genome.fa.s10.2.7.7.80.10.50.1000.16.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_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  16  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)
7141329--7141375	21	2.2	21	96	0	85	31	10	14	42	1.80
7141513--7141665	71	2.1	72	80	5	177	22	16	14	45	1.84
7145625--7145817	35	5.8	35	78	12	185	36	6	13	43	1.69
7145714--7145763	26	1.9	26	100	0	100	34	8	12	46	1.70
7145681--7145798	61	1.9	61	87	0	173	36	6	14	42	1.72
7153178--7153202	11	2.3	11	100	0	50	28	0	0	72	0.86
7153518--7153546	15	1.9	15	100	0	58	41	3	27	27	1.72
7160634--7160663	15	2.0	15	93	0	51	40	20	3	36	1.69
7173602--7173645	14	3.1	14	80	3	52	68	0	31	0	0.90
7205821--7205970	49	3.1	49	98	0	282	33	10	13	43	1.77
7227656--7227728	36	2.0	36	100	0	146	34	24	5	35	1.79
7228363--7228577	68	3.2	68	76	2	225	33	8	20	37	1.83
7229049--7229125	21	3.7	21	96	0	136	37	10	19	32	1.86
7243645--7243756	42	2.6	43	92	4	183	52	4	1	41	1.32
7243687--7243755	15	4.7	15	68	13	54	55	2	2	39	1.30
7244831--7244873	22	1.9	22	85	4	59	32	13	11	41	1.81
7251086--7251148	15	3.7	15	70	25	54	38	3	3	55	1.32
7251082--7251149	21	3.5	21	61	19	56	41	2	2	52	1.31
7257041--7257209	82	2.1	82	98	1	331	45	5	17	30	1.72
7258435--7258576	76	1.9	76	90	0	230	42	9	10	38	1.71
7266951--7266997	21	2.2	20	82	14	51	65	4	2	27	1.22
7289259--7289324	35	1.9	34	84	3	87	42	7	4	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7306366--7306433	32	2.1	32	91	0	109	19	29	17	33	1.95
7320864--7320905	16	2.7	16	77	3	50	33	0	9	57	1.31
7326270--7326313	15	2.9	16	83	6	56	29	2	11	56	1.46
7329290--7329321	11	2.8	12	86	13	50	84	0	15	0	0.63
7329281--7329317	10	3.7	10	88	0	56	83	0	16	0	0.64
7347826--7347899	35	2.1	35	84	0	94	43	6	10	39	1.66
7347664--7348137	246	1.9	246	92	0	795	38	10	15	35	1.82
7348054--7348183	35	3.7	35	77	2	98	38	8	12	40	1.73
7348054--7348194	71	2.0	71	81	2	167	36	9	13	40	1.77
7350118--7350173	29	1.9	29	89	7	87	37	10	16	35	1.83
7355631--7355663	15	2.1	17	88	11	52	54	6	0	39	1.25
7355436--7356536	473	2.3	470	87	4	1486	41	7	6	44	1.58
7355436--7356601	474	2.5	469	86	5	1536	41	7	6	45	1.57
7356821--7357007	75	2.5	75	81	10	211	16	42	10	31	1.81
7356811--7357078	78	3.5	77	78	5	265	16	42	9	31	1.81
7359993--7360195	40	5.0	40	80	7	185	20	2	18	58	1.50
7360094--7360226	40	3.5	39	81	10	125	24	1	12	60	1.41
7365486--7365516	13	2.4	13	94	0	53	48	6	3	41	1.45
7365502--7365628	37	3.6	35	79	11	145	44	14	7	33	1.73
7377929--7377969	20	2.0	20	100	0	82	29	4	14	51	1.63
7378024--7378063	21	1.9	21	89	0	62	25	10	17	47	1.78
7380795--7380838	22	2.0	21	83	12	54	25	13	13	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7381327--7381367	20	2.2	19	86	8	57	46	0	12	41	1.41
7385939--7386311	80	4.7	80	81	3	421	34	24	10	31	1.89
7385965--7386311	160	2.2	160	85	2	464	34	24	10	31	1.89
7387615--7387645	16	1.9	16	93	0	53	67	16	3	12	1.35
7388542--7388674	57	2.3	57	80	6	153	34	10	21	33	1.87
7401542--7401841	35	8.6	35	77	3	257	25	22	17	35	1.95
7401578--7401874	70	4.3	69	72	10	235	25	22	17	35	1.95
7401551--7401874	104	3.1	104	94	1	542	25	23	16	34	1.95
7401551--7401874	35	9.3	34	73	8	208	25	23	16	34	1.95
7408756--7408793	19	2.1	19	90	5	60	57	5	5	31	1.43
7421142--7421204	22	2.9	22	95	0	108	31	15	22	30	1.95
7422910--7423179	59	4.7	56	79	8	269	40	11	10	38	1.76
7422910--7423183	28	9.6	29	80	7	274	40	12	9	37	1.76
7422910--7423183	57	4.8	57	77	7	227	40	12	9	37	1.76
7432054--7432082	13	2.2	13	100	0	58	31	20	10	37	1.86
