genome.fa.s127.2.7.7.80.10.50.1000.2.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  2  of  26  ( 3103 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)
235081--235111	3	10.3	3	100	0	62	32	0	0	67	0.91
235131--235187	29	2.0	29	82	6	71	42	1	0	56	1.10
235160--235193	18	1.9	18	88	5	52	50	2	0	47	1.16
236361--236409	16	3.0	16	84	3	62	53	0	2	44	1.12
236434--236471	19	2.0	20	89	5	60	63	2	0	34	1.09
236423--236494	15	4.5	15	71	19	56	62	1	0	36	1.04
236414--236505	35	2.6	34	81	10	96	60	1	0	38	1.04
239881--239908	2	14.0	2	100	0	56	50	0	0	50	1.00
242441--242470	12	2.5	12	94	0	51	70	3	6	20	1.25
250447--250530	31	2.9	29	77	13	91	46	1	1	51	1.16
250443--250557	20	5.9	18	71	16	54	42	0	0	55	1.11
250505--250564	16	3.7	16	73	8	59	36	1	0	61	1.06
251027--251094	31	2.2	31	84	2	84	45	0	0	54	0.99
251161--251191	12	2.5	13	89	10	55	48	0	0	51	1.00
251499--251562	13	4.8	13	72	16	51	54	3	1	40	1.25
251765--251806	21	2.0	21	90	0	66	23	4	19	52	1.65
251823--251865	22	1.9	23	85	4	61	44	2	0	53	1.13
252131--252166	2	18.0	2	100	0	72	0	50	0	50	1.00
252406--252432	6	4.5	6	100	0	54	14	0	0	85	0.61
254671--254721	21	2.3	21	80	16	59	43	0	0	56	0.99
267838--267879	2	21.0	2	100	0	84	50	0	0	50	1.00
272477--272531	2	27.5	2	96	0	101	49	0	1	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
281098--281157	30	2.0	29	84	9	77	45	10	0	45	1.37
281600--281641	2	21.0	2	90	0	66	52	0	2	45	1.13
287974--288018	2	22.5	2	100	0	90	51	0	0	48	1.00
294437--294468	2	16.0	2	100	0	64	50	0	0	50	1.00
295474--295512	3	13.0	3	100	0	78	33	0	0	66	0.92
298819--298856	2	19.0	2	94	0	67	50	2	0	47	1.15
300201--300227	2	13.5	2	100	0	54	51	0	0	48	1.00
306351--306408	24	2.4	24	80	5	64	51	0	1	46	1.11
306985--307032	18	2.8	17	78	9	53	62	2	0	35	1.07
307018--307090	21	3.4	21	71	22	62	64	2	0	32	1.08
306994--307057	16	3.8	17	73	8	60	68	1	0	29	0.99
312126--312168	17	2.6	16	75	7	50	62	2	0	34	1.08
312142--312199	28	2.1	27	81	6	64	55	1	1	41	1.20
312504--312549	18	2.8	16	83	6	56	43	4	0	52	1.21
312602--312681	37	2.1	38	78	17	87	43	1	0	55	1.08
312636--312692	16	3.8	16	84	11	68	43	0	0	56	0.99
314065--314093	3	9.7	3	100	0	58	65	0	34	0	0.93
314810--314859	18	2.7	19	78	9	59	48	0	0	52	1.00
315228--315278	22	2.3	23	83	13	70	31	1	5	60	1.31
317275--317299	5	5.0	5	100	0	50	20	40	20	20	1.92
318584--318619	3	12.0	3	100	0	72	0	33	0	66	0.92
321319--321348	3	10.0	3	100	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323552--323583	16	2.0	16	93	0	55	40	0	6	53	1.26
346557--346603	3	15.7	3	100	0	94	65	0	34	0	0.93
352995--353019	2	12.5	2	100	0	50	52	0	48	0	1.00
357543--357567	1	25.0	1	100	0	50	100	0	0	0	0.00
357834--357881	22	2.1	22	88	3	69	68	0	0	31	0.90
357834--357875	8	5.4	8	78	16	52	71	0	0	28	0.86
373071--373101	5	6.0	5	92	7	53	0	19	3	77	0.90
383809--383837	2	14.5	2	100	0	58	51	0	0	48	1.00
390071--390099	11	2.6	11	100	0	58	10	27	0	62	1.28
406211--406257	24	2.0	24	91	0	76	4	12	65	17	1.40
406523--406587	33	2.0	33	87	0	94	20	0	67	12	1.22
406430--406710	135	2.0	139	91	6	462	20	5	60	13	1.54
406706--406825	30	4.0	30	69	20	79	20	6	60	12	1.55
406463--406776	135	2.3	133	84	7	386	21	6	58	13	1.58
406781--406862	15	5.1	15	66	25	51	14	2	68	14	1.32
406775--406881	36	3.1	36	75	20	138	16	3	67	12	1.36
