genome.fa.s16.2.7.7.80.10.50.1000.10.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_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5666189

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

This is table  10  of  14  ( 1598 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)
3824826--3824854	7	4.1	7	100	0	58	27	27	44	0	1.54
3839372--3839469	33	3.0	32	86	4	133	31	14	21	32	1.93
3842915--3843004	35	2.6	34	82	1	108	43	16	4	35	1.68
3848579--3848615	17	2.2	17	90	0	56	24	29	10	35	1.89
3853446--3853491	21	2.2	22	84	7	60	34	0	2	63	1.07
3865815--3865842	13	2.2	13	100	0	56	39	0	7	53	1.28
3872457--3872518	32	1.9	32	93	0	106	33	4	4	56	1.42
3872576--3872618	21	2.0	21	86	8	61	41	0	6	51	1.29
3874629--3874654	2	13.0	2	100	0	52	50	0	0	50	1.00
3877369--3877420	22	2.4	22	86	0	77	23	28	21	26	1.99
3882561--3882612	22	2.3	23	87	9	81	36	17	13	32	1.89
3882785--3882865	38	2.2	37	82	8	94	27	7	33	32	1.84
3884920--3884957	4	9.5	4	88	0	58	44	23	5	26	1.74
3890552--3890594	22	2.0	22	95	0	77	16	11	27	44	1.82
3890554--3890609	22	2.5	22	85	5	69	17	8	25	48	1.76
3893909--3894051	35	4.0	35	77	2	142	39	14	8	37	1.77
3893929--3894078	35	4.3	36	76	5	148	42	14	8	35	1.74
3893915--3894051	71	1.9	70	88	4	204	40	13	8	37	1.75
3897691--3897724	16	2.1	17	88	5	52	0	41	11	47	1.40
3897932--3897993	30	2.1	30	90	0	97	32	24	11	32	1.90
3904464--3904510	9	5.2	9	77	7	51	23	31	2	42	1.66
3909886--3909950	33	2.0	33	84	0	85	38	26	4	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3910377--3910440	22	2.8	23	74	11	60	37	6	3	53	1.42
3910583--3910621	16	2.4	15	87	12	51	48	0	0	51	1.00
3911541--3911573	10	3.5	10	92	8	52	60	21	6	12	1.53
3921720--3921940	35	6.3	35	81	4	214	45	13	6	34	1.69
3921722--3921940	71	3.1	71	80	4	257	44	13	6	35	1.70
3921720--3921940	107	2.1	106	83	3	268	45	13	6	34	1.69
3930522--3930614	46	2.0	46	95	0	168	48	12	21	17	1.80
3945169--3945236	21	3.2	21	78	2	73	39	17	17	25	1.91
3947076--3947185	45	2.4	45	67	0	121	20	7	1	61	1.27
3954784--3954968	49	3.8	47	80	5	208	44	16	6	32	1.73
3954784--3954970	97	1.9	97	85	3	261	44	16	6	33	1.73
3955902--3955981	41	2.0	41	100	0	160	50	11	2	36	1.52
3959667--3959699	17	1.9	17	88	11	50	60	12	9	18	1.57
3963824--3963854	16	1.9	16	93	0	53	58	12	6	22	1.58
3965001--3965034	18	1.9	18	88	5	52	8	29	2	58	1.43
3967448--3967479	16	2.0	16	100	0	64	50	6	18	25	1.70
3967450--3967485	16	2.2	16	90	0	54	50	11	13	25	1.75
3980399--3980498	50	2.0	50	92	0	164	52	8	12	28	1.66
3980623--3980712	32	2.8	32	84	3	110	28	5	22	43	1.75
3983643--3983786	29	4.9	28	71	16	96	43	8	9	38	1.68
3983649--3983739	31	3.0	31	80	6	98	41	6	9	41	1.64
3986757--3986918	84	1.9	84	89	2	254	54	12	11	20	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3990375--3990466	29	3.2	29	82	0	130	15	26	10	47	1.78
3996609--3996722	58	2.0	58	94	0	201	28	13	25	32	1.93
3997143--3997216	22	3.4	22	77	3	78	20	6	24	48	1.73
3997228--3997307	23	3.5	23	79	3	90	36	23	13	26	1.92
3997316--3997373	21	2.7	22	78	7	66	37	17	17	27	1.92
3997504--3997624	60	2.0	60	84	6	156	44	16	4	33	1.69
4006159--4006227	34	2.0	34	100	0	138	34	5	14	44	1.69
4006408--4006616	103	2.0	103	91	0	337	37	14	18	29	1.91
4026457--4026533	35	2.2	35	81	4	93	27	20	24	27	1.99
4034907--4034982	29	2.5	31	85	6	95	50	19	7	22	1.73
4035972--4036013	19	2.2	19	86	0	57	38	11	7	42	1.69
4038986--4039279	68	4.3	67	80	7	270	35	9	19	36	1.85
4038974--4039281	136	2.3	136	81	3	361	35	10	19	35	1.85
4039389--4039436	18	2.6	19	86	3	62	58	2	0	39	1.10
