genome.fa.s196.2.7.7.80.10.50.1000.42.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  42  of  47  ( 5587 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)
6773793--6773945	43	3.6	44	69	10	129	35	16	31	15	1.91
6775420--6775464	21	2.1	21	87	0	63	48	0	22	28	1.50
6776991--6777355	154	2.4	155	80	9	388	41	18	16	23	1.90
6778994--6779027	15	2.3	15	89	0	50	38	0	0	61	0.96
6779120--6779158	16	2.4	17	87	8	55	66	0	2	30	1.05
6779443--6779827	166	2.3	162	81	9	422	49	7	12	30	1.67
6779315--6779873	165	3.4	160	76	12	451	48	7	11	32	1.67
6783108--6783156	17	2.8	17	81	9	55	38	2	0	59	1.09
6783128--6783220	46	2.1	43	82	6	105	45	1	1	52	1.15
6783163--6783222	23	2.6	23	75	15	61	45	1	1	51	1.21
6783209--6783278	25	2.9	25	80	4	81	45	1	0	52	1.09
6783259--6783331	11	6.4	11	75	12	58	57	0	0	42	0.98
6783262--6783355	47	2.0	47	85	4	125	58	1	0	40	1.05
6783249--6783369	47	2.6	47	80	8	124	57	0	0	42	1.04
6783377--6783416	2	20.0	2	94	0	71	50	2	0	47	1.14
6783613--6783642	2	15.0	2	100	0	60	50	0	0	50	1.00
6787491--6787530	19	2.2	19	86	13	57	37	0	0	62	0.95
6787453--6787550	43	2.2	44	80	8	101	45	0	0	54	1.00
6787932--6788017	39	2.2	39	82	13	106	39	0	2	58	1.11
6788063--6788106	22	2.0	22	86	4	63	54	0	0	45	0.99
6788060--6788111	22	2.5	20	77	14	61	51	0	0	48	1.00
6789319--6789391	37	2.0	36	84	7	94	65	1	4	28	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6789339--6789408	29	2.4	29	79	11	81	67	1	4	27	1.18
6790395--6790430	2	18.0	2	100	0	72	50	0	0	50	1.00
6796980--6797444	159	2.9	157	76	9	453	40	10	17	31	1.84
6814438--6814474	18	2.1	18	94	0	65	29	24	10	35	1.89
6815316--6815358	11	3.4	13	81	15	54	51	2	0	46	1.13
6815324--6815361	13	3.1	13	81	14	53	47	0	0	52	1.00
6816464--6816493	11	2.6	11	94	5	51	66	0	0	33	0.92
6817667--6817715	2	24.5	2	91	0	80	53	0	0	46	1.00
6818446--6818508	22	2.9	22	82	0	90	41	12	11	34	1.79
6819296--6819348	18	2.8	19	78	21	67	30	5	0	64	1.17
6819552--6819583	16	2.0	16	93	0	55	21	0	0	78	0.76
6820932--6820961	13	2.3	13	100	0	60	26	0	46	26	1.53
6822252--6822298	16	2.8	17	80	9	60	4	17	0	78	0.90
6822399--6822436	20	1.9	20	88	0	58	28	7	2	60	1.38
6822790--6822910	59	2.1	59	98	0	233	39	6	19	33	1.78
6822982--6823012	15	2.1	15	93	0	53	3	3	6	87	0.75
6826878--6826903	8	3.2	8	100	0	52	61	0	0	38	0.96
6827739--6827770	16	1.9	17	93	6	57	31	0	0	68	0.90
6830252--6830293	2	21.0	2	95	0	75	50	2	0	47	1.14
6833588--6833620	14	2.3	15	89	5	50	45	9	12	33	1.73
6834951--6835003	19	2.7	20	85	8	72	39	18	13	28	1.88
6841150--6841188	13	3.0	13	96	0	69	30	17	15	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6843048--6843147	45	2.4	39	79	17	128	38	7	20	35	1.79
6843060--6843149	45	2.0	45	97	0	171	36	6	20	36	1.79
6843741--6843880	63	2.2	63	98	0	271	30	17	20	31	1.96
6844276--6844343	20	3.0	24	83	16	108	57	11	26	4	1.53
6844111--6844479	202	1.8	202	100	0	738	37	15	15	31	1.89
6845534--6845581	15	3.2	15	84	0	69	47	4	2	45	1.33
6849102--6849139	12	3.1	12	92	3	58	0	15	0	84	0.63
6849345--6849385	16	2.8	15	75	17	50	68	0	0	31	0.90
6850260--6850649	207	1.9	210	82	3	502	33	18	18	29	1.95
6851813--6852072	50	5.2	50	80	0	243	32	16	16	35	1.91
6851813--6852071	100	2.6	100	80	3	279	32	16	16	34	1.91
6856450--6856708	50	5.2	50	84	0	329	28	17	19	34	1.95
6862078--6862119	10	4.3	10	78	3	50	66	0	0	33	0.92
6863043--6863081	20	2.0	19	85	5	51	48	0	0	51	1.00
6863498--6863559	27	2.3	27	81	13	74	24	6	19	50	1.71
6863652--6863690	20	2.0	20	89	0	60	12	46	5	35	1.65
