genome.fa.s349.2.7.7.80.10.50.1000.3.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: Scaffold349
Parameters: 2 7 7 80 10 50 1000
Length:  1036866

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 717 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)
362579--362603	13	1.9	13	100	0	50	32	16	16	36	1.90
362612--362732	52	2.3	52	97	0	224	34	18	18	28	1.94
368621--368668	21	2.3	20	82	10	60	66	0	20	12	1.24
372645--372669	13	1.9	13	100	0	50	40	16	16	28	1.89
372983--373050	19	3.9	19	78	21	85	35	11	14	38	1.83
372985--373047	32	2.0	32	96	0	117	34	12	15	36	1.86
373004--373028	13	1.9	13	100	0	50	36	16	16	32	1.90
373090--373116	13	2.1	13	100	0	54	29	14	14	40	1.86
375451--375794	52	6.6	50	68	18	157	30	26	11	31	1.92
375572--375638	28	2.5	27	85	4	82	25	31	20	22	1.98
375625--375794	52	3.3	51	76	11	166	28	25	13	32	1.94
375783--375854	28	2.6	28	86	0	90	20	33	20	25	1.97
375457--375861	212	1.9	210	87	4	600	28	26	13	31	1.94
390786--390853	11	6.5	10	78	11	57	82	10	2	4	0.92
390787--390859	20	3.7	19	81	13	85	80	10	4	4	0.98
392054--392921	28	30.6	28	84	4	1024	28	29	18	23	1.97
392054--392945	85	10.4	85	85	5	1034	28	29	18	23	1.97
392049--392921	114	7.7	113	85	4	1069	28	29	17	23	1.97
392705--392992	28	9.8	31	79	12	143	28	28	18	24	1.98
393880--393954	20	3.8	20	81	0	87	32	12	13	42	1.80
400872--400897	13	2.0	13	100	0	52	38	15	15	30	1.88
404962--405001	15	2.7	15	88	0	53	47	15	20	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407188--407234	21	2.3	20	82	10	60	31	19	4	44	1.70
412260--412285	13	2.0	13	100	0	52	30	15	15	38	1.88
412990--413131	61	2.3	61	82	7	164	38	13	23	24	1.91
413486--413549	33	1.9	33	87	0	92	28	17	12	42	1.85
416013--416181	51	3.3	51	83	4	198	30	28	11	29	1.91
417186--417312	52	2.4	52	81	2	130	34	18	24	22	1.96
417221--417410	52	3.7	52	79	9	163	36	17	22	22	1.95
417226--417564	104	3.3	104	74	7	319	36	16	22	23	1.94
417280--417566	52	5.5	52	74	10	167	37	16	22	24	1.93
419155--419195	21	2.0	21	85	9	57	48	4	14	31	1.65
419514--419589	24	3.2	24	96	0	143	44	26	3	25	1.71
424258--424310	21	2.5	21	87	0	79	39	16	16	26	1.91
426709--427168	105	4.3	107	75	10	390	30	21	10	37	1.87
426707--427170	216	2.2	209	81	5	513	30	21	10	37	1.88
430223--430275	23	2.4	23	87	9	76	54	1	1	41	1.22
443338--443362	13	1.9	13	100	0	50	36	16	16	32	1.90
452498--452589	45	2.0	45	97	0	175	29	18	10	41	1.84
455799--455886	44	2.0	44	90	0	140	27	18	20	34	1.96
465852--465924	34	2.2	33	83	7	96	83	13	2	0	0.75
465853--465924	33	2.2	33	85	5	92	84	12	2	0	0.72
467125--467610	28	16.7	28	74	13	313	30	30	15	23	1.96
467158--467610	30	15.5	28	74	15	189	31	30	15	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467157--467406	89	2.8	90	89	2	389	32	29	15	23	1.95
467125--467615	146	3.4	144	78	9	451	30	29	15	23	1.96
467131--467610	60	8.2	58	73	13	342	31	29	16	23	1.96
467598--467647	25	2.0	25	88	0	73	34	24	18	24	1.96
467729--467926	48	4.2	46	85	4	220	20	25	17	36	1.94
467759--467926	48	3.5	48	86	3	234	19	26	16	36	1.93
468670--468707	20	1.9	20	100	0	76	31	18	10	39	1.85
468760--468797	20	1.9	20	100	0	76	31	18	10	39	1.85
472760--472799	13	3.1	13	96	0	71	27	15	15	42	1.86
472870--472894	13	1.9	13	100	0	50	36	16	16	32	1.90
475981--476033	21	2.5	21	71	0	52	39	16	16	26	1.91
478431--478848	102	4.0	102	71	13	280	31	20	8	39	1.83
483347--483595	61	3.9	62	74	12	186	19	23	28	28	1.98
483342--483759	68	6.4	68	70	11	187	18	22	28	29	1.98
