genome.fa.s20.2.7.7.80.10.50.1000.5.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_018397273.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3496717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 994 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)
1321131--1321198	29	2.3	29	92	2	109	48	14	10	26	1.76
1326399--1326457	29	2.2	25	76	21	66	50	11	8	28	1.68
1326409--1326465	29	2.0	29	96	0	105	50	15	5	28	1.65
1326412--1326467	17	3.6	17	72	22	68	48	17	5	28	1.69
1328427--1329075	214	3.0	214	84	4	789	46	4	7	41	1.53
1328762--1328837	27	2.9	25	80	11	73	48	5	5	40	1.48
1328427--1329075	224	3.0	222	83	6	820	46	4	7	41	1.53
1332966--1332996	2	15.5	2	93	0	53	48	0	0	51	1.00
1333757--1334972	251	4.9	249	76	7	905	49	6	8	35	1.60
1333881--1335267	251	5.7	240	75	10	916	49	6	8	35	1.60
1334070--1334972	480	1.9	485	82	5	1137	49	6	8	35	1.61
1334790--1335212	233	1.8	230	81	6	521	46	6	11	35	1.66
1335955--1335995	16	2.6	15	84	7	55	70	0	0	29	0.87
1348821--1348898	29	2.7	28	90	4	111	28	12	24	34	1.92
1349377--1349417	20	2.2	20	86	8	59	41	2	17	39	1.62
1350378--1350487	28	3.9	28	84	7	143	33	23	11	30	1.91
1351001--1351069	20	3.4	20	76	11	68	34	10	11	43	1.75
1351018--1351069	21	2.5	20	82	11	61	34	5	13	46	1.67
1351183--1351257	21	3.5	21	74	5	62	50	18	2	28	1.60
1351199--1351272	21	3.6	20	78	12	62	45	18	4	31	1.68
1351491--1351554	21	3.0	21	81	0	74	46	20	7	25	1.77
1353434--1353628	73	2.7	73	87	0	282	37	18	20	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355174--1355206	15	2.1	16	94	5	59	24	12	12	51	1.73
1357093--1357327	73	3.2	73	81	3	231	38	13	22	25	1.91
1368684--1368759	34	2.2	35	86	6	102	38	22	10	28	1.87
1369402--1369438	16	2.3	16	90	9	58	70	0	5	24	1.08
1386186--1386310	35	3.6	35	80	4	162	20	21	20	38	1.94
1386157--1386311	70	2.2	70	89	1	240	20	21	18	40	1.92
1393975--1394125	71	2.1	72	83	1	196	21	17	17	43	1.89
1396680--1396735	20	2.9	19	74	7	51	42	1	26	28	1.65
1400190--1400334	50	2.8	52	80	9	154	32	21	14	31	1.93
1434474--1434519	2	23.0	2	88	0	65	43	0	4	52	1.21
1434475--1434531	24	2.4	24	96	0	105	38	0	7	54	1.28
1434474--1434531	8	7.2	8	86	0	71	39	0	6	53	1.28
1436322--1436359	18	2.0	20	85	10	53	63	0	2	34	1.09
1436482--1436513	2	16.0	2	100	0	64	50	0	0	50	1.00
1436952--1436986	18	1.9	18	88	11	54	65	5	5	22	1.36
1443353--1443440	23	3.8	23	83	1	104	23	6	28	40	1.80
1443770--1443831	25	2.5	25	86	0	88	19	12	29	38	1.89
1444533--1444566	16	2.1	16	94	0	59	38	5	26	29	1.80
1446264--1446416	29	5.3	29	82	10	170	39	9	9	41	1.70
1451327--1451359	17	1.9	17	88	11	50	42	15	3	39	1.62
1451511--1451673	60	2.8	58	74	8	134	40	9	9	40	1.70
1451599--1451673	29	2.6	28	81	4	96	44	12	8	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455848--1456074	29	7.9	28	78	9	224	35	12	11	40	1.79
1455880--1456074	86	2.3	86	84	6	243	35	13	11	38	1.81
1455880--1456074	57	3.4	56	81	6	223	35	13	11	38	1.81
1467258--1467289	16	2.0	16	93	0	55	12	9	18	59	1.59
1467473--1467906	223	1.9	222	80	6	502	35	16	13	34	1.88
1469581--1469632	20	2.5	20	84	3	68	30	15	19	34	1.93
1473718--1473835	59	2.0	59	98	0	227	33	26	8	32	1.86
1485087--1485145	20	3.0	20	87	5	84	35	10	13	40	1.78
1492000--1492089	38	2.4	38	83	5	103	32	11	21	35	1.88
1492020--1492100	37	2.1	39	84	4	103	33	12	19	34	1.89
1497800--1497864	21	3.3	21	67	20	59	36	23	7	32	1.83
1498440--1498493	22	2.5	22	96	0	99	22	18	11	48	1.79
1512982--1513025	19	2.1	22	84	12	58	20	0	18	61	1.35
1521270--1521361	30	3.1	29	78	6	96	29	13	26	31	1.93
