genome.fa.s14.2.7.7.80.10.50.1000.2.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  2  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)
933659--933689	2	15.5	2	100	0	62	51	0	48	0	1.00
964385--964457	18	4.0	18	75	8	67	45	1	1	52	1.18
964385--964473	36	2.5	37	85	5	119	44	1	1	52	1.15
964595--964645	21	2.3	21	83	16	68	27	1	0	70	0.98
964647--964712	19	3.6	18	80	10	62	51	0	0	48	1.00
964681--964716	9	4.1	9	89	3	56	47	0	0	52	1.00
972597--972927	174	1.9	174	83	2	432	27	22	15	35	1.94
991400--991452	26	2.0	26	86	13	74	64	1	5	28	1.27
991500--991572	33	2.2	33	87	4	103	64	1	5	28	1.24
992260--992320	32	1.9	32	89	0	95	27	8	8	55	1.58
1010602--1010650	15	3.4	14	80	8	62	81	8	10	0	0.87
1027105--1027148	2	22.0	2	88	0	61	50	4	43	2	1.35
1044584--1044618	5	7.0	5	93	0	52	45	0	54	0	0.99
1047490--1047532	23	1.9	22	81	13	52	41	6	16	34	1.75
1050727--1050771	15	3.1	14	81	9	54	57	0	0	42	0.98
1050898--1050935	20	1.9	20	88	0	58	44	5	0	50	1.24
1057812--1057888	21	3.7	22	73	15	74	53	0	0	46	1.00
1057848--1057908	19	3.1	20	81	11	65	60	0	1	37	1.07
1060569--1060618	23	2.2	23	82	7	57	50	0	2	48	1.12
1062611--1062658	25	1.9	25	87	8	71	45	0	2	52	1.12
1073760--1073801	19	2.2	19	100	0	84	38	14	14	33	1.86
1078152--1078183	2	16.0	2	93	0	55	46	0	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078153--1078203	8	6.4	8	90	0	57	37	1	11	49	1.51
1078153--1078203	12	4.2	12	87	0	57	37	1	11	49	1.51
1080156--1080202	15	3.1	15	78	3	58	36	10	23	29	1.89
1080420--1080820	23	18.1	23	69	21	143	33	1	0	64	1.09
1080351--1080907	110	5.0	111	93	6	886	33	2	0	63	1.11
1080648--1080816	21	7.9	21	68	22	95	31	1	1	65	1.10
1080659--1080942	39	8.0	34	65	27	87	32	1	1	65	1.10
1080749--1080851	47	2.2	46	81	8	118	33	0	0	65	1.06
1080725--1080964	31	7.9	31	69	22	113	30	1	1	65	1.12
1080895--1081029	44	3.0	41	68	22	67	31	0	0	66	1.02
1081413--1081453	15	2.7	15	100	0	82	36	26	4	31	1.78
1117825--1117926	51	2.0	51	100	0	204	33	9	29	27	1.89
1117977--1118020	22	2.0	22	100	0	88	31	22	13	31	1.93
1118029--1118156	64	2.0	64	96	0	238	31	12	26	29	1.93
1118116--1118217	51	2.0	51	98	0	195	34	9	28	27	1.89
1118152--1118400	124	2.0	124	96	0	462	36	13	19	30	1.91
1118392--1118435	22	2.0	22	100	0	88	31	22	13	31	1.93
1119790--1120868	228	4.7	228	88	1	1340	20	26	24	29	1.99
1133900--1133939	21	1.9	21	85	10	55	65	2	0	32	1.06
1134596--1134676	24	3.2	25	79	11	94	58	3	37	1	1.24
1134598--1134676	33	2.4	32	78	19	83	58	3	36	1	1.24
1146394--1146448	25	2.2	25	93	0	92	14	40	18	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146394--1146433	13	3.2	13	80	20	57	15	40	17	27	1.89
1151836--1151877	18	2.3	18	87	0	57	52	0	9	38	1.34
1152191--1152233	7	6.1	7	94	0	77	0	30	39	30	1.57
1179584--1179640	15	3.6	17	68	20	52	31	0	0	68	0.90
1190520--1190573	21	2.6	21	78	0	63	35	14	24	25	1.94
1190633--1190817	91	2.0	91	98	0	361	41	9	16	32	1.81
1208912--1208941	12	2.6	11	90	10	51	50	0	3	46	1.18
1230907--1230971	33	1.9	34	90	3	105	64	12	3	20	1.40
1232883--1232907	2	12.5	2	100	0	50	48	0	0	52	1.00
1233797--1233857	15	4.0	16	74	20	51	49	4	0	45	1.23
1233156--1234171	357	3.0	339	78	11	941	41	6	6	45	1.56
1233944--1233993	18	2.8	19	75	19	54	48	4	2	46	1.32
1234069--1234103	15	2.3	15	90	0	61	48	5	0	45	1.26
1234245--1234297	19	2.8	19	75	11	54	56	5	1	35	1.34
1237155--1237196	21	2.0	20	90	4	66	57	2	0	40	1.12
1248345--1248391	19	2.5	19	73	13	51	38	2	6	53	1.39
