genome.fa.s13.2.7.7.80.10.50.1000.13.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: NW_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  13  of  18  ( 2072 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)
5324618--5324682	16	3.9	16	74	20	62	67	0	1	30	1.00
5324520--5324751	114	2.0	114	97	0	437	61	1	4	32	1.25
5332142--5332183	21	2.1	20	82	8	50	59	7	0	33	1.25
5333301--5333787	167	2.9	166	83	2	571	33	13	16	36	1.88
5344666--5344717	20	2.6	20	100	0	104	38	17	15	28	1.90
5345480--5345522	12	3.5	11	87	12	50	76	16	0	6	0.99
5346865--5346901	10	3.8	10	89	7	58	67	0	2	29	1.04
5347867--5347901	13	2.5	14	90	9	54	45	0	0	54	0.99
5348229--5348258	16	1.9	16	93	6	53	30	0	6	63	1.20
5356292--5356453	74	2.2	74	94	0	279	38	20	16	24	1.92
5356292--5356474	74	2.5	74	89	1	251	39	19	15	24	1.91
5358919--5359035	28	4.1	28	86	1	135	22	20	21	35	1.96
5358942--5359035	28	3.3	28	89	1	143	22	20	20	37	1.95
5359881--5359916	18	2.0	18	94	0	63	38	25	11	25	1.88
5364089--5364150	31	2.0	31	83	0	79	54	24	8	12	1.64
5369374--5369402	2	14.5	2	100	0	58	48	0	0	51	1.00
5371172--5371288	10	11.9	10	70	9	62	43	7	4	44	1.52
5371172--5371288	4	29.8	4	70	10	62	43	7	4	44	1.52
5371172--5371288	6	19.8	6	70	8	62	43	7	4	44	1.52
5371212--5371259	23	2.1	23	88	0	69	37	10	6	45	1.64
5371216--5371288	23	3.2	23	80	5	60	42	12	4	41	1.61
5371246--5371295	18	2.8	18	84	3	66	44	12	6	38	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5376890--5376922	16	2.1	16	100	0	66	42	12	27	18	1.85
5378483--5378525	21	2.0	23	86	9	63	39	18	11	30	1.86
5385021--5385046	2	13.0	2	100	0	52	50	0	0	50	1.00
5414496--5414534	18	2.2	18	86	9	53	20	5	0	74	1.01
5424767--5424809	13	3.1	14	86	10	61	34	16	13	34	1.88
5433022--5433069	21	2.3	21	89	3	71	62	22	12	2	1.40
5448823--5448918	47	2.1	46	82	5	113	47	13	3	35	1.59
5449107--5449152	24	2.0	23	83	12	58	69	2	13	15	1.28
5463401--5463572	31	5.5	31	68	13	111	32	20	13	33	1.92
5463407--5463571	62	2.7	60	73	11	145	31	21	12	34	1.91
5463984--5464311	143	2.3	143	89	1	485	25	20	13	40	1.88
5464075--5464320	73	3.4	73	75	5	266	26	20	11	41	1.86
5477223--5477307	33	2.5	33	88	9	120	27	5	0	67	1.14
5477275--5477327	26	2.0	26	82	7	63	32	1	0	66	1.03
5477300--5477369	15	4.7	15	70	7	52	27	4	1	67	1.18
5477334--5477406	5	15.0	5	75	11	71	21	1	1	75	0.96
5477360--5477418	21	3.0	20	90	7	86	25	0	0	74	0.82
5477348--5477410	33	1.9	33	87	6	92	22	0	0	77	0.76
5483707--5483751	11	4.0	11	85	5	54	15	6	0	77	0.96
5483707--5483742	6	6.2	6	90	6	56	16	2	0	80	0.83
5483693--5483751	17	3.5	17	77	9	57	16	8	1	72	1.17
5483978--5484015	14	2.6	15	91	4	60	36	13	13	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5485841--5485960	36	3.3	36	83	1	150	31	18	12	37	1.88
5487011--5487188	74	2.4	74	81	0	203	43	14	17	24	1.87
5496175--5496212	2	19.0	2	100	0	76	50	0	0	50	1.00
5500276--5500354	26	3.0	26	86	0	104	35	10	21	32	1.87
5503791--5503850	12	4.9	11	78	17	57	10	5	5	80	1.02
5503791--5503853	25	2.5	26	85	10	78	9	6	4	79	1.05
5508921--5509084	87	1.9	88	82	8	210	43	4	3	48	1.40
5508919--5509086	43	3.9	42	74	12	135	43	4	3	48	1.41
5508965--5509086	44	2.8	44	78	16	110	43	4	3	48	1.40
5513079--5513179	35	2.9	35	75	18	100	30	8	26	33	1.87
5513679--5513731	21	2.6	21	81	3	63	22	1	13	62	1.40
5521105--5521250	35	4.1	35	78	1	139	45	12	4	38	1.61
5521108--5521244	71	1.9	71	83	0	175	44	13	4	37	1.63
5523743--5523950	78	2.6	78	85	2	254	35	14	18	31	1.92
