genome.fa.s8.2.7.7.80.10.50.1000.5.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  5  of  19  ( 2280 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)
1409009--1409042	2	17.0	2	93	0	59	50	2	0	47	1.16
1413104--1413146	16	2.8	16	89	3	61	76	2	0	20	0.89
1413103--1413146	5	8.6	5	85	5	61	75	2	0	22	0.92
1414150--1414186	18	2.1	18	89	0	56	45	0	2	51	1.15
1414160--1414218	8	7.2	8	72	16	50	47	0	0	52	1.00
1414503--1414557	28	2.0	28	92	0	92	20	0	14	65	1.27
1416307--1416334	2	14.0	2	100	0	56	50	0	0	50	1.00
1424463--1424508	23	2.0	23	87	4	67	52	4	6	36	1.47
1429823--1430303	76	6.3	76	79	2	455	25	17	19	38	1.93
1429800--1430303	152	3.3	151	78	2	530	25	17	19	37	1.93
1433203--1433380	81	2.2	81	84	2	223	29	16	28	25	1.97
1434767--1435090	76	4.3	76	77	6	270	37	18	18	25	1.93
1435772--1435831	25	2.4	24	79	17	68	43	16	10	30	1.81
1441063--1441109	19	2.3	20	82	10	60	59	0	23	17	1.37
1444279--1444397	53	2.2	53	81	1	139	31	15	10	43	1.79
1444685--1444728	19	2.3	19	84	7	63	47	0	34	18	1.49
1449585--1449616	17	1.9	17	93	6	57	65	0	0	34	0.93
1450696--1450762	22	3.1	22	78	4	73	20	5	23	49	1.71
1450874--1450934	22	2.8	22	85	5	79	44	21	13	21	1.86
1457695--1457735	19	2.1	20	82	13	50	68	0	7	24	1.15
1457758--1457835	13	5.8	13	67	18	52	76	1	3	17	1.00
1458630--1458737	30	3.7	29	78	10	103	57	5	2	34	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459353--1459413	28	2.3	28	83	13	76	32	3	1	62	1.21
1459384--1459452	30	2.3	30	90	2	104	39	1	1	57	1.16
1459626--1459654	11	2.7	11	94	5	51	48	0	0	51	1.00
1459654--1459720	28	2.4	28	70	9	64	58	1	2	37	1.23
1465288--1465594	16	20.2	15	63	24	60	64	0	3	30	1.17
1465349--1465418	30	2.5	25	69	22	50	65	1	2	30	1.15
1465394--1465478	33	2.5	33	84	5	100	69	0	2	28	1.01
1465511--1465645	24	5.6	24	68	20	95	62	0	4	32	1.15
1471128--1471170	2	21.5	2	95	0	77	51	2	0	46	1.13
1472538--1472769	80	2.9	80	89	0	338	18	24	32	24	1.97
1474491--1474520	14	2.1	14	93	0	51	30	6	13	50	1.67
1475208--1475243	18	2.0	18	94	0	63	27	0	19	52	1.46
1475209--1475259	25	2.0	25	88	7	75	29	0	19	50	1.48
1475251--1475276	2	13.0	2	100	0	52	50	0	0	50	1.00
1480010--1480072	29	2.1	29	82	8	74	28	11	23	36	1.89
1482143--1482175	17	1.9	17	88	11	50	36	6	24	33	1.80
1482911--1482949	20	2.0	20	84	0	51	20	20	15	43	1.88
1483622--1483678	29	2.0	29	86	6	80	47	19	10	22	1.80
1499045--1499078	17	2.1	16	88	5	50	32	17	0	50	1.47
1504382--1504411	14	2.1	15	93	6	53	13	13	0	73	1.10
1504543--1504627	25	3.4	25	95	0	143	35	11	12	40	1.80
1504706--1504885	59	3.1	59	77	3	191	40	10	11	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1508658--1508722	27	2.4	28	82	10	80	44	0	4	50	1.22
1508820--1508898	22	3.4	22	73	23	72	39	2	0	58	1.12
1508558--1509087	142	3.8	144	70	18	359	39	2	2	55	1.25
1508815--1508879	27	2.4	28	89	7	98	36	1	0	61	1.05
1508763--1509021	117	2.2	113	89	4	385	39	1	1	57	1.15
1508937--1509012	22	3.4	21	81	12	89	40	1	1	56	1.16
1508946--1509063	42	2.8	41	83	8	130	43	1	1	53	1.21
1508763--1509049	114	2.5	116	85	5	287	39	1	1	56	1.20
1508846--1509139	156	1.9	153	84	9	391	38	2	2	56	1.25
1509352--1509398	22	2.1	23	84	11	62	51	0	2	46	1.13
1509394--1509451	14	4.2	14	75	4	55	37	0	5	56	1.21
1510851--1510897	2	23.5	2	91	0	76	48	4	0	46	1.21
1518495--1518527	16	2.1	16	94	0	57	21	6	30	42	1.77
1528084--1528133	18	2.9	17	84	3	64	28	2	0	70	0.99
1528550--1528596	20	2.2	22	77	7	53	34	2	6	57	1.36
