genome.fa.s5.2.7.7.80.10.50.1000.22.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  22  of  22  ( 2636 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)
10659017--10659071	24	2.3	24	100	0	110	36	9	14	40	1.78
10659138--10659191	24	2.2	24	80	6	65	33	1	14	50	1.54
10661685--10661715	14	2.1	15	94	5	55	70	0	0	29	0.87
10661946--10662143	28	7.0	28	80	7	220	37	12	9	40	1.75
10663109--10663203	47	2.0	47	100	0	190	37	12	12	36	1.82
10663552--10663596	19	2.6	16	80	16	54	55	4	4	35	1.40
10664593--10664686	30	3.2	30	92	3	154	20	30	38	10	1.86
10664778--10664813	12	2.9	13	88	12	58	41	16	41	0	1.48
10668750--10668831	35	2.3	35	81	8	94	29	9	25	35	1.88
10682017--10682148	62	2.1	62	100	0	264	24	19	14	41	1.89
10682863--10683075	29	7.3	28	80	8	237	38	10	12	38	1.78
10682863--10683085	90	2.5	86	85	5	268	40	10	12	36	1.77
10692252--10692306	25	2.3	23	78	9	56	30	10	9	49	1.69
10705258--10705297	17	2.5	15	84	8	53	27	5	7	60	1.45
10707937--10708063	68	1.9	68	83	0	164	34	16	10	38	1.83
10707959--10708186	68	3.3	67	77	8	201	34	18	8	38	1.81
10713724--10713850	42	3.0	42	82	5	141	25	12	22	39	1.89
10713744--10713850	43	2.5	42	83	4	126	25	11	25	38	1.89
10719790--10719837	19	2.6	18	77	9	51	43	8	4	43	1.53
10720930--10721027	31	3.2	31	68	16	78	29	23	8	38	1.84
10724049--10724662	306	2.0	306	97	0	1147	37	14	19	29	1.91
10727337--10727401	17	3.8	17	72	8	60	35	7	0	56	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10727914--10727961	21	2.4	20	78	18	55	68	0	6	25	1.12
10727920--10727959	22	1.9	20	85	10	53	70	0	7	22	1.12
10728493--10728535	14	2.9	15	79	6	52	55	13	9	20	1.66
10743697--10743727	2	15.5	2	100	0	62	51	48	0	0	1.00
10743819--10743883	32	2.0	32	93	0	112	41	10	13	33	1.80
10748200--10748260	31	2.0	31	93	3	106	47	11	13	27	1.77
10748584--10748619	2	18.0	2	94	0	63	52	0	0	47	1.00
10753082--10753162	36	2.2	36	88	0	117	41	20	22	14	1.89
10757600--10757643	22	2.0	22	82	8	54	15	9	0	75	1.05
10762145--10762206	24	2.5	23	82	12	70	61	11	0	27	1.30
10762148--10762206	25	2.4	25	82	5	75	61	10	0	28	1.29
10775899--10775950	21	2.5	21	90	0	77	40	19	15	25	1.90
10775899--10775966	21	3.2	21	79	4	75	36	20	17	25	1.94
10780064--10780267	35	5.8	35	75	5	169	37	8	12	42	1.73
10780098--10780267	71	2.4	71	84	2	225	37	7	13	41	1.73
10781453--10781500	19	2.5	20	79	3	53	29	0	6	64	1.18
10796955--10797139	35	5.3	35	81	2	214	44	14	7	34	1.72
10796942--10797139	105	1.9	103	85	4	272	43	13	7	35	1.72
10799318--10799342	2	12.5	2	100	0	50	52	0	0	48	1.00
10804908--10804955	19	2.6	19	90	3	71	56	0	4	39	1.19
10815803--10815853	21	2.4	21	100	0	102	39	9	17	33	1.83
10815886--10816024	61	2.3	61	84	0	170	38	16	10	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10822736--10822790	17	3.2	17	72	23	53	49	1	0	49	1.11
10822752--10822800	20	2.5	20	83	6	57	44	6	0	48	1.27
10826114--10826162	18	2.6	19	87	6	64	42	4	0	53	1.20
10832028--10832238	99	2.1	99	95	0	377	33	17	13	36	1.88
10840212--10840252	11	3.8	11	78	15	50	73	0	26	0	0.84
10840212--10840254	5	8.2	5	80	19	52	74	0	25	0	0.82
10840220--10840254	16	2.4	14	90	9	52	74	0	25	0	0.82
10850089--10850251	76	2.1	77	80	5	197	40	11	7	39	1.71
10851824--10852175	175	2.0	176	90	0	553	31	24	13	30	1.94
10859356--10859433	37	2.1	37	86	6	106	20	20	14	44	1.85
10863908--10864112	77	2.8	72	76	11	195	42	9	10	37	1.73
10872982--10873031	24	2.1	24	100	0	100	52	14	16	18	1.76
10875047--10875102	21	2.7	21	80	0	76	25	19	17	37	1.94
10879615--10879710	25	3.8	25	72	5	86	41	27	12	18	1.86
