genome.fa.s1.2.7.7.80.10.50.1000.36.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: Scaffold1
Parameters: 2 7 7 80 10 50 1000
Length:  8764944

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   48   
          49   50   51   52   

This is table  36  of  52  ( 6211 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)
5989838--5989879	21	2.0	20	86	4	57	40	4	0	54	1.21
5989888--5989926	16	2.5	16	83	4	53	66	10	0	23	1.22
5990328--5990370	5	8.8	5	92	5	70	86	13	0	0	0.58
5990327--5990370	14	3.1	14	90	6	70	86	13	0	0	0.57
5992678--5992703	2	13.0	2	100	0	52	50	0	0	50	1.00
6003785--6003845	25	2.5	25	84	7	72	62	6	4	26	1.40
6006293--6006358	33	2.0	33	93	0	114	25	6	21	46	1.74
6008725--6008768	13	3.5	13	82	11	56	38	0	0	61	0.96
6008725--6008784	11	4.8	14	75	22	62	40	0	0	60	0.97
6010883--6010922	22	1.9	22	85	10	57	60	0	0	40	0.97
6010978--6011007	6	5.0	6	91	0	51	53	0	0	46	1.00
6010967--6011004	12	3.2	12	85	3	51	60	2	0	36	1.11
6010973--6011007	18	1.9	18	94	0	61	54	2	0	42	1.15
6014228--6014257	10	2.8	11	90	10	53	56	0	6	36	1.26
6014690--6014763	30	2.4	31	76	14	82	50	1	0	48	1.09
6014730--6014821	41	2.2	43	82	9	109	53	2	0	44	1.12
6015432--6015461	2	15.0	2	100	0	60	50	0	0	50	1.00
6015630--6015684	23	2.4	24	79	14	62	40	0	0	60	0.97
6016975--6016999	7	3.6	7	100	0	50	64	0	0	36	0.94
6017209--6017259	2	25.5	2	100	0	102	50	0	0	49	1.00
6021638--6021687	21	2.3	22	86	10	68	30	0	10	60	1.30
6021873--6021949	39	2.0	39	100	0	154	41	5	11	41	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6022138--6022216	31	2.7	29	77	9	88	49	2	12	35	1.54
6022174--6022284	29	3.9	29	70	11	77	54	3	9	32	1.49
6022366--6022423	11	5.5	11	77	8	66	29	0	0	70	0.87
6022363--6022423	22	2.9	21	85	9	79	29	0	0	70	0.88
6022363--6022424	31	2.0	31	93	0	106	29	0	0	70	0.87
6022916--6022963	23	2.1	23	84	7	62	35	0	2	62	1.07
6023259--6023286	3	9.3	3	100	0	56	0	32	0	67	0.91
6024926--6024957	16	2.0	16	93	0	55	21	0	18	59	1.38
6030805--6030838	17	1.9	18	88	5	52	29	0	0	70	0.87
6032537--6032581	2	22.5	2	95	0	81	51	0	2	46	1.13
6032581--6032619	2	19.5	2	100	0	78	51	0	48	0	1.00
6033929--6033980	22	2.4	21	84	9	61	40	7	5	46	1.57
6033939--6033982	22	2.0	22	90	0	70	43	11	6	38	1.67
6033988--6034026	17	2.3	17	86	8	53	61	5	2	30	1.31
6034738--6034857	31	3.7	31	75	10	125	47	2	1	48	1.25
6036264--6036298	2	17.5	2	87	0	52	51	0	2	45	1.16
6036847--6036915	33	2.1	33	83	5	86	47	1	5	44	1.35
6037594--6037636	2	21.5	2	95	0	77	48	2	0	48	1.14
6040386--6040410	2	12.5	2	100	0	50	48	0	0	52	1.00
6042078--6042111	2	17.0	2	93	0	59	0	50	2	47	1.16
6042952--6042991	2	20.5	2	84	5	55	45	0	0	55	0.99
6044553--6044585	10	3.4	10	87	8	50	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6044999--6045045	2	23.5	2	95	0	85	51	0	2	46	1.13
6046348--6046400	26	2.0	26	82	7	63	60	0	0	39	0.97
6046636--6046706	18	3.9	18	74	15	56	52	1	1	45	1.18
6046660--6046705	23	2.0	22	84	12	58	52	0	2	45	1.13
6047350--6047423	23	3.1	23	75	21	73	67	4	0	28	1.09
6047514--6047549	14	2.6	14	86	0	54	5	38	0	55	1.23
6047553--6047586	16	2.3	14	90	10	50	0	35	0	64	0.94
6047525--6047589	21	2.9	22	82	13	62	1	33	0	64	1.03
6047802--6047916	58	2.0	58	84	1	151	51	6	7	34	1.56
6048003--6048050	23	2.0	24	84	4	62	66	6	4	22	1.32
6049257--6049314	21	2.8	21	77	15	66	60	0	1	37	1.07
6049244--6049292	15	3.3	15	80	11	57	59	0	2	38	1.09
6049175--6049292	16	7.1	15	66	27	53	62	3	3	30	1.28
6049319--6049368	17	2.7	19	81	12	68	6	18	2	74	1.12
