genome.fa.s8.2.7.7.80.10.50.1000.4.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_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  4  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)
991174--991228	21	2.6	21	94	2	92	20	32	7	40	1.80
997779--997810	2	16.0	2	100	0	64	0	0	50	50	1.00
998575--998622	22	2.1	22	81	11	53	8	16	18	56	1.65
1003359--1003402	10	4.3	10	82	5	52	65	4	6	22	1.35
1005192--1005228	2	18.5	2	100	0	74	48	0	0	51	1.00
1011811--1011836	2	13.0	2	100	0	52	50	0	0	50	1.00
1018087--1018149	27	2.3	28	83	10	85	55	1	0	42	1.09
1018093--1018199	42	2.6	43	81	11	125	48	1	0	49	1.12
1018167--1018274	16	6.7	16	71	14	69	39	1	0	57	1.16
1018146--1018316	79	2.1	81	91	6	278	37	1	1	59	1.15
1018312--1018399	27	3.6	25	71	19	71	43	2	4	50	1.35
1018303--1018529	123	1.8	126	86	6	338	36	2	4	55	1.35
1018433--1018495	27	2.3	27	91	2	99	39	1	4	53	1.31
1018296--1018553	123	2.1	124	80	9	316	35	2	4	57	1.32
1018426--1018627	109	1.8	108	81	5	251	38	1	3	56	1.27
1018581--1018662	19	4.0	20	73	19	71	46	0	1	52	1.08
1031859--1031897	10	3.7	10	80	12	51	69	0	0	30	0.89
1047844--1048123	64	4.2	66	76	12	232	21	8	15	54	1.68
1052383--1052446	28	2.3	28	88	0	101	35	21	10	31	1.88
1053126--1053186	21	2.9	21	85	4	70	54	11	3	31	1.52
1053281--1053366	21	4.1	21	87	0	100	47	18	8	25	1.76
1059726--1059755	5	6.0	5	92	0	51	56	40	0	3	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060375--1060430	15	3.7	15	75	2	58	48	5	5	41	1.49
1074101--1074141	16	2.8	14	82	13	55	78	4	0	17	0.93
1080302--1080327	13	2.0	13	100	0	52	61	7	15	15	1.55
1084483--1084864	45	8.5	44	79	8	340	28	16	14	40	1.88
1087364--1087523	15	9.9	15	68	18	65	33	3	0	63	1.15
1087372--1087445	21	3.5	22	79	20	86	32	0	0	67	0.91
1087464--1087531	33	2.2	30	82	12	84	26	5	1	66	1.23
1087296--1087523	113	2.0	113	94	0	402	32	3	0	62	1.20
1087590--1087637	24	2.0	25	84	12	64	25	2	0	72	0.95
1087609--1087671	33	1.9	33	87	12	94	28	3	0	68	1.05
1089629--1089659	15	2.1	15	93	0	53	45	32	3	19	1.66
1092882--1092912	4	7.8	4	100	0	62	77	0	0	22	0.77
1093204--1093230	14	1.9	14	100	0	54	22	3	7	66	1.33
1094837--1094883	21	2.2	20	78	14	51	68	4	4	23	1.26
1131951--1131988	2	19.5	2	94	5	69	0	50	0	50	1.00
1135451--1135492	21	2.0	22	85	4	59	50	4	16	28	1.66
1137624--1137691	36	1.9	35	91	8	111	30	20	13	35	1.91
1142281--1142305	2	12.5	2	100	0	50	52	0	0	48	1.00
1144382--1144456	15	5.0	15	81	0	87	36	6	25	32	1.82
1144791--1144853	33	1.9	33	90	9	103	25	3	1	69	1.12
1154723--1154838	44	2.6	46	82	5	148	30	38	6	24	1.81
1155041--1155083	2	22.0	2	90	4	70	0	53	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158359--1158386	2	14.0	2	100	0	56	0	50	0	50	1.00
1161392--1161430	8	5.0	8	81	6	53	69	2	0	28	1.02
1168254--1168286	16	2.0	17	88	5	50	24	12	0	63	1.28
1170938--1171265	53	6.2	52	75	3	219	17	28	25	28	1.98
1170938--1171262	26	12.3	26	76	3	227	17	28	25	28	1.98
1170946--1171236	80	3.6	80	80	3	291	17	29	25	28	1.97
1173539--1173694	36	4.3	36	76	11	147	40	17	23	19	1.91
1173539--1173694	72	2.2	72	80	8	183	40	17	23	19	1.91
1176434--1176468	18	1.9	18	94	0	61	57	11	5	25	1.56
1181811--1181866	29	1.9	29	92	7	96	30	21	5	42	1.75
1183566--1183602	11	3.5	11	78	14	51	75	2	21	0	0.92
1183566--1183603	20	1.9	20	100	0	76	73	5	21	0	1.02
1214231--1214256	2	13.0	2	100	0	52	50	0	0	50	1.00
1219648--1219802	67	2.3	67	84	3	204	39	25	9	25	1.85
1220126--1220275	74	2.0	74	90	0	237	23	18	16	42	1.89
