genome.fa.s4.2.7.7.80.10.50.1000.15.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  15  of  26  ( 3073 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)
5632353--5632410	24	2.4	24	88	2	80	55	13	10	20	1.68
5635318--5635393	29	2.5	31	77	6	86	34	5	0	60	1.19
5635591--5635660	29	2.4	29	84	15	92	55	0	4	40	1.19
5648932--5648985	28	1.9	28	96	0	99	33	16	14	35	1.90
5659860--5659903	19	2.2	20	88	8	63	81	0	4	13	0.83
5664977--5665019	17	2.7	16	82	7	52	46	0	2	51	1.13
5664999--5665044	19	2.3	20	79	20	53	60	0	0	39	0.97
5665003--5665053	26	2.0	26	88	7	77	62	0	0	37	0.95
5666093--5666122	16	1.9	15	93	6	51	20	6	0	73	1.05
5669478--5669513	17	2.1	18	89	5	56	52	36	5	5	1.48
5669929--5670027	45	2.2	46	81	5	112	27	7	15	50	1.69
5684068--5684092	12	2.1	12	100	0	50	24	0	28	48	1.52
5686398--5686452	26	2.1	26	100	0	110	41	3	5	49	1.43
5690689--5690730	20	2.0	22	90	9	70	57	2	0	40	1.12
5691571--5691608	14	2.7	15	84	8	53	28	0	2	68	1.03
5702154--5702193	20	2.0	20	100	0	80	25	25	0	50	1.50
5709357--5709403	25	1.9	24	83	12	60	25	10	19	44	1.82
5722574--5723084	215	2.3	213	82	6	544	40	7	5	46	1.54
5723145--5723204	26	2.3	26	100	0	120	6	11	28	53	1.62
5725710--5725742	17	2.0	17	94	5	59	54	0	0	45	0.99
5725805--5725855	21	2.4	21	81	12	61	29	19	29	21	1.98
5726512--5726754	119	2.0	119	92	3	409	18	11	13	55	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5733362--5733404	16	2.6	17	88	3	70	44	20	6	27	1.77
5741641--5741713	38	1.9	38	97	0	137	38	1	30	30	1.66
5751669--5751715	2	23.5	2	86	0	58	42	51	6	0	1.27
5759842--5759891	23	2.2	24	82	7	59	58	2	0	40	1.10
5788218--5788253	2	18.0	2	94	0	63	50	2	0	47	1.15
5791899--5791930	2	16.0	2	100	0	64	50	0	0	50	1.00
5802013--5802047	15	2.3	15	95	0	61	31	0	5	62	1.18
5808215--5808363	71	2.1	71	87	0	208	30	22	8	38	1.84
5815226--5815265	20	2.0	21	85	5	55	15	7	5	72	1.24
5827139--5827178	18	2.2	19	90	4	64	47	0	0	52	1.00
5831728--5831764	2	18.5	2	100	0	74	0	48	0	51	1.00
5844596--5844627	2	16.0	2	100	0	64	50	0	0	50	1.00
5846250--5846326	23	3.4	22	70	10	57	9	16	25	48	1.76
5846249--5846338	45	2.0	45	93	0	153	7	16	28	46	1.75
5853006--5853038	16	2.0	17	88	5	50	57	0	3	39	1.14
5857926--5857955	15	2.0	15	93	0	51	56	20	16	6	1.62
5858816--5858842	13	2.1	13	100	0	54	37	22	14	25	1.93
5877290--5877324	2	17.5	2	100	0	70	48	0	0	51	1.00
5886966--5887031	31	2.1	33	88	5	100	15	1	13	69	1.26
5890196--5890272	40	1.9	40	100	0	154	32	6	28	32	1.83
5914596--5914830	127	1.8	128	87	0	346	47	7	11	33	1.68
5920832--5920856	4	6.2	4	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5940487--5940526	19	2.0	20	85	4	55	42	7	37	12	1.71
5945198--5945232	17	2.1	17	88	0	52	31	11	20	37	1.88
5960478--5960515	18	2.1	18	85	9	51	50	0	15	34	1.45
5965383--5965407	5	5.0	5	100	0	50	80	0	20	0	0.72
5967679--5967726	24	2.0	24	92	8	80	25	12	16	45	1.82
5984085--5984150	29	2.3	29	84	2	80	25	21	4	48	1.69
5989421--5989463	21	2.0	22	81	9	52	65	20	0	13	1.27
5991998--5992041	23	1.9	23	85	0	61	59	9	13	18	1.60
5992070--5992145	23	3.2	23	71	20	75	63	5	18	13	1.48
5992073--5992163	25	3.8	25	71	20	77	62	5	16	15	1.50
5992042--5992169	48	2.6	49	93	2	222	62	4	15	17	1.49
5994494--5994553	27	2.2	27	84	3	84	46	3	8	41	1.50
5994572--5994605	14	2.5	13	86	13	50	17	2	0	79	0.86
6008962--6008987	3	8.7	3	100	0	52	30	0	0	69	0.89
6018516--6018553	18	2.3	18	86	13	55	73	0	23	2	0.95