6050051--6050110	31	1.9	32	86	3	86	38	5	1	55	1.32
6050610--6050656	15	2.9	17	71	12	53	42	6	4	46	1.48
6050610--6050670	32	2.0	32	84	12	83	44	4	6	44	1.51
6050868--6050903	17	2.1	17	89	0	54	50	2	5	41	1.40
6050954--6050997	22	2.0	21	82	4	52	65	2	2	29	1.16
6051481--6051553	35	2.1	34	92	2	119	34	9	13	42	1.77
6051715--6051770	20	2.6	22	72	11	53	48	7	1	42	1.41
6051741--6051794	19	2.9	18	78	5	63	46	5	0	48	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6052018--6052051	4	8.5	4	100	0	68	50	26	0	23	1.50
6053261--6053313	26	2.0	27	96	3	99	30	24	3	41	1.72
6061013--6061052	2	20.0	2	100	0	80	0	50	0	50	1.00
6061189--6061213	10	2.5	10	100	0	50	92	0	8	0	0.40
6061576--6061652	11	6.8	11	76	18	70	36	0	0	63	0.95
6061515--6061650	19	7.4	19	67	24	62	38	0	0	60	1.07
6061580--6061652	13	5.8	13	73	16	55	36	0	0	63	0.95
6061862--6061945	11	7.9	11	71	12	59	52	1	0	46	1.08
6061863--6061947	10	8.3	10	71	17	50	52	1	0	45	1.08
6062262--6062318	26	2.2	24	80	17	62	40	0	0	59	0.97
6062306--6062347	23	1.9	22	85	9	59	38	0	0	61	0.96
6062333--6062375	19	2.3	18	84	15	61	37	0	0	62	0.95
6063507--6063576	19	3.4	19	82	9	59	62	1	2	32	1.18
6063562--6063630	20	3.8	20	66	31	55	55	0	0	44	0.99
6065076--6065137	11	6.0	11	73	17	53	58	0	0	41	0.98
6065069--6065201	8	15.9	8	70	25	64	60	0	0	39	1.02
6065075--6065119	22	2.1	21	87	4	63	62	0	0	37	0.96
6065042--6065193	75	2.0	78	79	8	170	59	1	0	38	1.10
6065128--6065181	6	9.8	6	76	15	55	62	0	0	37	0.95
6065056--6065176	16	7.6	16	69	14	63	60	0	0	38	1.08
6069812--6069862	23	2.2	23	85	0	66	52	11	9	25	1.68
6075661--6075750	24	3.6	24	80	11	108	26	6	3	63	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6078119--6078181	33	1.9	33	90	0	99	34	4	17	42	1.70
6078441--6078480	19	2.0	21	90	9	66	70	0	2	27	1.01
6082922--6082961	2	20.0	2	89	0	62	47	2	2	47	1.29
6085042--6085085	21	2.1	21	87	8	63	34	0	4	61	1.16
6085256--6085287	2	16.0	2	100	0	64	50	0	0	50	1.00
6088087--6088128	3	14.0	3	94	0	75	33	2	0	64	1.07
6088230--6088302	28	2.5	31	80	13	98	54	4	1	39	1.28
6089416--6089473	30	1.9	30	82	0	71	55	1	0	43	1.10
6090234--6090306	33	2.2	32	78	7	74	43	5	4	46	1.45
6091386--6091416	16	1.9	16	93	0	53	25	0	0	74	0.82
6092154--6092203	20	2.5	20	81	12	57	42	2	10	46	1.49
6093550--6093609	21	2.9	19	79	13	66	35	23	3	38	1.71
6096773--6096819	20	2.3	20	100	0	94	44	0	23	31	1.54
6097679--6097782	40	2.7	37	77	16	97	50	0	0	50	1.00
6097725--6097778	28	1.9	28	85	7	74	51	0	0	48	1.00
6098394--6098470	39	1.9	39	84	7	102	49	0	9	41	1.34
6098922--6098975	11	4.9	11	78	15	58	20	3	0	75	0.95
6102582--6102677	46	2.1	45	83	11	115	53	0	0	46	1.00
6103183--6103273	16	5.6	16	67	14	62	47	4	7	40	1.52
6104016--6104050	19	1.9	17	88	11	52	40	0	0	60	0.97
6104036--6104152	37	2.9	38	79	14	96	47	0	0	52	1.00
6105697--6105767	28	2.6	29	82	6	85	28	4	19	47	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6110270--6110340	27	2.6	27	86	6	90	22	7	22	47	1.75
6111642--6111678	18	2.1	18	90	10	58	67	2	5	24	1.25
6114650--6114700	20	2.5	19	76	20	50	56	5	0	37	1.23
6116374--6116431	23	2.5	24	94	2	100	48	5	5	41	1.48
6116952--6116986	18	2.0	17	88	5	52	65	0	0	34	0.93
6117443--6117521	10	7.8	10	73	12	63	63	0	2	34	1.08
6117458--6117515	27	2.1	28	87	9	84	65	0	0	34	0.93
6117448--6117516	27	2.4	27	81	11	77	63	0	1	34	1.03
6117441--6117522	40	2.0	40	84	11	105	60	0	2	36	1.10
6117441--6117547	40	2.7	39	79	14	98	58	0	1	39	1.09

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   48   
          49   50   51   52