genome.fa.s168.2.7.7.80.10.50.1000.5.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

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

This is table  5  of  16  ( 1854 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)
487382--487430	5	9.4	5	84	6	62	73	0	0	26	0.83
487372--487433	21	3.1	20	75	13	65	70	0	0	29	0.87
487780--487865	16	5.4	15	68	16	57	52	0	1	46	1.08
487764--487855	33	2.8	32	73	21	82	53	0	1	45	1.07
487831--487865	15	2.2	16	90	5	54	51	0	2	45	1.16
487908--488033	36	3.3	36	77	14	96	47	1	0	50	1.10
489548--489606	17	3.6	16	73	13	57	57	0	0	42	0.98
489576--489625	23	2.1	24	81	3	57	54	0	4	42	1.19
490138--490179	17	2.5	17	88	0	57	40	0	2	57	1.12
492434--492493	21	2.8	22	75	14	54	55	0	1	43	1.10
494115--494245	33	4.2	32	64	20	78	53	5	6	35	1.49
494013--494427	226	1.8	226	98	0	803	46	6	8	38	1.59
494608--494654	21	2.3	21	83	16	64	40	0	0	59	0.97
494651--494691	20	2.2	20	86	8	59	41	0	0	58	0.98
495153--495445	74	4.0	74	90	1	435	44	4	17	33	1.68
495635--495680	2	23.5	2	82	4	58	43	2	2	52	1.25
502825--502920	18	5.2	18	68	17	54	48	0	0	51	1.00
502783--502884	31	3.1	31	79	16	75	40	0	1	57	1.10
502799--502884	34	2.4	37	79	11	99	43	0	0	56	0.99
502854--502906	18	2.9	18	77	22	65	52	0	0	47	1.00
503819--503894	16	4.6	18	75	19	60	52	1	0	46	1.08
504231--504265	16	2.3	15	90	5	52	11	42	2	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510470--510522	26	2.1	25	86	10	72	64	0	0	35	0.94
510640--510822	34	5.4	34	89	0	269	25	7	27	39	1.82
510640--510822	102	1.8	101	93	1	321	25	7	27	39	1.82
511127--511189	19	3.3	19	90	0	90	28	17	19	34	1.94
515255--515439	34	5.5	34	88	0	264	24	7	27	40	1.82
515255--515439	102	1.8	101	94	1	325	24	7	27	40	1.82
519595--519672	27	2.8	28	75	13	88	46	2	0	51	1.14
519831--519899	18	3.9	18	70	12	63	56	0	0	43	0.99
519814--519898	34	2.4	36	81	12	90	55	0	0	44	0.99
520782--520857	2	38.0	2	97	0	143	0	50	1	48	1.09
528122--528165	20	2.2	20	100	0	88	54	15	0	29	1.42
528295--528346	25	2.1	25	96	0	95	57	1	0	40	1.10
529051--529080	5	6.0	5	92	0	51	36	0	0	63	0.95
534066--534111	21	2.1	22	88	4	67	45	4	0	50	1.21
534066--534145	24	3.4	23	80	13	67	47	3	0	48	1.19
534719--534765	20	2.3	20	82	7	60	65	0	0	34	0.93
534773--534813	18	2.3	18	83	8	57	53	0	0	46	1.00
539571--539616	11	4.6	10	79	17	51	65	0	0	34	0.93
539557--539638	27	3.0	27	81	10	78	60	3	0	35	1.14
540384--540417	13	2.6	13	85	0	50	47	0	2	50	1.16
544835--544902	30	2.3	30	97	0	127	16	29	25	29	1.96
547137--547201	24	2.7	24	81	11	78	23	0	56	20	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547149--547191	12	3.6	12	80	0	50	25	0	55	18	1.42
549035--549066	15	2.0	17	88	11	50	56	0	0	43	0.99
549043--549091	19	2.6	18	75	9	53	57	0	0	42	0.99
549202--549268	17	3.7	19	67	21	54	46	0	0	53	1.00
549553--549590	20	2.0	20	89	5	60	55	0	0	44	0.99
550442--551021	291	2.0	291	95	2	1040	25	11	21	41	1.87
552988--553033	2	23.0	2	90	0	74	47	47	4	0	1.21
553033--553057	2	12.5	2	100	0	50	52	0	0	48	1.00
559484--559515	16	2.0	16	93	0	55	0	9	3	87	0.64
560727--560772	2	23.0	2	100	0	92	50	0	0	50	1.00
560907--560975	28	2.4	29	80	4	88	50	0	0	49	1.00
560925--560966	17	2.5	17	77	14	50	59	0	0	40	0.97
561758--561874	11	10.5	11	66	18	64	58	0	1	40	1.08
561773--561862	21	4.3	19	70	26	58	58	0	0	41	0.98
