genome.fa.s196.2.7.7.80.10.50.1000.35.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  35  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)
5755735--5755827	32	2.9	33	87	6	129	29	32	18	20	1.96
5755798--5755906	45	2.4	45	86	8	159	22	25	14	36	1.93
5755885--5756266	31	11.9	32	76	5	299	31	28	17	22	1.96
5755885--5756264	64	6.0	61	78	8	350	31	28	17	22	1.96
5756691--5756922	61	3.9	60	87	5	312	26	26	20	26	1.99
5756692--5756921	116	1.9	116	87	5	334	26	26	20	26	1.99
5756942--5757254	116	2.6	116	84	5	369	27	26	20	25	1.99
5756939--5757268	61	5.6	60	78	10	326	26	26	19	27	1.99
5757276--5757378	42	2.4	42	85	8	127	23	29	13	33	1.93
5758904--5758972	28	2.5	28	87	0	93	26	18	30	24	1.98
5758961--5759076	51	2.3	51	84	0	142	29	12	26	31	1.92
5758687--5759315	237	2.6	238	82	7	687	33	13	25	27	1.94
5759141--5759211	27	2.6	28	84	8	92	26	21	28	23	1.99
5759199--5759431	51	4.5	51	80	4	254	34	10	23	31	1.88
5759199--5759431	102	2.3	104	86	3	319	34	10	23	31	1.88
5761868--5761917	21	2.5	21	87	6	68	36	14	12	38	1.83
5762634--5762768	42	3.1	42	81	5	137	41	13	26	18	1.87
5762752--5762963	61	3.5	60	82	5	232	29	21	24	25	1.99
5763023--5763340	61	5.4	60	85	7	367	26	19	27	26	1.99
5763026--5763258	121	1.9	121	87	3	344	28	19	25	26	1.99
5764314--5764376	14	4.5	14	80	13	60	0	3	12	84	0.75
5764323--5764379	21	2.8	20	86	10	71	0	1	12	85	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5764313--5764377	9	6.9	9	79	13	60	0	3	12	84	0.73
5768749--5768999	124	2.0	124	100	0	502	28	20	22	28	1.99
5777095--5777164	28	2.5	27	86	4	86	27	18	31	22	1.97
5777157--5777267	51	2.2	52	80	6	129	32	11	24	31	1.91
5777228--5777379	80	1.9	80	90	4	245	34	15	23	26	1.95
5776887--5777505	236	2.6	237	80	6	630	34	13	25	26	1.93
5777390--5777624	51	4.6	51	81	3	267	34	9	24	31	1.88
5777394--5777624	102	2.2	104	87	4	308	35	9	23	30	1.88
5780057--5780104	19	2.4	21	86	6	64	31	16	14	37	1.89
5780057--5780108	21	2.6	19	87	6	68	32	17	13	36	1.89
5780648--5780839	94	2.0	97	85	8	266	25	29	17	27	1.97
5780764--5781007	55	4.3	55	84	4	292	28	27	20	23	1.99
5780871--5781176	156	2.0	155	90	0	486	24	27	19	28	1.98
5781049--5781305	61	4.2	61	84	5	313	24	26	19	29	1.98
5780813--5781225	217	1.9	211	86	4	578	25	26	20	27	1.99
5781029--5781358	61	5.5	60	80	6	296	24	24	20	30	1.99
5781363--5781473	45	2.6	42	80	7	107	23	29	13	33	1.93
5782200--5782305	30	3.5	30	70	8	97	26	17	16	39	1.90
5782197--5782325	62	2.1	63	86	4	181	27	17	15	39	1.90
5784667--5784743	28	2.8	28	86	7	95	23	31	19	25	1.98
5784817--5785011	79	2.5	78	86	4	259	28	25	13	32	1.94
5786510--5786644	20	6.6	20	83	5	155	37	12	19	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5786510--5786644	41	3.3	41	90	4	202	37	12	19	30	1.89
5786529--5786644	61	1.9	62	89	1	180	37	12	18	31	1.88
5786667--5786744	40	2.0	40	81	0	93	39	14	8	37	1.77
5786761--5786812	16	2.9	18	83	16	72	34	13	11	40	1.81
5790709--5790744	6	5.8	6	93	6	63	63	0	16	19	1.30
5790709--5790748	19	2.1	19	100	0	80	65	0	15	20	1.28
5790709--5790744	13	2.9	12	92	8	63	63	0	16	19	1.30
5791054--5791126	20	3.7	19	87	7	85	28	15	17	38	1.90
5791172--5791201	13	2.3	13	100	0	60	33	16	13	36	1.88
5791155--5791223	33	2.1	32	84	10	86	33	13	17	36	1.88
5797371--5797397	13	2.1	13	100	0	54	29	14	14	40	1.86
5798570--5798614	24	1.9	23	86	4	63	51	4	6	37	1.49
5799245--5799296	19	2.7	19	85	11	70	34	13	17	34	1.89
5799245--5799295	20	2.6	20	87	9	70	33	13	17	35	1.89
5799323--5799376	20	2.7	19	86	11	65	31	11	20	37	1.88