6018711--6018746	5	7.2	5	87	0	54	36	38	5	19	1.75
6030871--6030921	23	2.2	23	96	0	93	43	33	0	23	1.54
6048871--6048896	12	2.2	12	100	0	52	38	46	15	0	1.46
6051278--6051312	2	17.5	2	87	0	52	57	0	0	42	0.99
6051525--6051575	2	25.5	2	87	0	75	0	43	5	50	1.26
6051525--6051575	14	3.6	14	91	0	84	0	43	5	50	1.26
6052103--6052127	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6055261--6055303	22	2.0	22	100	0	86	34	23	18	23	1.96
6059355--6059395	22	1.9	21	85	5	55	39	4	0	56	1.21
6060093--6060126	17	2.0	17	88	11	52	20	0	5	73	1.04
6067536--6067560	2	12.5	2	100	0	50	0	48	0	52	1.00
6074481--6074560	23	3.3	23	64	16	54	40	10	2	47	1.50
6075102--6075151	15	3.3	16	72	13	52	66	0	2	32	1.03
6083513--6083581	2	34.5	2	73	5	50	4	39	5	50	1.46
6083522--6083549	6	4.7	6	100	0	56	0	35	14	50	1.43
6084236--6084263	1	28.0	1	100	0	56	0	0	100	0	0.00
6092518--6092576	4	15.2	4	71	7	50	52	0	0	47	1.00
6092507--6092576	30	2.3	30	100	0	140	50	0	0	50	1.00
6096096--6096141	23	2.0	24	86	4	67	47	0	4	47	1.21
6099972--6100007	17	2.0	19	89	10	58	66	0	0	33	0.92
6100995--6101028	3	11.3	3	93	0	59	0	32	2	64	1.08
6103971--6104014	2	22.5	2	86	4	63	0	43	4	52	1.22
6104585--6104609	13	1.9	13	100	0	50	8	0	36	56	1.29
6112924--6112968	19	2.4	19	85	7	56	55	11	4	28	1.54
6130378--6130409	13	2.4	14	94	5	57	56	6	3	34	1.40
6151782--6151822	18	2.2	19	86	4	57	12	4	0	82	0.81
6152033--6152084	15	3.3	15	72	15	50	53	0	1	44	1.11
6152073--6152109	13	2.8	13	83	0	56	56	5	2	35	1.36
6152031--6152107	33	2.4	33	80	2	93	53	3	2	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6155036--6155227	105	1.8	105	90	0	312	27	18	15	39	1.90
6169269--6169313	22	2.0	22	100	0	90	53	13	13	20	1.72
6171864--6171890	14	1.9	14	100	0	54	66	7	3	22	1.33
6187880--6187914	18	2.0	17	88	5	52	31	8	37	22	1.85
6190264--6190293	7	4.3	7	95	0	51	26	30	16	26	1.97
6193110--6193139	16	1.9	16	93	6	53	60	3	3	33	1.30
6195256--6195416	27	5.9	27	79	2	133	36	8	12	43	1.72
6195229--6195381	54	2.8	55	81	3	175	37	6	14	41	1.72
6195298--6195415	55	2.1	55	84	3	148	36	8	11	43	1.72
6195665--6195689	4	6.2	4	100	0	50	24	0	0	76	0.80
6196190--6196230	22	1.9	22	90	5	66	56	2	4	36	1.34
6196228--6196270	18	2.4	19	80	7	54	41	0	6	51	1.29
6200949--6200978	15	2.0	15	93	0	51	56	0	3	40	1.16
6207979--6208075	49	2.0	49	91	0	158	39	21	14	24	1.91
6212137--6212185	23	2.1	23	96	0	89	30	16	4	48	1.64
6226972--6227010	20	2.0	20	94	0	69	58	7	0	33	1.26
6227328--6227371	16	2.7	16	78	3	52	75	0	22	2	0.92
6228489--6228534	24	2.0	23	84	16	60	52	0	8	39	1.33
6230222--6230299	15	5.3	15	76	1	68	41	11	0	47	1.40
6230222--6230295	30	2.5	30	77	0	85	40	12	0	47	1.41
6237006--6237067	30	2.1	30	82	14	76	53	0	11	35	1.37
6239716--6239764	19	2.5	20	83	6	55	48	0	2	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6239714--6239762	21	2.3	20	80	10	53	46	0	2	51	1.12
6240008--6240040	12	2.8	12	90	9	50	51	0	0	48	1.00
6240653--6240700	19	2.4	20	82	6	53	47	0	2	50	1.12
6240651--6240699	21	2.3	20	80	10	53	46	0	2	51	1.12
6239332--6241266	937	2.0	954	89	7	2955	37	11	14	36	1.81
6240966--6241004	12	3.0	13	88	11	62	56	0	0	43	0.99
6240966--6241006	11	3.3	12	90	10	57	53	0	0	46	1.00
6252135--6252281	49	3.0	49	95	3	262	14	21	58	5	1.56
6252544--6252786	112	2.2	113	86	8	343	31	4	1	62	1.21
6252612--6252907	79	3.6	78	76	14	267	32	2	1	64	1.11

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