1522213--1522318	53	2.0	52	94	1	185	26	11	20	41	1.86
1525796--1525845	21	2.4	21	80	9	59	58	6	8	28	1.51
1527177--1527207	16	2.0	15	93	6	53	19	3	6	70	1.22
1528451--1528672	68	3.3	67	84	3	232	36	12	17	34	1.87
1532712--1532797	9	9.0	9	74	22	54	1	22	0	76	0.85
1532714--1532769	22	2.7	21	86	8	78	0	21	0	78	0.75
1532714--1532779	11	6.3	10	75	8	60	1	19	0	78	0.82
1532713--1532802	22	4.0	21	76	13	74	1	22	0	76	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532723--1532799	16	5.1	15	73	14	61	1	19	0	79	0.81
1532712--1532798	20	4.5	19	72	16	72	1	21	0	77	0.84
1532714--1532800	11	7.7	11	70	20	56	1	20	0	78	0.82
1532734--1532808	37	2.0	37	82	10	91	2	20	0	77	0.89
1537810--1538073	68	3.9	68	80	2	221	34	17	9	38	1.82
1539304--1539340	15	2.3	17	86	9	51	64	10	2	21	1.37
1547228--1547261	16	2.2	16	94	5	61	17	2	11	67	1.34
1551023--1551071	20	2.4	21	86	3	64	32	16	14	36	1.89
1561289--1561386	26	3.8	26	72	5	92	36	23	11	28	1.89
1561266--1561399	50	2.7	50	84	0	160	41	21	8	28	1.83
1567300--1567333	16	2.2	16	89	5	52	61	0	0	38	0.96
1567323--1567365	22	2.0	22	81	4	52	69	16	2	11	1.28
1567582--1567607	9	2.9	9	100	0	52	65	0	0	34	0.93
1567643--1567677	17	2.1	17	89	5	54	31	0	0	68	0.90
1575270--1575394	62	2.0	62	98	0	241	36	12	18	32	1.89
1576993--1577077	37	2.3	37	81	0	98	20	17	22	40	1.92
1578388--1578432	21	2.2	20	88	4	63	28	0	6	64	1.19
1584504--1584660	69	2.3	69	84	3	199	33	9	26	30	1.88
1584583--1584643	32	1.9	32	83	12	81	31	8	24	36	1.85
1587365--1587534	84	2.0	84	98	0	331	26	16	21	35	1.94
1594606--1594659	25	2.2	25	100	0	108	20	37	12	29	1.90
1599326--1599551	80	2.8	80	85	4	278	32	11	23	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610460--1610740	80	3.5	80	83	4	343	34	24	9	31	1.87
1624646--1624681	12	3.0	12	88	12	56	38	16	44	0	1.48
1632020--1632058	18	2.2	18	86	9	53	66	2	2	28	1.18
1645872--1645994	62	2.0	61	95	1	219	39	5	12	43	1.66
1647166--1647205	20	2.0	20	86	13	57	0	25	2	72	0.97
1656482--1656536	26	2.1	27	86	10	78	18	3	1	76	1.02
1661486--1661616	28	4.5	28	80	7	136	36	9	12	41	1.74
1661489--1661615	59	2.2	58	84	4	157	37	9	11	41	1.74
1667185--1667283	52	1.9	52	89	4	155	24	11	13	51	1.73
1673662--1673698	20	1.9	18	89	10	56	43	8	16	32	1.77
1674842--1674889	17	2.8	17	81	12	62	66	6	0	27	1.15
1678354--1678442	36	2.5	37	80	9	103	23	11	38	26	1.89
1683861--1683903	22	2.0	22	100	0	86	44	0	9	46	1.35
1684087--1684112	2	13.0	2	100	0	52	50	0	0	50	1.00
1685045--1685079	2	17.5	2	100	0	70	48	0	0	51	1.00
1686518--1686680	36	4.7	34	76	10	125	46	9	6	36	1.64
1695306--1695341	2	18.0	2	94	0	63	50	2	0	47	1.15
1711288--1711471	87	2.1	87	87	3	264	41	20	13	25	1.88
1716884--1717096	57	3.7	56	83	4	221	31	23	15	29	1.95
1717293--1717573	59	4.8	59	78	8	236	28	16	21	33	1.95
1717307--1717627	57	5.6	57	78	5	227	28	16	21	33	1.95
1730588--1730661	21	3.6	21	79	15	75	63	0	36	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1733913--1733942	7	4.3	7	100	0	60	13	13	33	40	1.83
1744183--1744362	99	1.8	98	81	1	225	28	15	12	43	1.83
1744382--1744586	98	2.1	99	83	4	254	27	13	16	43	1.84
1747454--1747494	18	2.3	18	86	0	55	68	0	31	0	0.90
1756063--1756091	2	15.0	2	92	7	51	48	0	0	51	1.00
1757782--1757825	16	2.6	17	76	20	56	50	0	0	50	1.00
1757800--1757849	19	2.6	19	87	6	66	42	4	0	54	1.19
1766151--1766199	25	2.0	25	100	0	98	22	8	32	36	1.84
1775497--1775533	12	3.0	13	84	15	60	5	37	16	40	1.71
1776182--1776226	20	2.2	20	84	4	54	57	8	0	33	1.30

Tables:   1   2   3   4   5   6   7   8   9