genome.fa.s2.2.7.7.80.10.50.1000.25.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  25  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)
11973207--11973632	212	2.0	212	93	0	735	29	13	15	41	1.86
11974975--11975036	22	2.8	22	82	0	79	32	8	25	33	1.85
11975106--11975150	15	3.1	15	81	12	67	17	8	22	51	1.73
11980909--11981003	30	3.2	30	67	21	90	26	11	17	44	1.83
11980933--11981024	27	3.2	27	69	21	87	29	13	15	42	1.84
11980910--11981036	60	2.1	60	100	0	254	25	11	17	44	1.83
12000689--12000915	109	2.1	109	100	0	454	38	7	14	39	1.73
12003394--12003499	35	3.0	35	73	5	106	33	18	19	28	1.96
12005121--12005216	43	2.2	43	83	0	111	20	4	20	54	1.61
12005206--12005289	37	2.2	38	83	6	100	29	4	15	50	1.65
12006929--12006973	12	3.8	12	78	21	51	40	2	0	57	1.11
12007121--12007176	23	2.5	22	75	13	60	44	1	3	50	1.29
12012459--12012525	30	2.2	31	83	2	82	32	10	5	50	1.61
12015857--12015942	28	2.9	29	72	8	84	44	8	11	36	1.71
12019240--12019293	28	1.9	28	88	0	81	42	18	12	25	1.86
12022959--12023039	38	2.0	40	88	6	121	55	4	17	22	1.61
12042984--12043069	43	2.0	43	84	4	111	48	18	8	24	1.75
12045760--12045881	60	2.0	61	82	1	147	44	21	8	26	1.80
12050909--12050964	18	3.1	18	79	5	58	33	1	1	62	1.16
12057148--12057212	24	2.6	24	87	4	85	3	27	3	66	1.22
12057158--12057191	17	2.1	17	88	5	52	0	26	2	70	1.01
12057169--12057242	25	3.0	25	83	12	91	2	33	4	59	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12060310--12060339	6	5.0	6	100	0	60	50	0	16	33	1.46
12066328--12066366	18	2.2	18	85	0	51	48	2	2	46	1.29
12074915--12074948	2	17.0	2	93	0	59	50	47	0	2	1.16
12075107--12075133	4	6.8	4	100	0	54	77	22	0	0	0.76
12090619--12090686	21	3.2	22	79	10	79	36	22	22	19	1.95
12095168--12095233	31	2.1	31	82	0	78	24	24	21	30	1.99
12096575--12096630	29	1.9	29	85	7	78	37	25	12	25	1.91
12101276--12101367	29	3.3	29	70	14	93	34	20	6	38	1.79
12109459--12110039	321	1.8	321	86	3	830	31	16	14	37	1.89
12111908--12111933	6	4.3	6	100	0	52	30	0	0	69	0.89
12118482--12118515	15	2.3	15	89	0	50	41	5	2	50	1.42
12120333--12120389	28	2.0	28	86	0	78	80	0	5	14	0.87
12120333--12120389	7	8.3	7	75	11	55	80	0	5	14	0.87
12120333--12120391	13	4.4	13	81	8	64	79	0	5	15	0.89
12121838--12121920	38	2.2	38	82	4	107	24	12	14	49	1.77
12121850--12121923	38	1.9	38	88	0	112	20	12	16	51	1.76
12124530--12124593	31	2.1	31	93	0	110	53	4	15	26	1.62
12124533--12124606	31	2.4	31	88	0	94	52	5	16	25	1.64
12125603--12126961	458	3.0	456	93	1	2305	35	12	16	35	1.87
12127786--12127861	31	2.5	31	86	0	107	28	14	2	53	1.54
12129182--12129260	21	3.6	21	72	11	59	35	7	15	41	1.75
12131411--12131449	19	2.0	20	85	14	55	25	7	2	64	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12132988--12133050	27	2.3	27	78	10	67	52	1	4	41	1.32
12133372--12133396	2	12.5	2	100	0	50	52	0	0	48	1.00
12134699--12134741	19	2.3	19	84	4	52	51	4	4	39	1.44
12141973--12142001	15	1.9	15	100	0	58	48	3	6	41	1.47
12145764--12145807	21	2.2	19	92	8	70	45	13	9	31	1.75
12147261--12147301	20	2.0	20	85	0	55	46	19	2	31	1.63
12148326--12148367	15	2.9	15	85	3	59	71	0	0	28	0.86
12148328--12148405	5	15.2	5	74	12	52	71	1	1	25	1.01
12148328--12148405	20	4.1	19	72	12	61	71	1	1	25	1.01
12148343--12148404	32	2.0	31	87	9	90	72	1	1	24	1.02
12148328--12148381	7	8.0	7	76	12	51	72	1	0	25	0.95
12148467--12148519	6	8.3	6	76	12	52	73	0	1	24	0.93
12148426--12148523	40	2.5	40	83	5	117	68	1	2	28	1.07
12148741--12148780	15	2.7	15	92	0	62	35	15	5	45	1.68
12151521--12151581	32	1.9	32	93	0	104	34	6	9	49	1.62
12168444--12168476	2	17.0	2	87	6	50	54	0	0	45	0.99
