genome.fa.s2.2.7.7.80.10.50.1000.14.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   

This is table  14  of  31  ( 3649 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)
7134296--7135670	501	2.7	500	81	4	1459	45	5	12	36	1.66
7137654--7137693	19	2.0	20	86	13	57	42	0	0	57	0.98
7137654--7137694	20	2.0	20	86	9	57	43	0	0	56	0.99
7139051--7139077	3	9.0	3	100	0	54	66	0	0	33	0.92
7146935--7147109	87	2.0	87	91	2	280	32	17	17	32	1.93
7149706--7149761	27	2.0	27	86	3	76	39	7	5	48	1.54
7154032--7154087	23	2.3	25	81	6	62	42	5	0	51	1.24
7154325--7154380	20	2.9	21	85	15	68	53	0	0	46	1.00
7154325--7154382	18	3.0	19	81	16	66	51	0	0	48	1.00
7159309--7159774	231	2.0	231	99	0	914	29	14	19	36	1.92
7163804--7163853	19	2.8	17	78	9	55	74	4	2	20	1.08
7165620--7165659	20	2.0	21	85	5	55	32	2	5	60	1.32
7168055--7168088	2	17.0	2	100	0	68	50	0	50	0	1.00
7174995--7175035	2	21.5	2	90	9	68	48	0	51	0	1.00
7181260--7181465	105	2.0	105	79	6	229	46	12	8	33	1.71
7192363--7192406	16	2.6	17	85	3	63	52	0	0	47	1.00
7192364--7192408	18	2.6	17	86	6	65	53	0	0	46	1.00
7195023--7195076	23	2.3	23	93	0	90	24	11	27	37	1.89
7195034--7195110	23	3.4	23	85	3	93	27	14	24	33	1.94
7195056--7195112	22	2.5	22	82	2	69	28	17	21	33	1.96
7195272--7195314	2	21.5	2	100	0	86	48	0	0	51	1.00
7199386--7199459	38	1.9	38	83	0	94	36	21	13	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7201767--7201811	18	2.5	18	92	0	72	51	13	4	31	1.61
7201865--7201935	33	2.2	33	82	5	81	42	4	4	49	1.41
7202709--7202772	29	2.2	30	83	8	78	59	6	0	34	1.23
7202969--7203066	38	2.5	38	80	9	92	71	3	18	7	1.22
7203683--7203744	22	2.7	23	77	7	72	74	8	9	8	1.23
7203700--7203734	17	2.1	16	89	5	52	77	2	8	11	1.10
7212375--7212426	15	3.4	15	71	23	54	30	3	3	61	1.32
7212377--7212427	13	3.2	16	72	22	54	27	3	3	64	1.28
7219614--7219638	2	12.5	2	100	0	50	0	0	52	48	1.00
7223383--7223608	117	1.9	117	95	0	407	28	11	19	39	1.87
7223828--7223869	22	1.9	22	90	0	66	50	16	2	30	1.58
7224253--7224292	15	2.6	16	88	7	57	42	0	2	55	1.13
7229690--7229755	24	2.8	23	72	19	64	28	3	7	60	1.39
7231294--7231676	197	1.9	196	84	3	511	34	11	12	42	1.78
7232463--7232556	34	2.8	33	85	9	118	29	3	0	67	1.07
7232463--7232556	33	2.8	33	88	3	125	29	3	0	67	1.07
7232584--7232649	33	2.0	32	88	8	98	25	3	1	69	1.11
7233170--7233217	23	2.0	24	84	8	62	60	0	2	37	1.09
7246505--7246537	17	1.9	17	88	11	50	21	30	6	42	1.77
7254692--7254739	24	2.0	24	91	0	78	41	12	8	37	1.73
7254757--7254804	24	2.0	25	83	4	62	37	6	4	52	1.46
7263590--7263630	22	1.9	21	85	5	55	46	2	0	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7273589--7273621	12	2.8	12	90	4	50	24	3	0	72	0.98
7273607--7273668	23	2.7	23	79	0	61	35	0	3	61	1.12
7274216--7274243	12	2.3	12	100	0	56	32	21	10	35	1.88
7276144--7276169	2	13.0	2	100	0	52	50	0	0	50	1.00
7281555--7281587	17	1.9	17	93	0	57	33	12	30	24	1.91
7295040--7295088	21	2.3	21	100	0	98	4	44	14	36	1.64
7295768--7295829	28	2.2	29	85	8	83	38	0	1	59	1.07
7295865--7295929	25	2.8	24	81	11	64	46	0	0	53	1.00
7296014--7296100	30	3.0	29	78	5	95	63	1	0	35	1.02
7296036--7296087	24	2.2	24	75	3	61	71	1	0	26	0.97
7320472--7320697	113	2.0	113	88	1	337	35	18	17	28	1.93
7326205--7326243	20	2.0	20	90	5	62	51	0	0	48	1.00
7334052--7334475	185	2.3	185	92	0	695	44	10	15	29	1.79
7338990--7339244	138	1.8	138	88	1	395	32	19	9	39	1.83
7342400--7342468	29	2.4	29	92	0	111	42	17	2	37	1.64
