genome.fa.s12.2.7.7.80.10.50.1000.3.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  3  of  18  ( 2130 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)
1073533--1073587	27	2.0	28	82	10	69	5	20	1	72	1.13
1076674--1076792	34	3.5	34	77	8	109	38	3	11	46	1.57
1076682--1076742	17	3.4	19	72	25	60	37	3	11	47	1.56
1079457--1079488	2	16.0	2	93	0	55	50	3	0	46	1.17
1084272--1085686	170	8.3	170	78	6	1254	37	12	10	39	1.77
1084272--1085686	682	2.1	681	81	4	1666	37	12	10	39	1.77
1087815--1087874	20	3.0	20	78	9	68	33	8	18	40	1.80
1088014--1088063	21	2.4	21	86	6	66	50	12	8	30	1.68
1088157--1088223	21	3.1	21	76	4	71	49	17	4	28	1.66
1088309--1088393	21	4.0	21	78	6	73	49	18	8	23	1.74
1091884--1091924	3	13.7	3	94	0	64	60	0	4	34	1.18
1093006--1093030	2	12.5	2	100	0	50	48	0	0	52	1.00
1093849--1094164	166	1.9	167	81	9	392	44	10	7	37	1.67
1105316--1105344	2	14.5	2	100	0	58	51	0	0	48	1.00
1106511--1106543	11	3.0	11	95	0	57	51	0	39	9	1.34
1107886--1107946	29	2.1	29	93	0	104	44	13	11	31	1.79
1108591--1108632	19	2.2	19	87	8	59	40	9	9	40	1.70
1116711--1116869	82	1.9	82	96	0	291	30	18	18	33	1.95
1119333--1119372	19	2.2	19	86	4	55	50	0	2	47	1.14
1119355--1119384	11	2.7	11	89	0	51	56	0	0	43	0.99
1130769--1130815	12	4.0	12	86	13	71	40	17	42	0	1.49
1130769--1130812	23	1.9	23	90	9	72	38	18	43	0	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144816--1145315	277	1.8	274	86	5	729	33	11	17	37	1.86
1157848--1157877	15	1.9	16	93	6	53	43	6	20	30	1.77
1166708--1166732	13	1.9	13	100	0	50	16	16	24	44	1.86
1179355--1179390	2	18.5	2	94	5	65	0	0	47	52	1.00
1182903--1182961	28	2.1	28	100	0	118	20	25	20	33	1.97
1185320--1185348	1	29.0	1	100	0	58	0	0	0	100	0.00
1191860--1191895	14	2.5	14	86	4	54	69	0	0	30	0.89
1191864--1191898	17	2.1	17	89	10	54	68	0	0	31	0.90
1198790--1198850	21	3.0	21	76	11	72	37	9	9	42	1.71
1200403--1200586	29	6.4	30	76	9	161	28	5	23	41	1.78
1200432--1200588	57	2.8	57	88	0	242	28	6	23	41	1.79
1201417--1201458	21	2.0	20	90	4	66	28	0	9	61	1.27
1202107--1202154	12	4.0	12	83	8	62	39	14	41	4	1.65
1205270--1205326	27	2.1	27	100	0	114	36	22	3	36	1.72
1206148--1206180	17	1.9	17	88	11	50	9	30	0	60	1.27
1207615--1207639	12	2.1	12	100	0	50	52	16	0	32	1.44
1227272--1227583	27	11.6	27	77	6	231	30	10	19	39	1.85
1227272--1227583	55	5.8	55	78	4	271	30	10	19	39	1.85
1227272--1227583	82	3.9	82	75	6	228	30	10	19	39	1.85
1227487--1227597	27	4.1	26	78	6	105	24	11	25	38	1.89
1227486--1227600	54	2.2	52	85	4	151	26	12	24	37	1.90
1228347--1228418	35	2.1	35	100	0	144	37	25	11	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231961--1232001	20	2.0	20	85	0	55	36	24	12	26	1.91
1235124--1235195	20	3.4	20	76	14	81	33	13	15	37	1.87
1235134--1235201	20	3.2	20	76	15	82	38	13	13	35	1.83
1235124--1235209	44	2.0	44	97	0	163	36	12	15	36	1.85
1238534--1238569	18	2.0	18	94	0	63	44	13	5	36	1.68
1240502--1240757	35	7.3	35	80	3	248	44	11	5	37	1.65
1240502--1240695	107	1.8	106	85	3	273	44	13	6	35	1.69
1240479--1240757	142	2.0	141	82	3	348	43	12	6	37	1.68
1245650--1245694	2	22.5	2	81	0	54	48	4	2	44	1.35
1246118--1246144	14	1.9	14	100	0	54	25	7	14	51	1.68
1249084--1249168	28	3.1	28	87	1	118	35	16	12	35	1.87
1255796--1255844	20	2.3	22	86	6	66	65	4	0	30	1.11
1255796--1255846	14	3.7	13	76	19	50	64	3	0	31	1.11
1255805--1255855	14	3.6	14	78	19	52	64	1	0	33	1.05
1257512--1257543	16	2.0	16	93	0	55	43	34	6	15	1.72