4039412--4039454	16	2.6	17	79	17	54	51	0	0	48	1.00
4044828--4044874	23	2.0	23	84	8	60	31	10	10	46	1.73
4045137--4045176	20	2.0	20	100	0	80	40	20	15	25	1.90
4045556--4045595	21	1.9	21	89	0	62	25	20	25	30	1.99
4048233--4048318	36	2.4	36	84	9	122	43	12	10	33	1.77
4051237--4051294	31	1.9	30	85	3	80	29	18	12	39	1.87
4056648--4056763	58	2.0	58	100	0	232	44	25	5	24	1.74
4059510--4059693	74	2.5	72	79	6	201	39	16	20	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4060848--4061083	73	3.2	72	75	8	192	23	17	12	45	1.83
4062868--4062939	35	2.1	35	83	0	90	40	25	9	25	1.86
4064943--4065104	81	2.0	81	100	0	324	25	17	14	41	1.88
4071476--4071506	2	15.5	2	93	0	53	51	3	0	45	1.17
4073474--4073504	16	1.9	16	93	0	53	67	19	0	12	1.22
4083963--4083996	13	2.5	14	90	9	61	29	0	8	61	1.26
4091343--4091485	72	2.0	73	84	1	189	37	20	15	27	1.92
4091469--4091512	21	2.1	21	82	0	52	25	25	18	31	1.97
4091471--4091626	72	2.2	72	82	3	181	32	21	18	26	1.97
4103022--4103050	5	6.0	5	92	8	51	0	79	0	20	0.74
4104855--4104894	16	2.5	16	95	0	71	45	22	5	27	1.73
4105017--4105119	26	3.8	26	72	17	84	66	0	0	32	1.05
4119307--4119334	2	14.0	2	100	0	56	50	0	0	50	1.00
4122785--4122812	2	14.0	2	100	0	56	50	0	0	50	1.00
4123207--4123245	21	1.9	19	85	10	51	35	7	10	46	1.67
4140578--4140738	29	5.5	28	79	10	162	40	9	11	39	1.73
4140575--4140737	59	2.8	58	84	6	199	41	9	11	38	1.74
4143021--4143050	15	2.0	15	100	0	60	13	40	6	40	1.71
4143042--4143097	28	2.0	28	100	0	112	42	25	0	32	1.55
4143822--4143856	7	4.9	7	96	3	61	28	25	28	17	1.97
4145905--4146060	72	2.2	72	82	6	183	25	19	20	33	1.96
4146411--4146440	2	15.5	2	93	6	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4147168--4147196	7	4.1	7	100	0	58	44	0	0	55	0.99
4150770--4150799	15	2.1	14	93	6	51	36	20	13	30	1.90
4155923--4156047	62	2.0	62	100	0	250	47	8	22	22	1.77
4157351--4157466	56	2.1	56	95	0	205	38	17	10	33	1.83
4160164--4160200	17	2.2	17	90	4	58	45	0	0	54	1.00
4162318--4162380	30	2.1	30	85	5	83	49	6	14	30	1.68
4167721--4167753	16	2.0	17	88	5	50	27	15	15	42	1.86
4174232--4174256	12	2.1	12	100	0	50	20	0	8	72	1.10
4174426--4174467	20	2.2	19	83	12	50	57	2	0	40	1.12
4174410--4174466	26	2.2	26	87	3	80	59	1	0	38	1.08
4174437--4174475	17	2.4	16	83	8	51	61	2	0	35	1.10
4174562--4174639	33	2.4	33	93	0	129	43	8	12	34	1.74
4176551--4176597	2	23.5	2	100	0	94	48	0	0	51	1.00
4176770--4177126	178	2.0	173	88	3	518	39	18	9	32	1.83
4180545--4180600	21	2.7	21	78	10	69	28	17	19	33	1.95
4183756--4183832	22	3.5	22	66	16	59	53	11	9	25	1.67
4183753--4183844	45	2.1	44	89	2	139	51	9	11	27	1.70
4185751--4185784	5	6.8	5	100	0	68	79	0	0	20	0.73
4186991--4187080	36	2.5	36	88	0	135	24	12	40	23	1.89
4188339--4188424	16	5.1	16	70	17	59	27	1	8	62	1.30
4199462--4199513	26	2.0	26	92	0	86	28	19	11	40	1.86
4203466--4203513	23	2.0	24	84	15	64	50	14	22	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4209512--4209662	23	6.8	22	76	10	119	30	15	17	37	1.90
4209512--4209662	44	3.4	44	77	11	141	30	15	17	37	1.90
4209580--4209677	23	4.3	23	82	1	99	36	12	15	35	1.85
4211003--4211267	31	8.6	31	89	0	361	36	18	15	29	1.91
4211055--4211294	123	2.0	124	82	4	299	38	20	13	27	1.90
4211919--4212078	47	3.5	46	78	3	169	22	30	20	27	1.98
4212049--4212104	24	2.3	24	87	0	85	28	30	17	23	1.97
4212095--4212141	23	2.0	23	87	0	67	21	27	23	27	1.99
4212098--4212148	23	2.2	23	82	0	57	23	29	19	27	1.98
4212144--4212205	22	2.8	22	100	0	124	32	22	12	32	1.92

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