genome.fa.s2.2.7.7.80.10.50.1000.19.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_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  19  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)
9359640--9359678	19	2.0	20	85	5	53	35	5	0	58	1.20
9360040--9360196	54	2.9	53	76	8	156	28	15	11	44	1.81
9360436--9360518	42	2.0	42	82	0	103	31	14	19	34	1.92
9360494--9360724	118	1.9	119	80	6	270	27	24	7	39	1.83
9360720--9360859	72	1.9	72	88	2	210	27	22	15	34	1.94
9360738--9361101	166	2.2	166	94	0	638	30	20	15	34	1.93
9368616--9368654	4	9.8	4	88	0	60	28	2	23	46	1.65
9371993--9372023	10	3.1	10	90	0	53	38	0	0	61	0.96
9372664--9372746	27	3.1	27	64	19	73	34	8	12	44	1.72
9382298--9382332	2	17.5	2	100	0	70	48	0	0	51	1.00
9383014--9383052	18	2.2	18	100	0	78	33	12	20	33	1.91
9385561--9385585	10	2.5	10	100	0	50	84	0	0	16	0.63
9389117--9389156	21	2.0	21	90	5	64	70	0	2	27	1.01
9390679--9390715	19	1.9	19	88	0	56	35	24	18	21	1.96
9390820--9390848	14	2.0	15	93	6	51	62	6	3	27	1.37
9390864--9390948	31	2.8	31	80	10	95	54	4	11	29	1.57
9395972--9396019	24	2.0	24	87	0	69	50	16	10	22	1.76
9396543--9396578	13	2.8	13	91	0	54	47	0	8	44	1.33
9397661--9397772	31	3.6	31	75	13	115	26	19	17	35	1.94
9397642--9397743	30	3.4	30	74	8	89	28	19	16	35	1.94
9397494--9397772	61	4.6	60	78	2	290	26	17	18	37	1.93
9403150--9403320	8	20.0	8	65	18	69	47	2	3	46	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9403174--9403301	28	4.8	27	69	17	88	46	2	4	46	1.36
9403161--9403341	78	2.3	79	94	0	310	45	2	3	48	1.33
9411302--9411353	27	2.0	27	84	3	70	23	36	5	34	1.79
9413098--9413153	28	2.0	29	85	3	78	28	3	0	67	1.07
9427188--9427262	30	2.5	30	79	12	84	34	2	2	60	1.25
9427188--9427259	31	2.4	29	74	14	67	34	2	2	59	1.26
9430252--9430566	103	3.0	103	86	4	400	19	17	22	40	1.92
9437084--9437152	4	17.2	4	76	11	61	49	5	4	40	1.47
9437084--9437152	6	11.5	6	83	6	61	49	5	4	40	1.47
9437084--9437152	10	6.9	10	74	12	61	49	5	4	40	1.47
9437082--9437148	16	4.1	16	78	12	73	49	7	4	38	1.51
9437588--9437613	3	8.7	3	100	0	52	65	0	0	34	0.93
9439827--9439875	21	2.4	19	83	10	53	48	0	0	51	1.00
9444514--9444539	2	13.0	2	100	0	52	0	50	0	50	1.00
9445606--9445639	10	3.5	10	88	8	52	41	0	0	58	0.98
9445607--9445649	19	2.3	19	79	0	50	34	0	0	65	0.93
9448449--9448536	33	2.7	33	81	0	104	42	13	3	40	1.61
9448769--9448817	21	2.4	19	83	10	53	48	0	0	51	1.00
9450176--9450217	16	2.7	15	85	7	57	64	2	0	33	1.07
9452091--9452138	17	2.8	17	87	9	62	39	4	10	45	1.58
9452321--9452392	27	2.8	26	75	10	76	52	1	0	45	1.09
9452342--9452393	15	3.7	15	76	19	58	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9452369--9452447	27	3.2	26	77	11	78	51	2	0	45	1.14
9452358--9452429	38	2.0	37	89	10	114	45	2	0	51	1.15
9452437--9453103	154	4.5	136	73	18	328	55	3	3	37	1.34
9452611--9452740	40	3.1	39	75	18	118	62	2	0	34	1.13
9452676--9452741	27	2.4	28	80	5	82	60	3	0	36	1.12
9452824--9452880	27	2.2	26	84	12	73	50	0	3	45	1.18
9452374--9453138	301	2.5	291	80	9	819	54	3	2	38	1.32
9452942--9452987	24	1.9	24	86	8	67	56	2	2	39	1.24
9463586--9463626	15	2.4	18	80	11	52	43	0	4	51	1.23
9464867--9464947	13	5.9	14	71	17	55	64	1	2	32	1.15
9464849--9464914	33	2.0	32	85	8	89	72	0	0	27	0.85
9464860--9464942	40	2.1	40	86	4	114	66	1	2	30	1.12
9465848--9465906	28	2.1	28	81	9	66	32	5	13	49	1.64
9466711--9466750	18	2.2	18	86	0	53	37	2	7	52	1.43
9467309--9467397	45	2.0	45	86	0	124	40	13	7	38	1.74