6866141--6866186	21	2.1	22	84	4	58	30	19	30	19	1.97
6868069--6868158	28	3.4	27	79	8	78	26	7	20	45	1.78
6870477--6870512	18	2.0	18	88	0	54	61	11	0	27	1.30
6872704--6873096	210	1.9	206	89	3	608	48	5	10	36	1.60
6883988--6884069	10	7.7	10	78	20	78	86	7	2	3	0.76
6883989--6884059	35	2.1	35	89	7	110	90	5	1	2	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6883989--6884059	1	71.0	1	80	0	79	90	5	1	2	0.60
6885289--6886119	28	28.9	29	89	3	1154	27	32	17	22	1.96
6885288--6886131	257	3.3	256	89	2	1237	27	32	17	22	1.96
6886609--6886681	20	3.7	20	77	0	83	34	13	12	39	1.82
6886609--6886684	40	1.9	39	86	2	107	34	13	13	39	1.83
6890025--6890099	20	3.8	20	80	3	80	40	12	13	34	1.81
6890022--6890099	40	2.0	39	87	2	111	39	12	12	34	1.82
6890473--6890596	49	2.7	46	81	7	142	30	20	29	19	1.97
6890627--6891276	32	21.4	32	84	7	579	20	18	31	29	1.96
6891273--6891766	27	18.0	27	91	1	745	28	13	34	23	1.93
6893082--6893135	14	4.3	13	71	23	53	5	14	12	66	1.41
6899249--6899304	23	2.5	23	97	2	105	62	8	10	17	1.52
6900217--6900291	20	3.8	20	80	3	80	40	12	13	34	1.81
6900214--6900291	40	2.0	39	87	2	111	39	12	12	34	1.82
6900810--6900851	21	2.0	21	86	9	59	54	0	4	40	1.21
6901407--6901457	26	1.9	26	88	4	75	49	0	0	50	1.00
6901941--6901987	15	3.1	15	76	14	51	44	2	0	53	1.12
6906049--6906094	23	2.0	23	83	8	58	52	2	2	43	1.25
6908413--6908450	12	3.2	12	88	3	60	84	0	13	2	0.73
6908823--6908864	2	21.0	2	95	0	75	50	2	0	47	1.14
6909250--6909457	79	2.6	79	83	0	254	29	12	20	37	1.89
6909471--6909765	78	3.9	78	74	13	260	33	11	15	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6910881--6911333	222	2.0	222	96	0	834	34	12	16	36	1.86
6912403--6912468	28	2.3	29	84	5	82	51	4	4	39	1.43
6913547--6913584	20	1.9	20	88	0	58	55	2	0	42	1.14
6913488--6913755	117	2.2	117	81	10	306	42	3	1	52	1.26
6913653--6913696	20	2.2	20	84	8	54	52	6	0	40	1.28
6913691--6913787	28	3.4	28	75	13	74	35	5	1	58	1.27
6916774--6916822	22	2.2	22	100	0	98	67	8	8	16	1.40
6917693--6917807	20	5.7	20	78	6	99	38	13	12	35	1.83
6918365--6920711	28	81.4	28	86	5	2044	22	17	32	27	1.96
6918365--6920711	145	16.3	140	83	6	1977	22	17	32	27	1.96
6918363--6920475	663	3.2	662	89	3	2890	22	17	32	27	1.96
6920127--6920719	137	4.3	136	89	2	873	28	13	33	24	1.94
6920127--6920719	27	21.6	27	91	1	862	28	13	33	24	1.94
6922286--6922311	1	26.0	1	100	0	52	0	0	0	100	0.00
6928227--6928275	22	2.2	22	100	0	98	67	8	8	16	1.40
6929146--6929260	20	5.7	20	78	6	99	38	13	12	35	1.83
6936766--6936829	13	5.5	13	74	22	70	29	15	14	40	1.86
6936748--6936950	33	6.1	33	74	10	178	27	15	15	41	1.87
6936748--6936970	20	11.8	20	67	27	105	27	16	14	41	1.87
6936901--6936929	13	2.2	13	100	0	58	31	17	13	37	1.89
6936779--6936970	53	3.7	54	75	8	139	28	17	14	40	1.89
6939268--6939484	51	4.3	51	79	4	233	29	25	11	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6939471--6939670	107	1.9	107	84	2	267	27	24	17	31	1.97
6939610--6939721	51	2.2	50	82	9	129	34	23	7	34	1.82
6939658--6939882	79	2.8	79	82	10	257	30	25	11	33	1.90
6942112--6942139	7	4.0	7	100	0	56	42	0	0	57	0.99
6944574--6944606	13	2.6	13	85	4	50	57	0	0	42	0.98
6944977--6945009	11	2.8	12	86	9	50	27	0	0	72	0.85
6945811--6945899	26	3.3	26	70	18	65	58	2	4	34	1.31
6946886--6946934	16	2.9	17	76	11	57	30	0	10	59	1.31
6946892--6946934	17	2.6	17	85	3	61	27	0	11	60	1.31
6948940--6949000	32	1.9	32	93	0	104	26	4	16	52	1.64

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   36   37   38   39   40   41   42   43   44   45   46   47