genome.fa.s5.2.7.7.80.10.50.1000.13.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  13  of  22  ( 2636 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)
6635026--6635094	29	2.4	28	78	7	68	44	1	1	52	1.19
6634976--6635081	45	2.2	49	83	11	132	45	2	1	50	1.27
6634958--6635065	45	2.5	42	76	14	112	45	4	1	48	1.34
6636500--6636635	25	5.4	25	84	5	175	42	13	11	33	1.79
6636476--6636635	51	3.2	50	78	7	162	41	13	11	33	1.80
6636476--6636661	76	2.4	76	86	0	264	41	12	13	32	1.82
6642187--6642234	23	2.0	24	84	4	62	52	4	0	43	1.20
6648102--6648134	2	16.5	2	93	0	57	45	0	0	54	0.99
6653861--6653915	26	2.1	26	86	6	76	30	0	7	61	1.23
6657943--6658011	33	2.1	32	83	2	84	39	7	14	39	1.74
6663007--6663069	27	2.4	27	83	2	83	38	0	57	4	1.20
6664548--6664574	2	13.5	2	100	0	54	0	0	48	51	1.00
6665146--6665177	2	16.0	2	100	0	64	50	0	0	50	1.00
6667105--6667204	29	3.4	29	75	13	89	48	8	12	32	1.69
6667110--6667209	30	3.4	28	76	12	85	46	8	12	34	1.70
6670166--6670235	20	3.6	20	77	14	92	45	0	0	54	0.99
6671179--6671251	25	2.9	24	80	10	74	58	1	0	39	1.06
6679794--6679818	2	12.5	2	100	0	50	0	52	0	48	1.00
6681062--6681129	20	3.4	20	71	15	59	29	13	5	51	1.64
6690360--6690397	2	19.0	2	94	0	67	52	0	47	0	1.00
6692340--6692377	20	2.0	20	84	5	51	63	0	0	36	0.95
6696683--6696919	119	2.0	119	94	1	413	37	10	1	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6698663--6698739	30	2.6	29	83	6	84	33	3	1	61	1.23
6698689--6698747	30	2.0	30	83	3	75	37	1	3	57	1.25
6698793--6698858	29	2.4	29	85	7	75	51	10	6	31	1.61
6700366--6700406	21	2.0	21	85	0	55	19	31	12	36	1.89
6701783--6701820	19	2.0	20	84	5	51	55	0	2	42	1.14
6726750--6726807	23	2.6	22	84	10	73	24	17	22	36	1.95
6729686--6729749	20	3.2	19	76	8	65	60	0	0	39	0.97
6730270--6730377	52	2.1	52	94	0	189	25	13	15	45	1.83
6738891--6738926	3	11.3	3	88	11	54	66	0	33	0	0.92
6740501--6740584	42	2.0	42	100	0	168	30	23	14	30	1.94
6741481--6741510	15	2.0	15	100	0	60	6	6	33	53	1.53
6742316--6742364	20	2.5	20	86	6	64	46	0	0	53	1.00
6743960--6744031	32	2.3	30	82	17	78	51	0	2	45	1.15
6750732--6750803	26	2.8	25	80	2	81	45	9	8	36	1.67
6754644--6754690	19	2.5	18	83	10	67	25	19	4	51	1.65
6770180--6770211	15	2.1	15	94	0	55	18	0	0	81	0.70
6772800--6772824	2	12.5	2	100	0	50	48	0	0	52	1.00
6773380--6773500	25	4.9	25	76	11	106	43	0	0	54	1.11
6773391--6773529	22	6.1	22	67	21	74	44	1	1	52	1.18
6774925--6775209	47	6.1	47	86	8	404	16	21	56	4	1.58
6774925--6775209	141	2.0	141	92	3	477	16	21	56	4	1.58
6778747--6778785	13	2.9	14	84	7	53	84	2	10	2	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6787677--6787885	105	2.0	105	96	0	382	44	14	29	11	1.81
6789508--6789575	34	2.0	34	100	0	136	20	32	23	23	1.98
6791021--6791119	48	2.1	48	82	3	119	45	19	16	19	1.86
6799093--6799129	16	2.3	17	86	9	51	64	2	16	16	1.40
6800974--6801086	60	1.9	60	85	7	158	36	7	14	42	1.73
6801233--6801292	21	2.9	21	76	0	66	20	16	20	43	1.88
6801273--6801369	22	4.3	23	80	8	85	23	13	26	36	1.92
6801298--6801369	23	3.2	23	88	2	110	26	13	26	33	1.94
6808026--6808072	23	2.0	23	87	0	67	36	27	8	27	1.86
6808060--6808117	23	2.6	22	74	15	64	37	22	12	27	1.89
6808111--6808189	22	3.6	21	74	6	68	45	16	12	25	1.82
6809737--6809774	18	2.1	18	85	9	51	76	5	5	13	1.13
6815522--6815631	55	2.0	55	100	0	220	30	16	9	43	1.79
6818796--6818822	2	13.5	2	100	0	54	51	0	0	48	1.00
6834207--6834231	12	2.1	12	100	0	50	8	32	0	60	1.26