9467728--9467770	15	2.9	15	96	0	77	27	6	34	30	1.83
9468437--9468580	55	2.6	55	82	8	161	52	3	0	43	1.23
9468437--9468579	27	5.3	26	74	12	108	52	3	0	43	1.23
9471902--9471979	40	2.0	38	85	5	102	35	11	10	42	1.75
9472452--9472488	15	2.6	15	83	8	51	43	2	2	51	1.30
9472701--9472776	35	2.2	35	85	2	100	27	0	13	59	1.35
9473468--9473717	78	3.2	76	69	19	228	54	3	3	38	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9473381--9473785	156	2.6	156	96	1	735	53	2	2	41	1.27
9473622--9474057	230	1.9	227	87	3	644	53	2	2	41	1.29
9473999--9474067	21	3.2	22	71	22	65	60	0	0	39	0.97
9492914--9492973	28	2.1	28	87	0	84	41	0	0	58	0.98
9492922--9492975	28	1.9	28	96	0	99	37	0	0	62	0.95
9498214--9498253	19	2.1	19	86	9	55	72	0	2	25	0.97
9498835--9498892	30	2.0	29	83	10	73	27	0	10	62	1.28
9508021--9508076	29	1.9	29	82	7	69	33	1	0	64	1.04
9508080--9508114	14	2.4	14	90	4	52	48	2	0	48	1.16
9521345--9521418	22	3.4	22	69	10	62	41	5	1	51	1.33
9521384--9521427	23	2.0	22	81	4	52	40	0	6	52	1.28
9521495--9521588	45	2.1	45	86	4	127	47	5	2	44	1.37
9521540--9521608	18	3.5	19	78	11	68	50	1	2	44	1.25
9521563--9521616	18	2.9	18	81	15	65	50	0	1	48	1.11
9522118--9522373	128	2.0	128	92	1	424	30	9	16	43	1.80
9529745--9529998	28	9.2	28	73	6	142	41	10	7	40	1.68
9529753--9529998	55	4.5	55	73	8	158	41	10	7	40	1.69
9529721--9529949	83	2.8	83	82	0	278	41	8	7	41	1.65
9530851--9530884	17	2.0	17	88	0	50	32	14	8	44	1.76
9531109--9531175	27	2.5	27	85	4	91	35	7	19	37	1.80
9531109--9531287	72	2.5	72	80	5	218	36	11	20	31	1.88
9552635--9552659	13	1.9	13	100	0	50	64	4	0	32	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9552908--9552947	21	1.9	21	85	10	55	15	2	2	80	0.93
9557426--9557462	19	1.9	19	94	0	65	37	10	8	43	1.69
9559640--9559717	38	2.1	38	90	4	122	28	16	5	50	1.67
9580025--9580191	72	2.3	72	81	2	183	37	20	16	25	1.94
9604731--9604791	31	2.0	31	100	0	122	42	22	6	27	1.78
9609898--9610186	103	3.0	93	82	12	366	38	13	10	37	1.80
9610609--9610652	21	2.2	20	84	12	54	52	0	2	45	1.13
9611124--9611194	35	2.0	35	100	0	142	45	16	0	38	1.48
9613616--9613799	90	2.0	91	90	3	291	35	16	19	28	1.93
9613956--9614058	42	2.4	42	82	4	118	42	3	1	51	1.31
9614265--9614295	16	1.9	16	93	0	53	51	0	0	48	1.00
9614245--9614305	22	2.9	22	72	13	56	50	0	3	45	1.17
9614308--9614350	21	2.0	21	86	8	61	48	0	2	48	1.14
9616681--9616741	15	4.2	15	83	4	72	32	26	0	40	1.56
9616836--9616881	23	2.0	22	83	8	56	8	28	43	19	1.80
9627770--9627817	22	2.1	23	88	7	71	47	12	14	25	1.79
9628771--9628800	5	6.0	5	100	0	60	20	0	0	80	0.72
9630235--9630278	2	22.0	2	100	0	88	50	0	0	50	1.00
9630486--9630564	39	2.0	39	100	0	158	27	7	10	54	1.61
9636093--9636117	2	12.5	2	100	0	50	52	0	0	48	1.00
9641366--9641403	20	1.9	20	88	0	58	21	5	7	65	1.38
9649492--9649564	28	2.7	27	78	4	83	47	5	1	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9649552--9649582	15	2.1	15	93	0	53	38	0	0	61	0.96
9649524--9649608	43	2.0	43	92	0	143	41	2	3	52	1.31
9649588--9649637	21	2.3	22	80	10	59	44	4	6	46	1.47
9649530--9649664	43	3.0	45	82	6	130	42	5	5	45	1.50
9656384--9656454	28	2.4	31	79	13	78	36	9	11	42	1.74
9656451--9656568	28	4.1	28	84	4	146	39	9	6	44	1.63
9656451--9656568	57	2.1	58	83	4	150	39	9	6	44	1.63
9658714--9658755	19	2.2	19	83	8	50	35	4	7	52	1.50
9659144--9659224	42	1.9	43	89	2	128	9	33	3	53	1.52
9660095--9660132	19	2.0	19	100	0	76	36	15	26	21	1.93

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