genome.fa.s2.2.7.7.80.10.50.1000.17.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  17  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)
8482635--8482662	2	14.0	2	100	0	56	50	0	0	50	1.00
8483718--8483756	2	19.5	2	100	0	78	48	0	0	51	1.00
8484957--8485003	21	2.1	22	88	7	69	36	0	0	63	0.94
8488118--8488181	28	2.3	30	78	15	82	35	0	0	64	0.94
8488703--8488729	4	6.8	4	100	0	54	48	0	25	25	1.52
8506405--8506504	21	4.6	22	71	6	62	27	4	18	51	1.64
8506455--8506551	22	4.5	22	73	2	70	28	8	17	45	1.77
8506543--8506631	23	3.9	23	71	2	72	24	12	28	34	1.92
8506714--8506762	22	2.2	22	82	10	55	48	16	4	30	1.64
8512918--8512946	15	1.9	15	100	0	58	41	13	3	41	1.62
8526442--8526475	2	17.0	2	100	0	68	50	0	0	50	1.00
8534962--8535127	87	1.9	86	84	6	219	33	10	14	41	1.81
8536180--8536252	33	2.2	33	92	0	119	28	4	0	67	1.09
8536209--8536252	22	2.0	22	82	8	54	27	4	0	68	1.09
8537916--8537963	21	2.3	20	79	10	53	50	0	10	39	1.37
8546525--8546550	11	2.4	11	100	0	52	50	0	0	50	1.00
8546615--8546685	21	3.5	20	83	7	88	49	0	1	49	1.09
8546630--8546790	53	3.1	52	70	8	130	45	1	2	50	1.23
8546632--8546790	21	7.6	21	65	18	73	45	1	2	50	1.23
8546741--8546821	11	7.7	11	75	18	57	48	0	1	50	1.08
8546746--8546825	31	2.5	33	84	7	105	48	0	1	50	1.08
8550083--8550175	45	2.1	45	87	0	132	21	17	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8552921--8552971	20	2.5	20	96	0	93	9	9	19	60	1.55
8556126--8556180	26	2.1	26	82	0	65	63	7	1	27	1.31
8565480--8565612	60	2.2	61	84	5	164	31	4	14	49	1.63
8565730--8565786	22	2.6	22	85	0	78	26	5	19	49	1.69
8565774--8565830	23	2.5	23	80	5	71	21	10	33	35	1.87
8565844--8565906	21	2.9	22	71	4	56	42	22	11	23	1.85
8579446--8579486	17	2.5	17	80	11	50	65	0	0	34	0.93
8586443--8586478	13	2.9	12	88	8	54	16	5	2	75	1.12
8587007--8587039	16	2.1	17	88	11	52	39	0	6	54	1.25
8587990--8588037	15	3.0	17	79	11	57	50	2	6	41	1.39
8589647--8589680	3	11.3	3	100	0	68	32	0	0	67	0.91
8591472--8591520	17	2.9	17	76	11	57	24	0	2	73	0.94
8592366--8592405	21	1.9	21	94	0	71	45	7	15	32	1.74
8592625--8592665	19	2.2	19	100	0	82	31	14	26	26	1.95
8593431--8593699	74	3.7	72	77	8	276	23	17	13	44	1.84
8594382--8594422	17	2.5	17	80	15	50	73	2	4	19	1.13
8595074--8595105	2	16.0	2	100	0	64	50	0	0	50	1.00
8602626--8602691	26	2.5	26	95	5	114	53	7	3	36	1.45
8604419--8604470	8	6.9	8	80	8	56	73	1	0	25	0.94
8604403--8604471	25	2.8	25	76	10	63	69	4	0	26	1.07
8612827--8612927	51	2.0	51	88	0	148	25	9	4	59	1.50
8613902--8613949	2	24.0	2	86	0	69	45	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8614325--8614358	2	17.0	2	100	0	68	50	0	0	50	1.00
8618250--8618282	2	16.5	2	93	0	57	48	3	0	48	1.17
8620705--8620772	23	3.0	23	82	0	73	52	14	4	27	1.61
8620739--8620792	23	2.3	23	83	0	63	51	20	9	18	1.73
8622803--8623149	182	1.9	182	86	1	498	46	5	7	39	1.57
8631842--8631894	17	2.9	17	81	15	54	37	0	1	60	1.08
8631842--8631882	20	2.0	20	90	9	66	31	0	2	65	1.05
8634292--8634332	22	1.9	21	85	5	55	17	78	4	0	0.93
8644196--8644239	16	2.6	17	82	3	54	63	15	2	18	1.41
8645596--8645663	30	2.3	30	86	0	100	55	1	1	41	1.18
8645609--8645693	30	2.9	29	85	5	100	57	0	4	37	1.20
8648069--8648098	15	2.0	15	93	0	51	50	0	0	50	1.00
8648219--8648345	15	9.2	14	68	18	79	68	0	3	28	1.05
8648235--8648345	20	5.8	20	65	18	74	68	0	3	27	1.06
8648249--8648388	72	1.9	75	84	10	191	65	0	5	28	1.15
8649847--8649900	20	2.7	19	82	5	63	33	7	11	48	1.67