12180788--12180998	78	2.7	79	86	4	295	33	18	13	34	1.90
12186086--12186126	22	2.0	21	90	9	66	53	0	2	43	1.13
12186118--12186164	16	2.8	17	76	17	53	68	0	0	31	0.90
12192683--12192812	62	2.1	61	82	4	154	18	18	40	23	1.92
12192579--12192812	123	1.9	122	83	5	301	18	17	40	23	1.91
12192585--12192831	61	4.0	61	77	6	221	18	19	39	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12195812--12195844	2	16.5	2	100	0	66	51	0	0	48	1.00
12200431--12200458	2	14.0	2	100	0	56	50	0	0	50	1.00
12200468--12200494	2	13.5	2	100	0	54	48	0	51	0	1.00
12205669--12205700	2	16.5	2	93	6	57	50	0	0	50	1.00
12217800--12217952	61	2.5	63	79	4	159	22	39	19	17	1.92
12218364--12218397	12	2.8	13	91	8	54	17	52	11	17	1.73
12218651--12218690	19	2.2	19	86	13	57	17	57	5	20	1.58
12218749--12218789	21	2.0	21	85	9	57	17	46	19	17	1.85
12219243--12219363	62	2.0	62	86	0	170	24	41	19	14	1.89
12222213--12222253	16	2.5	17	80	15	50	60	9	0	29	1.28
12236531--12236572	19	2.2	19	86	0	57	38	11	9	40	1.75
12238432--12238596	73	2.2	73	79	13	187	47	14	14	23	1.81
12241402--12241446	24	2.0	22	82	8	54	60	0	0	40	0.97
12244794--12244847	27	2.0	27	100	0	108	44	25	7	22	1.79
12248552--12248711	84	1.9	84	89	2	250	26	20	3	50	1.65
12248672--12248857	93	2.0	93	88	2	259	26	18	5	49	1.69
12259664--12260047	181	2.1	181	84	4	499	36	20	14	28	1.92
12266822--12266850	2	15.0	2	92	7	51	51	48	0	0	1.00
12271384--12271430	3	15.7	3	100	0	94	34	0	0	65	0.93
12284222--12284425	58	3.6	59	75	15	205	62	0	2	34	1.12
12284222--12284543	100	3.0	104	77	17	376	62	0	2	34	1.11
12284211--12284370	13	11.6	13	68	19	60	65	0	1	33	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12284317--12284469	33	4.5	34	72	18	140	64	0	1	32	1.09
12284296--12284366	21	3.3	23	74	18	71	67	0	0	32	0.91
12284216--12284543	103	3.0	109	84	13	446	63	0	2	34	1.10
12284333--12284389	24	2.3	24	77	14	62	66	1	1	29	1.12
12284379--12284436	12	4.8	12	75	21	50	60	0	3	36	1.14
12284407--12284472	22	3.0	22	79	18	75	66	0	0	33	0.92
12284412--12284543	15	8.4	15	71	23	53	62	0	2	34	1.07
12284693--12284761	15	4.6	15	94	0	93	33	23	10	33	1.88
12286169--12286286	45	2.6	45	93	2	202	28	18	15	37	1.91
12296036--12296102	35	1.9	34	93	3	116	32	0	7	59	1.25
12302954--12302989	18	1.9	19	88	5	56	44	0	0	55	0.99
12309171--12309196	2	13.0	2	100	0	52	50	0	50	0	1.00
12311805--12311839	2	17.5	2	100	0	70	0	48	0	51	1.00
12330782--12330840	26	2.3	27	80	14	70	72	8	15	3	1.21
12331088--12331313	119	1.9	118	84	4	303	46	9	11	32	1.72
12331619--12331662	19	2.3	19	88	0	70	18	31	0	50	1.47
12336630--12336673	19	2.3	19	84	0	61	18	31	2	47	1.61
12336787--12336844	29	2.0	30	86	10	84	17	29	20	32	1.95
12347803--12347835	13	2.5	13	85	14	50	0	15	0	84	0.61
12347803--12347844	19	2.3	18	84	8	57	4	14	0	80	0.86
12361282--12361399	50	2.4	49	91	1	182	20	15	21	43	1.88
12362812--12362888	33	2.3	33	93	4	129	5	50	7	36	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12362812--12362903	33	2.8	32	80	9	105	4	51	8	35	1.53
12364388--12364427	21	2.0	19	90	9	62	50	2	0	47	1.14
12368170--12368373	71	2.9	70	82	2	264	35	7	13	42	1.74
12368170--12368363	107	1.8	106	85	1	271	34	7	14	43	1.74
12368143--12368364	35	6.3	35	81	3	243	34	6	13	44	1.71
12370825--12370886	25	2.5	24	87	7	88	48	12	8	30	1.70
12372931--12372956	6	4.3	6	100	0	52	0	15	0	84	0.62
12380171--12380219	12	4.0	12	79	10	55	0	18	4	77	0.92
12380172--12380225	23	2.2	25	83	9	67	1	20	3	74	1.07
12384158--12384188	15	2.1	15	93	0	53	29	0	35	35	1.58

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