561781--561875	42	2.5	38	76	17	99	57	0	1	41	1.05
561761--561862	42	2.4	42	79	9	109	57	0	0	41	1.05
561759--561879	17	6.9	18	65	23	62	57	0	1	40	1.08
561764--561876	23	5.2	23	71	18	73	57	0	1	40	1.09
562994--563036	18	2.3	18	88	4	59	41	0	2	55	1.12
563003--563048	18	2.6	18	82	6	58	36	0	0	63	0.95
563038--563067	14	2.1	14	93	0	51	40	0	0	60	0.97
563106--563131	13	2.0	13	100	0	52	46	30	15	7	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567254--567281	2	14.0	2	100	0	56	50	0	0	50	1.00
567863--567906	2	22.0	2	100	0	88	50	0	0	50	1.00
568315--568355	2	20.5	2	100	0	82	51	0	0	48	1.00
568355--568384	2	15.0	2	100	0	60	50	0	50	0	1.00
569168--569215	21	2.3	21	85	7	62	60	20	6	12	1.54
570733--570783	17	3.0	18	77	16	63	54	0	0	45	0.99
570738--570831	27	3.6	27	73	15	81	56	0	3	40	1.15
570766--570831	26	2.5	29	76	20	81	59	0	4	36	1.18
578200--578224	2	12.5	2	100	0	50	48	0	0	52	1.00
578369--578398	2	15.0	2	100	0	60	50	0	0	50	1.00
579682--579725	17	2.5	17	82	10	54	65	2	0	31	1.05
579737--579789	18	3.0	17	79	20	56	54	0	0	45	0.99
579710--579770	18	3.5	20	65	32	57	57	0	1	40	1.08
579682--579822	29	5.0	28	72	18	91	60	0	0	37	1.07
579727--579778	18	2.7	19	77	14	54	55	0	0	44	0.99
579752--579835	28	3.0	28	81	14	79	60	0	0	39	0.97
579780--579830	13	3.7	13	78	21	59	66	0	0	33	0.92
579785--579839	23	2.4	25	79	17	73	61	0	0	38	0.96
579983--580127	16	8.8	17	68	22	78	56	0	4	39	1.18
580020--580127	30	3.5	30	77	14	105	58	0	2	38	1.13
580753--580787	17	2.1	17	89	10	54	51	0	0	48	1.00
588887--588930	23	1.9	23	95	0	79	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591461--591511	16	3.2	16	83	8	61	58	1	13	25	1.46
591461--591500	16	2.5	16	87	0	62	57	2	15	25	1.50
591631--591688	22	2.6	22	83	5	73	44	0	0	55	0.99
591904--591956	10	5.2	10	83	2	70	56	0	0	43	0.99
592863--592904	21	2.0	21	86	9	59	52	0	0	47	1.00
593060--593273	104	2.1	104	98	0	410	41	14	4	40	1.64
593366--593397	4	8.0	4	100	0	64	0	25	0	75	0.81
593902--593939	19	2.0	20	89	5	60	65	5	0	28	1.14
594164--594207	21	2.1	21	87	8	63	56	2	0	40	1.11
594770--594818	21	2.4	20	89	3	71	59	0	0	40	0.98
594786--594825	21	1.9	21	84	0	53	62	5	0	32	1.17
594973--595038	34	1.9	34	81	6	80	42	0	0	57	0.98
594984--595054	31	2.3	29	77	15	72	39	1	0	59	1.06
595394--595456	28	2.2	30	80	11	78	28	6	3	61	1.36
596713--596770	19	3.1	19	76	13	50	39	0	3	56	1.16
596759--596816	19	2.9	21	82	14	70	39	3	0	56	1.16
597189--597250	20	3.1	20	71	13	56	53	0	1	45	1.10
598111--598186	35	2.2	34	82	13	86	50	1	1	47	1.18
598176--598246	27	2.6	28	75	18	78	53	0	0	46	1.00
598565--598622	21	2.8	21	78	14	59	48	1	0	50	1.11
598861--598900	21	2.0	19	90	9	62	42	0	0	57	0.98
598856--598901	14	3.3	14	82	14	51	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598976--599025	17	3.1	17	75	19	61	50	0	0	50	1.00
599089--599120	2	16.5	2	93	6	57	50	0	0	50	1.00
599394--599432	12	3.1	12	85	7	51	38	0	0	61	0.96
599677--599703	13	2.1	13	100	0	54	55	0	0	44	0.99
599701--599757	23	2.6	21	81	13	62	49	0	1	49	1.11
599753--599805	20	2.6	19	82	11	70	62	0	0	37	0.96
604746--604813	25	2.8	25	75	20	63	44	5	1	48	1.36
606920--606957	20	1.9	20	94	0	67	78	13	7	0	0.94
607609--607641	17	2.0	17	88	5	50	42	0	0	57	0.98
607698--607742	18	2.5	18	82	7	56	60	0	2	37	1.09

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