genome.fa.s10.2.7.7.80.10.50.1000.13.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_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8461613

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

This is table  13  of  18  ( 2155 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)
5909371--5909395	2	12.5	2	100	0	50	52	0	48	0	1.00
5910552--5910576	2	12.5	2	100	0	50	52	0	0	48	1.00
5922664--5922877	82	2.6	82	80	3	218	43	12	9	34	1.76
5922856--5922914	29	2.0	29	87	12	86	47	10	3	38	1.54
5925421--5925447	7	3.9	7	100	0	54	29	25	14	29	1.95
5932512--5932545	17	1.9	18	94	5	61	14	5	0	79	0.91
5933886--5933923	16	2.3	17	90	4	60	18	2	2	76	1.02
5935833--5935993	71	2.3	71	77	0	169	32	13	19	34	1.91
5939831--5939884	28	1.9	28	84	0	72	20	3	14	61	1.49
5964809--5964847	16	2.5	15	84	8	51	48	25	7	17	1.74
5982334--5982366	16	2.1	16	94	0	57	39	27	12	21	1.88
5986416--5986503	27	3.3	27	75	3	88	32	15	11	39	1.84
5986986--5987018	11	3.0	11	100	0	66	72	0	9	18	1.10
5989462--5989492	3	10.3	3	100	0	62	32	0	32	35	1.58
5992473--5992556	40	2.1	40	97	0	159	39	14	16	29	1.88
5996025--5996060	2	18.0	2	94	0	63	47	0	2	50	1.15
6000389--6000449	20	3.0	20	75	13	63	72	0	1	26	0.94
6000383--6000561	33	5.1	35	75	18	140	67	0	2	29	1.07
6000389--6000558	40	4.5	38	69	19	115	68	0	2	28	1.06
6007406--6007460	27	2.0	27	82	0	65	9	61	12	16	1.55
6012050--6012084	18	2.0	18	88	5	54	20	2	5	71	1.19
6023760--6023788	7	4.1	7	100	0	58	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6027777--6027874	47	2.1	45	88	3	142	9	27	16	46	1.77
6029844--6029894	16	2.9	18	78	21	56	41	15	1	41	1.58
6034091--6034128	18	2.1	18	90	0	58	15	18	21	44	1.86
6034163--6034258	26	3.8	25	81	10	106	31	9	14	44	1.77
6034166--6034264	51	1.9	51	87	4	146	32	8	15	44	1.75
6035331--6035363	15	2.1	16	88	5	50	18	9	3	69	1.28
6039016--6039056	19	2.2	19	86	8	57	73	2	21	2	1.07
6045160--6045192	17	1.9	17	100	0	66	69	0	18	12	1.18
6047819--6047851	5	6.8	5	93	6	59	81	0	0	18	0.68
6056445--6056483	20	2.0	19	85	5	51	41	0	0	58	0.98
6056758--6056786	11	2.7	11	94	5	51	55	0	0	44	0.99
6056799--6056844	22	2.1	22	84	11	60	67	0	0	32	0.91
6057993--6058032	17	2.3	18	86	4	55	65	5	0	30	1.14
6062070--6062095	5	5.2	5	100	0	52	80	19	0	0	0.71
6064919--6064950	4	8.0	4	100	0	64	50	25	0	25	1.50
6066248--6066318	36	2.0	36	83	5	90	28	19	14	38	1.91
6071297--6071461	73	2.3	73	86	4	226	24	18	18	39	1.92
6071297--6071488	73	2.6	73	82	6	194	22	19	18	39	1.93
6073117--6073202	31	2.7	31	83	1	109	18	5	19	55	1.62
6074170--6074377	103	2.0	103	98	0	398	33	24	15	26	1.95
6077076--6077136	25	2.4	25	86	0	86	19	32	22	24	1.97
6078781--6078826	16	2.8	17	80	12	60	0	26	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6078782--6078826	11	4.3	11	88	5	67	0	24	0	75	0.80
6079451--6079543	31	3.0	31	81	10	102	31	20	5	43	1.74
6084405--6084449	21	2.1	21	100	0	90	17	20	31	31	1.96
6094695--6094743	21	2.3	21	89	10	82	18	40	20	20	1.91
6095268--6095311	21	2.0	22	91	4	72	61	6	0	31	1.22
6098006--6098036	13	2.4	13	94	0	53	74	0	3	22	0.96
6110048--6110084	19	2.0	19	89	5	58	45	0	0	54	1.00
6110363--6110518	50	3.1	49	86	3	204	42	12	8	36	1.73
6114958--6115163	102	2.0	102	97	0	385	32	11	21	34	1.89
6120713--6120805	36	2.6	34	81	10	98	32	21	20	25	1.98
6132193--6132310	62	1.9	62	91	0	191	37	17	5	39	1.72
6137767--6137917	79	1.9	80	86	6	218	34	25	21	19	1.96
6144989--6145153	73	2.3	73	85	0	213	27	20	15	36	1.93
6144989--6145185	73	2.7	73	81	3	182	24	20	16	38	1.92