10880252--10880287	14	2.6	14	90	0	54	25	19	19	36	1.95
10886818--10886948	41	3.2	42	62	9	110	43	11	6	38	1.68
10886797--10887040	80	3.1	79	85	7	291	41	10	8	39	1.69
10898088--10898144	21	2.5	22	86	8	71	47	1	1	49	1.22
10898088--10898134	22	2.0	24	88	8	71	48	2	2	46	1.25
10903717--10903847	61	2.2	60	90	1	208	19	16	13	51	1.77
10908535--10908665	63	2.1	62	91	1	208	48	15	16	19	1.81
10910589--10910800	40	5.5	40	72	15	149	37	19	17	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10910580--10910800	76	2.9	76	84	0	253	38	19	17	24	1.93
10912242--10912317	35	2.2	35	97	0	143	36	14	6	42	1.72
10912797--10912842	20	2.3	20	96	0	83	34	15	21	28	1.94
10912754--10912900	69	2.2	68	85	7	201	35	14	23	26	1.93
10912817--10912970	49	3.1	49	85	3	209	37	14	22	25	1.93
10912820--10912970	51	3.0	51	87	1	207	36	15	21	26	1.93
10913534--10913578	23	1.9	25	86	13	69	42	33	0	24	1.55
10914265--10914431	86	1.9	86	86	0	235	41	8	5	43	1.60
10914288--10914420	42	3.1	42	73	12	117	39	8	6	45	1.59
10915923--10915993	30	2.3	31	95	2	126	35	8	47	8	1.64
10921301--10921359	31	1.9	31	96	0	109	22	10	18	49	1.77
10929039--10929103	29	2.2	30	86	5	87	24	9	16	49	1.75
10934788--10934840	27	2.0	27	84	0	70	37	9	22	30	1.86
10938783--10938821	17	2.3	17	82	13	53	61	2	5	30	1.31
10940553--10940800	83	3.0	82	85	4	345	43	22	8	25	1.81
10946499--10946552	25	2.3	23	84	9	74	0	27	3	68	1.06
10946500--10946556	17	3.0	19	78	19	57	0	28	1	70	0.98
10953553--10953596	21	2.1	21	100	0	88	43	18	13	25	1.86
10977712--10977875	28	5.6	27	76	16	125	35	9	12	42	1.74
10977712--10977882	29	5.9	28	77	7	144	36	9	11	41	1.75
10977743--10977885	28	5.0	28	78	6	142	35	10	13	40	1.79
10982031--10982347	168	1.9	166	91	1	517	31	19	14	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10982954--10983289	60	5.6	60	76	7	231	38	11	16	33	1.85
10982955--10983434	59	8.1	59	77	6	396	37	12	17	32	1.87
10982953--10983487	120	4.5	119	79	7	487	37	13	16	32	1.87
10983056--10983487	59	7.2	59	72	11	267	37	13	16	32	1.88
10998670--10998695	2	13.0	2	100	0	52	0	0	50	50	1.00
11000495--11000678	73	2.5	72	80	6	192	27	19	15	38	1.91
11009380--11009583	73	2.8	72	74	7	196	26	18	17	37	1.92
11025104--11025165	28	2.2	28	80	11	74	43	4	0	51	1.23
11030936--11031103	77	2.1	79	84	5	234	40	14	4	40	1.66
11031501--11031622	36	3.5	35	84	7	126	34	6	13	45	1.69
11031494--11031737	35	7.3	34	75	14	190	35	7	13	44	1.71
11031656--11031702	24	1.9	25	91	4	78	31	8	14	44	1.76
11033803--11033872	21	3.0	21	64	28	52	41	15	5	37	1.71
11033800--11033959	50	3.2	50	89	1	234	36	18	6	37	1.78
11036019--11036138	60	2.0	60	100	0	240	30	23	10	36	1.87
11040372--11040403	16	2.1	15	94	5	55	0	15	0	84	0.63
11053243--11053309	31	2.2	31	83	2	82	29	26	26	16	1.97
11058738--11058764	13	2.1	13	100	0	54	22	22	14	40	1.90
11064116--11064280	55	3.0	55	91	0	267	38	15	23	23	1.92
11069834--11069882	25	2.0	25	91	0	80	24	20	30	24	1.98
11072500--11072684	28	6.5	28	79	5	183	37	12	10	39	1.78
11072554--11072684	57	2.3	55	85	3	163	36	13	9	39	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11074945--11074978	11	3.1	11	95	0	59	70	0	0	29	0.87
11077922--11077974	25	2.1	25	82	0	61	24	16	33	24	1.96
11084463--11084517	24	2.3	24	100	0	110	45	9	10	34	1.71
11089660--11090036	171	2.2	170	82	7	442	38	13	14	33	1.84
11090255--11090648	172	2.3	171	85	3	515	37	12	14	36	1.83
11095013--11095037	2	12.5	2	100	0	50	52	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22

The End!