1257732--1257797	33	2.0	33	100	0	132	33	9	30	27	1.88
1266693--1266787	42	2.3	42	94	0	163	44	7	7	41	1.60
1271038--1271115	28	2.8	27	76	5	75	26	10	25	37	1.88
1271120--1271214	36	2.7	37	82	8	117	30	11	22	35	1.89
1271130--1271214	35	2.4	35	82	5	100	31	11	22	34	1.90
1275897--1275923	4	6.8	4	100	0	54	77	0	0	22	0.76
1287945--1288013	22	3.1	22	87	0	84	18	5	24	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292986--1293046	29	2.1	29	87	0	86	37	6	24	31	1.81
1294374--1294612	23	10.4	23	67	0	118	29	25	12	33	1.92
1294422--1294533	46	2.4	46	81	0	143	33	24	11	31	1.91
1294422--1294590	92	1.8	92	84	0	230	30	26	12	30	1.93
1294422--1294612	46	4.2	46	72	6	136	30	25	12	32	1.92
1297978--1298022	4	11.2	4	100	0	90	51	24	0	24	1.49
1309007--1309139	32	4.2	32	95	2	225	31	12	15	40	1.84
1309043--1309127	16	5.4	16	64	1	55	28	11	16	43	1.83
1309052--1309109	16	3.4	19	64	26	56	34	12	15	37	1.85
1311963--1311994	2	16.0	2	100	0	64	50	0	0	50	1.00
1315832--1315920	21	4.2	21	83	1	106	26	16	15	40	1.89
1315832--1315920	42	2.1	43	91	2	144	26	16	15	40	1.89
1318909--1318936	8	3.5	8	100	0	56	10	10	0	78	0.96
1318901--1318988	28	3.2	27	77	15	83	11	11	0	77	1.00
1327140--1327229	31	2.9	31	96	0	162	41	16	11	31	1.83
1330438--1330483	24	1.9	24	100	0	92	30	13	0	56	1.37
1341453--1341495	16	2.6	17	81	7	52	69	13	0	16	1.19
1341465--1341495	16	1.9	16	93	0	53	64	19	0	16	1.29
1341862--1342546	346	2.0	346	85	2	919	26	12	17	44	1.84
1346133--1346289	35	4.4	36	81	4	194	33	10	15	41	1.80
1346133--1346289	71	2.2	71	87	1	226	33	10	15	41	1.80
1346158--1346310	35	4.3	35	80	3	164	34	9	16	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353541--1353676	35	3.9	35	78	4	157	33	8	13	44	1.73
1353543--1353729	35	5.3	35	72	3	124	34	7	12	40	1.71
1363045--1363084	11	3.5	11	83	6	53	67	10	0	22	1.20
1363046--1363093	23	2.1	23	84	7	62	68	8	0	22	1.16
1366573--1366643	35	2.0	35	100	0	142	29	8	16	45	1.77
1373766--1373791	6	4.3	6	100	0	52	30	0	0	69	0.89
1379434--1379464	15	2.1	15	93	0	53	25	6	22	45	1.76
1379611--1379637	13	2.1	13	100	0	54	29	14	22	33	1.94
1383931--1383959	15	1.9	15	100	0	58	41	6	20	31	1.79
1384254--1384322	35	2.0	35	85	0	93	39	5	10	44	1.62
1386915--1386952	17	2.1	19	90	9	62	44	15	0	39	1.47
1387424--1387453	14	2.1	14	93	0	51	43	13	13	30	1.82
1388543--1388602	25	2.4	25	85	0	84	25	31	16	26	1.96
1397608--1397650	22	2.0	22	81	9	52	72	9	9	9	1.30
1399419--1399467	25	2.0	25	83	0	62	34	14	28	22	1.93
1401265--1401411	73	2.0	73	98	0	285	31	25	17	25	1.97
1419107--1419153	18	2.6	18	83	6	60	68	2	6	23	1.24
1423417--1423495	8	10.1	8	81	10	85	62	1	36	0	1.04
1423437--1423507	23	3.1	23	78	11	74	66	0	33	0	0.92
1424288--1424326	2	19.0	2	89	5	60	46	2	2	48	1.29
1435936--1435978	19	2.3	19	92	4	70	48	2	4	44	1.36
1444627--1444708	35	2.3	35	89	0	119	32	25	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1469861--1469944	43	2.0	43	81	9	100	42	19	13	25	1.86
1474372--1474396	11	2.3	11	100	0	50	72	0	0	28	0.86
1474491--1474529	19	2.1	19	90	0	60	56	0	5	38	1.22
1474804--1474862	30	2.0	30	83	6	75	47	0	28	23	1.52
1477071--1477129	25	2.4	25	76	0	64	35	16	23	23	1.95
1485891--1485944	18	2.8	19	83	13	67	61	7	1	29	1.34
1487576--1487714	71	2.0	71	81	8	167	41	12	15	30	1.84
1513245--1513285	21	2.0	21	95	0	73	0	29	0	70	0.87
1513242--1513286	14	3.0	15	83	6	56	0	31	0	68	0.89
1518227--1518262	19	1.9	20	88	11	58	80	0	13	5	0.88

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