genome.fa.s1.2.7.7.80.10.50.1000.3.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   

This is table  3  of  32  ( 3821 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)
948682--948764	43	1.9	43	87	4	123	48	7	0	44	1.30
948697--948806	22	5.0	22	71	12	91	45	5	1	47	1.36
950720--950771	13	3.8	13	78	14	52	40	5	0	53	1.25
951995--952032	15	2.5	15	83	12	51	28	0	0	71	0.87
951998--952054	26	2.1	27	81	9	64	28	5	0	66	1.13
952067--952110	12	3.4	14	73	23	51	27	11	0	61	1.30
953322--953366	21	2.2	20	88	4	63	64	2	0	33	1.06
953751--953790	16	2.4	18	84	16	59	50	5	0	45	1.23
953753--953810	18	3.2	18	77	22	52	50	5	0	44	1.24
955252--955318	21	3.2	20	89	8	98	44	8	32	13	1.75
960430--960504	35	2.1	35	100	0	150	32	2	18	46	1.63
967151--967713	292	1.9	293	89	2	862	21	21	13	42	1.88
970499--970537	2	19.5	2	100	0	78	48	0	0	51	1.00
976625--976695	35	2.0	35	100	0	142	47	5	11	35	1.63
995007--995065	28	2.1	28	93	0	100	66	11	0	22	1.24
998424--998481	27	2.1	27	90	0	89	24	18	20	36	1.95
1003556--1003660	51	2.1	51	92	0	174	20	22	19	37	1.95
1013856--1013892	2	18.5	2	100	0	74	48	0	0	51	1.00
1014819--1014851	2	16.5	2	100	0	66	51	0	0	48	1.00
1029089--1029159	26	2.6	28	82	6	83	54	1	1	42	1.17
1031556--1031585	14	2.1	14	100	0	60	13	6	53	26	1.64
1041663--1041687	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043751--1043804	24	2.3	23	87	9	74	75	3	5	14	1.12
1043770--1043811	15	2.8	15	82	7	50	76	2	7	14	1.10
1058780--1058827	16	3.1	15	76	8	51	83	0	6	10	0.81
1062909--1062949	10	3.8	11	78	15	50	29	0	2	68	1.03
1062930--1062997	24	2.7	25	80	11	77	44	0	1	54	1.09
1063271--1063330	8	7.4	8	73	16	52	48	0	0	51	1.00
1066594--1066625	15	2.1	15	100	0	64	68	12	12	6	1.37
1074319--1074357	20	1.9	21	84	5	53	74	2	0	23	0.94
1096378--1096415	20	2.0	20	89	5	60	52	2	0	44	1.14
1119060--1119308	27	9.0	27	71	4	167	43	12	5	38	1.65
1119146--1119305	82	2.0	82	80	0	185	45	12	3	38	1.60
1119086--1119308	55	4.1	54	81	1	203	43	13	4	38	1.65
1128434--1128476	21	2.0	21	82	8	52	37	0	9	53	1.33
1128499--1128555	21	2.8	21	81	7	64	43	0	1	54	1.10
1133919--1134072	78	2.0	78	96	0	281	23	42	18	15	1.89
1134021--1134136	53	2.2	53	92	0	187	15	53	13	17	1.73
1135126--1135152	2	13.5	2	100	0	54	0	0	48	51	1.00
1145558--1145592	16	2.2	16	90	10	54	28	0	0	71	0.86
1147991--1148029	21	1.9	21	89	5	62	33	25	17	23	1.96
1159487--1159527	3	13.7	3	89	0	64	0	31	31	36	1.58
1176155--1176232	29	2.6	28	73	15	68	43	1	0	55	1.08
1188051--1188165	57	2.0	57	100	0	230	31	20	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192223--1192266	19	2.4	19	85	11	56	56	0	2	40	1.11
1192237--1192279	19	2.3	19	91	0	68	48	0	0	51	1.00
1192267--1192324	27	2.2	26	81	9	73	31	1	0	67	1.01
1192266--1192342	29	2.7	27	81	16	77	35	1	0	63	1.03
1192265--1192342	28	2.8	26	79	16	77	35	1	0	62	1.03
1192265--1192323	28	2.2	28	85	11	79	30	1	0	67	1.00
1192556--1192629	28	2.6	28	80	6	85	60	0	2	36	1.11
1193132--1193180	17	2.9	16	82	11	55	42	0	0	57	0.99
1205728--1206110	209	1.8	206	82	6	473	45	7	12	34	1.71
1209406--1209430	2	12.5	2	100	0	50	52	0	0	48	1.00
1210686--1210768	42	2.0	42	100	0	166	16	15	38	28	1.90
1211182--1211221	3	13.3	3	89	0	62	32	2	2	62	1.22
1216037--1216103	20	3.5	19	75	20	68	44	0	0	55	0.99
1215840--1217364	768	2.0	772	83	7	1919	41	10	10	37	1.74
1252448--1252732	72	3.9	72	87	4	401	17	33	7	41	1.78
1252448--1252732	147	2.0	144	87	4	412	17	33	7	41	1.78
