genome.fa.s54.2.7.7.80.10.50.1000.3.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: Scaffold54
Parameters: 2 7 7 80 10 50 1000
Length:  3629595

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  3  of  20  ( 2342 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)
347404--347476	22	3.6	19	74	18	67	56	0	0	43	0.99
347435--347476	18	2.4	17	84	11	57	57	0	0	42	0.99
347962--348012	22	2.2	24	82	6	61	54	1	0	43	1.11
347943--348003	31	1.9	32	90	3	97	55	0	0	44	0.99
347944--348026	31	2.6	31	83	5	96	53	1	0	45	1.08
351326--351364	15	2.4	16	83	8	53	0	10	2	87	0.65
352410--352456	24	2.0	25	91	8	80	65	4	0	29	1.11
353718--353759	21	2.0	21	85	0	57	45	0	0	54	0.99
354091--354131	20	2.0	20	85	4	55	31	0	0	68	0.90
361101--361126	13	2.0	13	100	0	52	30	15	15	38	1.88
361187--361259	20	3.6	20	81	3	101	31	19	13	35	1.91
361165--361259	41	2.3	42	96	1	174	29	17	12	40	1.87
361866--361911	16	2.8	16	93	6	74	30	39	2	28	1.69
363717--363755	13	3.0	13	96	0	69	35	15	17	30	1.91
363741--363819	20	3.7	20	70	20	70	45	16	12	25	1.82
365829--365866	15	2.5	15	91	0	58	13	21	15	50	1.78
369932--369957	13	2.0	13	100	0	52	30	15	15	38	1.88
370018--370090	20	3.6	20	81	3	101	31	19	13	35	1.91
369996--370090	41	2.3	42	96	1	174	29	17	12	40	1.87
371458--371584	68	1.9	63	87	7	182	46	13	14	25	1.81
372247--372272	2	13.0	2	100	0	52	50	0	0	50	1.00
372661--372740	16	5.1	16	69	24	53	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372682--372749	21	3.2	21	79	10	68	61	0	0	38	0.96
372703--372745	5	8.4	5	80	14	52	62	0	0	37	0.95
372682--372752	25	2.6	28	70	20	71	60	0	0	39	0.97
372702--372749	11	4.5	11	82	17	66	62	0	0	37	0.95
372683--372745	30	2.2	30	86	11	87	61	0	0	38	0.96
373362--373478	32	3.8	31	80	5	130	53	3	2	40	1.31
378839--378977	62	2.2	63	81	6	154	50	3	5	41	1.42
380271--380331	23	2.8	21	73	19	54	44	3	1	50	1.28
380289--380357	26	2.8	23	76	18	68	43	1	1	53	1.18
382137--382161	2	12.5	2	100	0	50	48	0	52	0	1.00
384075--384117	23	1.9	22	90	4	68	48	0	0	51	1.00
384084--384154	20	3.5	19	68	19	54	46	0	0	53	1.00
384097--384148	27	2.0	27	85	11	72	46	0	0	53	1.00
384084--384148	14	4.6	14	74	12	53	46	0	0	53	1.00
384198--384225	14	2.0	14	100	0	56	57	0	0	42	0.99
386876--386908	3	11.0	3	100	0	66	33	0	0	66	0.92
387667--387737	25	2.9	23	79	14	63	46	4	1	47	1.30
387672--387737	23	2.8	22	84	11	69	46	4	1	46	1.32
388966--389012	23	2.0	23	88	8	69	65	0	2	31	1.04
389950--390002	17	3.0	17	83	10	54	33	0	0	66	0.92
389946--390015	22	3.1	22	76	13	63	35	0	0	64	0.94
391405--391435	2	15.5	2	100	0	62	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)
391935--392003	18	3.9	18	75	24	76	50	0	0	49	1.00
391930--392015	31	2.9	31	82	15	96	47	0	0	52	1.00
391948--392015	15	4.4	15	71	21	52	45	0	0	54	0.99
391922--392003	26	3.4	25	73	18	68	50	0	0	50	1.00
391945--392015	31	2.3	31	90	7	117	45	0	0	54	0.99
394293--394329	2	18.5	2	100	0	74	51	0	0	48	1.00
394329--394364	2	18.0	2	100	0	72	50	0	50	0	1.00
394848--394891	2	22.0	2	100	0	88	50	0	0	50	1.00
398334--398358	13	1.9	13	100	0	50	56	0	0	44	0.99
399339--399370	11	2.9	11	90	0	55	68	0	0	31	0.90
402814--402856	12	3.6	13	85	14	58	62	0	0	37	0.95
408650--408691	20	2.1	20	86	8	59	40	2	0	57	1.12
408733--408758	2	13.0	2	100	0	52	50	0	0	50	1.00
409886--409926	20	2.0	21	85	4	57	51	0	0	48	1.00
