genome.fa.s71.2.7.7.80.10.50.1000.3.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: 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  3  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)
449924--449992	19	4.0	18	75	22	76	37	11	14	36	1.83
449927--449989	32	2.0	32	93	0	108	36	12	15	34	1.86
449946--449970	13	1.9	13	100	0	50	36	16	16	32	1.90
450032--450057	13	2.0	13	100	0	52	30	15	15	38	1.88
450012--450078	34	2.0	33	91	2	107	25	16	13	44	1.84
452501--452576	27	2.8	28	77	2	82	26	32	18	22	1.97
452598--452729	54	2.5	53	84	9	155	28	23	12	36	1.90
452559--452782	105	2.1	103	81	4	252	29	25	11	33	1.91
452394--452890	265	1.9	265	88	3	759	28	26	13	31	1.93
452795--453027	78	2.9	78	79	5	245	25	27	15	31	1.95
454087--454124	20	1.9	20	100	0	76	31	18	10	39	1.85
454089--454144	19	2.9	19	86	2	67	35	16	14	33	1.88
454110--454172	32	1.9	33	90	3	101	41	12	15	30	1.85
454817--454842	5	5.2	5	100	0	52	19	0	0	80	0.71
461248--461299	20	2.5	21	78	12	63	44	11	15	28	1.81
463798--464165	78	4.7	78	78	11	319	27	23	10	38	1.88
463860--464142	157	1.8	156	81	10	362	28	22	10	38	1.88
464094--464210	50	2.3	50	89	7	182	28	25	10	35	1.89
464015--464309	128	2.3	130	83	2	362	30	23	9	36	1.86
467298--467646	164	2.1	165	80	6	370	32	11	7	48	1.67
469566--469912	154	2.3	154	81	2	401	24	19	19	36	1.95
469790--470023	128	1.8	127	85	2	326	23	20	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473334--473358	10	2.5	10	100	0	50	84	8	8	0	0.79
473353--473377	13	1.9	13	100	0	50	88	0	12	0	0.53
473707--473758	27	1.9	26	84	7	68	78	1	13	5	1.01
474810--475090	88	3.3	87	78	6	256	24	19	13	42	1.87
474945--475120	82	2.1	82	77	2	183	28	19	12	39	1.88
476075--476122	20	2.5	20	86	3	62	29	14	16	39	1.88
476274--476320	20	2.3	21	75	10	53	36	14	19	29	1.92
476676--476768	36	2.8	33	82	12	118	32	13	24	29	1.94
478340--478383	21	2.1	21	87	8	63	59	0	20	20	1.39
478340--478398	21	2.8	21	81	0	55	59	0	23	16	1.37
481805--481869	32	2.0	33	90	3	105	30	15	13	40	1.86
482420--482512	36	2.8	34	85	9	129	30	12	26	30	1.93
483322--483562	35	6.9	35	84	3	299	20	21	14	43	1.88
483527--483641	46	2.5	46	82	0	131	19	24	13	43	1.86
484851--485327	167	2.9	165	80	8	452	30	9	8	51	1.64
489559--489689	52	2.5	52	92	0	217	31	16	17	35	1.92
489559--489709	52	2.9	51	87	3	205	32	15	17	33	1.92
489698--489722	13	1.9	13	100	0	50	36	16	16	32	1.90
489762--489831	33	2.1	33	89	0	104	40	14	11	34	1.82
489787--489811	13	1.9	13	100	0	50	32	16	16	36	1.90
490623--490749	67	1.9	68	83	1	166	37	13	25	24	1.92
490810--491389	43	12.8	43	86	7	737	29	19	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490996--491106	21	5.2	21	61	26	54	29	19	26	24	1.99
490762--491389	135	4.6	133	86	8	795	30	19	25	25	1.98
490753--491389	178	3.5	178	92	3	1013	30	18	25	25	1.98
491394--491499	33	3.2	33	89	6	169	19	17	34	27	1.95
491503--492214	34	20.8	35	84	9	827	33	12	33	20	1.89
491740--491799	27	2.2	27	87	0	84	28	15	38	18	1.91
491767--492214	35	12.8	35	84	9	551	33	11	33	20	1.89
491767--492216	106	4.3	106	92	3	707	33	11	33	20	1.89
491503--492187	211	3.3	208	84	8	904	34	11	33	20	1.89
492194--492314	31	3.9	30	80	6	125	28	18	32	21	1.96
493251--493275	10	2.5	10	100	0	50	0	8	0	92	0.40
493609--493686	12	6.9	11	77	11	86	0	0	15	84	0.62
493609--493688	35	2.3	35	86	0	124	0	0	15	85	0.61
493609--493688	1	80.0	1	72	0	52	0	0	15	85	0.61
500592--500722	52	2.5	52	92	0	217	31	16	17	35	1.92
