genome.fa.s14.2.7.7.80.10.50.1000.10.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  10  of  12  ( 1406 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)
5845466--5845713	125	2.0	125	91	0	406	34	11	18	36	1.86
5851723--5851800	26	3.1	26	83	3	88	43	7	10	38	1.67
5851868--5851929	27	2.3	27	88	2	88	48	6	9	35	1.62
5852137--5852199	25	2.5	25	81	2	72	42	6	11	39	1.66
5852139--5852216	26	3.0	25	81	3	84	43	7	8	39	1.65
5852274--5852342	27	2.5	28	83	6	97	47	5	5	40	1.51
5851547--5852381	414	2.0	413	86	6	1152	43	8	9	37	1.68
5861632--5861672	15	2.7	16	77	11	50	46	0	0	53	1.00
5873771--5873838	28	2.3	30	85	5	86	58	1	1	38	1.16
5890259--5890303	22	2.1	21	83	4	54	66	2	4	26	1.22
5890291--5890317	14	1.9	14	100	0	54	66	0	0	33	0.92
5890473--5890536	27	2.5	25	80	12	67	76	1	17	4	1.03
5890985--5891030	24	2.0	23	86	4	65	63	2	6	28	1.31
5895401--5895439	15	2.7	15	88	11	55	38	2	2	56	1.27
5906820--5906847	2	14.0	2	100	0	56	50	0	50	0	1.00
5907064--5907122	2	29.5	2	92	0	91	44	0	5	50	1.24
5908118--5908253	70	1.9	71	84	1	184	28	8	13	48	1.73
5908619--5908720	49	2.1	49	100	0	204	38	15	13	32	1.87
5908800--5908828	2	14.5	2	100	0	58	51	0	0	48	1.00
5911339--5911375	2	18.5	2	94	0	65	48	0	2	48	1.15
5919155--5919413	83	3.0	85	83	5	272	45	8	16	29	1.77
5921327--5921351	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5921794--5921832	20	2.0	20	90	5	62	43	0	7	48	1.31
5922105--5922155	25	2.1	24	85	7	68	47	1	3	47	1.32
5923260--5923309	25	2.0	25	88	0	73	38	26	16	20	1.92
5923897--5923948	24	2.1	25	85	3	70	46	1	19	32	1.61
5926218--5926363	73	2.0	72	97	1	274	28	13	19	39	1.88
5927069--5927109	21	2.0	21	90	4	66	43	2	7	46	1.44
5927382--5927413	14	2.2	15	94	5	57	37	0	0	62	0.95
5927376--5927449	35	2.1	35	85	7	98	33	0	5	60	1.19
5930459--5930505	21	2.2	21	88	7	69	70	4	0	25	1.05
5932642--5932684	16	2.6	16	81	3	50	27	2	4	65	1.25
5933476--5933510	18	1.9	18	94	0	61	68	8	0	22	1.16
5939345--5939372	2	14.0	2	100	0	56	50	0	0	50	1.00
5942089--5942116	2	14.0	2	100	0	56	50	0	0	50	1.00
5944048--5944103	2	28.0	2	88	0	85	44	1	0	53	1.11
5955268--5955329	29	2.1	29	100	0	124	40	27	9	22	1.85
5956552--5956588	15	2.5	15	90	0	56	21	45	0	32	1.52
5962442--5962494	16	3.5	15	78	14	56	52	0	3	43	1.19
5962706--5962775	27	2.5	27	82	15	81	64	0	4	31	1.13
5962721--5962786	35	1.9	34	87	9	98	62	1	4	31	1.25
5962781--5962825	13	3.1	15	75	21	51	60	0	0	40	0.97
5962942--5962974	12	2.6	13	85	9	50	33	0	0	66	0.92
5971866--5971894	3	9.7	3	100	0	58	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5971893--5971930	3	12.7	3	100	0	76	34	0	0	65	0.93
5972336--5972373	17	2.2	17	86	9	51	76	2	13	7	1.11
5978132--5978165	10	3.4	10	87	0	50	41	0	8	50	1.34
5981529--5981575	22	2.1	22	84	7	60	38	29	4	27	1.76
5987906--5987952	12	3.7	12	81	15	58	42	0	0	57	0.98
5988204--5988253	22	2.2	23	82	10	59	52	0	4	44	1.20
5988205--5988272	33	2.1	31	84	10	84	48	1	2	47	1.26
5988247--5988309	22	2.9	22	77	13	60	42	4	0	52	1.22
5988294--5988346	25	2.0	26	82	10	63	39	11	3	45	1.58
5988422--5988498	28	2.8	27	73	9	75	44	5	1	49	1.33
5988241--5988879	210	2.9	220	83	8	865	43	7	2	46	1.47
5989270--5989343	28	2.6	30	77	16	84	40	1	0	58	1.07
5989261--5989339	24	2.9	27	76	14	83	37	1	0	60	1.05
5990552--5990588	2	18.5	2	100	0	74	51	0	0	48	1.00
5990588--5990624	2	18.5	2	100	0	74	51	0	48	0	1.00
5990955--5991156	106	1.9	108	84	4	275	15	14	29	40	1.87
