genome.fa.s3.2.7.7.80.10.50.1000.27.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_018397256.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_56.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13963513

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   

This is table  27  of  29  ( 3437 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)
11943424--11943523	14	7.6	13	71	23	68	69	1	1	29	1.02
11943426--11943523	20	5.1	20	81	15	107	69	1	1	28	1.02
11943423--11943514	34	2.8	33	81	16	104	69	1	1	28	1.02
11943420--11943746	57	5.9	52	73	17	202	65	1	2	30	1.15
11943650--11943717	24	2.9	24	68	18	61	66	0	1	32	1.01
11943544--11943802	114	2.3	114	93	2	432	62	0	4	32	1.19
11959362--11959398	2	18.5	2	100	0	74	51	0	48	0	1.00
11962474--11962499	3	8.7	3	100	0	52	34	0	0	65	0.93
11970535--11970577	22	2.0	22	90	0	68	48	6	2	41	1.43
11975979--11976025	2	23.5	2	100	0	94	51	0	0	48	1.00
11976597--11976630	13	2.5	14	90	9	61	47	14	11	26	1.79
11979822--11979851	2	15.0	2	100	0	60	50	0	0	50	1.00
11981239--11981305	24	2.8	25	82	8	77	49	0	4	46	1.22
11989791--11989822	2	16.0	2	100	0	64	50	0	0	50	1.00
11991443--11991489	11	4.5	11	79	15	55	46	0	0	53	1.00
11991445--11991486	9	4.1	10	82	14	50	45	0	0	54	0.99
11995444--11995472	2	14.5	2	100	0	58	48	0	51	0	1.00
11996096--11996122	2	13.5	2	100	0	54	51	0	48	0	1.00
12001507--12001622	26	4.5	26	66	25	75	36	7	8	47	1.63
12001536--12001833	81	3.7	80	78	7	253	37	7	9	45	1.65
12001707--12001772	26	2.4	28	70	17	66	42	6	7	43	1.57
12001674--12001789	26	4.5	26	68	16	62	37	5	8	49	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12001608--12001803	79	2.5	78	81	5	207	37	6	10	44	1.65
12036987--12037016	14	2.1	15	93	6	53	53	0	0	46	1.00
12037245--12037303	30	2.0	30	86	0	82	49	3	6	40	1.46
12048006--12048097	29	3.2	29	67	22	84	30	26	11	31	1.92
12047992--12048109	58	2.0	58	98	0	227	33	23	11	31	1.90
12051647--12051675	15	2.0	15	93	6	51	55	0	3	41	1.17
12052996--12053040	15	3.0	15	83	0	54	55	0	6	37	1.26
12061609--12061655	21	2.2	21	81	7	60	48	4	0	46	1.21
12077068--12077105	17	2.2	17	86	9	51	44	7	10	36	1.68
12077107--12077140	17	2.0	17	88	0	50	52	0	0	47	1.00
12077110--12077147	20	1.9	20	88	0	58	57	0	0	42	0.98
12106048--12106072	10	2.5	10	100	0	50	32	0	0	68	0.90
12113845--12113882	2	19.0	2	88	0	58	47	2	2	47	1.30
12114353--12114383	2	15.5	2	100	0	62	51	0	48	0	1.00
12126558--12126582	5	5.0	5	100	0	50	0	60	0	40	0.97
12140646--12140670	3	8.3	3	100	0	50	0	32	0	68	0.90
12140882--12140922	2	20.5	2	94	0	73	48	2	0	48	1.14
12144336--12144368	2	16.5	2	100	0	66	48	0	0	51	1.00
12149650--12149699	2	25.0	2	100	0	100	50	0	0	50	1.00
12150954--12151010	28	2.0	28	82	3	69	43	0	1	54	1.10
12168027--12168079	8	6.8	8	93	2	90	24	33	26	15	1.95
12168026--12168084	8	7.7	7	90	7	64	25	33	23	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12168820--12168871	28	1.9	26	85	14	70	63	7	0	28	1.22
12168829--12168866	20	1.9	20	88	0	58	65	7	0	26	1.19
12178564--12178598	3	11.7	3	93	0	61	2	34	0	62	1.10
12209963--12209992	16	1.9	15	93	6	51	3	33	0	63	1.11
12210771--12210815	22	2.1	22	95	4	83	33	4	8	53	1.52
12212183--12212223	7	5.9	7	85	0	55	56	0	0	43	0.99
12212183--12212266	29	2.7	28	80	14	69	57	1	0	41	1.06
12213752--12213946	107	1.8	106	86	3	284	48	8	10	32	1.69
12217149--12217193	21	2.1	21	84	8	56	37	2	2	57	1.23
12217160--12217208	21	2.3	21	86	10	64	36	0	6	57	1.24
12242416--12242454	18	2.2	18	90	0	60	2	17	2	76	1.01
12254389--12254422	2	17.0	2	100	0	68	50	0	0	50	1.00
12263542--12263949	210	1.9	211	94	0	719	35	20	20	23	1.96
12269620--12270034	211	2.0	211	87	0	607	34	20	20	23	1.97