7436866--7437028	73	2.2	73	80	4	177	33	16	22	26	1.95
7438290--7438333	21	2.0	22	86	4	63	29	0	9	61	1.27
7445393--7445550	59	2.7	58	78	10	144	39	10	10	39	1.73
7445476--7445553	29	2.8	28	84	3	93	42	10	7	39	1.68
7447625--7447884	28	9.0	29	76	7	260	36	13	11	39	1.80
7447625--7447884	57	4.5	57	79	7	265	36	13	11	39	1.80
7453450--7453484	11	3.2	11	87	0	52	74	0	2	22	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7476800--7476843	21	2.0	22	91	4	72	31	0	6	61	1.22
7481219--7481261	21	2.0	22	86	8	63	32	2	9	55	1.44
7493098--7493152	21	2.8	20	87	12	80	0	41	0	58	0.98
7493105--7493162	17	3.1	18	76	11	55	0	41	0	58	0.98
7496076--7496211	30	4.6	28	77	8	128	36	10	11	41	1.76
7496076--7496218	28	4.8	29	76	11	130	37	11	11	40	1.77
7496076--7496218	59	2.4	59	83	4	182	37	11	11	40	1.77
7497060--7497202	73	2.0	73	85	2	198	37	16	20	25	1.93
7497069--7497232	73	2.2	73	81	2	186	35	18	21	24	1.95
7503419--7503460	23	1.9	22	90	9	68	73	2	19	4	1.12
7505899--7506059	73	2.2	73	80	2	180	36	17	19	26	1.94
7510220--7510263	21	2.0	22	86	4	63	61	9	0	29	1.27
7511609--7511640	12	2.7	12	95	0	55	15	18	31	34	1.93
7514230--7514467	119	2.0	119	99	0	467	24	18	17	39	1.92
7517859--7517883	9	2.8	9	100	0	50	24	0	24	52	1.48
7518695--7518737	22	2.0	22	81	9	52	72	9	9	9	1.30
7524643--7524701	26	2.2	27	90	3	93	32	8	27	32	1.87
7541417--7541445	13	2.2	13	100	0	58	58	6	0	34	1.25
7546276--7546320	13	3.6	12	80	11	54	13	6	2	77	1.05
7551861--7551896	13	2.6	14	91	4	56	55	5	2	36	1.38
7556110--7556217	35	3.1	35	85	2	153	32	6	15	45	1.72
7556111--7556215	36	2.9	36	87	1	149	33	6	16	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7559231--7559447	35	6.2	35	86	3	269	43	14	7	35	1.73
7559231--7559420	71	2.7	70	88	0	263	42	13	8	35	1.75
7559231--7559420	106	1.8	105	85	1	272	42	13	8	35	1.75
7561095--7561138	6	7.3	6	100	0	88	31	0	0	68	0.90
7562554--7562594	21	2.0	21	90	0	64	46	21	12	19	1.82
7565566--7565690	56	2.3	55	87	9	175	40	8	26	25	1.83
7572035--7572639	84	7.2	85	85	5	793	42	16	2	38	1.63
7572049--7572639	169	3.5	169	88	4	808	42	16	2	38	1.63
7572452--7572505	13	4.1	13	76	11	56	46	18	0	35	1.50
7572441--7572503	27	2.3	27	86	8	83	44	19	0	36	1.51
7573574--7573611	20	1.9	20	94	0	67	44	5	7	42	1.56
7573192--7575487	341	6.7	338	82	3	2608	44	14	13	27	1.82
7575157--7575293	62	2.2	62	77	6	143	45	11	14	28	1.80
7575897--7576035	49	3.0	47	74	23	132	53	2	3	40	1.30
7577468--7577535	29	2.3	30	82	7	84	22	11	19	47	1.81
7577482--7577538	29	2.0	29	92	0	96	22	14	17	45	1.84
7577489--7577544	29	1.9	29	88	0	85	26	10	16	46	1.79
7577987--7578074	41	2.1	41	83	4	106	43	15	13	27	1.85
7590163--7590233	22	3.3	22	80	2	72	46	19	2	30	1.64
7590300--7590360	21	2.9	21	76	11	70	47	19	6	26	1.74
7591504--7591600	51	1.9	51	86	0	140	44	14	7	34	1.73
7594793--7594821	11	2.5	12	94	5	51	27	0	20	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7594763--7594805	20	2.2	20	91	0	68	20	2	20	55	1.54
7594812--7594855	21	2.0	21	86	4	61	31	6	9	52	1.59
7594892--7594934	21	2.1	21	91	4	70	30	9	18	41	1.82
7594927--7594984	21	2.8	21	81	5	55	27	5	17	50	1.67
7595672--7595764	30	3.1	30	67	14	84	37	11	20	30	1.88
7595664--7595756	29	3.2	29	68	14	91	35	9	24	30	1.88
7600465--7600489	2	12.5	2	100	0	50	52	0	48	0	1.00
7604107--7604133	12	2.2	12	100	0	54	33	0	25	40	1.56
7606752--7606890	42	3.2	43	78	6	156	33	25	16	24	1.96
7609942--7610007	29	2.3	28	82	5	78	53	10	24	12	1.69

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