5541230--5541268	18	2.2	18	86	9	53	5	23	2	69	1.21
5544951--5544999	24	2.0	25	84	4	64	32	4	0	63	1.13
5545950--5546055	48	2.2	48	87	0	149	47	11	27	14	1.78
5555439--5555480	21	2.0	21	100	0	84	19	28	4	47	1.69
5559940--5559974	2	17.5	2	100	0	70	51	0	0	48	1.00
5564277--5564316	20	2.1	19	90	4	62	45	15	7	32	1.74
5566533--5566598	32	2.1	32	86	5	91	63	0	6	30	1.18
5571976--5572022	23	2.1	23	84	4	60	63	2	0	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5572636--5572660	6	4.2	6	100	0	50	36	48	0	16	1.46
5576243--5576276	16	2.1	16	88	0	50	44	2	8	44	1.50
5576887--5576933	23	2.0	24	83	8	60	59	6	31	2	1.34
5577444--5577473	6	5.2	6	92	8	53	0	0	13	86	0.57
5577443--5577486	18	2.4	19	77	18	56	4	0	18	77	0.94
5588123--5588162	2	20.0	2	100	0	80	50	0	0	50	1.00
5590324--5590351	2	14.0	2	100	0	56	0	50	0	50	1.00
5594677--5594730	26	2.1	26	86	6	74	35	11	20	33	1.88
5595162--5595209	22	2.2	23	77	7	55	45	0	10	43	1.38
5599547--5599582	17	2.1	17	94	0	63	44	30	8	16	1.77
5601061--5601102	16	2.5	17	84	3	50	19	4	2	73	1.12
5601747--5601783	8	4.5	8	89	3	56	37	0	0	62	0.96
5605322--5605532	102	2.1	103	90	0	334	30	13	11	44	1.79
5608765--5608832	35	1.9	35	90	0	109	38	13	17	30	1.88
5608766--5608840	35	2.1	35	87	0	105	36	16	18	29	1.92
5621200--5621236	3	12.7	3	94	5	67	0	35	0	64	0.94
5622981--5623034	15	3.6	15	87	0	72	35	3	24	37	1.73
5623222--5623254	12	2.6	13	85	9	50	39	6	0	54	1.25
5623228--5623309	33	2.5	33	76	13	87	36	1	0	62	1.03
5623288--5623471	15	11.5	15	66	23	74	34	2	0	62	1.11
5623315--5623486	52	3.1	52	68	22	152	34	2	1	61	1.19
5623184--5623527	114	3.0	112	92	5	557	34	2	0	63	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5623367--5623443	35	2.2	35	84	11	97	31	0	0	68	0.90
5623366--5623524	9	18.2	9	64	22	54	32	1	0	65	1.05
5623483--5623623	39	3.5	41	75	16	125	28	2	0	68	1.06
5623606--5623666	15	4.0	16	76	16	51	32	0	0	67	0.91
5623603--5623670	30	2.2	32	81	5	77	35	0	0	64	0.94
5633915--5633954	17	2.4	17	91	0	62	2	17	2	77	0.99
5639978--5640188	109	1.9	110	91	0	343	24	9	15	50	1.74
5641128--5641153	12	2.2	12	100	0	52	53	15	15	15	1.73
5650661--5650756	29	3.2	30	82	5	106	37	4	4	54	1.39
5658506--5658559	21	2.6	21	82	5	65	33	9	18	38	1.83
5662154--5662215	31	2.1	29	84	6	79	30	14	25	29	1.95
5662858--5662978	63	1.9	64	91	1	199	28	16	14	41	1.87
5667310--5667514	102	2.0	101	86	6	290	32	19	19	28	1.96
5672363--5672413	20	2.5	20	80	0	57	23	11	43	21	1.85
5676383--5676497	53	2.2	53	100	0	230	37	18	10	33	1.85
5678202--5678266	33	2.0	33	84	0	85	35	7	20	36	1.81
5678802--5678860	15	3.9	15	79	0	73	40	20	16	22	1.91
5678768--5678860	45	2.1	45	83	4	116	39	17	17	25	1.91
5678799--5678860	30	2.1	30	87	0	88	41	19	17	20	1.90
5678802--5678875	15	5.0	14	77	9	67	40	20	14	24	1.90
5683715--5683769	28	2.0	28	92	0	92	34	3	3	58	1.33
5684011--5684051	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5688245--5688439	64	3.0	64	87	3	284	38	15	26	19	1.91
5688858--5688887	6	5.0	6	91	0	51	33	0	20	46	1.51
5694824--5694949	47	2.7	47	87	1	173	44	15	4	34	1.68
5702629--5702767	53	2.6	53	81	4	138	36	18	11	33	1.87
5703527--5703563	18	2.1	18	100	0	74	27	21	27	24	1.99
5718949--5718973	2	12.5	2	100	0	50	52	0	0	48	1.00
5732362--5732411	27	1.9	25	84	8	64	32	6	16	46	1.71
5732362--5732417	27	2.2	25	80	6	58	30	8	17	42	1.80
5732415--5732466	27	1.9	27	88	7	79	30	11	23	34	1.90
5732417--5732474	27	2.1	27	84	6	73	34	10	20	34	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18