genome.fa.s3.2.7.7.80.10.50.1000.16.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  16  of  29  ( 3437 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)
5753648--5753694	19	2.5	19	86	3	60	68	2	21	8	1.27
5772711--5772748	20	2.0	20	84	5	51	50	10	13	26	1.73
5780168--5780232	31	2.1	32	91	2	105	30	6	13	49	1.67
5789490--5789522	17	1.9	17	88	11	50	30	21	6	42	1.77
5798861--5799026	59	2.8	57	87	6	179	31	3	4	61	1.30
5798898--5799026	29	4.4	30	72	19	103	29	3	3	62	1.30
5798929--5799024	29	3.3	29	77	17	119	30	3	3	63	1.25
5798897--5799026	58	2.2	59	95	1	235	30	3	3	62	1.31
5800859--5801124	44	6.0	44	83	6	306	45	14	13	26	1.82
5806103--5806151	14	3.6	13	78	8	53	30	0	4	65	1.11
5807172--5807201	2	15.0	2	100	0	60	50	0	0	50	1.00
5814315--5814356	6	7.2	6	78	5	50	69	0	30	0	0.89
5816996--5817036	20	2.0	20	100	0	82	48	19	4	26	1.69
5820325--5820376	15	3.4	15	84	5	77	67	7	0	25	1.17
5820325--5820388	31	2.1	31	100	0	128	64	9	0	26	1.24
5820334--5820385	15	3.4	15	84	5	77	65	7	0	26	1.20
5833461--5833578	60	2.0	59	85	5	157	49	12	6	31	1.67
5845217--5845321	32	3.4	32	68	17	103	33	14	21	30	1.93
5845190--5845321	61	2.2	61	98	0	255	35	12	21	30	1.91
5845196--5845290	29	3.2	29	67	19	86	37	12	20	29	1.89
5850722--5850756	2	17.5	2	93	0	61	51	0	0	48	1.00
5853031--5853058	3	9.3	3	100	0	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5857789--5857875	41	2.1	42	87	8	124	14	37	0	47	1.45
5859798--5859853	24	2.3	24	84	0	67	12	14	50	23	1.77
5859916--5860028	60	1.9	60	85	7	158	9	25	33	30	1.88
5867098--5867159	30	2.1	30	100	0	124	16	24	12	46	1.81
5870493--5870542	25	2.0	26	92	4	84	38	4	12	46	1.60
5874687--5874758	30	2.4	30	83	2	99	36	2	5	55	1.38
5874895--5874934	22	1.9	20	85	10	53	40	5	7	47	1.54
5886940--5886994	29	1.9	28	96	3	101	58	7	7	27	1.52
5905435--5905466	2	16.0	2	93	0	55	46	0	0	53	1.00
5907694--5907779	41	2.1	41	93	0	145	41	6	12	38	1.70
5911743--5911784	8	5.4	8	80	5	50	54	0	0	45	0.99
5911743--5911784	15	2.7	16	88	3	59	54	0	0	45	0.99
5912050--5912127	22	3.6	22	72	19	74	55	0	3	41	1.18
5933135--5933184	26	1.9	26	84	8	66	52	2	2	44	1.24
5933613--5933648	14	2.6	14	86	4	56	66	0	0	33	0.92
5933638--5933698	26	2.5	24	82	10	72	50	0	0	49	1.00
5935132--5935174	18	2.3	19	88	4	61	41	2	2	53	1.26
5935421--5935471	22	2.3	22	83	10	59	72	3	9	13	1.24
5937393--5937439	24	1.9	25	86	4	69	36	4	14	44	1.65
5937776--5937816	21	2.0	20	85	4	55	63	0	2	34	1.08
5937775--5937827	12	4.7	12	76	21	60	66	0	1	32	1.03
5937985--5938030	16	2.8	16	83	9	56	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5938006--5938038	16	2.1	15	94	5	57	60	0	0	39	0.97
5938006--5938038	15	2.1	16	88	5	50	60	0	0	39	0.97
5937988--5938033	17	2.7	17	82	0	56	54	0	2	43	1.12
5940084--5940116	12	2.5	13	90	9	50	48	0	0	51	1.00
5940258--5940310	22	2.3	23	83	9	72	24	3	0	71	1.02
5940432--5940464	16	2.1	16	94	0	57	33	0	0	66	0.92
5940678--5940725	14	3.4	13	78	16	51	39	2	0	58	1.10
5940666--5940725	28	2.1	29	84	9	79	36	3	1	58	1.25
5940696--5940735	20	1.9	22	90	10	66	42	0	2	55	1.13
5940701--5940743	20	2.2	20	87	8	61	48	0	2	48	1.14
5951842--5952029	92	2.1	92	91	1	306	45	12	23	17	1.83
5953693--5953800	47	2.3	46	79	9	121	46	5	3	44	1.44
5957836--5957904	35	2.0	35	100	0	138	28	26	17	27	1.97
5962262--5962310	22	2.2	22	85	0	62	32	4	12	51	1.58
5968320--5968350	3	10.3	3	100	0	62	67	0	0	32	0.91
5974623--5974734	59	1.9	59	88	3	172	31	18	13	36	1.90