1248539--1248567	15	1.9	15	100	0	58	51	0	6	41	1.28
1248645--1248694	18	2.8	19	75	19	54	46	2	4	48	1.32
1255058--1255193	67	2.0	66	87	6	195	28	23	2	45	1.65
1270263--1270300	18	2.2	18	86	9	53	34	34	2	28	1.71
1271459--1271519	28	2.2	28	96	0	113	37	19	9	32	1.85
1280564--1280613	22	2.2	24	78	10	59	40	14	4	42	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280580--1280659	23	3.5	24	71	6	67	36	12	5	46	1.64
1286923--1286959	15	2.5	15	100	0	74	27	21	18	32	1.97
1290051--1290107	15	3.4	17	71	26	50	0	36	63	0	0.95
1290042--1290110	33	2.2	31	85	12	88	0	39	60	0	0.97
1297507--1297570	29	2.2	29	85	0	83	43	1	0	54	1.09
1297519--1297654	30	4.5	30	82	4	148	38	2	1	56	1.23
1298496--1298543	25	2.0	24	87	4	69	41	0	2	56	1.11
1304790--1304846	25	2.3	25	96	0	105	54	3	24	17	1.59
1314254--1314295	19	2.2	19	83	8	50	40	26	7	26	1.81
1345220--1345254	3	12.0	3	93	6	63	31	0	0	68	0.90
1346290--1346403	35	3.2	35	81	6	106	35	0	10	52	1.42
1346320--1346408	35	2.6	34	85	7	108	38	1	8	51	1.41
1350565--1350773	28	7.6	27	73	10	124	41	11	6	40	1.67
1350551--1350828	55	5.1	55	77	6	233	41	11	7	39	1.68
1353304--1353344	19	2.2	18	86	4	55	19	2	2	75	1.03
1353972--1353999	2	14.0	2	100	0	56	50	0	0	50	1.00
1358633--1358659	14	1.9	14	100	0	54	62	7	0	29	1.22
1358664--1358712	25	1.9	26	83	4	64	57	8	0	34	1.29
1359781--1359930	74	2.0	74	94	0	264	21	20	21	36	1.95
1364522--1364615	43	2.2	43	98	0	179	32	13	29	23	1.93
1368104--1368141	14	2.7	14	95	0	67	13	21	39	26	1.89
1370291--1370324	15	2.3	15	89	0	50	52	0	11	35	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370948--1370976	8	3.8	8	95	4	51	0	6	0	93	0.36
1370947--1370975	14	2.0	15	93	6	51	0	10	0	89	0.48
1386792--1387074	141	2.0	141	98	0	548	36	20	11	31	1.89
1395623--1395670	21	2.2	23	85	7	64	45	2	0	52	1.12
1415770--1415810	2	20.5	2	94	0	73	0	51	0	48	1.00
1420288--1420353	20	3.1	21	71	20	66	37	6	9	46	1.60
1420356--1420389	17	2.1	17	88	5	52	41	2	0	55	1.15
1425264--1425302	19	2.1	19	100	0	78	43	10	15	30	1.80
1426925--1426959	7	4.9	7	96	3	61	28	31	25	14	1.95
1435439--1435536	44	2.2	44	88	0	142	28	17	12	41	1.85
1438597--1438630	17	2.0	17	100	0	68	47	17	17	17	1.84
1440548--1440579	13	2.4	14	94	5	57	65	0	18	15	1.27
1440986--1441025	17	2.4	17	91	8	64	5	5	22	67	1.30
1481198--1481276	40	2.0	39	95	2	140	18	22	22	35	1.96
1500745--1500786	22	1.9	22	95	0	75	50	9	14	26	1.73
1505309--1505336	14	2.0	14	100	0	56	42	28	0	28	1.56
1508837--1508892	2	28.0	2	92	0	94	50	3	0	46	1.19
1520161--1520256	31	3.2	29	62	21	70	35	22	19	21	1.96
1520129--1520261	62	2.1	62	98	0	257	37	20	22	19	1.94
1522873--1522925	6	8.8	6	80	15	65	37	0	62	0	0.96
1522879--1522939	14	4.1	15	85	10	81	40	0	59	0	0.98
1522872--1522939	2	36.5	2	71	14	56	41	0	58	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522872--1522939	22	3.2	22	86	14	99	41	0	58	0	0.98
1533524--1533571	25	1.9	25	86	0	69	18	14	22	43	1.87
1550001--1550067	35	1.9	35	90	0	107	29	35	29	4	1.77
1549990--1550210	113	2.0	113	98	0	424	23	32	34	9	1.86
1550114--1550180	35	1.9	35	90	0	107	28	34	31	5	1.81
1550267--1550365	43	2.3	44	92	1	164	32	6	29	32	1.82
1558022--1558055	2	17.0	2	93	0	59	50	2	0	47	1.16
1560835--1560874	18	2.2	18	86	0	53	2	20	35	42	1.65
1564309--1564341	17	2.0	17	88	5	50	63	6	9	21	1.45
1571732--1571767	3	11.7	3	88	5	54	0	36	0	63	0.94

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