genome.fa.s73.2.7.7.80.10.50.1000.4.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: Scaffold73
Parameters: 2 7 7 80 10 50 1000
Length:  1308442

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1034 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)
458293--458351	26	2.3	26	86	11	79	37	0	0	62	0.95
458297--458351	27	2.1	26	90	10	85	38	0	0	61	0.96
459191--459255	25	2.7	23	73	15	60	49	0	0	50	1.00
459222--459336	23	5.2	23	66	18	66	42	0	0	57	0.98
459583--459657	32	2.4	32	86	6	100	45	0	0	54	0.99
459574--459637	16	4.0	15	75	18	58	43	1	0	54	1.09
459655--459708	27	2.0	27	82	7	65	40	7	0	51	1.30
459891--459922	16	2.0	16	100	0	64	56	0	0	43	0.99
459877--459987	32	3.4	32	79	8	100	63	0	0	36	0.95
459872--459979	33	3.3	32	75	12	103	62	0	0	37	0.96
459871--459991	16	7.2	16	66	23	54	62	0	0	37	0.95
460072--460123	5	9.6	5	80	15	59	75	1	0	23	0.91
460073--460126	24	2.2	24	83	6	65	72	3	0	24	1.01
460459--460499	21	1.9	21	85	5	55	51	0	0	48	1.00
460651--460693	21	2.0	21	86	0	59	58	2	0	39	1.11
460945--460973	3	9.7	3	100	0	58	65	0	0	34	0.93
461055--461080	12	2.2	12	100	0	52	53	0	0	46	1.00
462751--462786	14	2.6	14	86	4	56	58	0	0	41	0.98
463149--463188	15	2.6	16	80	19	57	65	0	0	35	0.93
463175--463232	6	10.3	6	79	7	52	44	0	0	55	0.99
464635--464668	2	17.0	2	100	0	68	50	0	0	50	1.00
469541--469570	15	2.0	15	93	0	51	13	23	20	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470766--470842	29	2.6	30	87	2	111	35	1	2	61	1.18
471011--471051	3	13.7	3	100	0	82	31	0	0	68	0.90
471167--471191	4	6.2	4	100	0	50	48	0	0	52	1.00
471934--471974	20	2.0	20	86	9	57	43	0	0	56	0.99
472150--472188	14	2.6	14	88	8	51	43	5	0	51	1.24
472260--472296	16	2.2	18	90	9	60	40	0	0	59	0.97
472253--472312	26	2.3	26	86	8	79	43	1	0	55	1.10
472578--472611	10	3.4	10	91	0	50	44	0	8	47	1.34
472888--472929	19	2.2	20	79	12	52	50	0	0	50	1.00
473449--473555	46	2.4	44	78	9	108	43	0	0	55	1.06
474878--474940	2	31.5	2	93	0	108	53	0	46	0	1.00
476522--476547	3	8.7	3	100	0	52	65	34	0	0	0.93
476580--476619	12	2.9	15	71	21	50	35	7	32	25	1.84
479340--479370	2	15.5	2	93	0	53	48	0	3	48	1.17
480989--481045	28	2.0	27	80	12	62	61	3	1	33	1.23
481678--481734	26	2.2	25	81	9	62	59	0	3	36	1.14
486248--486315	17	4.1	17	80	14	79	52	0	0	47	1.00
486252--486319	33	2.0	34	94	2	120	55	0	0	44	0.99
487798--487828	12	2.7	11	90	9	53	74	6	0	19	1.03
489002--489082	38	2.1	38	86	0	108	30	29	13	25	1.94
489020--489171	38	4.0	38	82	0	142	31	26	11	30	1.91
489975--490016	23	1.9	21	81	18	50	50	2	0	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490336--490387	15	3.5	15	76	7	61	40	0	0	59	0.97
490339--490426	33	2.8	33	85	10	121	46	0	0	53	1.00
490417--490466	13	3.5	14	73	21	50	40	0	0	60	0.97
490710--490743	16	2.2	15	94	5	59	58	0	0	41	0.98
493558--493597	17	2.4	17	95	4	73	50	0	0	50	1.00
499653--499698	13	3.5	13	76	5	56	67	0	0	32	0.91
499643--499715	27	2.8	27	93	4	123	61	1	0	36	1.05
499643--499685	14	3.1	14	73	6	52	58	0	0	41	0.98
499934--500003	20	4.3	16	76	23	67	64	0	0	35	0.94
499992--500058	35	1.9	35	88	11	102	50	1	0	47	1.10
502401--502450	24	2.1	24	92	0	82	26	8	16	50	1.72
507720--507756	17	2.2	17	95	0	65	27	0	0	72	0.84
507699--507759	26	2.3	26	80	2	68	32	0	0	67	0.91
508027--508117	22	4.1	23	71	22	79	58	0	2	39	1.10
