genome.fa.s158.2.7.7.80.10.50.1000.4.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: Scaffold158
Parameters: 2 7 7 80 10 50 1000
Length:  1811518

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

This is table  4  of  13  ( 1497 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)
423259--423679	55	7.5	54	84	9	470	28	14	32	24	1.95
423407--423480	37	2.0	38	92	7	125	24	14	33	27	1.94
423444--423677	27	8.6	27	90	4	319	28	14	32	24	1.94
423444--423677	54	4.3	54	90	2	351	28	14	32	24	1.94
434190--434224	17	2.1	17	88	0	52	22	20	14	42	1.88
435726--435782	24	2.4	24	84	0	78	43	15	36	3	1.64
447111--447163	19	2.7	19	79	2	61	32	15	11	41	1.82
448820--448848	3	9.7	3	100	0	58	34	0	31	34	1.58
453460--453507	21	2.3	20	79	10	53	39	20	0	39	1.53
459262--459967	44	16.2	44	73	9	369	17	26	15	39	1.90
459345--459988	218	3.0	216	81	6	651	17	26	15	40	1.89
459816--459965	43	3.5	44	80	5	128	18	26	16	39	1.91
459251--459984	305	2.4	305	79	5	777	17	26	15	40	1.90
459954--460038	42	2.0	42	88	0	125	10	29	15	44	1.80
463104--463358	79	3.2	79	81	5	284	31	14	27	26	1.95
465845--465883	21	2.0	21	90	10	64	41	17	10	30	1.83
465913--465962	19	2.5	21	90	6	77	32	14	14	40	1.85
466740--466840	42	2.4	43	80	6	107	47	11	25	14	1.79
466854--467145	61	4.9	60	78	9	303	26	20	26	26	1.99
466857--467145	122	2.4	116	87	3	389	26	20	26	26	1.99
466979--467172	55	3.4	55	84	6	230	22	20	28	27	1.99
467186--467677	61	8.4	60	81	9	477	26	20	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467040--467840	155	4.9	161	76	15	594	25	20	29	25	1.99
466975--467382	210	1.9	210	90	2	642	24	20	28	25	1.99
467533--467830	156	1.9	155	88	3	456	25	19	30	24	1.98
466856--467888	509	2.0	502	87	2	1480	26	20	28	25	1.99
467752--467885	55	2.4	55	91	2	216	23	23	27	24	2.00
467482--468109	210	2.9	212	81	8	612	27	19	27	24	1.99
467893--468146	60	4.2	61	90	3	395	33	18	24	24	1.97
474285--474539	79	3.2	79	83	4	266	32	14	27	25	1.95
474473--474590	51	2.3	51	82	5	141	30	12	27	28	1.93
474434--474698	130	2.0	128	79	9	279	34	14	26	24	1.94
476685--476710	13	2.0	13	100	0	52	38	15	15	30	1.88
476697--476754	21	2.8	21	94	0	107	39	17	8	34	1.80
476784--476835	21	2.6	21	90	6	81	32	15	13	38	1.86
479464--479830	170	2.2	170	88	1	529	28	11	20	39	1.88
480015--480479	162	2.9	162	88	3	688	34	12	12	40	1.81
484117--484168	19	2.7	19	83	16	63	32	13	19	34	1.90
484157--484181	13	1.9	13	100	0	50	32	16	20	32	1.94
484137--484201	32	2.0	33	87	3	96	36	13	18	30	1.90
486670--486709	13	3.1	13	92	0	71	37	15	15	32	1.88
488906--488946	21	2.0	20	95	4	73	34	14	21	29	1.93
491254--491288	15	2.3	15	95	0	61	28	28	0	42	1.56
492878--492931	20	2.7	20	88	11	76	35	18	12	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492981--493007	13	2.1	13	100	0	54	40	14	14	29	1.86
494653--494710	21	2.7	21	82	15	66	39	13	12	34	1.82
495219--495271	22	2.5	21	84	9	63	73	1	1	22	1.03
497377--497415	2	19.5	2	100	0	78	48	0	0	51	1.00
497985--498040	16	3.5	16	85	4	69	53	5	0	41	1.24
498634--498683	22	2.5	19	87	12	73	32	0	2	66	1.03
500612--500672	22	3.0	21	71	15	58	59	0	0	40	0.98
500839--500896	2	29.0	2	100	0	116	50	0	0	50	1.00
501559--501617	23	2.5	24	75	8	57	42	1	1	54	1.20
501955--502011	29	2.0	27	86	6	78	35	3	0	61	1.13
501966--502000	18	1.9	18	88	0	52	34	2	0	62	1.10
502396--502459	20	2.9	21	76	15	58	26	3	1	68	1.13
502600--502638	2	19.5	2	94	0	69	53	0	0	46	1.00
503488--503520	10	3.5	10	84	16	52	0	21	0	78	0.75
