genome.fa.s9.2.7.7.80.10.50.1000.4.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  4  of  20  ( 2302 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)
1233380--1233501	23	5.3	23	70	7	104	30	21	11	36	1.89
1241471--1241501	2	15.5	2	100	0	62	48	0	0	51	1.00
1251575--1251606	8	4.1	8	92	8	57	50	0	12	37	1.41
1251575--1251606	15	2.1	16	94	5	57	50	0	12	37	1.41
1251866--1251944	30	2.7	28	82	11	79	49	5	7	37	1.53
1251965--1252012	24	2.0	24	87	0	69	47	2	4	45	1.33
1251598--1252204	210	2.9	207	77	7	623	44	4	7	40	1.53
1252186--1252234	2	26.0	2	78	12	50	46	2	2	48	1.25
1254797--1254837	20	2.1	20	86	13	59	12	0	4	82	0.81
1254799--1254835	12	2.9	13	88	11	51	13	0	5	81	0.86
1255156--1255203	24	2.0	24	95	0	87	52	4	6	37	1.46
1255517--1255568	15	3.4	15	75	15	52	32	3	1	61	1.25
1258333--1258403	27	2.6	28	77	8	74	43	9	11	35	1.74
1258417--1258569	45	3.4	44	79	5	155	32	13	15	38	1.86
1258412--1258580	90	1.9	90	82	4	216	32	13	17	37	1.88
1258550--1258591	21	2.0	21	95	0	75	38	16	14	30	1.89
1258455--1258668	111	1.9	111	86	1	304	32	13	15	38	1.86
1258634--1258695	24	2.6	24	81	0	70	29	9	17	43	1.81
1258698--1258751	27	2.0	27	100	0	108	40	7	11	40	1.69
1266512--1266551	21	1.9	21	89	0	62	22	2	32	42	1.67
1267698--1267830	67	2.0	67	83	5	171	26	13	25	34	1.93
1280833--1280952	28	4.4	28	85	3	140	39	18	15	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286003--1286035	15	2.2	15	94	0	57	15	24	0	60	1.35
1293577--1293616	19	2.0	20	90	4	64	42	12	12	32	1.80
1294998--1295030	5	6.4	5	93	6	57	60	21	0	18	1.36
1298759--1298814	22	2.5	22	88	5	78	51	25	5	17	1.66
1298894--1298995	52	2.0	52	94	0	177	36	27	10	25	1.89
1299091--1299132	22	1.9	22	95	0	75	35	26	7	30	1.83
1299087--1299140	22	2.5	22	81	0	72	37	27	7	27	1.84
1300016--1300061	22	2.1	22	83	0	56	34	30	6	28	1.82
1320929--1320965	15	2.5	14	87	12	56	43	0	2	54	1.14
1324919--1324972	10	5.6	10	70	16	51	59	0	1	38	1.08
1337833--1338241	171	2.4	170	83	3	509	37	12	15	34	1.85
1338990--1339014	11	2.3	11	100	0	50	36	40	8	16	1.77
1339682--1339709	2	14.0	2	100	0	56	50	0	0	50	1.00
1343105--1343155	21	2.4	22	77	9	61	66	0	1	31	1.03
1344331--1344362	16	2.0	16	100	0	64	31	6	31	31	1.82
1345361--1345409	18	2.6	19	83	6	64	67	2	26	4	1.19
1346229--1346315	36	2.4	36	90	0	138	45	18	18	17	1.85
1353931--1353972	2	21.5	2	95	4	77	0	0	47	52	1.00
1361570--1361673	55	1.9	54	88	2	154	42	6	9	41	1.64
1364267--1364299	13	2.5	13	100	0	66	30	30	30	9	1.88
1368243--1368271	4	7.2	4	100	0	58	75	0	0	24	0.80
1372104--1372177	36	2.2	33	77	13	85	1	22	27	48	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1372118--1372196	36	2.2	36	93	0	131	3	24	24	48	1.68
1376208--1376253	22	2.0	23	84	12	60	28	6	17	47	1.72
1379864--1379902	20	1.9	20	84	5	51	35	0	2	61	1.10
1380482--1380538	28	2.0	29	86	10	82	33	1	0	64	1.04
1380483--1380549	28	2.6	25	74	19	66	37	2	0	59	1.13
1380812--1380905	29	3.2	29	84	13	120	59	3	2	35	1.25
1383793--1383817	13	1.9	13	100	0	50	32	0	16	52	1.44
1386524--1386556	15	2.1	16	88	5	50	63	0	3	33	1.10
1386599--1386692	45	2.1	45	100	0	188	21	27	12	38	1.90
1387042--1387082	20	2.1	19	86	4	55	46	4	0	48	1.23
1390341--1390526	93	2.0	93	100	0	372	43	15	15	26	1.86
1392126--1392184	29	2.0	29	93	0	100	32	6	30	30	1.83
1410882--1410928	24	2.0	24	95	0	85	40	8	4	46	1.54
1412986--1413031	24	1.9	24	86	0	65	36	10	4	47	1.58
1416291--1416355	32	2.0	32	82	5	78	43	13	7	35	1.73