483342--483751	198	2.1	191	81	5	466	19	22	28	29	1.98
483786--483852	35	1.9	35	93	0	116	47	16	14	20	1.82
483800--483897	41	2.4	42	84	6	128	55	12	16	16	1.70
483929--484044	35	3.1	34	68	21	81	41	16	24	18	1.90
483927--484084	41	4.0	41	74	11	141	39	15	25	18	1.91
483869--484068	76	2.6	76	87	0	265	39	15	24	21	1.91
488883--489006	20	5.7	20	72	17	104	30	16	12	41	1.84
493007--493138	60	2.2	60	98	0	255	37	18	16	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495487--495855	79	4.7	78	80	4	357	27	23	12	37	1.90
495486--495855	158	2.3	158	83	2	440	27	22	12	37	1.90
495814--495883	28	2.5	28	93	4	115	24	27	21	27	1.99
498097--498130	9	3.9	9	88	7	52	14	0	0	85	0.60
498097--498130	17	2.0	17	94	0	59	14	0	0	85	0.60
506205--506482	79	3.6	77	78	7	276	29	23	12	34	1.91
506334--506479	78	1.9	78	86	8	210	30	23	12	33	1.92
510719--510757	20	1.9	21	84	5	53	20	10	10	58	1.59
512006--512245	97	2.5	95	85	6	313	30	30	11	27	1.92
513832--513907	19	4.0	19	89	3	109	36	10	15	36	1.82
513945--513969	13	1.9	13	100	0	50	32	16	16	36	1.90
513978--514105	52	2.5	52	89	1	195	36	17	16	28	1.92
520960--521008	17	2.9	18	82	11	59	77	14	4	4	1.06
521344--521435	1	92.0	1	75	0	85	88	11	0	0	0.53
521342--521434	15	6.1	15	90	7	143	87	12	0	0	0.55
521342--521432	41	2.3	40	92	3	148	86	13	0	0	0.56
522403--522526	33	3.8	32	75	10	128	21	28	14	35	1.93
522379--522475	30	3.1	30	71	8	104	21	31	16	29	1.95
522379--522514	63	2.2	63	98	0	263	21	30	14	33	1.93
522475--522938	34	14.0	33	80	8	455	19	33	12	34	1.90
522610--522669	27	2.2	27	87	0	84	20	36	13	30	1.90
522523--522903	61	5.8	63	84	9	416	19	35	13	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522513--522902	129	3.0	128	83	10	481	19	35	13	32	1.90
522412--522933	100	5.3	98	82	7	578	19	33	13	33	1.91
522940--523270	63	5.1	64	86	6	449	28	33	17	20	1.95
522940--523270	33	10.2	33	86	7	466	28	33	17	20	1.95
523270--523609	49	7.1	49	79	11	362	25	25	17	31	1.97
523316--523600	52	6.1	43	72	18	210	25	25	17	31	1.97
523265--523609	92	3.6	92	83	6	411	25	26	17	31	1.97
523455--523600	52	2.8	52	90	0	229	23	24	18	33	1.97
524442--524505	19	3.7	19	70	23	68	32	12	18	35	1.89
524443--524518	32	2.4	32	93	0	134	34	13	18	34	1.89
524462--524531	13	4.9	13	74	19	68	35	14	17	32	1.90
524462--524551	45	2.0	45	93	0	153	35	13	16	34	1.88
524626--524753	52	2.5	52	89	1	195	35	16	16	31	1.91
527973--528097	52	2.4	52	95	0	223	28	17	18	36	1.94
527973--528117	52	2.8	51	89	4	211	29	17	18	34	1.94
528106--528130	13	1.9	13	100	0	50	36	16	16	32	1.90
528171--528237	33	2.0	33	85	0	89	40	11	11	35	1.79
529145--529500	49	7.7	47	77	12	378	31	18	23	26	1.97
529144--529505	92	3.9	92	94	1	591	31	18	24	25	1.97
529500--529569	33	2.1	35	94	5	126	20	17	37	25	1.94
529579--530033	97	4.6	98	84	8	537	31	12	34	21	1.91
529579--530067	131	3.7	132	87	6	620	31	13	33	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529579--530000	34	12.6	34	86	8	557	30	12	35	21	1.90
529980--530063	30	2.7	31	88	1	116	27	19	28	25	1.98
531348--531426	7	11.6	7	85	14	96	0	0	13	86	0.58
531348--531424	13	5.9	12	85	11	91	0	0	14	85	0.59
531345--531426	19	4.5	18	83	10	105	0	0	13	86	0.57
531348--531426	33	2.3	35	87	12	112	0	0	13	86	0.58
531345--531426	43	1.9	42	90	7	130	0	0	13	86	0.57
531347--531439	43	2.2	43	82	7	109	2	3	11	82	0.87
531345--531426	1	82.0	1	72	0	65	0	0	13	86	0.57
540929--540965	16	2.2	18	85	9	51	45	0	2	51	1.15

Tables:   1   2   3   4   5   6