1262007--1262051	22	2.0	22	95	0	81	22	17	24	35	1.95
1271114--1271190	15	5.0	15	73	6	64	55	1	2	40	1.22
1272044--1272076	17	1.9	17	88	11	50	39	0	12	48	1.40
1275491--1275538	24	2.0	24	100	0	96	20	16	25	37	1.93
1277595--1277634	15	2.7	15	96	0	71	7	2	57	32	1.40
1292202--1292264	9	7.3	9	75	13	53	3	25	0	71	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299039--1299155	52	2.2	52	84	0	162	14	15	17	52	1.75
1299653--1299711	28	2.1	28	93	3	102	47	1	33	16	1.57
1307684--1307759	39	1.9	39	86	0	107	21	5	19	53	1.64
1312639--1312794	79	2.0	79	91	2	251	19	8	28	42	1.82
1319146--1319240	36	2.9	31	79	14	109	20	14	28	36	1.92
1324897--1324928	2	16.0	2	93	0	55	46	0	0	53	1.00
1325663--1325843	87	2.0	90	85	5	244	20	23	23	32	1.98
1326887--1326924	2	19.0	2	94	0	67	50	2	0	47	1.15
1341548--1341630	32	2.7	30	85	14	109	32	0	0	67	0.91
1341586--1341646	25	2.5	24	81	7	77	31	1	0	67	1.01
1341550--1341623	19	4.3	18	67	22	52	31	0	0	68	0.89
1345383--1345418	17	2.1	18	89	5	56	38	5	25	30	1.78
1350545--1350633	35	2.5	35	78	5	90	37	5	8	48	1.58
1351020--1351076	24	2.4	24	75	0	60	54	15	5	24	1.62
1355206--1355284	23	3.3	23	74	15	63	39	0	1	59	1.06
1355248--1355284	12	3.2	12	84	7	58	35	0	0	64	0.94
1357562--1357594	11	2.8	12	86	9	50	63	0	0	36	0.95
1358380--1358422	2	21.5	2	100	0	86	51	0	0	48	1.00
1375761--1375800	21	1.9	21	84	0	53	15	32	10	42	1.79
1381690--1381844	82	1.9	82	90	0	247	38	9	20	32	1.84
1381708--1381863	82	1.9	81	88	1	231	40	7	16	35	1.76
1381856--1381940	15	5.7	15	74	13	77	54	0	5	40	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381856--1381940	30	2.8	30	81	10	95	54	0	5	40	1.25
1382108--1382171	32	2.0	33	93	3	112	28	1	0	70	0.97
1382119--1382186	27	2.6	26	82	13	77	29	1	0	69	0.98
1382112--1382203	32	2.8	32	83	4	87	29	2	0	68	1.01
1382055--1382307	26	9.5	27	66	22	110	31	2	0	65	1.10
1382229--1382303	14	5.6	13	73	16	64	30	0	1	68	0.98
1399273--1400677	285	4.9	284	90	1	1976	20	26	15	35	1.93
1400560--1400786	117	1.9	117	93	0	391	20	29	13	37	1.90
1411266--1411345	32	2.5	32	82	8	101	57	1	0	41	1.07
1411303--1411339	12	2.8	13	88	12	58	56	0	0	43	0.99
1411430--1411568	74	1.9	74	87	3	208	48	6	5	39	1.53
1434064--1434104	21	2.0	21	100	0	82	34	14	19	31	1.92
1436129--1436157	15	1.9	15	100	0	58	48	3	0	48	1.18
1436127--1436159	17	1.9	17	100	0	66	48	3	0	48	1.17
1436126--1436160	2	17.0	2	94	5	61	48	2	0	48	1.16
1440575--1440703	43	3.0	43	89	0	204	31	11	30	27	1.92
1449793--1449830	3	12.7	3	83	10	51	28	2	0	68	1.03
1452168--1452213	15	3.1	15	87	0	74	36	6	23	32	1.81
1452366--1452494	21	6.4	19	64	20	66	32	2	0	65	1.06
1452471--1452664	55	3.5	55	72	16	179	35	2	0	61	1.13
1452515--1452680	54	3.0	53	73	20	162	33	1	0	64	1.09
1452358--1452680	110	3.0	110	87	11	451	33	2	0	63	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452534--1452606	20	3.5	22	73	17	75	32	0	0	67	0.91
1452635--1452719	32	2.6	33	81	9	102	28	2	0	69	1.01
1452526--1452727	59	3.5	58	71	19	129	32	1	0	65	1.04
1452674--1452824	49	3.0	48	73	12	119	28	3	0	67	1.11
1452757--1452835	20	4.1	19	75	18	74	31	1	0	67	0.99
1452697--1452821	54	2.3	54	84	11	152	28	2	0	68	1.08
1452358--1452823	14	30.4	15	66	21	84	32	2	0	64	1.11
1452764--1452832	32	2.1	33	87	12	99	30	1	0	68	0.99
1452756--1452818	32	2.1	30	85	8	83	26	1	0	71	0.95
1460080--1460122	2	21.5	2	95	0	77	0	46	0	53	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32