3.0	14	78	15	54	57	0	2	40	1.11
600816--600866	22	2.3	22	93	0	84	50	0	0	49	1.00
600795--600873	16	4.7	16	70	22	63	54	0	1	44	1.08
601991--602044	19	2.9	19	83	2	56	50	0	0	50	1.00
602006--602044	18	2.1	18	85	4	51	58	0	0	41	0.98
602244--602291	24	2.0	24	84	8	62	50	0	2	47	1.12
602934--602964	12	2.6	12	94	0	53	41	6	51	0	1.27
608338--608375	20	1.9	20	94	0	67	44	2	18	34	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608478--608507	2	15.0	2	100	0	60	50	0	0	50	1.00
608936--608968	17	2.0	17	88	5	50	57	0	0	42	0.98
608938--608990	20	2.7	19	77	11	54	60	0	0	39	0.97
613298--613328	2	15.5	2	100	0	62	51	0	48	0	1.00
614114--614162	22	2.2	22	82	7	64	44	0	0	55	0.99
615603--615666	31	2.1	29	82	8	74	53	1	1	43	1.19
616297--616330	16	2.1	17	88	5	52	52	0	2	44	1.16
616430--616500	32	2.2	33	87	7	101	56	0	1	42	1.08
616675--616724	24	2.1	24	88	3	75	38	0	0	62	0.96
617373--617425	21	2.5	22	84	9	65	62	0	0	37	0.96
618113--618200	2	45.0	2	87	4	117	45	1	2	51	1.21
618458--618581	8	13.8	9	69	23	59	56	0	0	43	0.99
618463--618565	11	10.0	11	65	17	51	57	0	0	42	0.98
618453--618568	30	4.0	29	76	13	105	56	0	0	43	0.99
618755--618809	23	2.4	21	80	16	65	49	0	0	50	1.00
618740--618819	26	3.2	25	80	5	72	45	0	0	55	0.99
618796--618842	12	4.1	12	76	20	55	51	2	0	46	1.13
636999--637041	20	2.2	20	86	0	59	51	6	2	39	1.42
638431--638455	2	12.5	2	100	0	50	52	0	48	0	1.00
638921--638960	15	2.7	15	88	7	55	67	2	0	30	1.04
639040--639078	16	2.3	18	86	8	55	64	2	0	33	1.08
640111--640166	18	3.1	18	79	7	51	66	7	0	26	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642750--642815	20	3.6	20	67	28	65	51	12	18	18	1.76
642746--642818	33	2.2	33	100	0	146	54	10	17	16	1.70
645055--645107	25	2.1	25	86	6	72	49	0	1	49	1.12
646861--646886	2	13.0	2	100	0	52	50	0	0	50	1.00
649289--649335	21	2.3	21	85	7	62	44	0	0	55	0.99
655002--655040	15	2.8	14	88	11	62	23	20	12	43	1.86
661692--661743	18	2.7	19	73	8	52	40	1	0	57	1.10
661721--661760	21	1.9	21	85	10	55	42	0	0	57	0.98
667075--667118	13	3.5	13	84	6	63	68	0	2	29	1.02
667127--667258	8	16.0	8	67	26	55	58	0	0	40	1.03

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