genome.fa.s9.2.7.7.80.10.50.1000.15.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  15  of  20  ( 2302 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)
5772150--5772261	11	10.2	10	70	24	59	59	0	40	0	0.97
5772108--5772246	36	3.9	36	71	10	108	53	0	46	0	1.00
5772151--5772262	23	5.0	24	80	18	102	60	0	39	0	0.97
5772150--5772247	33	2.9	32	73	19	92	59	0	40	0	0.98
5772187--5772267	29	3.1	26	78	18	87	62	0	37	0	0.95
5772151--5772235	45	1.9	43	83	9	109	58	0	41	0	0.98
5785578--5785623	4	11.5	4	90	0	65	0	56	0	43	0.99
5785578--5785623	10	4.6	10	91	0	65	0	56	0	43	0.99
5820374--5820428	28	2.0	28	92	0	92	23	1	12	61	1.40
5821085--5821237	64	2.4	64	81	6	168	43	3	19	33	1.67
5821538--5821589	4	12.5	4	76	8	50	42	5	3	48	1.45
5821528--5821610	29	2.8	29	81	7	87	43	4	7	44	1.53
5822716--5822748	15	2.1	17	88	11	52	48	6	9	36	1.60
5822889--5822963	35	2.1	35	85	9	100	30	1	12	56	1.44
5829463--5829507	4	10.8	4	81	9	54	48	2	2	46	1.26
5829463--5829507	21	2.1	21	88	8	65	48	2	2	46	1.26
5829537--5829591	15	3.4	16	76	14	51	45	5	1	47	1.36
5864014--5864043	15	2.0	15	100	0	60	40	13	26	20	1.89
5882238--5882262	3	8.3	3	100	0	50	32	0	0	68	0.90
5894572--5894856	153	1.9	153	90	0	453	35	12	14	36	1.85
5894898--5895074	35	5.1	35	68	22	138	37	11	5	45	1.64
5894877--5895074	70	2.8	70	94	3	362	37	12	5	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5895090--5895389	149	2.0	149	86	2	424	31	12	18	38	1.87
5907541--5907567	2	13.5	2	100	0	54	51	0	48	0	1.00
5916107--5916131	6	4.2	6	100	0	50	36	0	0	64	0.94
5921492--5921518	13	2.1	13	100	0	54	29	14	25	29	1.95
5927643--5927687	23	2.0	23	95	0	81	31	4	26	37	1.76
5927866--5927922	20	2.7	22	72	10	64	26	8	19	45	1.79
5928045--5928088	22	2.0	22	81	0	52	43	13	15	27	1.85
5928893--5928917	6	4.2	6	100	0	50	16	20	16	48	1.82
5931181--5931226	19	2.4	20	85	10	69	17	26	0	56	1.41
5931290--5931322	16	2.1	16	100	0	66	27	18	12	42	1.85
5931541--5931673	53	2.4	54	85	6	189	39	13	16	30	1.87
5931645--5931760	59	2.0	59	84	0	151	35	16	12	35	1.87
5931895--5931940	23	2.0	23	100	0	92	34	21	21	21	1.97
5936274--5936303	15	2.1	14	93	6	51	43	0	0	56	0.99
5936688--5936721	13	2.5	13	90	4	50	32	2	0	64	1.08
5937886--5938094	94	2.2	95	82	3	253	26	17	16	39	1.91
5938371--5938608	95	2.5	95	78	5	248	29	13	15	42	1.85
5938577--5938645	36	1.9	36	87	0	102	28	8	14	47	1.74
5942396--5942420	12	2.1	12	100	0	50	60	8	32	0	1.26
5956185--5956357	86	2.0	86	98	0	337	35	21	16	27	1.94
5960472--5960518	23	2.1	23	88	4	69	48	2	4	44	1.34
5961901--5961934	16	2.1	16	89	10	52	79	0	8	11	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5961947--5962041	40	2.4	41	79	12	108	31	1	2	65	1.11
5961998--5962053	28	2.0	28	86	6	78	39	1	0	58	1.08
5961986--5962250	82	3.2	82	73	16	292	36	2	2	58	1.23
5962065--5962300	42	5.7	42	70	16	179	39	2	2	55	1.27
5961955--5962360	166	2.5	164	91	5	646	36	2	2	58	1.24
5962178--5962402	48	4.8	47	70	17	164	39	2	2	55	1.28
5962539--5962580	15	2.7	16	92	3	68	50	0	0	50	1.00
5962582--5962612	16	1.9	16	93	0	53	51	0	0	48	1.00
5977129--5977167	19	2.1	19	85	9	53	38	0	61	0	0.96
5977293--5977344	2	27.5	2	78	18	58	46	0	1	51	1.12
5981194--5981226	15	2.1	16	88	5	50	51	0	6	42	1.26
5981376--5981426	19	2.6	19	81	12	59	52	1	0	45	1.12
6009065--6009091	12	2.2	12	100	0	54	51	14	25	7	1.68
6013523--6013577	25	2.2	25	93	0	92	38	5	9	47	1.58
6014390--6014427	19	2.1	18	90	5	58	73	2	0	23	0.95
