genome.fa.s1.2.7.7.80.10.50.1000.11.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   

This is table  11  of  32  ( 3821 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)
5886515--5886801	140	2.0	140	96	0	529	28	22	27	21	1.99
5891091--5891117	5	5.4	5	100	0	54	81	0	18	0	0.69
5899341--5899397	24	2.4	25	82	8	73	56	0	0	43	0.99
5900681--5900710	14	2.2	14	94	5	53	60	0	3	36	1.14
5901381--5901405	2	12.5	2	100	0	50	0	48	0	52	1.00
5912996--5913043	17	3.1	17	74	17	50	62	0	0	37	0.95
5913226--5913280	18	2.9	19	74	15	60	70	10	3	14	1.28
5926028--5926057	6	5.0	6	95	0	51	0	0	80	20	0.72
5926797--5926829	17	1.9	17	100	0	66	39	6	6	48	1.53
5932687--5932713	13	2.1	13	100	0	54	48	29	0	22	1.51
5935474--5935661	93	2.0	93	94	0	331	31	23	15	28	1.96
5938604--5939069	15	33.1	14	64	21	115	65	0	1	31	1.09
5938595--5938667	35	2.2	33	82	9	85	69	0	1	28	0.96
5938685--5938777	37	2.5	38	83	15	106	70	1	1	26	1.00
5938814--5938886	22	3.4	21	78	16	78	68	0	0	31	0.90
5938824--5939025	50	3.8	51	73	20	171	64	0	1	33	1.06
5938938--5939008	23	3.0	23	75	22	74	69	0	0	30	0.89
5938707--5939079	114	3.3	113	91	4	583	65	0	1	32	1.08
5942389--5942791	212	1.9	214	89	2	632	42	5	3	48	1.44
5942762--5942798	12	2.9	14	80	19	53	48	0	0	51	1.00
5944030--5944055	1	26.0	1	100	0	52	0	0	0	100	0.00
5944816--5944854	19	2.2	19	86	9	55	51	0	5	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5944969--5945018	22	2.3	22	86	10	75	52	4	4	40	1.39
5945319--5945375	27	2.1	27	80	6	62	54	1	0	43	1.10
5946205--5946246	22	1.9	22	85	0	57	40	21	4	33	1.74
5946244--5946277	2	18.0	2	88	11	54	50	0	0	50	1.00
5947625--5947667	22	2.0	22	85	0	59	69	2	6	20	1.23
5951092--5951143	23	2.3	23	100	0	104	30	13	17	38	1.88
5958117--5958163	15	3.3	14	80	16	53	23	0	2	74	0.93
5958116--5958163	19	2.5	20	77	16	55	22	0	2	75	0.91
5958296--5958334	15	2.6	16	84	12	55	35	0	0	64	0.94
5958590--5958628	20	2.0	20	90	10	62	25	2	0	71	0.98
5959858--5959888	5	6.2	5	92	0	53	77	0	22	0	0.77
5995654--5995711	18	3.2	18	85	0	80	20	39	13	25	1.90
5997998--5998069	24	3.2	24	63	25	66	51	13	2	31	1.56
5997984--5998069	43	2.0	43	100	0	172	46	13	4	34	1.65
6013306--6013334	2	14.5	2	100	0	58	51	0	48	0	1.00
6027469--6027512	14	2.9	16	77	22	58	47	0	0	52	1.00
6029876--6029956	41	2.0	40	87	2	117	29	3	2	64	1.24
6029917--6030040	50	2.6	48	81	8	119	30	3	1	64	1.19
6029962--6030068	41	2.6	43	76	11	98	36	0	0	61	1.09
6030155--6030246	40	2.4	39	78	8	100	41	2	7	48	1.43
6036482--6036552	36	2.0	36	94	0	124	28	19	9	42	1.83
6046984--6047023	21	1.9	21	84	0	53	32	25	25	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6053959--6053999	17	2.4	18	80	8	50	43	0	0	56	0.99
6053990--6054032	14	3.2	13	80	9	50	48	0	0	51	1.00
6055878--6055921	21	2.1	21	91	4	72	43	0	18	38	1.50
6061874--6061906	3	11.0	3	100	0	66	66	0	0	33	0.92
6077175--6077215	2	20.5	2	84	0	55	58	0	0	41	0.98
6077175--6077215	18	2.3	18	95	0	73	58	0	0	41	0.98
6081293--6081361	19	3.4	19	74	14	66	60	2	1	34	1.20
6081266--6081369	42	2.5	41	87	3	138	56	3	0	38	1.24
6081307--6081504	22	9.0	22	69	16	83	56	4	1	38	1.28
6081295--6081482	42	4.4	41	72	15	132	56	3	1	38	1.24
6081560--6081611	16	3.3	16	79	15	72	51	0	1	46	1.12
6081426--6081672	96	2.5	94	81	13	261	56	2	1	39	1.22
6081661--6081954	42	7.1	41	67	17	155	54	2	3	40	1.30
6081591--6081970	128	3.1	120	82	11	427	54	2	2	39	1.29
6081589--6081917	64	5.4	62	67	16	195	55	3	2	38	1.28
