genome.fa.s196.2.7.7.80.10.50.1000.43.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  43  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)
6951014--6951065	9	5.8	9	86	8	70	84	0	13	1	0.70
6951017--6951042	12	2.2	12	100	0	52	84	0	15	0	0.62
6951014--6951065	19	2.9	17	83	10	68	84	0	13	1	0.70
6951429--6951463	2	17.5	2	100	0	70	48	0	0	51	1.00
6951544--6951613	35	2.0	35	100	0	140	40	8	17	34	1.80
6951688--6951715	2	14.0	2	100	0	56	50	0	0	50	1.00
6951906--6952085	79	2.3	78	84	0	216	28	11	21	39	1.87
6951909--6952097	78	2.4	78	82	4	200	28	11	21	39	1.87
6952129--6952343	74	2.8	75	76	8	186	32	10	17	39	1.83
6952528--6952577	21	2.4	21	83	6	57	50	6	2	42	1.38
6954609--6954647	20	2.0	19	85	14	53	30	0	0	69	0.89
6955958--6956039	32	2.7	31	78	10	80	46	1	1	51	1.16
6956026--6956076	24	2.1	26	82	10	63	45	7	1	45	1.44
6956085--6956133	23	2.2	24	78	14	59	40	2	2	55	1.23
6955925--6956172	124	2.0	125	80	3	277	41	3	3	51	1.37
6956005--6956210	111	1.8	112	85	5	292	42	2	2	51	1.31
6956142--6956222	28	3.0	27	84	8	94	40	0	1	58	1.06
6956166--6956251	6	12.7	6	75	19	64	34	3	1	60	1.21
6956153--6956251	28	3.6	27	85	9	103	35	3	1	60	1.19
6956296--6956355	31	1.9	31	96	0	111	41	16	18	23	1.90
6957877--6957910	2	17.0	2	100	0	68	0	50	0	50	1.00
6957910--6957939	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6962035--6962377	98	3.5	96	81	4	359	40	12	19	27	1.87
6964588--6964641	20	2.7	20	85	8	65	29	20	12	37	1.90
6964963--6965053	42	2.1	43	90	6	141	18	0	37	43	1.50
6965004--6965068	34	1.9	34	87	3	96	21	0	35	43	1.53
6969825--6969851	9	3.0	9	100	0	54	11	0	44	44	1.39
6969793--6969884	43	2.1	43	97	0	175	17	0	40	42	1.49
6972351--6972383	17	2.0	17	94	5	59	6	27	24	42	1.78
6974561--6974586	12	2.2	12	100	0	52	34	42	0	23	1.54
6976559--6976617	32	1.9	30	83	13	75	59	10	10	20	1.58
6976899--6976924	13	2.0	13	100	0	52	30	15	15	38	1.88
6976994--6977049	20	2.8	20	89	5	78	28	17	16	37	1.91
6979463--6979497	13	2.7	13	95	0	61	28	14	20	37	1.91
6981243--6981273	15	2.1	15	93	0	53	12	22	16	48	1.80
6983076--6983120	21	2.1	21	84	8	56	22	20	4	53	1.63
6985001--6985059	32	1.9	30	83	13	75	59	10	10	20	1.58
6985319--6985383	32	2.0	32	87	6	94	27	10	15	46	1.79
6985435--6985490	20	2.8	20	89	5	78	28	17	16	37	1.91
6989183--6989312	29	4.4	29	76	9	120	33	26	20	20	1.97
6989188--6989313	44	2.9	43	85	4	171	33	26	20	19	1.97
6989176--6989313	15	9.4	15	74	4	120	35	26	18	18	1.95
6989524--6989573	24	2.1	24	88	0	73	42	14	20	24	1.88
6989645--6989692	2	24.0	2	81	8	53	45	2	6	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6990139--6990292	66	2.3	64	76	11	148	39	14	17	27	1.89
6990456--6990583	67	1.9	67	81	9	154	36	14	21	27	1.92
6992065--6992094	15	2.0	15	93	0	51	3	0	53	43	1.17
6993108--6993149	15	2.8	15	88	0	57	35	21	19	23	1.96
6993165--6993322	15	10.7	15	74	8	117	34	19	17	27	1.95
6993118--6993321	44	4.6	44	75	7	144	33	21	18	26	1.96
6993147--6993277	45	3.0	44	75	6	113	32	21	18	27	1.96
6993240--6993306	29	2.3	29	92	0	116	37	25	14	22	1.93
6994853--6994908	20	2.6	22	73	18	55	62	14	0	23	1.31
6995655--6995732	38	2.0	39	80	11	90	47	2	2	47	1.29
6996442--6996497	22	2.5	22	80	13	62	67	3	0	28	1.07
6996449--6996499	21	2.4	21	78	18	61	66	3	0	29	1.09
7000257--7000354	52	1.9	51	83	6	126	42	12	14	30	1.82
7000428--7000501	21	3.6	20	81	7	78	32	18	12	36	1.88
7002048--7002084	2	19.0	2	88	5	58	54	0	0	45	1.00
