genome.fa.s5.2.7.7.80.10.50.1000.19.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  19  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)
9367756--9367879	64	2.0	64	85	1	169	38	12	14	34	1.83
9369009--9369033	7	3.6	7	100	0	50	0	0	12	88	0.53
9375504--9375539	2	18.0	2	100	0	72	0	50	0	50	1.00
9379471--9379521	20	2.6	19	79	11	59	54	0	5	39	1.24
9379848--9379886	19	2.0	19	90	5	60	48	0	0	51	1.00
9381281--9381305	2	12.5	2	100	0	50	52	0	0	48	1.00
9382063--9382148	37	2.3	37	84	4	111	43	20	16	19	1.88
9384059--9384098	21	1.9	21	85	10	55	25	15	0	60	1.35
9384302--9384740	226	1.9	226	84	3	580	36	10	6	46	1.64
9384593--9385056	231	2.0	232	83	3	587	34	10	5	48	1.62
9384824--9386018	250	4.8	250	81	5	1302	34	10	6	48	1.63
9386945--9387029	7	12.4	7	75	9	70	30	0	0	69	0.89
9386945--9387031	35	2.5	36	81	9	110	29	0	0	70	0.88
9386952--9387002	22	2.4	21	81	12	59	29	0	0	70	0.87
9393291--9394004	254	2.8	247	78	8	751	49	5	8	36	1.56
9393291--9394026	251	2.9	247	78	7	768	49	5	8	36	1.56
9394093--9394133	20	2.0	20	90	9	64	70	0	0	29	0.87
9394091--9394135	17	2.4	18	82	17	56	68	0	0	31	0.89
9407909--9408296	44	8.9	44	77	7	297	31	12	14	41	1.83
9408127--9408226	43	2.3	44	86	6	141	37	13	12	38	1.81
9412455--9412496	21	2.0	21	90	0	66	45	16	7	30	1.74
9423008--9423038	16	1.9	16	93	0	53	29	0	9	61	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9426097--9426259	36	4.5	36	83	4	170	34	18	15	31	1.92
9432315--9432362	21	2.4	20	83	10	62	68	0	0	31	0.90
9441049--9441566	269	1.9	269	84	5	686	32	12	7	47	1.69
9441906--9441934	2	14.5	2	100	0	58	51	0	0	48	1.00
9444719--9444759	7	6.0	7	91	2	57	82	0	17	0	0.66
9456114--9456151	15	2.6	15	91	4	60	47	7	0	44	1.32
9456575--9456599	11	2.3	11	100	0	50	0	56	44	0	0.99
9456558--9456601	19	2.3	18	81	11	52	0	50	50	0	1.00
9456585--9456624	19	2.1	19	85	0	53	0	40	60	0	0.97
9456595--9456663	19	3.7	18	79	11	68	0	36	63	0	0.94
9457068--9457112	15	2.8	16	83	16	58	53	4	0	42	1.21
9457535--9457577	15	2.6	17	82	17	56	51	4	2	41	1.35
9461143--9461305	41	4.0	41	83	7	197	19	1	20	58	1.46
9461740--9461786	22	2.1	23	84	11	62	27	4	17	51	1.64
9463170--9463212	21	2.0	22	86	4	61	44	0	0	55	0.99
9463394--9463433	16	2.4	17	83	4	55	55	0	0	45	0.99
9464552--9464664	60	1.9	60	84	0	154	26	0	23	49	1.56
9473676--9473738	33	1.9	33	100	0	126	33	19	22	25	1.97
9490071--9490142	35	2.1	34	84	5	92	23	12	27	36	1.91
9500234--9500282	25	2.0	25	100	0	98	20	12	26	40	1.87
9516103--9516147	22	2.1	22	87	4	65	40	22	13	24	1.90
9515937--9516294	188	1.9	188	87	1	529	38	23	12	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9516336--9516413	22	3.6	22	82	6	97	39	33	2	24	1.69
9521722--9521797	40	1.9	40	91	0	125	28	6	13	51	1.65
9529996--9530070	26	2.9	26	76	11	82	45	9	8	37	1.66
9530084--9530138	18	3.1	18	76	10	58	41	16	14	27	1.87
9530039--9530255	115	1.9	115	85	3	303	41	16	13	29	1.86
9530215--9530271	18	3.2	18	85	5	62	38	12	21	28	1.89
9530033--9530282	115	2.2	113	80	9	281	41	15	13	29	1.86
9532563--9532610	12	3.9	12	77	2	51	4	29	0	66	1.10
9549446--9549543	36	2.7	36	75	12	110	38	20	12	28	1.89
9562649--9562689	21	2.1	19	86	9	55	58	12	0	29	1.34
9565599--9565623	11	2.3	11	100	0	50	28	28	0	44	1.55
9569896--9570477	291	2.0	290	84	3	769	46	18	7	28	1.75
9578150--9578175	1	26.0	1	100	0	52	0	100	0	0	0.00
9578835--9578866	12	2.4	14	85	15	50	62	15	0	21	1.32
9587652--9587709	20	2.8	20	79	7	55	29	0	13	56	1.38
9607882--9607914	11	2.8	12	86	13	50	36	9	0	54	1.32
