genome.fa.s39.2.7.7.80.10.50.1000.4.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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   

This is table  4  of  27  ( 3195 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)
431439--431528	22	4.0	22	82	10	94	62	14	22	1	1.38
433083--433108	13	2.0	13	100	0	52	30	15	15	38	1.88
433147--433222	21	3.7	21	82	3	109	28	18	11	40	1.86
433167--433240	20	3.7	20	81	3	103	31	20	13	35	1.91
433147--433240	41	2.3	41	100	0	188	29	19	12	38	1.89
433821--433999	89	2.0	89	98	0	349	29	26	6	37	1.82
435780--435818	13	3.0	13	96	0	69	35	15	17	30	1.91
435804--435882	20	3.7	20	78	15	77	44	15	15	25	1.85
439732--439776	21	2.1	21	84	8	56	22	20	4	53	1.63
441990--442015	13	2.0	13	100	0	52	30	15	15	38	1.88
442054--442129	21	3.7	21	82	3	109	28	18	11	40	1.86
442074--442147	20	3.7	20	81	3	103	31	20	13	35	1.91
442054--442147	41	2.3	41	100	0	188	29	19	12	38	1.89
444448--444578	66	2.0	63	91	4	208	29	15	7	48	1.72
451471--451528	25	2.3	25	93	0	98	37	8	15	37	1.78
454276--454327	13	3.5	13	73	26	50	36	17	13	32	1.89
454284--454346	19	3.7	18	76	24	73	36	17	12	33	1.88
454276--454361	32	2.7	32	92	0	145	38	18	10	32	1.85
455803--455833	13	2.4	13	94	0	53	35	16	12	35	1.87
455787--455853	33	2.0	32	88	11	100	35	13	17	32	1.89
463757--463816	19	3.2	19	64	17	52	31	5	31	31	1.79
464462--464514	20	2.7	19	88	11	72	37	13	18	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465134--465159	13	2.0	13	100	0	52	38	15	15	30	1.88
468783--468807	13	1.9	13	100	0	50	36	16	16	32	1.90
470686--470711	13	2.0	13	100	0	52	38	15	15	30	1.88
472518--472584	37	1.9	35	88	11	102	29	25	11	32	1.92
473042--473067	13	2.0	13	100	0	52	30	15	15	38	1.88
473106--473181	21	3.7	21	82	3	109	28	18	11	40	1.86
473126--473199	20	3.7	20	81	3	103	31	20	13	35	1.91
473106--473199	41	2.3	41	100	0	188	29	19	12	38	1.89
473819--473862	21	2.1	21	83	8	54	25	31	4	38	1.76
477884--477950	37	1.9	35	88	11	102	29	25	11	32	1.92
478408--478433	13	2.0	13	100	0	52	30	15	15	38	1.88
478472--478547	21	3.7	21	82	3	109	28	18	11	40	1.86
478492--478565	20	3.7	20	81	3	103	31	20	13	35	1.91
478472--478565	41	2.3	41	100	0	188	29	19	12	38	1.89
482389--482420	2	16.0	2	100	0	64	50	0	0	50	1.00
484198--484330	47	2.8	47	82	8	153	33	20	16	30	1.95
486077--486238	54	2.9	54	78	2	171	27	40	12	19	1.87
491992--492446	116	3.9	115	74	13	296	28	12	13	45	1.79
492140--492500	58	6.3	57	79	6	316	29	12	13	44	1.80
492180--492270	29	3.1	29	67	22	73	27	13	17	41	1.86
492231--492324	28	3.4	27	73	12	91	29	9	13	46	1.75
492133--492441	114	2.7	116	81	5	331	29	11	13	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492617--492961	78	4.5	78	76	5	188	32	13	18	35	1.90
492877--493096	115	1.9	113	82	3	271	29	15	20	34	1.94
497253--497307	19	2.8	19	88	5	74	32	18	14	34	1.91
497274--497318	12	4.2	12	73	26	55	35	17	15	31	1.92
497858--497914	19	3.2	19	85	7	75	28	35	1	35	1.68
497872--497924	19	2.6	20	85	11	72	22	39	1	35	1.65
499690--499718	13	2.2	13	100	0	58	41	17	13	27	1.87
499844--499884	19	2.2	19	86	8	57	51	21	0	26	1.48
504261--504285	13	1.9	13	100	0	50	32	16	16	36	1.90
504313--504408	22	4.5	22	75	13	103	29	25	8	37	1.85
504364--504426	33	1.9	33	96	0	117	31	22	7	38	1.83
504385--504571	53	3.6	52	72	22	183	32	19	11	36	1.87
504376--504584	106	2.0	103	89	2	292	33	20	10	35	1.87
505005--505071	37	1.9	35	88	11	102	32	11	25	29	1.92