1540476--1540511	18	1.9	19	94	5	65	75	0	0	25	0.81
1540539--1540617	20	4.2	19	78	12	83	70	0	1	27	0.95
1540568--1540733	33	4.6	33	68	21	102	66	0	2	30	1.09
1540651--1540733	33	2.6	33	86	5	109	67	0	0	32	0.91
1540652--1540748	23	4.2	23	75	17	85	67	0	1	31	0.98
1540574--1540798	113	2.0	113	94	1	398	64	0	3	32	1.13
1540671--1540719	7	6.6	8	77	13	52	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556773--1556832	15	4.1	14	75	8	57	45	1	38	15	1.56
1556849--1556936	34	2.6	34	83	1	104	51	7	25	15	1.71
1558521--1558561	3	13.7	3	85	10	57	0	26	2	70	0.99
1558521--1558561	12	3.4	12	93	0	64	0	26	2	70	0.99
1566330--1566374	1	45.0	1	100	0	90	0	0	0	100	0.00
1573509--1573583	30	2.5	30	93	0	132	25	6	22	45	1.77
1574734--1574775	21	2.1	21	86	8	61	47	4	19	28	1.69
1580203--1580338	41	3.3	42	85	4	179	43	20	4	31	1.72
1592129--1592162	3	11.3	3	93	0	59	32	2	0	64	1.08
1594877--1594999	35	3.5	35	84	0	156	47	17	10	23	1.79
1603701--1603769	29	2.4	29	73	9	77	52	4	23	20	1.64
1617536--1617567	9	3.6	9	91	0	55	31	9	56	3	1.47
1623342--1623380	19	2.1	19	100	0	78	10	20	33	35	1.86
1628520--1628598	31	2.5	31	79	4	79	29	10	5	55	1.54
1638535--1638562	6	4.7	6	100	0	56	28	35	0	35	1.58
1657732--1657769	14	2.9	13	85	11	51	68	2	0	28	1.03
1658479--1658509	2	15.5	2	100	0	62	51	0	0	48	1.00
1658930--1658955	2	13.0	2	100	0	52	50	0	0	50	1.00
1659819--1659877	30	2.0	30	83	9	77	35	5	1	57	1.31
1663932--1663956	2	12.5	2	100	0	50	52	0	0	48	1.00
1681202--1681242	20	2.0	20	85	4	55	51	4	0	43	1.23
1687808--1687835	2	14.0	2	100	0	56	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1699113--1699159	16	3.0	16	87	3	60	46	10	0	42	1.38
1699156--1699201	15	2.9	16	83	6	58	36	0	8	54	1.32
1702445--1702515	37	1.9	37	85	5	99	43	8	14	33	1.75
1720522--1720798	125	2.2	126	79	4	299	44	10	11	33	1.76
1720974--1721035	25	2.2	28	78	18	76	50	11	4	33	1.60
1720987--1721035	25	1.9	26	91	4	82	53	8	4	34	1.50
1721023--1721090	22	3.1	22	81	6	77	35	10	13	41	1.78
1735978--1736004	2	13.5	2	100	0	54	51	0	0	48	1.00
1744778--1744985	78	2.7	77	84	5	233	37	12	16	32	1.87
1753736--1753772	17	2.2	17	90	0	56	45	5	2	45	1.40
1760372--1760539	74	2.3	69	83	12	189	27	4	1	66	1.22
1760488--1760536	5	10.2	5	78	12	50	24	0	0	75	0.80
1760497--1760536	14	2.9	14	80	0	53	25	0	0	75	0.81
1760377--1760536	38	4.4	35	68	19	98	27	4	1	66	1.18
1762426--1762482	22	2.7	20	79	15	60	47	0	0	52	1.00
1762428--1762499	20	3.4	21	82	5	74	47	0	0	52	1.00
1762420--1762492	21	3.5	21	72	5	60	49	0	0	50	1.00
1762428--1762499	21	3.4	21	76	5	65	47	0	0	52	1.00
1766201--1766304	50	2.1	50	100	0	208	23	15	21	40	1.91
1768815--1768856	21	2.0	21	100	0	84	42	19	19	19	1.89
1771774--1771811	10	4.1	9	84	15	51	68	0	2	28	1.03
1778458--1778492	16	2.1	16	89	5	52	71	0	5	22	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1778482--1778550	8	8.0	8	78	15	75	78	1	5	14	1.01
1779092--1779133	20	2.2	19	86	4	57	61	2	11	23	1.42
1779513--1779551	19	2.1	19	95	4	71	61	0	0	38	0.96
1781288--1781315	1	28.0	1	100	0	56	0	100	0	0	0.00
1784299--1784355	25	2.3	25	85	11	73	64	0	0	35	0.93
1788849--1788964	58	2.0	58	94	0	205	33	21	12	31	1.91
1789032--1789072	2	20.0	2	95	5	73	48	0	2	48	1.14
1792689--1792859	88	2.0	88	82	4	213	32	13	12	41	1.82
1795373--1795560	62	3.0	64	72	8	179	34	17	15	33	1.91
1796148--1796192	20	2.2	20	88	0	63	46	8	4	40	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19