412818--412857	2	20.0	2	100	0	80	50	0	0	50	1.00
414566--414603	19	2.0	20	94	5	69	44	0	0	55	0.99
419538--419591	2	27.0	2	100	0	108	50	0	50	0	1.00
422163--422239	31	2.5	31	80	6	84	46	9	1	42	1.43
426212--426272	19	3.0	21	81	11	74	45	0	1	52	1.10
426322--426378	19	2.9	21	75	24	61	56	0	0	43	0.99
426678--426709	4	8.0	4	92	0	55	21	0	0	78	0.76
427878--427922	22	2.0	23	91	4	74	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428166--428195	15	2.0	15	93	0	51	43	0	0	56	0.99
428163--428266	23	4.2	23	70	18	68	49	0	0	50	1.07
428390--428461	23	3.2	22	75	14	58	50	1	1	47	1.18
428408--428457	23	2.1	24	88	3	75	48	0	2	50	1.12
428506--428565	16	3.9	16	71	18	56	53	0	0	46	1.00
428506--428565	22	2.6	23	79	10	61	53	0	0	46	1.00
428506--428565	23	2.7	23	75	17	63	53	0	0	46	1.00
429294--429324	2	15.5	2	100	0	62	51	0	0	48	1.00
429831--429863	2	16.5	2	100	0	66	0	48	0	51	1.00
438462--438497	2	18.0	2	100	0	72	0	50	0	50	1.00
442496--442532	18	2.1	18	94	0	65	45	13	13	27	1.81
443008--443059	6	9.0	6	80	16	65	48	0	0	51	1.00
443020--443067	22	2.2	22	81	7	53	41	2	2	54	1.24
443154--443197	21	2.0	23	86	8	65	52	4	4	38	1.42
444153--444187	18	1.9	18	88	11	54	37	0	0	62	0.95
446105--446134	10	2.9	10	95	5	51	20	0	3	76	0.92
447444--447468	5	5.0	5	100	0	50	0	20	0	80	0.72
455519--455610	18	5.1	18	82	2	112	50	2	1	46	1.20
458397--458454	19	3.0	19	87	2	71	43	6	5	44	1.53
460845--460981	73	1.9	74	80	10	165	56	2	2	38	1.23
460929--460985	19	3.1	19	75	12	55	56	0	0	43	0.99
461789--461841	2	28.5	2	74	14	51	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)
462190--462262	33	2.2	32	79	11	76	36	1	2	58	1.21
462446--462499	21	2.6	21	84	0	72	38	5	0	55	1.23
463290--463321	2	16.0	2	100	0	64	50	0	0	50	1.00
465475--465567	49	1.9	46	82	6	105	40	0	0	59	0.98
465525--465577	28	1.9	27	84	3	70	43	0	0	56	0.99
465579--465620	20	2.0	22	86	9	61	40	0	0	59	0.97
466355--466403	24	2.0	24	92	0	80	36	4	16	42	1.67
467047--467106	30	2.1	28	84	12	77	43	0	0	56	0.99
467010--467110	38	2.7	35	74	24	91	45	0	0	54	0.99
467062--467110	20	2.6	17	81	15	53	42	0	0	57	0.99
467281--467321	21	2.0	21	85	9	57	58	0	0	41	0.98
469641--469677	2	18.5	2	100	0	74	48	0	0	51	1.00
469815--469846	15	2.1	16	88	11	50	53	0	3	43	1.16
470736--470784	23	2.2	23	92	3	82	57	4	2	36	1.30
476232--476298	34	2.0	34	85	5	91	43	0	0	56	0.99
477119--477167	16	2.9	16	82	11	62	42	0	0	57	0.99
479372--479436	33	2.0	33	93	0	112	49	0	3	47	1.17
479481--479523	18	2.4	18	85	11	54	46	0	2	51	1.13
481912--481944	3	11.0	3	100	0	66	66	0	0	33	0.92
483036--483077	22	2.0	20	86	9	57	40	2	0	57	1.12
483827--483907	27	2.9	28	87	5	128	49	1	0	49	1.08
483827--483904	13	5.8	13	73	15	70	50	1	0	48	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484105--484145	21	1.9	22	90	5	66	65	0	4	29	1.13
484535--484731	71	2.7	70	74	12	175	55	9	1	34	1.41
484841--484885	18	2.4	19	74	7	56	62	0	0	37	0.96
485113--485178	22	2.9	21	72	20	51	39	1	0	59	1.07
485335--485391	28	2.1	27	80	9	62	50	0	3	45	1.18
485342--485391	14	3.5	14	80	20	59	52	0	2	46	1.12
487116--487150	2	18.0	2	94	5	63	48	0	0	51	1.00
488493--488555	25	2.5	26	82	5	67	57	3	0	39	1.15
488570--488623	26	2.0	27	82	10	67	48	0	0	51	1.00
488584--488633	18	2.8	18	84	6	57	52	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20