5995258--5995290	16	2.1	16	100	0	66	30	24	27	18	1.98
5998780--5998806	5	5.4	5	100	0	54	0	18	0	81	0.69
6000119--6000167	17	2.7	18	84	12	64	61	0	0	38	0.96
6020261--6020285	12	2.1	12	100	0	50	24	8	8	60	1.52
6020961--6021072	59	1.9	59	86	0	161	39	13	8	38	1.76
6021114--6021211	26	3.8	26	69	10	76	38	10	15	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6023782--6023815	15	2.3	15	94	0	59	41	17	8	32	1.80
6024079--6024121	18	2.4	18	80	0	50	39	16	23	20	1.92
6027097--6027134	17	2.1	19	85	9	53	60	0	0	39	0.97
6027123--6027176	29	1.9	29	88	7	85	35	1	0	62	1.06
6033803--6033883	39	2.0	40	88	2	119	35	2	1	60	1.18
6038118--6038536	51	8.2	50	80	8	384	6	32	35	24	1.82
6038130--6038537	102	4.0	101	84	3	464	7	33	35	24	1.82
6038130--6038537	153	2.7	152	80	6	432	7	33	35	24	1.82
6048658--6048689	17	1.9	16	93	6	55	59	0	3	37	1.13
6049952--6049994	15	2.9	15	100	0	86	30	0	0	69	0.88
6053226--6053259	17	2.0	17	88	11	52	50	0	0	50	1.00
6076211--6076372	84	2.0	82	88	4	245	28	22	20	29	1.98
6084752--6084801	20	2.5	20	80	6	57	54	0	0	46	1.00
6087195--6087237	15	2.8	15	82	3	50	44	6	4	44	1.52
6099946--6100102	61	2.4	63	84	9	201	35	1	3	59	1.23
6099950--6100130	68	2.8	66	82	9	194	32	1	6	60	1.28
6100118--6100550	154	2.8	154	93	2	712	39	3	2	54	1.31
6100237--6100473	52	4.6	51	65	18	132	37	3	2	56	1.30
6100459--6100559	42	2.4	41	76	14	107	40	2	1	54	1.27
6100485--6100544	16	4.3	15	79	16	67	40	0	0	60	0.97
6110280--6110328	17	3.1	17	71	17	59	40	6	10	42	1.63
6110274--6110323	14	3.4	14	74	15	55	40	6	12	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6110274--6110339	31	2.1	31	91	5	107	39	6	12	42	1.67
6110344--6110379	2	18.0	2	100	0	72	50	0	0	50	1.00
6116749--6116916	87	1.9	88	87	3	250	30	22	15	30	1.95
6120545--6120569	9	2.8	9	100	0	50	48	24	28	0	1.52
6122918--6122985	30	2.3	30	82	7	86	35	5	8	50	1.58
6126892--6127067	35	5.0	35	80	6	194	46	7	5	40	1.54
6142508--6142546	2	19.5	2	100	0	78	51	0	0	48	1.00
6145989--6146221	83	2.8	83	97	0	439	38	16	13	31	1.87
6159416--6159451	17	2.3	15	90	9	54	36	2	0	61	1.11
6159472--6159521	14	3.5	14	77	20	50	32	4	4	60	1.34
6172318--6172386	33	2.1	34	86	2	95	69	0	1	28	0.97
6172542--6172591	23	2.2	23	82	7	57	32	4	0	64	1.12
6184549--6184574	3	8.7	3	100	0	52	69	0	30	0	0.89
6201637--6201676	21	1.9	21	84	0	53	42	10	32	15	1.79
6205329--6205372	3	14.7	3	80	0	52	59	0	6	34	1.24
6205329--6205372	12	3.7	12	90	0	61	59	0	6	34	1.24
6211572--6211630	30	2.0	30	82	0	73	33	33	15	16	1.91
6211803--6211867	12	5.2	12	72	17	60	33	7	38	20	1.81
6211821--6211861	21	2.0	21	90	9	66	34	9	36	19	1.85
6211860--6211916	30	1.9	30	85	7	80	29	15	45	8	1.77
6212125--6212210	30	2.9	30	89	0	118	25	8	32	33	1.85
6235849--6235903	27	2.0	27	100	0	110	52	18	14	14	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6246069--6246103	18	1.9	18	88	0	52	28	5	22	42	1.76
6247683--6247718	18	2.0	18	100	0	72	38	11	5	44	1.63
6267039--6267103	27	2.4	27	82	10	87	40	9	7	43	1.65
6273865--6273917	28	1.9	27	88	11	81	69	0	3	26	1.05
6274904--6274930	14	1.9	14	100	0	54	44	0	0	55	0.99
6279366--6279402	11	3.7	10	89	10	58	0	21	40	37	1.54
6279396--6279454	26	2.3	26	96	0	109	23	20	32	23	1.98
6279539--6279680	68	2.2	66	92	7	236	15	11	53	19	1.72
6292947--6294086	567	2.0	572	86	3	1618	48	8	18	24	1.76
6295859--6295991	65	2.0	66	82	4	162	33	15	18	31	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12