8659940--8659989	19	2.6	20	75	6	50	28	8	0	64	1.22
8661838--8661880	15	2.9	15	82	0	50	37	11	20	30	1.89
8662178--8662269	29	3.4	28	78	17	72	28	3	1	67	1.13
8662172--8662285	54	2.1	53	83	13	137	28	2	1	67	1.14
8663623--8665204	649	2.4	646	84	2	2012	31	20	16	32	1.94
8665959--8666021	30	2.1	30	85	5	83	50	9	6	33	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8667101--8667136	6	6.0	6	100	0	72	66	0	0	33	0.92
8672601--8672639	4	10.0	4	83	5	53	28	0	0	71	0.86
8672928--8672952	3	8.3	3	100	0	50	0	32	0	68	0.90
8682058--8682100	21	2.1	20	83	12	52	51	0	6	41	1.29
8690549--8690580	3	11.0	3	93	6	57	65	0	34	0	0.93
8694267--8694357	43	2.1	43	83	4	112	35	3	16	45	1.64
8694520--8694772	85	3.0	85	86	2	330	40	1	14	43	1.53
8694471--8694802	85	4.0	84	80	6	298	39	2	14	43	1.57
8703810--8703880	35	2.0	36	86	2	99	45	21	9	23	1.82
8712333--8712397	30	2.1	31	86	8	89	44	0	0	55	0.99
8715417--8715466	18	2.6	18	84	9	64	82	6	8	4	0.96
8715422--8715466	23	2.0	23	86	0	63	84	6	6	2	0.85
8719327--8719357	15	2.1	15	93	0	53	58	0	6	35	1.24
8742154--8742196	11	3.8	11	81	3	50	32	0	2	65	1.06
8743024--8743101	34	2.3	34	80	8	88	42	24	11	21	1.86
8744142--8744286	51	2.7	54	85	7	188	66	14	1	17	1.33
8744173--8744277	21	4.4	23	68	15	63	65	13	0	20	1.31
8744315--8744364	26	1.9	26	91	0	82	58	26	4	12	1.51
8744274--8744349	20	3.8	20	73	16	68	60	23	3	11	1.48
8744274--8744379	40	2.6	41	89	6	160	60	23	3	12	1.48
8744343--8744379	17	2.2	17	90	0	56	62	21	2	13	1.44
8748702--8748771	30	2.5	28	84	9	81	55	2	7	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8754728--8754774	17	2.9	16	80	3	58	51	2	4	42	1.33
8754795--8754851	16	3.2	18	78	12	55	47	0	5	47	1.24
8756542--8756579	17	2.3	17	86	4	51	44	10	7	36	1.68
8779651--8779758	56	1.9	58	83	11	143	62	0	6	31	1.21
8779730--8779834	33	2.8	38	74	21	107	64	0	2	32	1.08
8779731--8779817	33	2.6	33	87	5	113	67	0	2	29	1.03
8783277--8783313	19	2.0	18	89	5	56	51	0	0	48	1.00
8783605--8783667	29	2.2	29	88	5	92	53	3	1	41	1.26
8783623--8783709	29	3.0	29	84	3	104	59	1	2	36	1.17
8825102--8825200	52	1.9	50	86	10	137	35	4	11	49	1.57
8852845--8852894	25	2.0	25	88	7	75	30	34	32	4	1.76
8855840--8856299	216	2.1	213	83	6	561	42	6	4	47	1.48
8863793--8863863	32	2.2	33	89	2	108	16	25	12	45	1.83
8875955--8876039	43	2.0	43	100	0	170	45	7	7	40	1.58
8879833--8879953	63	1.9	63	91	0	197	18	11	17	52	1.73
8885615--8885847	32	7.1	32	84	5	279	43	4	5	46	1.46
8885615--8885847	66	3.6	65	88	3	299	43	4	5	46	1.46
8885615--8885795	12	16.5	11	64	16	81	44	4	4	46	1.45
8885615--8885847	98	2.4	97	87	7	321	43	4	5	46	1.46
8888984--8889020	16	2.4	16	90	4	58	40	0	10	48	1.38
8890439--8890618	96	1.9	96	88	4	274	50	3	22	23	1.64
8892004--8892039	18	2.0	18	89	10	56	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8891911--8892798	250	3.5	246	81	5	951	50	6	10	32	1.61
8893198--8893232	18	1.9	18	88	11	54	68	0	0	31	0.90
8892173--8894966	690	3.9	701	76	10	1881	50	6	9	33	1.60
8892874--8895288	246	9.8	251	79	8	2245	50	5	9	34	1.58
8894516--8894550	16	2.2	16	90	10	54	71	0	0	28	0.86
8894328--8895288	247	3.9	247	81	8	1024	51	5	8	34	1.56
8894922--8894964	20	2.2	20	91	8	70	60	0	2	37	1.10
8892861--8895420	983	2.6	970	76	11	2479	50	5	9	34	1.58
8896820--8896878	16	3.7	15	78	17	57	71	0	1	27	0.96
8896820--8896881	31	2.0	32	90	3	99	70	0	1	27	0.96

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