6152796--6152855	14	4.3	13	75	12	57	1	31	1	65	1.13
6152799--6152857	21	2.8	22	77	12	61	1	32	1	64	1.13
6155235--6155325	42	2.3	38	79	11	92	45	13	8	32	1.74
6161628--6161665	14	2.7	14	84	8	51	34	0	18	47	1.49
6170998--6171082	21	3.8	21	74	17	80	36	12	8	42	1.73
6172828--6173083	35	7.3	36	84	3	328	32	7	14	45	1.72
6172835--6173102	105	2.6	105	88	3	380	33	7	14	44	1.73
6173118--6173158	18	2.3	18	95	0	73	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)
6182041--6182829	250	3.2	246	82	5	937	48	6	9	35	1.62
6183126--6183171	20	2.4	19	85	7	58	47	8	6	36	1.60
6182143--6185665	696	4.9	692	73	15	2183	49	5	9	35	1.61
6182836--6184809	498	4.0	499	80	7	2126	50	5	9	34	1.59
6184604--6185020	211	2.0	211	85	3	563	51	4	8	35	1.52
6184813--6185649	247	3.4	243	81	7	929	48	5	10	35	1.61
6184813--6185851	247	4.2	247	77	10	883	48	5	10	35	1.60
6187963--6188126	35	4.7	35	81	5	188	29	14	18	37	1.91
6187951--6188127	70	2.5	70	87	1	257	28	15	17	37	1.91
6190772--6190835	30	2.2	29	82	2	74	35	3	9	51	1.50
6191105--6191163	30	2.0	28	84	12	75	59	10	6	23	1.54
6191102--6191163	28	2.2	28	82	8	72	56	9	8	25	1.59
6191916--6191963	14	3.8	13	78	21	57	12	16	0	70	1.16
6192962--6192996	16	2.2	16	90	5	54	8	25	8	57	1.57
6196778--6196851	37	2.0	37	89	2	114	35	20	12	32	1.89
6197392--6197431	21	2.0	20	90	9	64	32	10	15	42	1.79
6201641--6201674	2	17.0	2	87	0	50	50	5	0	44	1.26
6202062--6202121	25	2.4	25	80	0	66	33	15	26	25	1.95
6204428--6204489	32	1.9	32	86	0	88	33	20	27	17	1.96
6207730--6207808	40	2.0	41	94	2	142	31	11	11	45	1.76
6207936--6208004	28	2.5	28	85	0	75	27	23	17	31	1.97
6207958--6208025	28	2.5	27	83	7	75	32	20	16	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6208556--6208592	19	1.9	19	88	0	56	45	2	29	21	1.65
6208778--6208816	12	3.2	12	79	13	53	48	15	0	35	1.45
6208815--6208840	3	8.7	3	100	0	52	34	30	0	34	1.58
6208839--6208879	3	13.7	3	100	0	82	34	0	0	65	0.93
6209564--6209589	2	13.0	2	100	0	52	50	0	0	50	1.00
6215280--6215344	16	4.0	16	73	2	58	27	0	0	72	0.85
6215282--6215345	10	6.3	10	71	16	51	29	0	0	70	0.88
6220691--6220761	29	2.4	30	84	9	85	63	2	1	32	1.18
6222887--6222958	36	2.0	36	100	0	144	38	5	25	30	1.78
6230306--6230337	11	2.8	12	90	9	50	0	31	0	68	0.90
6230431--6230460	14	2.1	14	93	6	51	0	33	0	66	0.92
6244257--6244304	21	2.3	21	89	7	71	20	12	47	18	1.81
6245510--6245595	33	2.6	33	83	7	104	27	3	0	68	1.06
6245495--6245559	15	4.1	15	75	11	58	29	1	1	67	1.09
6253559--6253596	2	19.0	2	89	10	60	50	47	0	2	1.15
6267147--6267218	37	2.0	37	91	2	119	33	12	13	40	1.83
6268469--6268495	10	2.7	10	100	0	54	29	7	11	51	1.64
6270308--6270332	2	12.5	2	100	0	50	52	0	0	48	1.00
6274333--6274395	23	2.7	23	76	14	74	44	1	0	53	1.10
6275246--6275330	34	2.5	33	85	11	118	21	12	56	9	1.64
6275365--6275389	13	1.9	13	100	0	50	20	0	0	80	0.72
6275434--6275475	22	1.9	22	85	0	57	38	35	21	4	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6276367--6276399	4	8.2	4	93	0	57	48	24	27	0	1.51
6281540--6281656	59	2.0	59	91	0	189	31	22	8	37	1.84
6286602--6286844	27	9.1	27	72	4	170	43	6	16	33	1.74
6286641--6286762	53	2.3	53	84	1	154	44	4	18	31	1.71
6286614--6286828	80	2.7	80	80	7	215	42	5	17	34	1.73
6286647--6286791	53	2.7	53	80	4	150	44	5	19	30	1.73
6291717--6291791	36	2.1	36	92	0	123	20	22	17	40	1.92
6294888--6294944	29	2.0	29	85	0	78	26	12	14	47	1.79
6306498--6306549	24	2.2	24	92	0	86	44	7	28	19	1.78
6307830--6307869	2	20.0	2	84	0	53	55	0	2	42	1.13

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