6081591--6081970	126	3.1	126	85	8	502	54	2	2	39	1.29
6081944--6081998	28	1.9	29	85	10	78	45	0	3	50	1.19
6082806--6082843	14	2.7	14	84	11	51	23	0	2	73	0.95
6082986--6083026	18	2.3	18	84	12	50	58	2	4	34	1.32
6085069--6085127	30	2.0	30	93	0	100	55	0	3	40	1.16
6085095--6085156	26	2.5	23	80	19	63	58	0	3	38	1.15
6087554--6087609	26	2.2	24	84	6	67	1	14	7	76	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6099436--6099474	20	2.0	20	94	0	69	51	5	0	43	1.24
6099633--6099665	14	2.4	14	90	5	50	54	0	0	45	0.99
6108296--6108346	23	2.2	23	86	6	68	60	0	0	39	0.97
6108300--6108367	27	2.4	30	80	7	79	61	1	0	36	1.05
6109993--6110025	14	2.2	15	89	10	50	39	0	0	60	0.97
6111174--6111211	14	2.6	15	83	8	51	13	2	2	81	0.90
6111214--6111251	17	2.2	18	85	4	51	65	7	0	26	1.19
6139298--6139346	25	2.0	25	84	8	64	46	2	10	40	1.49
6140702--6140743	16	2.5	17	85	11	52	35	0	0	64	0.94
6140708--6140743	18	2.0	18	89	10	56	33	0	0	66	0.92
6144258--6144297	10	3.8	11	90	6	57	70	0	25	5	1.08
6147819--6147885	29	2.3	29	82	12	75	67	14	2	14	1.36
6153489--6153562	37	2.0	37	100	0	148	51	18	2	27	1.60
6155201--6155472	139	2.0	138	82	5	334	54	11	11	22	1.68
6167566--6167598	2	16.5	2	100	0	66	51	0	0	48	1.00
6167875--6167921	19	2.5	19	100	0	94	14	25	29	29	1.95
6168181--6168218	19	2.0	19	90	10	60	73	7	5	13	1.22
6170322--6170361	2	20.0	2	94	0	71	47	0	0	52	1.00
6177408--6177439	2	16.0	2	100	0	64	50	0	0	50	1.00
6177794--6177827	2	17.0	2	93	0	59	47	0	2	50	1.16
6180250--6180322	27	3.0	27	79	18	88	42	0	0	57	0.98
6180262--6180363	23	4.9	19	72	20	71	45	0	0	53	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6180413--6180480	19	3.4	19	70	21	66	36	4	2	55	1.35
6180433--6180500	21	3.2	21	70	15	68	38	5	1	54	1.34
6180402--6180523	42	2.9	42	89	3	167	39	4	3	53	1.36
6180338--6180705	183	2.0	182	81	7	435	42	2	2	51	1.29
6180615--6180661	22	2.3	21	85	10	62	46	0	0	53	1.00
6180614--6180712	41	2.4	42	83	6	123	44	1	1	53	1.14
6180749--6180809	23	2.8	22	72	5	61	44	0	0	55	0.99
6194248--6194285	11	3.1	12	85	14	51	60	0	18	21	1.36
6204318--6204354	2	18.5	2	100	0	74	51	0	0	48	1.00
6204354--6204381	2	14.0	2	100	0	56	50	0	50	0	1.00
6204806--6204830	2	12.5	2	100	0	50	48	0	0	52	1.00
6215571--6215718	79	1.9	79	92	2	253	32	11	11	44	1.76
6231070--6231101	2	16.0	2	100	0	64	0	50	0	50	1.00
6238097--6238140	6	7.3	6	94	0	70	36	18	13	31	1.90
6238986--6239064	40	2.0	40	82	2	95	37	3	6	51	1.45
6239666--6239707	19	2.4	18	82	17	54	52	0	2	45	1.13
6253111--6253171	20	3.3	20	67	32	64	44	4	9	40	1.59
6253110--6253177	34	2.0	34	100	0	136	44	5	8	41	1.60
6263924--6263956	2	16.5	2	100	0	66	51	0	0	48	1.00
6267603--6267646	21	2.2	20	83	4	52	22	9	2	65	1.32
6273876--6273900	7	3.6	7	100	0	50	40	16	0	44	1.47
6287241--6287266	6	4.3	6	100	0	52	0	34	15	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6287539--6287601	32	2.0	32	96	0	117	30	3	4	61	1.32
6290162--6290191	12	2.4	13	94	5	53	0	26	0	73	0.84
6295703--6295727	3	8.3	3	100	0	50	0	32	0	68	0.90
6308570--6308604	16	2.2	16	89	0	52	17	2	5	74	1.14
6321837--6321883	23	2.0	24	83	8	60	48	0	2	48	1.13
6326137--6326199	28	2.3	28	81	5	76	57	1	4	36	1.30
6326187--6326234	19	2.5	20	86	13	73	41	0	0	58	0.98
6352206--6352230	2	12.5	2	100	0	50	52	0	0	48	1.00
6361130--6361170	14	2.7	15	88	7	57	78	14	7	0	0.96
6363794--6363852	32	1.9	30	86	6	82	55	0	0	44	0.99

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