genome.fa.s16.2.7.7.80.10.50.1000.13.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   28   29   30   31   32   
          33   34   35   

This is table  13  of  35  ( 4175 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)
1943063--1943189	50	2.5	51	83	8	161	31	29	6	33	1.82
1943192--1943612	79	5.4	79	79	6	417	33	13	25	27	1.93
1947805--1950451	28	93.1	28	80	7	2627	23	17	30	28	1.97
1947805--1950451	57	46.6	57	80	7	2674	23	17	30	28	1.97
1947810--1950451	85	31.0	85	82	6	2706	23	17	30	28	1.97
1954553--1954611	29	2.0	29	100	0	118	28	16	16	37	1.92
1958813--1959048	48	4.9	49	83	2	298	32	19	25	23	1.97
1958761--1959037	97	2.8	97	87	3	367	32	19	25	22	1.97
1958813--1959047	97	2.4	97	92	0	380	32	19	24	23	1.97
1959045--1959238	34	5.8	33	77	9	162	34	11	32	21	1.89
1959045--1959238	66	2.9	68	81	6	207	34	11	32	21	1.89
1959210--1959498	29	10.0	29	83	6	338	24	18	28	29	1.98
1959210--1959504	87	3.4	85	85	4	385	25	17	28	28	1.98
1959213--1959498	116	2.5	116	91	0	457	24	18	27	29	1.98
1960940--1960982	13	3.4	12	81	9	50	4	0	9	86	0.71
1980887--1981118	122	1.9	122	83	5	299	31	12	25	30	1.93
1981040--1981187	51	2.9	51	90	0	233	35	9	22	32	1.86
1981143--1981316	79	2.2	79	88	0	249	29	14	26	28	1.95
1983717--1983775	20	3.0	20	85	12	86	44	10	15	30	1.79
1983755--1983786	13	2.5	13	100	0	64	40	15	15	28	1.88
1983718--1983821	52	2.0	51	83	12	133	42	11	17	28	1.84
1983738--1983801	33	2.0	32	90	3	101	42	10	18	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983770--1983821	18	2.7	20	80	17	65	42	11	19	26	1.85
1983848--1983906	20	3.0	20	82	0	82	40	13	20	25	1.89
1985122--1985269	51	2.9	51	86	2	163	35	9	22	32	1.86
1984967--1985204	122	2.0	122	86	3	336	30	13	26	28	1.94
1985304--1985502	107	1.9	107	81	8	244	29	17	25	27	1.97
1991455--1991480	13	2.0	13	100	0	52	30	15	15	38	1.88
1991569--1991627	13	5.0	13	74	19	58	35	16	13	33	1.88
1991582--1991647	20	3.7	20	69	26	74	37	18	13	30	1.89
1991549--1991649	33	3.1	33	92	4	170	36	16	14	31	1.90
2003445--2003572	52	2.5	52	97	1	240	29	17	17	34	1.94
2003445--2003592	52	2.9	51	92	5	228	31	17	18	33	1.94
2003581--2003605	13	1.9	13	100	0	50	36	16	16	32	1.90
2003644--2003701	20	3.0	20	84	2	73	46	12	10	31	1.74
2005037--2005078	21	2.0	22	90	4	68	38	2	28	30	1.70
2005718--2005781	33	2.0	32	87	3	92	29	15	14	40	1.86
2007130--2007167	13	3.0	13	84	3	51	0	28	0	71	0.87
2007132--2007166	14	2.3	15	90	9	54	0	25	0	74	0.82
2007507--2008060	166	3.4	160	77	15	480	49	8	12	28	1.70
2007627--2008049	154	2.7	155	81	10	439	48	8	12	30	1.70
2009830--2009912	33	2.5	33	80	0	94	36	25	4	33	1.77
2009900--2009929	15	1.9	16	93	6	53	26	30	6	36	1.82
2010716--2010771	29	2.0	28	82	3	67	21	19	19	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2010754--2010820	30	2.2	30	83	0	89	23	25	17	32	1.97
2010849--2011655	31	26.7	31	72	11	316	24	28	13	33	1.93
2010849--2011081	92	2.5	91	82	2	288	26	29	14	30	1.95
2010849--2011107	92	2.8	90	78	9	265	26	29	13	30	1.94
2010871--2011257	123	3.1	121	81	7	342	24	28	13	32	1.94
2011002--2011669	61	11.0	60	74	11	338	23	27	13	35	1.92
2011067--2011296	123	1.9	123	86	7	333	25	29	12	33	1.92
2010883--2011679	92	8.8	89	75	9	446	24	28	13	33	1.93
2010871--2011679	61	13.4	59	72	11	321	24	28	13	33	1.93
2011140--2011679	120	4.5	118	77	8	328	24	27	12	35	1.92
2011018--2011679	29	22.0	29	74	9	364	24	28	13	34	1.93
2011345--2011654	147	2.1	147	84	6	401	24	27	13	34	1.93
2011675--2011957	31	9.0	32	80	5	247	32	29	15	22	1.95
2011728--2011955	94	2.4	92	78	9	248	32	29	14	22	1.94
2011731--2011957	125	1.8	124	82	5	296	33	29	14	22	1.94