506098--506123	13	2.0	13	100	0	52	30	15	15	38	1.88
508496--508542	21	2.3	21	76	23	55	42	4	19	34	1.70
508663--508701	13	3.0	13	96	0	69	35	15	17	30	1.91
508687--508765	20	3.7	20	78	15	77	44	15	15	25	1.85
510780--510810	15	2.1	15	93	0	53	12	22	16	48	1.80
512614--512658	21	2.1	21	84	8	56	22	22	4	51	1.66
514876--514901	13	2.0	13	100	0	52	30	15	15	38	1.88
518213--518237	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520361--520427	37	1.9	35	88	11	102	32	11	25	29	1.92
522580--522646	33	2.0	32	86	11	91	34	17	11	35	1.87
522715--522742	13	2.2	13	100	0	56	42	14	14	28	1.84
523516--523574	21	2.8	20	80	10	66	37	8	15	38	1.78
525052--525131	28	2.9	27	81	10	92	25	15	33	26	1.95
525089--525267	80	2.2	82	85	2	263	27	12	28	30	1.93
525106--525264	82	2.0	80	91	2	255	28	12	28	30	1.93
525197--525327	51	2.5	52	85	5	183	32	10	25	31	1.90
527058--527087	11	2.7	11	100	0	60	6	0	43	50	1.28
527686--527752	20	3.7	20	72	25	76	38	19	14	26	1.91
527706--527764	13	5.0	13	70	29	60	37	18	15	28	1.91
527685--527784	33	3.0	33	94	0	164	41	18	15	26	1.89
528580--528638	15	4.0	15	77	14	52	74	0	10	15	1.06
541010--541106	20	4.8	20	76	11	65	38	18	15	27	1.91
541148--541188	13	2.9	14	85	10	57	36	14	12	36	1.84
547339--547376	13	2.9	13	96	0	67	31	15	18	34	1.92
549729--549803	20	3.8	19	77	10	71	37	21	14	26	1.92
555059--555092	17	1.9	17	94	5	59	88	8	2	0	0.62
556115--556199	37	2.3	37	91	0	143	28	16	12	42	1.85
556565--556945	29	13.3	29	79	10	310	32	27	17	22	1.96
556565--556945	57	6.7	57	79	8	332	32	27	17	22	1.96
556564--556897	29	11.8	28	81	9	331	31	26	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556962--557449	49	9.9	49	77	7	452	25	24	16	34	1.95
556962--557519	101	5.6	102	80	6	479	25	24	15	33	1.95
557005--557396	150	2.6	150	88	2	552	23	24	16	35	1.95
557027--557438	150	2.7	150	85	3	445	25	25	15	34	1.95
558217--558270	19	2.7	19	82	5	63	40	12	16	29	1.86
576308--576346	20	1.9	21	94	5	71	43	20	15	20	1.88
576336--576399	32	2.0	33	87	9	96	29	18	17	34	1.94
581628--581903	43	6.4	43	76	6	256	45	10	23	20	1.81
581628--581903	86	3.2	85	78	3	302	45	10	23	20	1.81
581603--581899	129	2.3	128	78	3	328	46	10	23	20	1.81
584862--585712	155	5.5	154	79	7	818	36	20	18	24	1.94
585942--586523	167	3.5	164	80	6	598	49	9	11	29	1.69
587502--587550	20	2.5	20	96	0	89	44	12	12	30	1.78
592214--592270	19	2.9	18	80	14	69	33	15	12	38	1.85
592986--593604	49	12.8	49	78	7	523	32	16	25	25	1.96
592986--593604	98	6.4	98	79	5	591	32	16	25	25	1.96
593376--593453	39	2.0	39	89	0	120	24	17	25	32	1.97
593327--593496	88	1.9	88	90	1	270	28	17	26	28	1.97
593423--593595	51	3.5	49	82	3	186	32	16	26	25	1.96
593277--593552	138	2.0	137	82	4	333	30	16	26	27	1.97
593228--593595	187	2.0	186	82	1	450	31	16	26	26	1.96
593604--593893	34	8.8	34	77	9	246	34	10	34	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593758--593894	69	2.0	68	90	4	213	33	8	36	21	1.84
593860--593921	27	2.2	29	80	8	74	35	11	30	22	1.89
593827--593945	61	2.0	61	82	0	148	36	10	31	21	1.88
593908--594237	126	2.6	125	79	8	329	34	14	28	22	1.93
593908--594259	30	11.1	32	81	9	343	34	14	28	22	1.93
593956--594275	33	10.1	31	77	7	198	35	14	27	23	1.93
595554--595596	19	2.2	20	83	4	52	0	4	13	81	0.84
600485--600541	13	3.9	13	76	24	60	35	14	17	33	1.90
600498--600560	19	3.7	18	76	24	73	33	12	17	36	1.88
600484--600568	32	2.7	32	98	0	161	32	12	17	36	1.88

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