12281659--12281738	32	2.5	32	95	0	142	48	5	30	16	1.67
12287738--12287792	20	2.7	20	85	2	65	54	0	1	43	1.10
12290174--12290433	87	3.0	87	91	0	430	38	13	28	18	1.90
12296040--12296086	18	2.6	18	93	0	76	53	0	46	0	1.00
12320311--12320426	7	16.4	7	67	24	50	48	4	2	44	1.36
12320400--12320441	14	3.1	13	86	10	57	42	0	0	57	0.99
12320623--12320654	15	2.0	17	88	11	50	46	0	0	53	1.00
12326629--12326739	51	2.2	51	86	0	150	32	22	7	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12334352--12334395	23	1.9	23	81	9	54	50	13	18	18	1.79
12349420--12349479	30	2.0	29	83	3	75	38	0	1	60	1.07
12352430--12352459	4	7.5	4	92	0	51	26	3	23	46	1.68
12357553--12357785	123	1.9	122	83	2	306	30	23	22	24	1.99
12359171--12359241	29	2.4	30	77	15	83	25	2	2	69	1.16
12359190--12359236	6	8.0	6	78	4	51	21	2	0	76	0.89
12359196--12359242	24	2.0	23	87	4	67	25	0	2	72	0.96
12359220--12359284	29	2.3	28	86	5	94	35	0	4	60	1.18
12360213--12360256	18	2.4	18	81	11	54	47	0	2	50	1.13
12363383--12363492	55	2.0	55	98	0	211	36	10	14	39	1.80
12376896--12377087	88	2.2	88	98	0	368	19	16	20	43	1.88
12386870--12386910	21	2.0	21	90	0	64	53	2	0	43	1.13
12386882--12387156	93	3.0	92	87	4	383	44	9	2	43	1.52
12390871--12390930	31	1.9	31	93	0	102	26	35	13	25	1.93
12397032--12397060	2	14.5	2	100	0	58	48	0	0	51	1.00
12397392--12397419	14	2.0	14	100	0	56	35	7	21	35	1.81
12414777--12414951	87	2.0	87	98	0	341	38	11	15	34	1.83
12425989--12426171	87	2.1	87	98	1	357	30	27	7	33	1.85
12453617--12453753	68	2.0	68	94	2	240	37	14	22	25	1.92
12478009--12478057	23	2.1	23	85	11	64	4	14	8	73	1.21
12501248--12501286	2	19.5	2	94	0	69	0	46	0	53	1.00
12520374--12520404	2	15.5	2	100	0	62	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12525312--12525498	93	2.0	94	97	2	358	31	14	19	34	1.93
12539330--12539355	3	8.7	3	100	0	52	0	30	0	69	0.89
12546527--12546579	24	2.2	25	80	10	65	45	1	0	52	1.11
12546544--12546579	12	3.0	12	83	0	54	44	0	0	55	0.99
12546831--12546900	27	2.4	29	83	9	90	52	1	1	44	1.18
12546843--12547328	230	2.1	226	81	8	567	42	6	4	46	1.48
12549835--12549878	23	1.9	23	85	0	61	45	0	2	52	1.13
12549826--12549897	35	2.1	35	82	10	85	50	0	1	48	1.09
12550164--12550251	44	2.0	44	88	0	131	28	9	15	46	1.77
12550165--12550263	44	2.2	44	85	3	128	30	8	13	48	1.71
12552096--12552128	17	1.9	17	100	0	66	30	15	6	48	1.69
12559976--12560010	2	17.5	2	87	0	52	51	5	0	42	1.25
12565692--12565724	15	2.3	15	89	5	50	57	3	6	33	1.38
12578612--12578673	30	2.1	30	100	0	124	46	16	27	9	1.78
12578812--12578856	24	2.0	22	86	8	63	46	2	0	51	1.13
12579194--12579276	39	2.1	38	82	12	98	42	2	0	55	1.13
12579372--12579404	15	2.1	16	88	5	50	45	12	0	42	1.41
12579937--12579969	14	2.4	14	100	0	66	51	6	0	42	1.26
12580215--12580252	12	3.2	12	88	0	58	50	2	42	5	1.39
12581144--12581172	12	2.4	12	100	0	58	51	6	17	24	1.69
12582625--12582655	2	15.5	2	93	0	53	54	0	0	45	0.99
12594600--12594658	19	3.0	20	73	12	59	37	0	5	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12596090--12596118	3	9.7	3	100	0	58	34	0	65	0	0.93
12600372--12600715	128	2.7	127	83	2	357	29	15	14	39	1.88
12600464--12600730	128	2.1	128	86	0	372	30	17	14	38	1.89
12602697--12602748	22	2.4	22	81	12	70	23	7	21	48	1.75
12602706--12602766	22	2.8	22	78	9	61	27	8	16	47	1.75
12602774--12602841	23	3.0	23	80	2	84	25	13	29	32	1.93
12602887--12602945	21	2.7	22	84	5	75	40	25	10	23	1.86
12602960--12603023	22	2.9	22	75	9	67	46	15	9	28	1.77
12609867--12609925	27	2.2	27	84	0	73	20	23	13	42	1.88
12620098--12620131	9	3.8	9	96	0	59	14	0	67	17	1.23

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