Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008463.1 Hibiscus syriacus cultivar Beakdansim tig00111276_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1833679
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:1324203 original size:11 final size:10
Alignment explanation
Indices: 1324166--1324218 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 10
1324156 GATAAAGAGC
1324166 TAAATT-TAT
1 TAAATTATAT
*
1324175 TAAATTATTT
1 TAAATTATAT
*
1324185 TCAATTATGAT
1 TAAATTAT-AT
1324196 TAAATTAT-T
1 TAAATTATAT
1324205 T-AATTATA-
1 TAAATTATAT
1324213 TAAATT
1 TAAATT
1324219 TTTAGAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 7 0.19
9 12 0.33
10 9 0.25
11 8 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (10 bp):
TAAATTATAT
Found at i:1326088 original size:2 final size:2
Alignment explanation
Indices: 1326081--1326109 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1326071 AACAATATTA
1326081 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1326110 ATACTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1326441 original size:27 final size:27
Alignment explanation
Indices: 1326392--1326444 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1326382 CCATCACCAC
* *
1326392 TTTAAACTTGAAACTCCATAGCATCAT
1 TTTAAACTTAAAACTCCAGAGCATCAT
* *
1326419 TTTAAACTTAAAAGTTCAGAGCATCA
1 TTTAAACTTAAAACTCCAGAGCATCA
1326445 AGATCTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTAAACTTAAAACTCCAGAGCATCAT
Found at i:1329295 original size:21 final size:21
Alignment explanation
Indices: 1329271--1329326 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
1329261 TTTAGTCGAG
** *
1329271 TCAGATGCCACCGCTTCCATA
1 TCAGATGCCACCGCAACAATA
* *
1329292 TCAGATGGCACTGCAACAATA
1 TCAGATGCCACCGCAACAATA
*
1329313 TCAGGTGCCACCGC
1 TCAGATGCCACCGC
1329327 CGTAGGGTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAGATGCCACCGCAACAATA
Found at i:1333580 original size:24 final size:24
Alignment explanation
Indices: 1333548--1333605 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
1333538 TCCAGAAGCT
* *
1333548 GAGTCAACTTAGACTAAGTTGACC
1 GAGTCAACTCAGACCAAGTTGACC
*
1333572 GAGTTAACTCAGACCAAGTTGACC
1 GAGTCAACTCAGACCAAGTTGACC
1333596 GAGTCAACTC
1 GAGTCAACTC
1333606 GTTAACCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (24 bp):
GAGTCAACTCAGACCAAGTTGACC
Found at i:1335187 original size:24 final size:23
Alignment explanation
Indices: 1335160--1335249 Score: 101
Period size: 24 Copynumber: 3.9 Consensus size: 23
1335150 CACCATAGCT
* *
1335160 CGTATAAATTGCACCGTAGTGCCA
1 CGTAGAAATTGCA-CGAAGTGCCA
*
1335184 CGTAGAATTTGCACGAAGTGCCA
1 CGTAGAAATTGCACGAAGTGCCA
*
1335207 CGTAGAATTTGCACCGAAGTGCCA
1 CGTAGAAATTGCA-CGAAGTGCCA
* *
1335231 TGTAGAAA-TGCACGTAGTG
1 CGTAGAAATTGCACGAAGTG
1335250 ACATATAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
22 6 0.10
23 26 0.44
24 27 0.46
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (23 bp):
CGTAGAAATTGCACGAAGTGCCA
Found at i:1335242 original size:23 final size:24
Alignment explanation
Indices: 1335168--1335237 Score: 115
Period size: 23 Copynumber: 3.0 Consensus size: 24
1335158 CTCGTATAAA
*
1335168 TTGCACCGTAGTGCCACGTAGAAT
1 TTGCACCGAAGTGCCACGTAGAAT
1335192 TTGCA-CGAAGTGCCACGTAGAAT
1 TTGCACCGAAGTGCCACGTAGAAT
*
1335215 TTGCACCGAAGTGCCATGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
1335238 ATGCACGTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 22 0.51
24 21 0.49
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (24 bp):
TTGCACCGAAGTGCCACGTAGAAT
Found at i:1354946 original size:79 final size:80
Alignment explanation
Indices: 1354719--1354956 Score: 378
Period size: 79 Copynumber: 3.0 Consensus size: 80
1354709 TGTTTCAAAG
1354719 GTGGAGATACGATACTGACAGGCTATGTAGATGC-GACTTAGCCGGAAATGTTGACATCAGAAGA
1 GTGGAGATACGATACTGACAGGCTATGTAGATGCTGACTTAGCCGGAAATGTTGACATCAGAAGA
***** *
1354783 AGCACTACTTTCAAAG
66 AGCACTAC-AGGGTAT
1354799 GTGGAGATACGATACTGACAGGCTATGTAGA---TGACTTAGCCGGAAATGTTGACATCAGAAGA
1 GTGGAGATACGATACTGACAGGCTATGTAGATGCTGACTTAGCCGGAAATGTTGACATCAGAAGA
1354861 AGCACTACAGGGTAT
66 AGCACTACAGGGTAT
1354876 G-GGAGATACGATACTGACAGGCTATGTAGATGCTGACTTAGCCGGAAATGTTGACATCAGAAGA
1 GTGGAGATACGATACTGACAGGCTATGTAGATGCTGACTTAGCCGGAAATGTTGACATCAGAAGA
1354940 AGCACTACAGGGTAT
66 AGCACTACAGGGTAT
1354955 GT
1 GT
1354957 CTATACTCTA
Statistics
Matches: 147, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
76 29 0.20
77 2 0.01
78 38 0.26
79 47 0.32
80 31 0.21
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.22
Consensus pattern (80 bp):
GTGGAGATACGATACTGACAGGCTATGTAGATGCTGACTTAGCCGGAAATGTTGACATCAGAAGA
AGCACTACAGGGTAT
Found at i:1356501 original size:4 final size:4