5800559--5800595	2	18.5	2	94	0	65	48	0	2	48	1.15
5800725--5800928	104	1.9	106	90	5	326	49	4	12	33	1.62
5801258--5801300	15	2.8	15	85	3	59	53	0	0	46	1.00
5801253--5801298	15	3.1	15	81	3	58	58	0	0	41	0.98
5801244--5801315	29	2.5	30	77	11	78	59	0	1	38	1.06
5801985--5802100	53	2.2	54	79	1	126	37	24	13	24	1.91
5802124--5802228	48	2.2	48	84	1	138	47	27	10	14	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5802125--5802228	16	6.4	16	79	3	93	48	27	9	14	1.75
5804032--5804365	140	2.5	136	81	8	364	29	16	19	34	1.94
5805646--5805693	2	24.0	2	100	0	96	0	50	0	50	1.00
5805792--5805830	17	2.2	17	86	4	51	25	10	12	51	1.71
5808404--5808444	21	2.0	21	85	9	57	39	12	9	39	1.76
5808484--5808554	20	3.6	19	77	7	70	40	16	12	29	1.86
5808524--5808660	53	2.6	53	91	1	229	37	18	17	27	1.93
5808684--5808714	10	3.1	10	90	0	53	22	29	6	41	1.78
5808702--5808756	21	2.5	22	91	5	94	29	25	10	34	1.90
5808833--5808858	13	2.0	13	100	0	52	30	15	23	30	1.95
5809337--5809403	37	1.9	35	88	11	102	32	11	25	29	1.92
5811203--5811650	162	2.8	161	83	5	537	43	11	10	35	1.75
5811692--5811740	3	16.3	3	100	0	98	32	0	0	67	0.91
5812871--5812908	14	2.8	14	84	4	51	71	0	0	28	0.87
5813687--5813732	20	2.3	20	100	0	92	52	13	0	34	1.40
5814162--5814197	2	18.0	2	100	0	72	50	0	0	50	1.00
5815018--5815092	25	2.9	25	68	4	60	42	5	1	50	1.33
5815041--5815078	12	3.0	13	84	7	51	31	2	2	63	1.22
5815327--5815357	16	1.9	16	93	0	53	41	0	0	58	0.98
5816366--5816403	19	2.0	20	84	5	51	50	2	0	47	1.15
5816437--5816474	2	19.0	2	94	0	67	47	0	0	52	1.00
5818939--5818989	22	2.3	23	82	3	59	54	5	1	37	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5819518--5819553	17	2.1	17	89	0	54	0	16	0	83	0.65
5820793--5821235	32	13.8	32	92	0	690	17	18	32	31	1.94
5821221--5822202	27	35.9	27	89	3	1430	29	13	33	23	1.93
5821221--5822202	55	18.0	54	90	2	1430	29	13	33	23	1.93
5821221--5822202	82	12.0	81	90	3	1448	29	13	33	23	1.93
5829448--5829498	22	2.3	23	82	3	59	54	5	1	37	1.36
5830027--5830062	17	2.1	17	89	0	54	0	16	0	83	0.65
5831523--5831565	21	2.0	21	86	0	59	27	46	0	25	1.53
5832307--5832351	22	2.1	21	91	4	72	55	0	0	44	0.99
5832332--5832405	19	4.0	19	72	22	68	51	1	0	47	1.09
5834377--5834437	20	2.8	23	83	11	76	42	0	1	55	1.09
5834388--5834449	25	2.5	24	75	17	65	40	0	1	58	1.08
5835588--5835694	52	2.0	53	85	5	146	50	14	4	29	1.64
5836661--5836718	14	4.1	15	72	14	52	50	0	0	50	1.00
5836661--5836725	28	2.4	27	82	12	80	49	0	1	49	1.10
5836845--5836876	15	2.1	15	100	0	64	62	18	0	18	1.33
5836954--5836995	15	2.8	16	86	13	54	47	2	0	50	1.14
5837056--5837105	18	2.5	19	81	15	57	42	0	0	58	0.98
5838680--5838744	32	2.0	32	93	0	112	33	26	3	36	1.72
5840856--5840906	25	2.1	24	85	10	68	62	5	0	31	1.19
5841839--5841886	23	2.1	21	82	17	53	10	6	10	72	1.26
5842105--5842129	6	4.2	6	100	0	50	84	0	0	16	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5842128--5842175	15	3.1	15	75	6	51	47	2	29	20	1.61
5842901--5842930	3	10.3	3	92	7	53	36	0	0	63	0.95
5845664--5845725	6	10.7	6	84	6	74	29	0	33	37	1.58
5847181--5847211	13	2.4	13	88	0	53	35	0	3	61	1.12
5847604--5847653	16	3.1	16	80	13	50	38	0	0	62	0.96
5847585--5847653	20	3.1	22	72	21	63	42	0	0	57	0.98
5849876--5849922	20	2.3	20	85	7	60	61	0	0	38	0.96
5850663--5850712	3	17.7	3	87	8	70	70	0	2	28	0.99
5850781--5850807	6	4.5	6	100	0	54	0	66	14	18	1.25
5850925--5850993	26	2.7	25	84	6	84	31	0	0	68	0.90

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