genome.fa.s15.2.7.7.80.10.50.1000.12.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  12  of  13  ( 1452 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)
5656643--5656708	27	2.5	27	85	2	89	60	0	0	39	0.97
5658899--5658931	12	2.8	12	95	0	57	6	39	18	36	1.75
5678537--5678563	7	3.9	7	100	0	54	44	0	0	55	0.99
5685448--5685491	15	2.9	16	87	9	58	68	2	29	0	1.02
5685445--5685501	7	7.9	7	75	14	53	73	1	24	0	0.92
5693399--5693442	16	2.9	16	86	6	56	2	40	0	56	1.11
5720845--5720885	21	2.1	19	86	9	55	26	2	9	60	1.40
5727183--5727229	9	5.3	9	87	2	60	34	0	0	65	0.93
5727183--5727252	18	4.2	18	72	20	62	37	0	0	62	0.95
5731624--5731653	4	7.5	4	100	0	60	50	0	0	50	1.00
5738604--5738717	34	3.3	33	76	9	95	33	22	13	30	1.92
5738699--5738772	34	2.2	34	87	0	103	39	27	10	22	1.87
5739183--5739213	16	1.9	16	93	0	53	12	3	19	64	1.41
5760348--5760386	19	2.1	19	85	9	53	58	0	7	33	1.26
5760724--5760756	12	2.8	12	86	4	50	51	9	24	15	1.72
5760745--5760778	16	2.1	16	88	0	50	58	8	11	20	1.59
5769186--5769259	22	3.4	22	98	0	139	25	25	36	12	1.91
5774666--5774705	3	13.3	3	100	0	80	0	32	0	67	0.91
5776505--5776550	12	3.8	12	83	16	60	0	41	15	43	1.46
5776503--5776550	24	2.0	24	92	8	80	0	41	14	43	1.45
5777199--5777242	21	2.0	22	86	4	63	61	9	0	29	1.27
5779852--5780014	77	2.1	77	87	4	231	41	6	12	39	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5786010--5786069	25	2.4	25	86	5	77	23	16	30	30	1.96
5793178--5793221	20	2.1	22	87	8	65	47	0	0	52	1.00
5794747--5794786	21	1.9	21	85	10	55	80	0	12	7	0.91
5810698--5810737	21	1.9	21	84	0	53	12	30	2	55	1.50
5810750--5810818	30	2.3	30	89	0	102	15	34	2	46	1.61
5810729--5810778	21	2.4	21	100	0	100	18	38	0	44	1.50
5815814--5816070	128	2.0	131	86	3	358	39	9	34	16	1.81
5816372--5816411	3	12.7	3	89	10	62	62	0	2	35	1.09
5821802--5821840	17	2.3	17	95	0	69	25	25	0	48	1.51
5824129--5824154	9	2.9	9	100	0	52	34	11	0	53	1.37
5827587--5827672	4	19.8	4	70	15	55	45	4	4	45	1.45
5827551--5827698	35	4.2	35	91	0	206	43	7	6	42	1.59
5831556--5831619	28	2.3	28	97	0	119	39	4	14	42	1.66
5831632--5831697	29	2.2	29	81	2	78	46	10	9	33	1.70
5833184--5833275	48	1.9	48	82	8	116	42	3	2	52	1.30
5838495--5838580	27	3.2	26	66	21	70	38	8	15	38	1.77
5839530--5839693	28	5.6	28	77	9	141	39	9	11	39	1.75
5841389--5841432	21	2.0	22	91	4	72	61	6	0	31	1.22
5846804--5846851	7	6.7	7	78	4	51	66	0	33	0	0.92
5847902--5847932	2	15.5	2	93	0	53	51	0	3	45	1.17
5856773--5856901	62	2.1	62	89	0	195	37	10	18	34	1.85
5856927--5856990	28	2.3	28	94	0	110	39	14	23	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5862211--5862460	125	2.0	125	100	0	500	30	9	20	39	1.85
5865578--5865639	28	2.3	27	78	13	67	27	30	17	24	1.97
5883139--5883215	37	2.1	37	95	0	136	24	12	16	45	1.83
5905895--5905965	22	3.0	25	82	12	69	50	0	0	49	1.00
5905960--5905999	18	2.2	18	86	4	53	45	0	2	52	1.14
5912145--5912226	29	2.9	28	90	5	137	36	15	7	40	1.76
5913200--5913405	107	1.9	107	92	3	344	40	12	8	38	1.73
5925683--5925711	14	2.1	14	93	6	51	65	13	0	20	1.26
5933417--5933475	8	7.2	8	72	16	50	45	0	1	52	1.10
5939401--5939440	12	3.3	12	89	10	64	45	15	40	0	1.46
5941399--5941450	27	1.9	27	96	0	95	55	13	1	28	1.49
5945405--5945452	18	2.6	18	86	3	60	58	0	2	39	1.10
5949375--5949462	44	2.0	44	93	0	149	26	11	14	47	1.78
5949481--5949530	20	2.4	21	73	3	57	32	8	22	38	1.83
5966517--5966541	13	1.9	13	100	0	50	84	0	16	0	0.63
5966662--5966731	15	4.9	15	68	28	62	52	4	0	42	1.20