503486--503525	18	2.2	19	95	4	73	0	20	0	80	0.72
503654--503710	25	2.2	25	81	15	62	47	1	5	45	1.35
503665--503719	26	2.1	27	83	16	71	49	1	3	45	1.30
513928--514015	32	2.7	33	80	3	106	22	20	27	29	1.99
513916--514249	28	11.2	30	77	9	231	24	16	27	31	1.96
513955--514255	57	5.1	56	77	10	212	24	15	28	31	1.96
515441--515511	10	7.7	9	79	17	74	1	0	15	83	0.73
515449--515536	10	8.8	10	79	7	90	1	2	13	82	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515449--515536	19	4.4	19	79	13	97	1	2	13	82	0.81
515449--515532	30	2.8	30	82	13	102	1	2	13	83	0.81
515476--515530	15	3.6	14	77	18	56	0	3	12	83	0.77
515495--515535	13	3.4	12	87	9	57	0	4	9	85	0.73
515441--515512	9	7.7	9	86	9	99	1	0	15	83	0.72
533244--533502	59	4.4	59	81	4	281	38	30	13	18	1.89
538743--539019	51	5.3	51	71	12	224	30	14	27	27	1.95
538844--538920	28	2.8	27	80	7	93	25	16	31	25	1.97
538722--539208	158	3.1	158	84	5	594	32	13	26	28	1.94
539004--539072	28	2.5	28	83	11	88	27	13	31	27	1.93
539060--539178	51	2.3	51	84	7	152	32	10	25	31	1.90
539117--539366	79	3.2	79	82	2	297	34	14	24	27	1.94
539113--539411	158	1.9	157	82	6	383	33	14	24	27	1.94
541706--541812	20	5.7	20	73	18	79	41	14	16	28	1.87
541745--541775	13	2.4	13	94	0	53	35	16	16	32	1.91
542477--542579	41	2.5	41	77	4	100	46	10	24	18	1.80
542610--542749	42	3.2	43	76	9	124	45	12	25	17	1.82
542739--542991	62	4.1	60	82	8	285	29	19	27	23	1.98
542751--542996	61	4.0	60	82	9	266	28	19	27	24	1.99
542987--543251	43	6.0	44	77	10	218	38	13	29	18	1.89
543064--543251	88	2.2	86	86	7	256	34	14	31	19	1.92
543003--543251	131	1.9	132	84	5	335	36	14	29	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543227--544223	61	16.5	61	83	6	1119	26	19	28	25	1.98
550458--550577	52	2.3	52	87	4	172	29	14	28	28	1.95
550508--550656	79	1.9	80	88	1	228	30	16	26	26	1.97
550588--550706	51	2.3	51	89	0	193	31	14	27	26	1.95
550458--550738	130	2.2	131	92	0	456	30	14	27	27	1.95
550691--550766	28	2.7	28	82	8	75	25	15	31	27	1.96
550749--550865	51	2.3	51	88	7	175	28	12	29	29	1.93
550801--551097	79	3.8	79	83	3	352	31	13	25	28	1.94
550801--551097	158	1.9	155	85	3	407	31	13	25	28	1.94
553389--553563	20	8.8	19	72	18	101	42	15	14	27	1.85
553487--553563	20	3.8	20	91	0	118	46	14	11	27	1.79
553476--553505	13	2.3	13	100	0	60	40	13	16	30	1.87
556419--556504	20	4.2	20	81	11	111	16	11	13	58	1.64
556821--556850	15	2.0	15	93	0	51	43	0	0	56	0.99
557525--557633	47	2.3	47	78	13	125	55	9	0	33	1.38
557548--557609	16	3.9	16	73	12	56	58	6	1	33	1.34
557538--557615	25	3.4	22	70	26	54	55	6	1	37	1.34
557934--558053	9	12.0	10	66	21	56	52	0	3	44	1.17
557926--558052	18	7.7	16	66	20	66	53	0	3	42	1.22
557976--558090	30	3.9	31	76	13	93	56	0	2	40	1.19
558878--558902	13	1.9	13	100	0	50	56	4	0	40	1.18
558876--558921	17	2.6	18	82	6	58	58	2	0	39	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559129--559164	3	12.0	3	100	0	72	66	0	0	33	0.92
559163--559191	3	9.7	3	100	0	58	34	0	0	65	0.93
559227--559260	14	2.4	14	90	9	52	67	0	2	29	1.05
560588--560616	2	14.5	2	100	0	58	48	0	0	51	1.00
562833--562903	33	2.2	33	81	0	79	38	4	21	36	1.73
563938--563977	19	2.3	16	87	12	53	77	0	5	17	0.94
566859--566884	13	2.0	13	100	0	52	30	15	15	38	1.88
567587--567686	49	2.1	47	87	8	150	37	24	3	36	1.71
567599--567697	49	2.0	49	100	0	198	34	28	4	33	1.76
569471--569509	13	3.0	13	96	0	69	35	17	15	30	1.91

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