7002830--7002869	20	2.0	20	95	4	73	40	0	5	55	1.22
7002966--7003113	78	1.9	80	84	4	201	44	9	10	35	1.72
7003703--7003749	16	2.7	18	77	12	62	42	2	0	55	1.12
7003709--7003754	21	2.1	23	84	8	60	47	2	0	50	1.13
7004465--7004491	13	2.1	13	100	0	54	40	14	0	44	1.46
7004617--7004654	16	2.4	16	86	8	51	39	0	2	57	1.12
7006199--7006236	11	3.3	12	85	14	53	60	2	2	34	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7006433--7006458	4	6.5	4	100	0	52	23	0	0	76	0.78
7007539--7007604	20	3.3	20	84	0	87	28	25	7	37	1.83
7007624--7007660	10	3.7	10	88	0	56	18	21	10	48	1.78
7007589--7007672	20	4.2	20	70	0	78	23	25	10	40	1.87
7007724--7007771	23	2.1	23	84	7	62	35	8	6	50	1.58
7009740--7009795	29	2.0	29	86	10	80	37	16	12	33	1.86
7009797--7009876	29	2.8	29	72	0	70	35	8	15	41	1.78
7011243--7011336	14	6.6	14	70	12	57	40	11	12	35	1.80
7011243--7011316	29	2.6	28	82	8	78	41	9	12	36	1.75
7011243--7011339	43	2.3	43	81	0	113	39	11	14	35	1.82
7011327--7011370	14	3.4	14	73	23	51	29	11	29	29	1.92
7011413--7011484	14	5.0	14	80	6	72	44	8	8	38	1.65
7011431--7011469	15	2.6	15	87	0	51	48	10	5	35	1.59
7011909--7011961	27	2.0	27	81	7	63	47	3	0	49	1.19
7013464--7013535	28	2.6	27	84	8	83	44	23	8	23	1.80
7018002--7018071	24	2.8	25	89	6	99	44	25	8	21	1.80
7018056--7018127	28	2.6	27	86	8	92	45	23	6	23	1.77
7018502--7018557	21	2.8	20	84	10	69	71	1	0	26	0.96
7023100--7023138	16	2.4	16	91	0	60	10	7	33	48	1.66
7023127--7023234	16	6.8	16	72	2	65	7	17	32	42	1.77
7024035--7024115	16	5.1	16	76	0	72	4	11	30	53	1.57
7024035--7024112	32	2.4	32	80	0	84	5	11	28	55	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7024060--7024127	32	2.1	32	86	0	91	2	11	33	51	1.54
7026245--7026293	2	24.5	2	100	0	98	0	0	48	51	1.00
7031907--7031950	23	2.0	22	90	4	70	43	0	0	56	0.99
7031964--7032076	25	4.3	25	76	14	104	45	1	0	53	1.11
7031961--7032079	54	2.1	56	83	7	145	43	1	0	54	1.10
7031911--7032079	15	11.6	16	63	25	56	44	1	0	54	1.07
7032419--7032487	18	3.9	18	74	9	61	52	0	2	44	1.16
7032503--7032549	20	2.3	21	78	10	53	36	2	4	57	1.30
7032975--7033021	16	2.9	16	84	6	60	53	12	8	25	1.67
7034237--7034281	17	2.7	17	82	3	56	64	0	33	2	1.06
7034418--7034457	19	2.0	20	85	4	55	22	0	7	70	1.12
7034725--7034788	27	2.2	31	78	15	75	21	10	9	57	1.61
7036685--7036764	29	2.9	27	73	12	72	41	0	0	58	0.98
7036694--7036727	8	3.8	9	88	11	52	35	0	0	64	0.94
7036709--7036772	19	3.1	22	71	15	64	40	0	0	59	0.97
7036678--7036779	19	5.5	19	69	17	54	43	0	0	56	0.99
7041116--7041158	16	2.5	18	81	11	63	39	0	6	53	1.28
7041123--7041154	17	1.9	17	93	6	57	37	0	9	53	1.34
7041196--7041275	36	2.3	37	75	22	91	50	0	0	50	1.00
7041211--7041294	36	2.4	36	84	13	106	51	0	0	48	1.00
7041481--7041533	17	3.1	18	83	8	56	35	0	1	62	1.06
7041565--7041594	15	1.9	16	93	6	53	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7043108--7043138	2	15.5	2	100	0	62	48	0	0	51	1.00
7051699--7051738	20	2.1	18	86	9	53	17	10	0	72	1.11
7052800--7052826	2	13.5	2	100	0	54	51	0	0	48	1.00
7058035--7058066	2	16.0	2	100	0	64	50	0	0	50	1.00
7065668--7065725	28	2.1	28	83	0	71	36	10	3	50	1.54
7065755--7065814	28	2.1	28	81	0	66	30	18	10	41	1.83
7067180--7067223	23	2.0	23	86	8	65	63	2	0	34	1.07
7068111--7068151	19	2.4	16	84	15	55	70	0	0	29	0.87
7068113--7068151	20	2.0	19	85	5	51	69	0	0	30	0.89
7068357--7068413	29	1.9	30	82	10	73	38	3	5	52	1.41

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