5975538--5975691	77	2.0	76	83	6	195	37	7	13	40	1.74
5992817--5992862	22	2.1	22	83	0	56	30	8	13	47	1.72
5992901--5993011	23	4.9	23	78	2	100	30	9	25	35	1.87
5993052--5993114	22	3.0	21	72	4	63	44	25	9	20	1.82
5995092--5995152	21	3.0	21	82	2	70	49	0	18	32	1.48
6006113--6006158	22	2.1	22	84	8	58	56	2	0	41	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6006279--6006310	14	2.1	16	88	11	50	43	0	9	46	1.35
6014947--6014975	13	2.2	13	100	0	58	62	13	0	24	1.32
6016814--6016851	3	12.7	3	100	0	76	65	0	0	34	0.93
6018300--6018450	78	1.9	79	95	1	277	43	7	9	40	1.65
6018411--6018477	28	2.4	27	82	2	89	46	8	7	37	1.64
6018309--6018476	78	2.1	78	86	3	230	44	8	8	38	1.66
6018411--6018492	28	3.0	28	76	1	85	45	8	6	40	1.60
6018408--6018557	55	2.7	54	79	7	151	44	7	8	40	1.63
6026211--6026287	32	2.4	32	85	10	86	29	7	10	51	1.64
6044683--6044747	21	3.1	21	71	10	62	32	10	15	41	1.81
6049722--6049747	2	13.0	2	100	0	52	50	0	0	50	1.00
6053857--6053902	18	2.5	20	79	17	62	45	8	4	41	1.55
6064433--6064490	4	14.5	4	81	0	53	46	24	6	22	1.76
6069010--6069036	2	13.5	2	100	0	54	48	0	0	51	1.00
6071907--6071998	29	3.2	29	84	4	98	34	8	16	40	1.79
6071940--6072026	26	3.2	26	74	15	68	34	14	11	39	1.83
6071956--6072126	80	2.2	76	79	5	191	33	13	14	38	1.85
6072066--6072215	45	3.3	45	73	10	135	32	17	17	33	1.93
6075405--6075456	19	2.7	19	82	5	70	55	3	0	40	1.18
6076306--6076357	27	1.9	27	88	0	77	44	15	9	30	1.78
6076678--6076741	27	2.3	28	72	5	67	46	10	9	32	1.71
6076331--6076809	126	3.8	127	77	5	452	43	11	13	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6077607--6077684	27	2.8	27	86	3	75	47	10	10	32	1.71
6077615--6077705	29	3.2	27	82	6	101	45	9	10	34	1.73
6078781--6078836	28	2.0	28	89	0	85	41	26	12	19	1.87
6078820--6078896	34	2.3	34	76	0	82	42	23	10	23	1.84
6081832--6081889	30	1.9	30	92	0	98	51	10	6	31	1.62
6084475--6084634	35	4.5	35	72	6	108	38	5	11	45	1.62
6084468--6084634	71	2.4	71	79	3	185	38	4	11	45	1.61
6084613--6084685	21	3.4	22	76	12	71	49	1	2	46	1.24
6084653--6084679	13	2.1	13	100	0	54	44	0	0	55	0.99
6087723--6087928	28	7.5	28	72	4	132	38	4	12	45	1.61
6087723--6087891	55	3.1	55	82	2	169	37	4	13	44	1.64
6087757--6087928	55	3.1	56	82	5	181	40	4	11	44	1.61
6087765--6087931	83	2.0	83	80	4	185	38	4	11	46	1.59
6098853--6098878	12	2.2	12	100	0	52	38	15	23	23	1.92
6105846--6105870	2	12.5	2	100	0	50	48	0	0	52	1.00
6110242--6110569	164	2.0	164	98	0	638	31	11	20	35	1.89
6124828--6124885	19	3.0	20	80	14	61	56	0	0	43	0.99
6126418--6126448	14	2.2	14	94	0	53	0	38	6	54	1.26
6128710--6128767	30	2.1	27	84	12	73	32	8	20	37	1.83
6151757--6151796	15	2.7	15	84	0	53	30	25	37	7	1.83
6152012--6152054	15	2.9	15	78	0	50	34	6	32	25	1.83
6158378--6158479	26	4.0	26	72	2	98	30	18	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6171436--6171470	14	2.5	14	90	9	54	42	48	5	2	1.41
6190025--6190131	53	2.0	52	89	5	162	36	23	12	28	1.90
6194553--6194755	98	2.1	98	95	0	361	20	21	4	53	1.64
6195162--6195246	29	3.1	29	73	16	99	35	5	11	47	1.65
6195185--6195231	24	2.0	24	87	4	69	34	6	12	46	1.67
6195208--6195269	31	2.0	30	81	9	72	38	11	14	35	1.82
6195436--6195511	24	2.8	28	71	19	70	38	7	7	46	1.62
6195389--6195511	54	2.2	56	86	2	169	37	8	8	45	1.65
6195459--6195511	25	2.2	24	83	6	63	37	5	7	49	1.55
6201883--6201908	1	26.0	1	100	0	52	0	0	100	0	0.00

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