5966661--5966782	49	2.7	43	84	13	165	51	4	1	42	1.30
5966952--5966984	16	2.1	16	88	11	50	30	27	0	42	1.56
5976460--5976484	2	12.5	2	100	0	50	52	0	0	48	1.00
5978685--5978928	80	3.1	80	84	4	280	42	10	7	38	1.69
5979294--5979468	51	3.5	51	79	3	192	33	14	22	24	1.91
5979442--5979490	22	2.2	22	96	0	89	34	14	22	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5979342--5979588	122	2.0	120	82	1	296	35	15	21	23	1.92
5979283--5979609	171	1.9	173	84	2	435	35	15	21	24	1.92
5979469--5979617	49	3.0	49	90	0	235	39	16	19	24	1.92
5991255--5991395	36	3.8	35	74	15	113	38	22	16	22	1.93
5991215--5991425	76	2.8	76	83	0	251	38	21	16	23	1.93
5991213--5991425	40	5.5	39	71	14	129	38	21	16	23	1.93
5992313--5992366	28	1.9	28	92	0	90	31	16	7	44	1.75
5992690--5992933	80	3.1	79	85	4	305	40	10	9	39	1.72
5993000--5993073	30	2.5	30	90	0	121	43	22	14	18	1.87
5993324--5993722	51	8.0	51	83	8	511	34	15	24	26	1.95
5993525--5993595	22	3.2	22	86	4	99	35	12	21	30	1.91
5993569--5993721	49	3.1	50	88	2	211	35	15	22	25	1.94
6032962--6033043	21	3.8	21	84	9	87	0	36	0	63	0.95
6032967--6033041	17	4.4	17	68	24	50	0	36	0	64	0.94
6032962--6033043	42	1.9	43	82	9	105	0	36	0	63	0.95
6032975--6033051	17	4.4	17	67	26	54	0	36	0	63	0.95
6035998--6036043	24	1.9	24	95	0	83	45	6	13	34	1.69
6036518--6036559	21	2.0	21	81	9	50	26	23	14	35	1.93
6036636--6036693	20	2.8	20	92	2	89	32	17	20	29	1.95
6038445--6038521	35	2.2	35	92	0	127	36	29	11	22	1.89
6051381--6051502	21	5.8	21	67	16	81	42	4	4	49	1.41
6051384--6051497	42	2.7	43	87	2	158	41	4	4	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6051428--6051495	15	4.7	15	70	17	63	42	1	5	50	1.35
6058019--6058086	33	2.0	34	86	8	95	26	14	10	48	1.76
6060450--6060500	23	2.3	22	80	9	59	39	7	1	50	1.42
6060578--6060643	29	2.4	28	72	18	66	37	7	0	54	1.29
6061819--6061938	64	1.9	64	82	6	154	51	8	5	34	1.56
6074760--6074814	28	2.0	28	92	0	92	20	1	18	60	1.46
6083769--6083802	8	4.1	8	88	3	50	0	32	2	64	1.08
6084829--6084864	17	2.1	17	94	0	63	33	13	13	38	1.85
6088019--6088072	15	3.6	15	76	18	58	38	1	3	55	1.28
6088702--6088728	2	13.5	2	100	0	54	48	0	0	51	1.00
6090716--6090740	13	1.9	13	100	0	50	44	0	0	56	0.99
6092945--6092982	19	2.0	19	100	0	76	47	0	10	42	1.38
6093932--6093991	31	1.9	31	93	0	102	28	11	20	40	1.87
6096981--6097014	17	2.0	17	100	0	68	41	17	11	29	1.85
6098519--6098558	18	2.2	18	86	0	53	10	2	57	30	1.45
6102816--6102848	2	16.5	2	93	0	57	54	0	0	45	0.99
6103925--6104002	32	2.4	32	93	0	138	43	17	24	14	1.86
6118181--6118221	22	1.9	22	85	5	57	36	12	19	31	1.89
6124540--6124622	35	2.4	35	85	0	103	28	24	15	31	1.96
6126927--6127199	73	3.8	71	85	4	334	28	10	26	34	1.90
6126927--6127199	143	1.9	143	84	1	368	28	10	26	34	1.90
6127659--6127746	46	2.0	45	88	4	133	27	9	27	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6128427--6128463	17	2.2	17	95	0	65	29	18	32	18	1.96
6129354--6129543	67	2.8	68	78	4	170	35	21	9	33	1.85
6130728--6130777	22	2.2	22	82	10	57	42	12	4	42	1.60
6135304--6135342	19	2.0	20	85	5	53	46	10	5	38	1.60
6140596--6140645	16	3.3	15	78	18	50	20	0	2	78	0.86
6142947--6142982	7	5.1	7	90	10	56	72	0	0	27	0.85
6143672--6143702	2	15.5	2	100	0	62	0	48	0	51	1.00
6151853--6151896	21	2.0	22	82	4	54	25	0	13	61	1.32
6153755--6153781	7	3.9	7	100	0	54	74	0	0	25	0.83
6153751--6153799	8	5.9	8	77	17	55	81	0	0	18	0.69

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13