7342601--7342856	141	1.8	139	85	8	358	40	14	9	35	1.78
7342746--7343148	29	14.1	28	75	9	275	38	16	9	34	1.82
7342755--7343148	87	4.6	87	79	4	408	38	16	9	35	1.82
7343107--7343167	29	2.1	30	81	3	70	34	16	11	37	1.85
7354233--7354258	2	13.0	2	100	0	52	50	0	0	50	1.00
7355333--7355378	23	1.9	25	86	8	69	56	2	2	39	1.24
7369351--7369862	254	2.0	254	98	0	988	44	16	15	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7374428--7374479	25	2.1	25	89	7	79	48	13	15	23	1.80
7377963--7377998	11	3.3	11	92	0	54	75	0	0	25	0.81
7384347--7384373	2	13.5	2	100	0	54	48	0	0	51	1.00
7384784--7384827	22	2.0	22	86	4	63	56	2	0	40	1.11
7385034--7385089	17	3.0	17	78	17	58	39	1	3	55	1.28
7388964--7389024	29	2.1	29	100	0	122	22	18	19	39	1.92
7394992--7395107	27	4.3	27	69	14	78	32	18	16	32	1.93
7394992--7395080	27	3.3	26	75	12	83	33	17	15	32	1.92
7395018--7395302	54	5.5	53	76	14	258	30	18	18	32	1.95
7395132--7395258	27	4.7	27	69	21	95	32	17	17	33	1.93
7395034--7395227	97	2.0	97	94	2	345	31	19	17	31	1.95
7395194--7395279	27	3.2	27	67	18	70	32	13	18	34	1.90
7395140--7395327	27	6.9	26	69	12	65	29	18	19	32	1.95
7396883--7396923	22	1.9	21	85	5	55	48	2	2	46	1.28
7408395--7408429	17	1.9	19	88	11	56	71	2	8	17	1.23
7408428--7408466	3	12.7	3	94	5	69	66	2	0	30	1.05
7416169--7416218	20	2.5	20	87	6	66	42	4	4	50	1.40
7416148--7416209	20	3.2	20	79	4	65	46	3	1	48	1.28
7416859--7416908	23	2.3	21	83	10	64	32	2	0	66	1.03
7425339--7425363	7	3.6	7	100	0	50	16	44	16	24	1.86
7426245--7426288	22	2.0	23	82	13	56	38	2	2	56	1.24
7427609--7427639	3	10.3	3	92	0	53	0	29	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7466889--7466917	2	14.5	2	100	0	58	48	0	0	51	1.00
7468771--7468813	13	2.9	15	80	16	54	55	2	2	39	1.25
7486046--7486116	35	2.1	34	91	2	115	26	5	16	50	1.67
7489693--7489741	25	2.0	25	91	0	80	34	10	12	42	1.76
7496969--7497130	84	1.9	83	90	3	254	31	12	22	33	1.91
7505801--7505832	3	10.7	3	100	0	64	68	0	0	31	0.90
7521427--7521477	6	8.5	6	93	0	75	49	5	0	45	1.26
7521427--7521477	8	6.4	8	93	0	75	49	5	0	45	1.26
7521427--7521477	14	3.6	14	94	0	75	49	5	0	45	1.26
7523072--7523101	15	2.0	15	100	0	60	53	13	0	33	1.40
7528565--7528698	67	2.0	67	97	0	250	35	18	14	32	1.91
7528887--7528934	22	2.2	22	85	7	62	10	6	25	58	1.54
7540362--7540387	2	13.0	2	100	0	52	0	50	0	50	1.00
7545714--7545752	15	2.6	15	100	0	78	15	5	53	25	1.62
7560021--7560055	15	2.3	15	90	0	52	40	2	17	40	1.64
7560272--7560323	15	3.3	15	73	23	52	26	7	0	65	1.20
7562641--7562692	16	3.6	16	65	24	51	50	17	9	23	1.75
7562635--7562698	27	2.4	27	97	0	119	50	20	9	20	1.75
7564920--7564977	30	2.0	30	90	10	93	29	3	29	37	1.74
7564921--7564984	30	2.2	31	83	13	91	31	3	31	34	1.73
7568887--7568929	14	3.1	14	81	18	54	79	0	2	18	0.85
7568884--7568926	8	5.5	8	78	15	54	83	0	2	13	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7568885--7568927	23	1.9	22	95	4	77	81	0	2	16	0.79
7568885--7568927	22	1.9	23	90	4	70	81	0	2	16	0.79
7600349--7600402	15	3.7	15	80	11	60	44	5	5	44	1.50
7600319--7600372	20	2.6	21	70	21	51	42	3	9	44	1.54
7600554--7600608	28	1.9	29	88	3	85	54	0	10	34	1.36
7600991--7601066	38	2.0	37	82	7	91	50	2	18	28	1.61
7604406--7604449	22	2.2	19	88	12	61	4	27	0	68	1.09
7604413--7604449	19	2.0	20	89	10	60	2	29	0	67	1.04
7611790--7611819	15	2.0	15	93	0	51	50	0	20	30	1.49
7613800--7613826	2	13.5	2	100	0	54	51	0	48	0	1.00

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