6021715--6021757	21	2.0	21	100	0	86	44	18	9	27	1.80
6050887--6050922	17	2.1	17	89	0	54	47	5	0	47	1.25
6065420--6065551	14	9.1	14	70	13	79	32	1	0	65	1.02
6065398--6065573	19	9.9	18	70	18	93	35	1	0	63	1.02
6065398--6065534	53	2.6	50	80	8	130	33	1	0	64	1.02
6065434--6065517	29	2.9	29	77	13	91	34	1	0	64	1.02
6065506--6065574	30	2.3	29	82	2	68	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6065507--6065550	22	2.0	22	86	0	61	34	0	0	65	0.93
6065417--6065592	73	2.4	73	94	0	300	35	1	0	63	1.02
6065417--6065612	73	2.7	73	88	3	209	37	1	0	61	1.03
6066545--6066645	48	2.1	48	88	1	150	40	14	26	17	1.89
6067750--6067950	66	3.0	66	91	0	312	34	12	27	24	1.92
6069291--6069412	63	1.9	63	88	0	181	34	4	12	48	1.62
6080346--6080376	11	2.9	11	95	4	55	45	0	0	54	0.99
6080346--6080383	14	2.5	15	87	12	60	47	0	0	52	1.00
6080346--6080393	25	1.9	25	83	8	62	43	0	0	56	0.99
6081094--6081123	2	15.0	2	100	0	60	50	0	0	50	1.00
6085278--6085440	67	2.4	67	91	0	272	34	17	14	33	1.90
6085419--6085459	19	2.2	19	90	0	64	39	17	21	21	1.93
6097899--6098012	47	2.4	47	95	0	210	22	7	21	48	1.76
6116501--6116529	2	14.5	2	100	0	58	51	0	0	48	1.00
6117452--6117498	23	2.0	25	83	8	62	36	21	6	36	1.79
6123227--6123259	6	5.5	6	100	0	66	0	18	33	48	1.48
6125739--6126018	153	1.9	152	91	3	467	38	8	17	34	1.81
6130143--6130185	2	21.5	2	85	0	59	41	0	6	51	1.29
6132970--6133015	20	2.1	22	84	11	60	54	4	0	41	1.20
6135457--6135498	20	2.1	20	83	16	52	19	2	23	54	1.55
6154291--6154355	27	2.4	27	82	5	69	27	27	24	20	1.99
6157749--6157781	2	16.5	2	100	0	66	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)
6163417--6163704	45	6.4	45	82	2	267	34	19	18	27	1.95
6163417--6163704	90	3.2	90	84	1	355	34	19	18	27	1.95
6163630--6163749	21	5.7	20	80	10	123	26	21	20	30	1.98
6163486--6163750	45	6.1	42	84	3	233	31	20	20	28	1.97
6163730--6163907	30	6.3	29	74	16	119	41	16	11	30	1.85
6163733--6163835	54	1.9	53	83	11	131	44	17	12	25	1.84
6163834--6163907	28	2.7	28	82	2	78	39	16	9	35	1.81
6166343--6166482	17	8.1	17	70	10	88	2	75	21	0	0.93
6166390--6166475	22	4.2	21	76	19	76	1	80	18	0	0.78
6166394--6166482	24	3.6	25	73	18	80	1	79	19	0	0.79
6166392--6166465	30	2.6	28	83	10	89	1	81	17	0	0.77
6166394--6166484	25	3.8	22	76	15	83	1	79	19	0	0.80
6166649--6166695	21	2.4	19	77	16	51	4	46	48	0	1.21
6167471--6167525	23	2.4	23	84	6	67	5	49	45	0	1.25
6167627--6167679	19	2.8	19	77	8	56	5	58	35	0	1.22
6168024--6168053	10	2.8	11	90	10	53	6	43	50	0	1.28
6168682--6168752	16	4.7	15	70	16	58	1	46	52	0	1.09
6169017--6169045	15	1.9	15	100	0	58	0	48	51	0	1.00
6169177--6169238	21	3.0	21	81	9	65	1	45	51	1	1.20
6169773--6169799	2	13.5	2	100	0	54	51	0	0	48	1.00
6177106--6177166	28	2.2	28	88	5	88	40	13	24	21	1.88
6178160--6178213	27	1.9	28	85	7	74	59	0	1	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6186335--6186372	2	19.0	2	100	0	76	50	0	0	50	1.00
6186876--6186906	2	15.5	2	100	0	62	51	0	0	48	1.00
6187349--6187384	2	18.0	2	88	0	54	50	0	2	47	1.15
6187610--6187839	115	2.0	114	94	0	406	44	8	15	31	1.76
6189194--6189422	117	2.0	117	86	3	327	32	11	15	40	1.83
6190218--6190250	12	2.7	12	95	4	57	15	0	3	81	0.80
6191901--6191939	18	2.2	19	86	9	55	38	2	0	58	1.12
6192575--6192616	17	2.4	18	80	7	52	0	47	0	52	1.00
6196850--6196985	66	2.1	65	90	1	209	47	4	6	41	1.50
6196917--6197163	124	2.0	124	92	0	413	40	5	9	44	1.59

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20