6844286--6844314	2	15.0	2	92	7	51	48	0	51	0	1.00
6845990--6846040	22	2.3	22	77	12	59	56	0	3	39	1.18
6855929--6856008	25	3.2	25	87	0	115	42	10	16	31	1.81
6859487--6859574	25	3.6	25	87	1	124	36	9	21	32	1.85
6873659--6874108	222	2.0	222	94	0	792	37	12	28	22	1.90
6890378--6890433	23	2.4	24	82	11	71	53	1	0	44	1.11
6890395--6890443	23	2.2	23	85	3	64	48	2	0	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6902108--6902145	2	19.0	2	94	0	67	0	47	0	52	1.00
6902145--6902169	2	12.5	2	100	0	50	48	0	0	52	1.00
6923275--6923332	30	2.0	29	83	12	75	48	1	5	44	1.35
6925516--6925557	18	2.2	20	83	8	52	30	0	2	66	1.04
6925522--6925559	20	2.0	20	90	10	62	23	0	2	73	0.95
6926228--6926259	2	16.0	2	100	0	64	50	0	0	50	1.00
6926433--6926474	22	1.9	22	95	0	75	30	9	14	45	1.77
6936189--6936254	33	2.0	34	82	8	82	74	9	7	9	1.23
6936246--6936284	18	2.2	18	86	9	53	71	0	20	7	1.10
6936366--6936427	23	2.9	22	72	9	56	66	3	12	17	1.38
6943913--6943958	23	2.0	23	100	0	92	34	13	21	30	1.91
6957812--6957851	18	2.2	19	91	8	66	30	0	2	67	1.04
6980614--6980669	22	2.6	22	94	2	96	53	25	0	21	1.46
6988742--6988794	12	3.9	13	79	13	54	28	0	5	66	1.15
6988815--6988850	19	1.9	18	88	5	54	47	0	0	52	1.00
6989853--6989887	18	1.9	18	88	0	52	28	31	5	34	1.81
6993295--6993328	16	2.1	16	88	0	50	52	5	2	38	1.41
6993568--6993606	16	2.5	15	87	4	51	46	5	0	48	1.24
6993572--6994216	212	3.0	220	87	4	966	41	8	4	45	1.54
6995589--6995621	13	2.5	14	90	9	52	42	0	0	57	0.98
6999213--6999299	30	3.0	29	73	20	83	36	4	2	56	1.33
6999254--6999310	30	1.9	29	85	3	78	33	5	5	56	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7008256--7008281	13	2.0	13	100	0	52	0	46	0	53	1.00
7015090--7015128	11	3.5	11	92	0	60	82	0	17	0	0.68
7015619--7015657	2	19.5	2	94	0	60	53	0	46	0	1.00
7029113--7029152	16	2.5	16	88	8	55	47	0	0	52	1.00
7029123--7029156	17	2.0	17	94	0	59	44	0	0	55	0.99
7031382--7031429	25	1.9	25	95	0	87	47	0	6	45	1.27
7033700--7033725	3	8.7	3	100	0	52	65	0	0	34	0.93
7033859--7033895	5	7.4	5	93	0	65	0	0	18	81	0.70
7038072--7038145	37	2.0	37	97	0	139	37	9	16	36	1.81
7061521--7061616	30	3.2	30	79	2	86	39	9	8	42	1.67
7064534--7064564	12	2.6	12	94	0	53	3	41	0	54	1.16
7067884--7067921	3	12.7	3	100	0	76	34	0	0	65	0.93
7071240--7071266	12	2.2	12	100	0	54	40	14	14	29	1.86
7071790--7071827	20	1.9	20	88	0	58	44	10	2	42	1.52
7076331--7076372	16	2.6	16	85	7	59	47	0	0	52	1.00
7077024--7077056	16	2.0	17	88	5	50	27	9	6	57	1.53
7077382--7077493	38	2.9	38	82	4	145	45	3	15	35	1.63
7082081--7082113	17	1.9	17	93	0	57	51	0	3	45	1.16
7082349--7082386	5	7.4	5	83	16	51	15	0	0	84	0.63
7082346--7082433	8	10.8	8	72	13	54	21	1	1	76	0.92
7082349--7082429	19	4.3	19	71	22	62	20	1	1	76	0.92
7082349--7082395	12	3.7	12	91	8	67	17	2	0	80	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7082782--7082826	17	2.6	16	83	13	54	26	0	2	71	0.98
7082782--7082829	18	2.8	17	87	9	62	27	0	2	70	0.98
7090660--7090685	11	2.4	11	100	0	52	53	0	0	46	1.00
7090659--7090687	11	2.5	12	88	11	51	55	0	0	44	0.99
7091133--7091213	33	2.5	33	87	0	108	45	14	1	38	1.53
7091550--7091593	19	2.5	17	79	13	52	50	4	29	15	1.64
7097054--7097096	18	2.3	19	84	8	52	69	2	2	25	1.12
7097061--7097104	16	2.6	16	82	10	52	72	2	0	25	0.96
7097698--7097786	15	5.9	15	90	0	115	33	11	28	26	1.91
7097952--7098026	6	12.0	6	75	10	53	29	0	0	70	0.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22