1250807--1250839	16	2.1	16	88	5	50	6	15	3	75	1.11
1267643--1267682	21	2.0	21	90	5	64	47	0	5	47	1.24
1269421--1269464	10	4.3	10	82	5	52	20	6	4	68	1.31
1274049--1274080	14	2.3	14	94	0	55	21	0	3	75	0.95
1284603--1284645	14	3.0	15	87	12	56	60	0	4	34	1.17
1284934--1284980	20	2.5	18	79	6	58	27	0	4	68	1.08
1285739--1285848	55	2.0	55	92	0	184	40	9	15	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286207--1286238	15	2.0	17	88	11	50	21	9	6	62	1.47
1286249--1286305	28	2.0	28	100	0	114	38	14	10	36	1.80
1292190--1292216	2	13.5	2	100	0	54	51	0	0	48	1.00
1299222--1299630	189	2.2	179	80	5	433	41	23	11	23	1.87
1299568--1299630	22	2.9	22	78	0	63	49	22	11	17	1.78
1299603--1299644	22	1.9	22	85	0	57	50	16	14	19	1.79
1299386--1299976	211	2.8	210	86	1	783	42	24	10	22	1.85
1300046--1300110	22	3.0	22	86	0	94	36	21	6	35	1.79
1307685--1307756	31	2.3	30	79	6	81	52	16	9	20	1.72
1312797--1312883	18	5.0	18	70	13	65	56	2	0	41	1.12
1312781--1312889	51	2.1	51	91	3	175	55	1	0	43	1.10
1314678--1314768	35	2.6	35	85	0	119	46	3	21	28	1.67
1323288--1323475	101	1.9	100	88	3	288	23	15	12	48	1.78
1325515--1325730	105	2.0	111	90	8	349	32	4	0	61	1.23
1325527--1325705	54	3.3	55	70	16	158	32	5	1	60	1.25
1325690--1325772	32	2.6	32	94	5	141	30	4	0	65	1.14
1325535--1325808	105	2.6	104	82	11	299	31	5	1	62	1.24
1325690--1325782	32	2.8	32	90	6	125	31	5	0	63	1.17
1326595--1326635	18	2.2	20	84	16	54	26	2	0	70	0.99
1327230--1327277	19	2.5	20	82	3	53	8	14	2	75	1.13
1329487--1329553	29	2.3	30	92	5	118	44	7	2	44	1.47
1329759--1330726	351	2.8	349	87	2	1338	41	6	6	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1330681--1330718	15	2.4	16	80	20	53	55	0	0	44	0.99
1331287--1331406	40	3.0	40	84	6	154	20	0	17	60	1.41
1347730--1347771	3	14.0	3	100	0	84	66	0	0	33	0.92
1349892--1349934	23	1.9	22	81	13	52	51	6	2	39	1.42
1350186--1350279	45	2.1	45	86	4	127	45	6	1	46	1.35
1350903--1350994	25	3.8	25	66	15	59	67	1	2	29	1.09
1350891--1351011	48	2.5	48	71	15	115	65	0	1	32	1.08
1350977--1351126	70	2.2	68	84	6	185	64	0	4	31	1.17
1351071--1351223	28	5.4	28	72	18	95	61	0	3	35	1.12
1351097--1351162	15	4.5	15	73	19	59	66	0	0	33	0.92
1351097--1351170	21	3.5	22	82	14	93	67	0	0	32	0.91
1351111--1351177	6	11.0	6	73	20	50	68	0	0	31	0.90
1351022--1351247	113	2.0	114	93	3	395	62	0	3	33	1.15
1351109--1351177	17	4.2	16	72	18	61	68	0	0	31	0.90
1351397--1351436	15	2.7	15	96	0	71	35	25	7	32	1.84
1353275--1353330	28	2.0	28	96	0	103	55	10	8	25	1.63
1353989--1354014	3	8.7	3	100	0	52	34	65	0	0	0.93
1357375--1357404	2	15.0	2	92	0	51	50	0	3	46	1.18
1359135--1359178	20	2.2	20	87	0	61	43	9	2	45	1.48
1359313--1359364	2	26.0	2	88	0	77	50	5	0	44	1.26
1359456--1359525	35	2.0	35	94	0	122	35	24	10	30	1.88
1362316--1362588	147	1.9	141	87	8	403	31	17	19	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1368153--1368178	2	13.0	2	100	0	52	50	0	0	50	1.00
1375625--1375673	16	2.9	16	80	14	55	42	0	4	53	1.20
1382602--1382647	16	2.9	16	96	0	83	13	30	17	39	1.87
1384181--1384839	285	2.3	283	89	1	1016	34	15	19	29	1.93
1388828--1388866	3	13.0	3	100	0	78	33	0	0	66	0.92
1390522--1390563	20	2.2	20	86	4	59	40	7	2	50	1.43
1392438--1392725	78	3.7	77	80	2	283	35	21	11	31	1.89
1397935--1397979	24	1.9	23	86	4	63	44	0	2	53	1.13
1400348--1400388	15	2.7	15	84	3	55	34	0	4	60	1.18
1404662--1404706	19	2.4	19	85	3	56	11	11	6	71	1.31

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