500592--500742	52	2.9	51	87	3	205	32	15	17	33	1.92
500731--500755	13	1.9	13	100	0	50	36	16	16	32	1.90
500795--500864	33	2.1	33	89	0	104	40	14	11	34	1.82
500820--500844	13	1.9	13	100	0	50	32	16	16	36	1.90
501657--501783	67	1.9	68	83	1	166	37	13	25	24	1.92
501844--502423	43	12.8	43	86	7	737	29	19	25	25	1.98
502030--502140	21	5.2	21	61	26	54	29	19	26	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501796--502423	135	4.6	133	86	8	795	30	19	25	25	1.98
501787--502423	178	3.5	178	92	3	1013	30	18	25	25	1.98
502428--502533	33	3.2	33	89	6	169	19	17	34	27	1.95
502537--503248	34	20.8	35	84	9	827	33	12	33	20	1.89
502774--502833	27	2.2	27	87	0	84	28	15	38	18	1.91
502801--503248	35	12.8	35	84	9	551	33	11	33	20	1.89
502801--503250	106	4.3	106	92	3	707	33	11	33	20	1.89
502537--503221	211	3.3	208	84	8	904	34	11	33	20	1.89
503228--503348	31	3.9	30	82	6	134	28	17	32	22	1.96
503224--503347	63	2.0	61	87	6	178	29	16	32	21	1.96
504285--504309	10	2.5	10	100	0	50	0	8	0	92	0.40
504643--504720	12	6.9	11	77	11	86	0	0	15	84	0.62
504643--504722	35	2.3	35	86	0	124	0	0	15	85	0.61
504643--504722	1	80.0	1	72	0	52	0	0	15	85	0.61
506861--507383	155	3.4	155	83	2	656	25	16	21	36	1.94
507098--507634	283	1.9	283	85	2	738	25	16	19	38	1.92
510483--511137	168	3.9	167	84	6	803	26	10	8	55	1.61
510483--511114	166	3.8	165	85	5	767	26	9	8	55	1.61
511746--511776	11	2.7	12	95	5	55	87	0	12	0	0.55
511748--511781	10	3.4	10	91	0	59	88	0	11	0	0.52
512715--513072	143	2.5	140	89	4	513	32	12	16	37	1.86
513294--513774	154	3.1	154	83	6	600	22	16	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513499--514005	156	3.2	157	82	5	469	25	17	20	37	1.94
520114--520165	17	2.9	17	78	13	52	42	0	5	51	1.25
521244--521370	17	7.7	15	69	21	69	37	10	9	42	1.71
521250--521370	34	3.6	34	77	4	127	38	9	9	42	1.70
522570--522621	4	13.8	4	80	11	65	76	0	23	0	0.78
522569--522632	29	2.1	31	88	5	96	78	0	21	0	0.76
522578--522632	8	7.4	7	78	17	58	80	0	20	0	0.72
522654--522727	36	1.9	39	82	15	93	33	1	2	62	1.18
524034--524107	33	2.3	32	84	11	91	58	0	0	41	0.98
531404--531469	36	1.9	36	82	14	86	40	0	1	57	1.08
536437--536467	13	2.4	13	94	0	53	38	9	16	35	1.81
536415--536483	33	2.1	33	91	5	113	37	15	13	33	1.86
536516--536567	19	2.7	20	90	3	79	38	17	13	30	1.88
536552--536578	13	2.1	13	100	0	54	40	14	14	29	1.86
538491--538530	21	2.0	21	90	5	64	47	0	20	32	1.50
538658--538684	13	2.1	13	100	0	54	40	14	14	29	1.86
544886--544926	20	2.0	21	95	4	75	34	19	12	34	1.89
544907--544933	13	2.1	13	100	0	54	40	14	14	29	1.86
547564--547593	15	2.0	15	100	0	60	40	6	6	46	1.56
555627--555692	33	2.0	33	90	0	105	40	12	13	33	1.82
555724--555776	21	2.6	21	82	5	65	33	15	13	37	1.86
556595--556867	147	1.9	147	90	0	438	31	19	25	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556499--556867	49	7.5	49	80	3	348	32	17	25	24	1.97
556840--557078	39	6.0	39	70	13	173	28	20	24	26	1.99
556904--557010	35	2.9	37	66	12	94	31	18	24	25	1.98
556865--557010	74	2.0	74	95	0	265	28	19	25	26	1.98
556791--557098	161	1.9	163	92	1	521	28	19	25	25	1.99
557127--557628	34	15.9	33	78	13	465	34	13	32	20	1.91
557193--557651	27	15.0	28	80	12	302	33	13	31	21	1.92
557193--557603	95	4.3	95	83	8	457	35	13	31	20	1.91
557380--557549	69	2.5	68	92	0	277	36	12	31	20	1.89
557571--558201	31	20.2	30	79	9	441	32	15	29	22	1.94

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