508027--508073	11	4.3	11	78	8	51	63	0	2	34	1.06
508026--508117	33	2.8	34	76	14	86	57	0	2	40	1.11
509238--509278	14	2.9	14	82	13	57	60	0	2	36	1.10
509392--509487	40	2.3	41	79	13	99	58	5	1	35	1.27
509614--509667	2	27.0	2	96	0	99	50	0	1	48	1.11
510923--510958	18	1.9	19	88	5	56	58	0	2	38	1.13
511999--512044	17	2.8	17	96	3	85	36	4	0	58	1.18
512083--512216	14	10.4	14	70	20	64	35	0	2	61	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513721--513782	16	3.8	16	79	10	63	30	3	4	61	1.33
513758--513874	53	2.2	53	86	1	164	39	4	3	52	1.38
513891--513949	30	2.0	30	83	9	77	42	6	1	49	1.39
514001--514029	14	2.1	14	100	0	58	34	0	6	58	1.25
514615--514656	2	21.0	2	100	0	84	50	0	0	50	1.00
516405--516434	15	2.0	15	93	0	51	36	16	6	40	1.75
521900--521958	24	2.4	25	76	18	63	42	3	0	54	1.17
522653--522691	14	2.7	14	82	17	53	43	0	0	56	0.99
523578--523611	3	11.3	3	100	0	68	32	0	0	67	0.91
523885--523927	2	21.5	2	95	0	77	48	0	51	0	1.00
524419--524476	20	2.9	20	79	5	64	62	1	0	36	1.06
528352--528537	94	2.0	94	91	2	302	46	29	8	15	1.74
539578--539620	3	14.3	3	100	0	86	67	0	0	32	0.91
541851--541888	17	2.3	17	86	4	51	71	7	10	10	1.32
545239--545268	15	2.0	15	100	0	60	33	0	0	66	0.92
545561--545591	15	2.0	16	93	6	55	22	6	6	64	1.40
547469--547513	2	22.5	2	95	0	81	48	0	2	48	1.13
549866--549902	2	18.5	2	100	0	74	48	0	0	51	1.00
553321--553413	2	50.0	2	73	14	56	49	0	0	50	1.00
553616--553704	27	3.1	27	69	17	63	35	0	3	60	1.13
554007--554055	12	3.9	12	77	17	55	65	0	0	34	0.93
555722--555766	23	2.0	23	91	8	74	33	0	4	62	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556139--556190	16	3.2	16	78	13	52	51	1	0	46	1.12
556706--556758	20	2.8	18	78	18	54	30	1	0	67	1.01
556917--556968	20	2.8	18	81	13	61	50	1	1	46	1.23
557937--557977	20	2.0	21	90	4	66	68	0	0	31	0.90
558027--558061	13	2.7	13	86	13	54	40	0	0	60	0.97
558213--558263	25	2.0	25	84	0	66	33	0	1	64	1.05
558220--558260	19	2.1	20	86	4	57	31	0	2	65	1.05
559613--559647	14	2.6	14	90	4	54	60	2	0	37	1.12
559643--559686	17	2.6	17	80	20	56	43	0	0	56	0.99
560115--560154	15	2.7	16	85	11	50	55	0	0	45	0.99
560172--560214	17	2.5	18	77	11	54	44	0	0	55	0.99
561168--561208	20	2.1	20	86	4	57	43	0	7	48	1.30
561559--561612	22	2.5	20	80	13	63	44	0	0	55	0.99
561568--561618	22	2.3	23	80	19	63	39	0	0	60	0.97
568881--568906	2	13.0	2	100	0	52	50	0	0	50	1.00
570101--570130	12	2.6	11	90	10	51	80	3	10	6	1.01
571441--571475	2	17.5	2	100	0	70	51	0	0	48	1.00
571573--571599	4	6.8	4	100	0	54	51	22	0	25	1.48
573113--573140	14	2.0	14	100	0	56	92	7	0	0	0.37
578125--578171	16	2.8	18	75	18	57	57	2	0	40	1.11
578143--578193	27	1.9	26	84	11	68	58	0	0	41	0.98
578160--578241	25	3.2	25	72	16	71	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578157--578232	21	3.7	21	69	22	63	59	0	0	40	0.98
578090--578247	41	3.8	40	72	21	119	57	1	0	40	1.11
578635--578664	14	2.1	14	93	0	51	43	3	20	33	1.68
579617--579666	20	2.5	22	87	12	72	42	0	2	56	1.11
579634--579681	24	2.0	24	84	15	64	41	2	0	56	1.11
581300--581324	2	12.5	2	100	0	50	48	0	0	52	1.00
581826--581896	3	23.7	3	85	0	88	29	2	1	66	1.15
582376--582420	11	4.3	11	80	11	58	17	0	2	80	0.82
583356--583384	3	9.7	3	100	0	58	31	0	0	68	0.89
583544--583594	20	2.6	19	74	17	50	35	0	3	60	1.15

Tables:   1   2   3   4   5   6   7   8   9