2012107--2012266	52	3.1	52	77	1	133	26	22	14	36	1.93
2013329--2013428	50	2.0	52	82	4	123	41	5	21	33	1.74
2013433--2013808	79	4.8	79	80	3	400	36	12	23	27	1.90
2013366--2013734	158	2.3	159	82	7	437	35	10	23	30	1.89
2013448--2013808	158	2.3	158	83	3	442	36	12	23	27	1.91
2016138--2016251	50	2.3	50	89	0	165	39	14	18	27	1.90
2016848--2017419	61	9.4	60	76	9	381	28	18	24	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2016840--2017411	120	4.7	119	76	8	490	28	18	24	28	1.98
2020345--2020377	16	2.1	16	100	0	66	18	30	24	27	1.98
2027423--2028185	79	9.7	78	77	10	536	33	12	24	29	1.92
2027426--2028184	158	4.8	157	79	7	696	33	12	24	29	1.92
2034514--2034560	20	2.3	20	92	3	76	31	17	10	40	1.83
2036439--2036660	110	2.0	110	95	0	399	40	13	21	24	1.89
2037751--2037802	21	2.5	20	87	3	68	36	17	15	30	1.91
2038226--2038279	20	2.7	20	88	0	81	42	12	14	29	1.83
2038331--2038422	13	8.0	13	67	26	64	36	17	13	32	1.88
2038311--2038444	33	4.1	33	97	0	243	38	17	11	31	1.87
2038344--2038442	20	5.7	20	69	30	100	39	18	12	30	1.87
2044360--2044385	8	3.2	8	100	0	52	15	0	23	61	1.33
2044588--2044638	13	3.9	13	92	0	84	33	15	15	35	1.90
2044588--2044638	26	2.0	26	96	0	93	33	15	15	35	1.90
2047140--2047186	20	2.3	20	85	0	58	44	10	12	31	1.77
2047225--2047251	13	2.1	13	100	0	54	29	14	14	40	1.86
2048943--2049120	80	2.2	79	82	1	203	35	14	24	25	1.94
2049582--2049668	29	2.9	29	81	3	102	25	16	27	31	1.96
2049560--2049701	60	2.4	58	81	8	144	22	18	27	31	1.97
2049600--2049699	31	3.3	31	81	5	96	22	19	28	31	1.97
2049727--2050742	31	32.4	30	69	10	278	25	21	25	27	1.99
2049727--2050341	93	6.7	93	71	9	323	27	22	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2049686--2050055	62	6.0	62	74	2	237	24	22	25	26	2.00
2049714--2050010	124	2.4	125	84	2	357	25	23	24	26	2.00
2050038--2050112	29	2.6	30	76	6	82	29	16	24	30	1.96
2050290--2050803	98	5.2	98	85	0	571	23	20	27	29	1.98
2050290--2050803	196	2.6	196	84	0	668	23	20	27	29	1.98
2050890--2050936	24	1.9	25	91	4	78	42	12	8	36	1.74
2050894--2050949	25	2.2	24	84	6	67	44	16	8	30	1.78
2053937--2053975	21	1.9	21	89	5	62	46	12	25	15	1.81
2055493--2055567	20	3.8	20	80	0	96	33	13	12	41	1.81
2055493--2055570	40	2.0	39	89	2	120	33	12	12	41	1.82
2069518--2069576	13	4.9	11	79	10	55	81	10	3	5	0.96
2070792--2071599	28	28.4	28	81	10	823	27	30	19	22	1.98
2070792--2071601	314	2.6	308	88	4	1156	27	30	19	22	1.98
2070792--2071638	115	7.4	113	83	9	840	27	30	19	22	1.98
2072206--2072278	20	3.7	20	77	0	83	32	15	12	39	1.84
2072206--2072281	40	1.9	39	86	2	107	32	14	13	39	1.85
2078174--2078205	13	2.4	14	90	10	50	25	53	9	12	1.68
2084483--2084535	20	2.7	19	85	2	61	32	13	13	41	1.82
2084671--2084723	20	2.7	20	87	0	79	33	9	15	41	1.79
2093372--2093396	13	1.9	13	100	0	50	24	20	16	40	1.91
2093385--2093438	19	2.8	19	77	0	63	33	12	14	38	1.85
2093466--2093540	33	2.3	32	77	9	80	33	13	18	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2095626--2095652	2	13.5	2	100	0	54	51	0	0	48	1.00
2095708--2095764	18	3.3	17	81	16	64	66	3	1	28	1.18
2095708--2095764	17	3.3	16	83	16	62	66	3	1	28	1.18
2095789--2095837	21	2.3	20	83	10	62	44	10	4	40	1.57
2100147--2100693	167	3.3	166	78	8	483	29	10	9	50	1.70
2101048--2101087	10	4.3	10	78	18	50	85	0	10	5	0.75
2101051--2101086	17	2.1	17	100	0	72	88	0	5	5	0.61
2101179--2101222	11	3.9	11	79	5	52	81	2	13	2	0.88
2102229--2102262	12	2.8	13	91	8	54	79	0	0	20	0.73
2102229--2102262	13	2.8	12	86	8	50	79	0	0	20	0.73

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   28   29   30   31   32   
          33   34   35