genome.fa.s173.2.7.7.80.10.50.1000.4.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  4  of  16  ( 1814 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)
488032--488214	48	3.9	48	87	6	234	27	17	29	25	1.97
488202--488304	33	3.3	31	88	8	154	16	18	34	30	1.93
488202--488312	32	3.5	31	85	7	143	17	17	37	27	1.92
488315--488828	34	15.7	32	74	15	360	31	12	35	20	1.91
488263--488588	174	1.9	174	91	4	534	30	12	35	21	1.91
488315--488929	139	4.7	129	74	13	429	30	13	34	21	1.92
488494--488927	31	13.7	31	77	15	320	30	14	34	21	1.93
488620--488773	27	5.3	27	79	15	155	29	13	36	20	1.91
488320--488773	61	7.0	61	81	10	394	31	12	34	21	1.91
488708--488833	67	1.9	67	93	0	216	28	13	36	21	1.91
488654--488927	94	2.9	97	81	9	239	28	14	34	22	1.94
488489--488934	161	2.8	157	81	8	474	31	13	34	21	1.92
489853--489924	1	72.0	1	74	0	54	0	8	5	86	0.72
489846--489906	10	6.2	10	80	5	63	0	9	4	85	0.74
489854--489924	9	7.9	9	76	10	65	0	8	5	85	0.72
489846--489925	27	2.9	28	77	15	87	0	8	7	83	0.80
489846--489924	16	5.3	15	75	15	74	0	8	6	84	0.76
489853--489924	24	3.0	23	84	10	74	0	8	5	86	0.72
497030--497158	52	2.5	52	94	0	222	30	17	16	35	1.92
497030--497178	52	2.9	51	89	4	210	32	17	16	34	1.92
497164--497191	13	2.2	13	100	0	56	39	17	14	28	1.89
497232--497298	33	2.0	33	88	0	98	40	14	11	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497254--497278	13	1.9	13	100	0	50	32	16	16	36	1.90
501574--501631	16	3.6	16	83	6	82	84	5	10	0	0.77
501574--501631	17	3.7	16	86	13	77	84	5	10	0	0.77
501586--501622	12	2.8	13	88	12	58	86	5	8	0	0.70
501586--501625	19	2.1	19	85	0	53	87	5	7	0	0.66
501597--501634	19	1.9	20	89	10	60	81	2	15	0	0.80
502676--503223	34	16.9	34	76	13	505	19	35	12	32	1.89
502616--503124	61	8.0	61	81	11	435	20	35	12	31	1.90
502615--503158	129	4.2	125	80	13	459	20	35	12	31	1.90
502675--503124	163	2.8	160	88	6	617	19	35	12	31	1.90
502672--503238	198	2.9	197	85	8	650	19	35	12	32	1.89
502836--503212	61	5.8	62	80	13	377	19	36	12	31	1.89
503126--503178	27	2.0	27	88	0	79	24	39	13	22	1.90
502792--503226	129	3.3	132	78	13	416	18	35	12	33	1.88
503226--503454	33	7.0	33	87	4	349	28	33	18	19	1.96
503226--503461	65	3.7	64	86	5	341	29	33	18	19	1.95
503500--503773	43	6.1	43	80	9	323	25	24	18	31	1.98
503449--503826	92	4.1	92	92	1	603	25	25	17	31	1.97
503684--503751	22	3.1	21	66	26	52	26	25	17	30	1.97
503727--503881	52	2.9	53	79	6	177	24	23	15	36	1.93
504481--504514	9	3.8	9	100	0	68	20	0	8	70	1.13
504734--504758	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)
504714--504779	32	2.0	33	91	2	107	36	12	15	36	1.84
504820--504844	13	1.9	13	100	0	50	32	16	16	36	1.90
504853--504981	52	2.5	52	97	0	240	36	17	17	28	1.93
508818--509061	97	2.5	97	86	1	337	31	13	26	27	1.94
511294--511332	20	2.0	20	84	0	51	5	10	7	76	1.13
515975--516013	20	2.0	20	89	0	60	48	23	7	20	1.75
516181--516225	21	2.2	20	84	4	54	4	11	33	51	1.58
516274--516305	10	3.0	11	90	9	57	0	9	15	75	1.05
516824--516910	35	2.5	35	86	0	120	17	22	12	47	1.81
517065--517101	13	2.9	13	96	4	67	32	21	13	32	1.92
517254--517296	17	2.6	16	77	3	50	20	4	2	72	1.14
521577--521697	15	7.5	15	71	19	68	4	23	0	72	1.01
521574--521690	10	11.3	10	71	17	71	4	22	0	73	1.00
521579--521697	4	30.5	4	72	17	74	4	23	0	72	1.02
521568--521697	24	6.0	23	76	18	118	5	22	0	72	1.05
