genome.fa.s29.2.7.7.80.10.50.1000.4.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_018397282.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_25.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1368273

Tables:   1   2   3   4   

This is table  4  of  4  ( 427 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)
1119837--1119930	42	2.2	43	87	7	131	24	13	25	36	1.93
1125358--1125403	23	2.0	23	91	0	74	13	21	8	56	1.63
1125825--1125901	30	2.6	29	79	4	91	40	11	7	40	1.71
1125975--1126028	24	2.2	24	83	12	65	40	9	9	40	1.69
1127876--1127940	23	2.8	23	100	0	130	36	0	0	63	0.95
1133148--1133208	30	2.0	30	96	0	113	47	11	19	21	1.81
1134561--1134607	19	2.6	17	81	18	51	25	8	12	53	1.67
1134952--1134987	3	12.0	3	93	0	63	63	0	2	33	1.08
1153726--1153809	39	2.2	39	97	2	161	41	10	11	35	1.77
1153782--1153870	29	3.1	28	82	6	106	42	7	13	35	1.73
1155413--1155438	6	4.3	6	100	0	52	50	34	15	0	1.45
1161085--1161235	29	5.3	28	77	6	151	39	11	13	36	1.80
1161085--1161235	58	2.7	55	83	8	178	39	11	13	36	1.80
1161091--1161255	87	1.9	87	80	5	190	39	9	12	38	1.76
1175136--1175180	17	2.6	17	100	0	90	55	6	8	28	1.56
1182999--1183175	90	2.0	90	84	4	232	31	10	12	45	1.77
1183656--1183717	28	2.2	28	85	0	79	38	16	17	27	1.91
1184033--1184078	13	3.5	13	81	0	56	36	2	4	56	1.31
1186088--1186157	28	2.5	28	86	6	81	52	20	4	22	1.63
1193625--1193712	35	2.5	35	79	0	104	31	20	9	38	1.84
1200989--1201087	52	1.9	52	87	4	146	50	13	9	27	1.71
1201230--1201300	34	2.1	34	86	2	97	40	26	9	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1203586--1203643	24	2.4	24	91	0	89	60	22	3	13	1.49
1208004--1208031	2	14.0	2	100	0	56	50	0	0	50	1.00
1210598--1210630	16	2.1	16	100	0	66	33	30	6	30	1.82
1212897--1213009	56	2.0	56	98	0	217	19	28	15	37	1.92
1213569--1213595	13	2.1	13	100	0	54	29	0	7	62	1.22
1213884--1213947	18	3.6	18	75	10	60	35	1	0	62	1.05
1213887--1213951	29	2.3	26	84	10	76	35	1	0	63	1.04
1213900--1213972	9	8.2	9	74	19	73	32	0	0	67	0.91
1213901--1213983	27	3.0	27	85	5	105	28	0	0	71	0.87
1220158--1220220	29	2.1	30	91	2	101	47	11	9	31	1.71
1225467--1225529	29	2.2	29	91	0	99	49	12	9	28	1.72
1225560--1225621	26	2.4	25	82	15	72	64	11	3	20	1.40
1225560--1225624	27	2.5	26	78	16	71	64	10	3	21	1.38
1232627--1232699	38	1.9	38	88	0	110	28	12	16	42	1.84
1233892--1234119	117	1.9	116	81	10	268	33	9	8	48	1.66
1237916--1237941	8	3.2	8	100	0	52	26	38	0	34	1.57
1238777--1238839	33	1.9	32	84	12	83	66	1	3	28	1.16
1239252--1239298	23	2.0	23	100	0	94	31	17	8	42	1.79
1249417--1249467	21	2.5	20	78	12	59	45	0	1	52	1.12
1249274--1249898	220	2.9	213	82	8	789	46	4	7	41	1.53
1256338--1256372	2	17.5	2	93	0	61	48	0	2	48	1.16
1263147--1263184	16	2.4	16	91	8	60	18	21	2	57	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263153--1263192	17	2.4	16	87	4	53	20	27	2	50	1.61
1265537--1265591	28	2.0	28	88	0	83	29	18	27	25	1.98
1275307--1275331	2	12.5	2	100	0	50	48	0	0	52	1.00
1277182--1277254	25	2.9	25	100	0	146	36	32	4	26	1.75
1288830--1288923	27	3.4	28	80	5	100	29	11	8	50	1.69
1288833--1288925	29	3.3	28	80	5	98	27	11	8	51	1.68
1289065--1289292	123	1.9	123	87	0	339	35	12	8	44	1.72
1290867--1290894	14	2.0	14	100	0	56	21	35	28	14	1.92
1290920--1290977	27	2.1	27	100	0	116	25	34	29	10	1.89
1290995--1291052	15	3.9	15	88	4	91	29	5	34	31	1.79
1290996--1291052	29	1.9	30	92	3	98	29	5	35	29	1.79
1298353--1298392	19	2.2	19	86	4	55	50	0	5	45	1.23
1322642--1322736	41	2.3	41	94	0	172	41	5	20	33	1.74
1327033--1327192	30	5.4	30	79	0	133	31	25	15	27	1.96
1327078--1327192	60	1.9	59	83	1	149	32	24	15	27	1.95
1327795--1327882	28	3.2	28	93	1	142	30	10	12	46	1.75
1327795--1327882	27	3.2	27	91	1	131	30	10	12	46	1.75
1334366--1334411	2	23.0	2	90	0	74	45	0	4	50	1.21
1335340--1335375	2	18.0	2	100	0	72	50	0	0	50	1.00
1336149--1336198	11	4.5	11	76	16	50	40	0	2	58	1.10
1336157--1336214	22	2.7	21	78	5	62	50	0	3	46	1.18
1336413--1336447	17	2.1	17	94	0	61	34	8	0	57	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359764--1359800	18	2.1	18	94	0	65	16	40	5	37	1.71

Tables:   1   2   3   4

The End!