1422120--1422214	46	2.1	46	84	4	120	7	56	18	16	1.63
1422234--1422274	21	2.1	19	86	9	55	2	82	12	2	0.86
1422515--1422559	8	5.8	8	78	5	56	13	6	60	20	1.55
1422515--1422563	23	2.1	23	92	0	80	12	8	61	18	1.55
1430131--1430200	18	3.9	18	66	7	52	40	5	5	48	1.51
1430131--1430249	54	2.2	55	81	4	134	40	5	8	46	1.56
1433136--1433203	24	3.0	23	79	10	70	35	10	5	48	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1433167--1433224	18	3.1	18	78	7	62	41	6	8	43	1.62
1433555--1433595	21	2.0	21	85	4	57	36	7	9	46	1.65
1439221--1439254	2	17.0	2	93	0	59	50	2	0	47	1.16
1444315--1444351	19	2.0	19	89	5	58	35	5	5	54	1.47
1453442--1453473	16	1.9	17	93	6	57	0	6	31	62	1.20
1456509--1456554	20	2.3	19	82	17	58	36	4	0	58	1.18
1456508--1456562	21	2.6	22	86	11	71	38	3	0	58	1.16
1458211--1458236	2	13.0	2	100	0	52	50	0	0	50	1.00
1461962--1462004	21	2.0	21	100	0	86	32	13	23	30	1.93
1461963--1462009	21	2.3	20	92	7	78	34	14	21	29	1.93
1478259--1478300	22	1.9	22	85	9	59	52	0	0	47	1.00
1478350--1478391	13	2.9	15	83	16	54	54	0	2	42	1.13
1478370--1478416	23	2.0	24	88	8	71	48	0	0	51	1.00
1488710--1488735	2	13.0	2	100	0	52	50	0	50	0	1.00
1489313--1489466	15	10.8	15	63	27	68	40	1	5	51	1.35
1489310--1489467	21	7.5	21	68	17	112	41	1	5	51	1.35
1489313--1489467	42	3.7	42	94	0	256	41	1	5	51	1.35
1495795--1495867	21	3.5	21	69	14	69	43	0	6	49	1.29
1499630--1499667	16	2.3	17	86	13	53	44	0	2	52	1.14
1502625--1502673	8	6.2	8	83	4	55	81	0	14	4	0.83
1503354--1503423	35	2.0	35	94	0	122	48	5	8	37	1.58
1512556--1512623	34	2.0	34	88	0	100	32	14	48	4	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514781--1514866	33	2.5	32	83	7	91	67	0	3	29	1.07
1515080--1515122	15	2.8	15	96	3	77	32	25	9	32	1.88
1515210--1516118	461	2.0	449	89	3	1388	40	8	21	29	1.82
1516773--1516837	28	2.3	28	76	12	71	46	1	7	44	1.41
1517077--1517116	20	2.0	20	90	0	62	50	10	2	37	1.50
1519558--1519587	14	2.1	14	93	0	51	60	16	0	23	1.36
1520913--1520937	13	1.9	13	100	0	50	36	16	0	48	1.46
1523633--1523700	34	2.0	35	82	8	86	19	22	4	54	1.61
1523706--1523873	43	3.9	43	81	0	183	16	19	17	45	1.85
1524878--1525077	79	2.5	79	82	2	231	35	23	9	33	1.86
1531743--1531819	9	8.9	8	74	17	57	19	1	1	77	0.90
1531742--1531821	16	5.0	16	72	17	60	20	1	1	77	0.91
1531744--1531810	26	2.5	26	83	11	73	20	0	1	77	0.85
1531764--1531807	23	2.0	22	90	4	70	27	0	0	72	0.85
1531999--1533100	61	17.9	62	80	3	908	28	18	17	35	1.94
1531999--1533100	124	8.9	123	79	5	949	28	18	17	35	1.94
1532199--1532298	31	3.2	31	69	5	94	23	19	21	37	1.95
1532459--1533100	31	20.9	31	66	13	112	28	18	18	34	1.94
1539362--1539386	13	1.9	13	100	0	50	0	20	0	80	0.72
1542504--1542591	20	4.4	21	69	23	82	0	29	0	70	0.88
1542510--1542594	31	2.9	31	88	10	117	0	30	0	69	0.89
1542536--1542613	22	3.5	22	72	19	54	1	25	0	73	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542723--1542750	4	7.0	4	100	0	56	25	0	0	75	0.81
1542948--1543020	31	2.4	31	92	0	119	5	6	19	68	1.33
1543189--1543233	23	2.0	23	86	8	65	28	0	0	71	0.87
1543349--1543448	49	2.0	49	94	0	173	34	19	22	25	1.96
1555059--1555091	17	1.9	17	93	0	57	27	3	24	45	1.68
1556834--1556999	68	2.4	68	80	0	197	32	18	10	37	1.86
1560432--1560497	29	2.2	30	83	2	80	34	18	18	28	1.94
1560371--1560533	83	2.0	83	82	2	202	36	14	14	34	1.87
1561561--1561629	30	2.4	29	80	9	79	36	10	24	28	1.88
1561853--1561919	36	1.9	35	88	11	102	13	20	7	58	1.59

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20