521574--521712	66	2.1	66	97	0	260	5	21	0	72	1.05
521585--521694	20	5.1	21	72	15	91	4	23	0	71	1.04
522371--522410	18	2.4	16	84	12	53	2	5	7	85	0.83
522646--522677	2	16.5	2	93	6	57	50	0	0	50	1.00
523857--523887	16	1.9	16	93	0	53	41	0	16	41	1.48
525749--525819	22	3.2	22	71	13	56	63	0	1	35	1.03
525825--525857	17	1.9	17	88	11	50	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)
525822--525872	18	2.8	19	80	17	63	54	0	0	45	0.99
526071--526138	15	4.2	16	72	12	50	54	1	0	44	1.09
526090--526137	22	2.2	21	88	3	69	58	0	0	41	0.98
526767--526797	11	2.8	11	90	0	53	74	0	0	25	0.82
528090--528133	3	15.0	3	95	4	81	34	0	0	65	0.93
528322--528351	2	15.0	2	100	0	60	50	0	0	50	1.00
529505--529571	20	3.7	19	70	27	56	46	0	0	53	1.00
529483--529603	32	3.7	33	82	8	108	42	0	0	57	0.99
529539--529651	40	2.7	42	78	15	110	45	0	0	53	1.06
529518--529594	18	4.0	18	68	28	52	45	0	0	54	0.99
529521--529603	32	2.5	33	88	7	125	44	0	0	55	0.99
529480--529607	16	7.7	18	66	20	73	42	0	0	57	0.99
530010--530048	11	3.6	11	80	19	55	33	0	0	66	0.92
529983--530047	28	2.4	29	82	12	77	40	0	0	60	0.97
532171--532208	15	2.5	16	83	12	53	55	0	0	44	0.99
533106--533169	30	2.2	30	83	8	78	39	1	1	57	1.17
533940--533969	15	2.0	15	93	0	51	56	0	0	43	0.99
534641--534700	21	2.7	21	74	18	59	60	0	1	38	1.07
534904--534936	16	2.0	17	88	5	50	51	0	3	45	1.16
535085--535141	21	2.6	23	81	15	68	31	0	0	68	0.90
535107--535146	20	2.0	20	85	9	55	30	0	2	67	1.04
535576--535714	74	1.9	73	80	5	163	34	1	10	53	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536903--536930	14	2.0	14	100	0	56	35	35	0	28	1.58
538224--538322	52	1.9	52	81	4	119	40	2	0	57	1.10
538243--538353	52	2.1	51	81	6	123	37	2	0	58	1.18
538141--539015	129	6.9	127	83	11	1020	40	3	2	53	1.29
538667--538696	15	2.0	15	93	0	51	36	0	0	63	0.95
538141--539008	376	2.3	379	85	9	1134	40	3	2	53	1.29
540558--540600	17	2.5	17	84	3	50	37	0	0	62	0.95
541767--541792	13	2.0	13	100	0	52	30	15	15	38	1.88
541852--541924	20	3.6	20	81	3	101	31	19	13	35	1.91
541831--541924	41	2.3	41	96	0	170	30	18	12	38	1.88
541831--541906	21	3.7	21	78	3	91	30	17	11	40	1.85
544364--544402	13	3.0	13	96	0	69	35	15	17	30	1.91
544388--544466	20	3.7	20	75	18	70	45	15	13	25	1.83
550574--550599	13	2.0	13	100	0	52	30	15	15	38	1.88
550659--550731	20	3.6	20	81	3	101	31	19	13	35	1.91
550638--550731	41	2.3	41	96	0	170	30	18	12	38	1.88
550638--550713	21	3.7	21	78	3	91	30	17	11	40	1.85
552439--552548	42	2.6	42	91	0	175	41	2	45	10	1.52
552439--552524	24	3.8	24	69	17	76	41	2	44	11	1.53
552505--552554	18	2.7	19	79	11	52	46	4	44	6	1.47
553458--553532	20	3.8	20	74	0	78	33	13	13	40	1.83
553459--553535	40	1.9	39	86	2	109	32	12	14	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560566--560625	23	2.5	24	73	7	61	70	10	13	6	1.34
560904--560936	12	2.8	12	95	4	59	84	15	0	0	0.61
561950--563246	27	48.3	27	90	4	1910	23	33	14	28	1.94
562363--562405	21	2.0	21	95	0	77	27	30	18	23	1.98
562630--562672	21	2.0	21	95	0	77	27	30	18	23	1.98
563113--563155	21	2.0	21	95	0	77	30	32	16	20	1.95
563138--563254	28	4.2	28	89	5	166	26	34	11	27	1.92
563250--563790	32	16.9	32	91	1	827	31	32	18	17	1.94
563821--563943	49	2.6	46	80	7	131	19	28	21	30	1.97
564318--564394	40	1.9	39	84	2	100	33	12	12	40	1.82

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