9607877--9608175	56	5.2	58	72	15	253	32	3	0	63	1.16
9607846--9608180	115	2.9	115	89	7	529	32	2	0	63	1.14
9608029--9608112	12	7.3	12	74	16	63	32	0	0	67	0.91
9608062--9608111	21	2.4	21	84	15	68	32	0	0	68	0.90
9608083--9608275	102	1.9	105	94	5	349	33	3	1	62	1.18
9608058--9608279	102	2.2	102	87	10	337	32	2	0	63	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9608083--9608326	102	2.4	100	86	11	313	32	3	0	63	1.16
9608245--9608326	33	2.4	32	82	8	83	29	2	0	68	1.03
9607851--9608379	14	36.9	14	65	23	103	32	3	0	64	1.14
9607953--9608394	217	2.0	216	82	12	527	31	2	0	64	1.13
9608366--9608439	30	2.5	30	80	6	78	33	1	0	64	1.02
9609643--9609699	25	2.3	26	90	6	91	1	33	0	64	1.04
9610429--9610505	40	1.9	39	84	7	102	22	6	1	70	1.18
9610964--9611021	24	2.4	24	94	0	107	24	17	32	25	1.96
9611992--9612022	16	1.9	16	93	0	53	29	9	12	48	1.73
9613422--9613446	10	2.5	10	100	0	50	12	32	8	48	1.69
9617878--9617956	38	2.1	38	88	4	115	45	17	7	29	1.76
9625820--9625898	38	2.1	38	90	4	124	44	21	5	29	1.73
9632621--9632731	57	1.9	57	90	0	177	45	15	6	32	1.71
9633586--9633618	17	1.9	17	88	11	50	54	9	0	36	1.32
9638777--9638813	18	2.1	18	100	0	74	35	5	27	32	1.79
9643180--9643252	20	3.6	20	72	7	67	32	17	16	32	1.93
9643178--9643229	21	2.5	20	84	3	68	32	19	17	30	1.95
9644482--9644622	73	1.9	73	89	0	219	36	12	22	28	1.91
9650524--9650559	13	2.7	14	87	12	58	58	5	2	33	1.36
9657517--9657566	18	2.6	20	81	6	59	70	2	2	26	1.09
9657683--9657809	63	2.0	64	92	4	213	33	12	14	39	1.83
9657691--9657824	63	2.1	64	84	8	175	35	12	13	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9659582--9659622	19	2.2	19	86	0	55	46	12	26	14	1.80
9665049--9665082	16	2.1	16	88	0	50	64	2	32	0	1.08
9665052--9665101	24	2.1	24	85	7	66	64	2	34	0	1.05
9668388--9668425	20	1.9	20	88	0	58	36	7	15	39	1.77
9670466--9670507	19	2.3	18	84	8	57	71	4	0	23	1.05
9672047--9672093	22	2.1	22	92	0	76	12	38	25	23	1.90
9672577--9672620	21	2.0	22	91	4	72	61	6	0	31	1.22
9677552--9677580	11	2.6	11	100	0	58	44	20	34	0	1.52
9683657--9683733	25	3.1	25	69	14	70	55	2	0	41	1.13
9683675--9684178	116	4.4	115	76	8	466	42	8	3	45	1.50
9683683--9684203	231	2.3	230	81	4	568	42	8	3	45	1.51
9689637--9689778	21	6.8	21	68	6	81	29	27	18	24	1.98
9689642--9689782	42	3.4	42	76	8	135	28	26	19	24	1.99
9691053--9691208	80	1.9	81	80	11	178	56	19	3	21	1.56
9691259--9691283	11	2.3	11	100	0	50	0	32	0	68	0.90
9691928--9691962	18	1.9	18	88	0	52	11	34	2	51	1.53
9695951--9696003	5	9.8	5	76	15	52	52	0	20	26	1.46
9695949--9696003	22	2.5	22	96	0	101	52	0	21	25	1.47
9705321--9705346	10	2.6	10	100	0	52	42	7	7	42	1.62
9710735--9710775	20	1.9	23	85	14	61	63	14	4	17	1.47
9717273--9717345	30	2.4	31	82	8	89	38	2	1	57	1.22
9721437--9721532	49	2.0	49	89	0	147	28	16	16	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9722748--9723089	113	3.0	115	81	6	397	25	12	28	34	1.92
9723037--9723088	23	2.3	23	83	6	70	19	13	26	40	1.88
9726887--9726955	26	2.6	26	90	6	104	28	13	5	52	1.63
9727157--9727227	23	3.0	23	77	4	61	29	9	25	35	1.88
9727241--9727341	23	4.4	23	73	2	69	40	13	16	28	1.87
9727363--9727718	23	15.6	23	68	7	118	30	10	23	35	1.89
9727363--9727653	136	2.1	138	85	2	381	30	10	24	34	1.89
9727370--9727718	69	5.1	70	76	8	263	30	10	23	35	1.88
9727698--9727742	23	2.0	23	86	0	63	20	11	26	42	1.85
9731378--9731760	203	1.9	202	87	3	563	39	26	12	21	1.88

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