406808--406854	18	2.6	18	75	0	58	17	0	70	12	1.17
406760--406938	30	5.8	29	73	14	117	17	3	67	12	1.36
406756--406884	66	2.0	66	96	0	240	17	3	65	13	1.40
406761--406920	66	2.4	66	88	2	214	16	3	66	13	1.38
406877--406935	6	9.8	6	88	0	73	16	3	69	10	1.30
407652--407676	1	25.0	1	100	0	50	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408099--408140	20	2.2	19	91	4	66	69	0	0	30	0.89
420201--420235	2	17.5	2	87	0	52	42	2	54	0	1.15
421624--421692	32	2.1	34	86	5	97	43	0	2	53	1.15
421820--421861	23	2.0	20	86	13	57	45	0	0	54	0.99
422453--422482	13	2.3	13	94	0	51	56	0	0	43	0.99
423499--423535	2	18.5	2	100	0	74	48	0	0	51	1.00
424500--424528	2	14.5	2	100	0	58	51	0	48	0	1.00
425569--425602	17	1.9	18	88	5	52	29	26	14	29	1.95
425755--425779	2	12.5	2	100	0	50	52	0	0	48	1.00
426345--426460	58	2.0	58	100	0	232	34	17	20	27	1.95
431726--431753	2	14.0	2	100	0	56	50	0	0	50	1.00
431753--431782	2	15.0	2	100	0	60	50	0	50	0	1.00
436963--437013	25	1.9	25	81	18	59	50	1	1	45	1.24
436979--437031	22	2.5	20	85	14	63	47	1	0	50	1.12
436978--437028	25	2.0	25	85	7	68	47	1	0	50	1.12
437247--437288	20	2.1	21	91	8	70	52	0	0	47	1.00
438146--438226	30	2.8	28	75	10	83	64	1	0	34	1.02
438145--438224	27	2.8	28	76	16	67	65	1	0	33	1.01
445197--445292	43	2.2	44	80	10	108	33	16	11	38	1.85
445263--445333	15	4.9	15	68	11	58	28	16	15	39	1.89
449853--449887	2	17.5	2	93	0	61	48	0	0	51	1.00
464657--464834	88	2.0	88	93	0	302	44	11	12	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468684--469207	260	2.0	260	98	0	1021	33	12	23	30	1.91
474559--474591	2	16.5	2	100	0	66	48	0	0	51	1.00
482627--482898	136	2.0	136	97	0	508	31	17	12	38	1.87
485085--485138	22	2.5	22	76	5	58	51	0	0	48	1.00
485076--485122	20	2.5	19	78	18	53	46	0	0	53	1.00
485306--485365	30	2.0	29	84	12	77	48	1	0	50	1.11
485859--485934	24	3.3	23	75	14	75	39	1	1	57	1.15
485902--485983	13	5.8	13	73	16	65	41	0	1	57	1.06
485892--485971	30	2.7	30	77	11	85	40	0	1	58	1.06
486221--486267	23	2.0	23	100	0	94	25	12	12	48	1.77
492322--492347	6	4.3	6	100	0	52	50	0	15	34	1.45
495846--495890	16	2.8	16	86	0	54	44	2	0	53	1.13
496174--496227	19	2.9	18	75	5	54	64	0	0	35	0.94
496187--496226	17	2.3	17	82	4	53	62	0	0	37	0.95
497424--497475	20	2.6	19	82	8	59	38	1	13	46	1.54
500245--500294	24	2.1	24	88	3	75	48	2	6	44	1.39
500998--501026	2	14.5	2	100	0	58	51	48	0	0	1.00
502580--502636	26	2.1	27	84	15	75	43	1	1	52	1.21
502633--502701	32	2.1	32	81	2	75	49	5	0	44	1.26
506428--506456	2	15.0	2	92	7	51	51	0	0	48	1.00
507454--507487	17	2.1	16	88	5	50	35	0	0	64	0.94
508463--508506	23	2.0	22	86	13	63	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508488--508532	24	1.9	23	81	4	54	46	0	0	53	1.00
509915--509967	22	2.4	22	80	3	61	45	0	0	54	0.99
511983--512025	23	1.9	22	85	4	59	39	0	6	53	1.28
512009--512066	17	3.5	17	72	11	57	27	0	5	67	1.12
512665--512710	23	2.0	23	86	0	65	41	0	2	56	1.11
515241--515276	15	2.5	15	90	4	56	83	2	0	13	0.76
515234--515285	21	2.5	20	82	14	61	78	1	0	19	0.84
515241--515284	14	3.1	15	90	6	65	81	2	0	15	0.78
515236--515284	14	3.5	14	83	5	55	79	2	0	18	0.83
516895--516922	2	14.0	2	100	0	56	0	0	50	50	1.00

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