Alignment explanation
Indices: 1356492--1356517 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1356482 ATATTAAGAG
1356492 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
1356518 AGAAAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:1363600 original size:2 final size:2
Alignment explanation
Indices: 1363593--1363624 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1363583 ATTGACATAA
1363593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1363625 GAATATAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1364662 original size:23 final size:23
Alignment explanation
Indices: 1364626--1364671 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1364616 CATTATTATA
* *
1364626 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTCCAGTGCAATTATACG
*
1364649 TGGCACTTCAGTGCAATTATACG
1 TGGCACTCCAGTGCAATTATACG
1364672 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (23 bp):
TGGCACTCCAGTGCAATTATACG
Found at i:1368185 original size:21 final size:21
Alignment explanation
Indices: 1368159--1368202 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1368149 TTGAGCTGAA
1368159 AATGAAGTGATTTTCGAGCTC
1 AATGAAGTGATTTTCGAGCTC
1368180 AATGAAGTGATTTTCGAGCTC
1 AATGAAGTGATTTTCGAGCTC
1368201 AA
1 AA
1368203 CATGTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (21 bp):
AATGAAGTGATTTTCGAGCTC
Found at i:1368211 original size:20 final size:21
Alignment explanation
Indices: 1368163--1368212 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1368153 GCTGAAAATG
*
1368163 AAGTGATTTTCGAGCTCAATG
1 AAGTGATTTTCGAGCTCAATC
1368184 AAGTGATTTTCGAGCTCAA-C
1 AAGTGATTTTCGAGCTCAATC
*
1368204 ATGTGATTT
1 AAGTGATTT
1368213 CTGGGCTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (21 bp):
AAGTGATTTTCGAGCTCAATC
Found at i:1370016 original size:14 final size:14
Alignment explanation
Indices: 1369997--1370024 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1369987 GTGTACAAGT
1369997 GGATAGTGGTTGCA
1 GGATAGTGGTTGCA
1370011 GGATAGTGGTTGCA
1 GGATAGTGGTTGCA
1370025 TGACAGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.43, T:0.29
Consensus pattern (14 bp):
GGATAGTGGTTGCA
Found at i:1380888 original size:3 final size:3
Alignment explanation
Indices: 1380880--1380941 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
1380870 GACATGGCAG
* * * * *
1380880 CTT CTT CTT C-T CCT CCT CTT CTG CTT TTT CTT CTT CTCC CTT CTTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT C-TT
1380926 CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT C
1380942 AAAACAGTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.86
4 5 0.10
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:1380917 original size:26 final size:26
Alignment explanation
Indices: 1380880--1380941 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
1380870 GACATGGCAG
1380880 CTTCTTCTTCTCCTCCTC-TTCTGCTT
1 CTTCTTCTTCTCC-CCTCTTTCTGCTT
* * *
1380906 TTTCTTCTTCTCCCTTCTTTCTTCTT
1 CTTCTTCTTCTCCCCTCTTTCTGCTT
1380932 CTTCTTCTTC
1 CTTCTTCTTC
1380942 AAAACAGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.60
Consensus pattern (26 bp):
CTTCTTCTTCTCCCCTCTTTCTGCTT
Found at i:1380937 original size:23 final size:23
Alignment explanation
Indices: 1380879--1380939 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
1380869 TGACATGGCA
*
1380879 GCTTCTTCTTCTCCTCCTCTTCT
1 GCTTCTTCTTCTTCTCCTCTTCT
*
1380902 GCTTTTTCTTCTTCTCC-CTTCTT
1 GCTTCTTCTTCTTCTCCTCTTC-T
*
1380925 TCTTCTTCTTCTTCT
1 GCTTCTTCTTCTTCT
1380940 TCAAAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.00, C:0.38, G:0.03, T:0.59
Consensus pattern (23 bp):
GCTTCTTCTTCTTCTCCTCTTCT
Found at i:1383040 original size:2 final size:2
Alignment explanation
Indices: 1383033--1383067 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1383023 TAGTTAATTA
1383033 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1383068 ATTTGGTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1387887 original size:2 final size:2
Alignment explanation
Indices: 1387880--1387907 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1387870 ATTAAATACA
1387880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1387908 TAATCTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1391818 original size:23 final size:23
Alignment explanation
Indices: 1391788--1391832 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1391778 CTTTCGTGGA
* *
1391788 GAAAAATAATAGCTTTTGAATAG
1 GAAAAATAATAACTTTCGAATAG
1391811 GAAAAATAATAACTTTCGAATA
1 GAAAAATAATAACTTTCGAATA
1391833 TCTAAACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (23 bp):
GAAAAATAATAACTTTCGAATAG
Found at i:1391861 original size:105 final size:105
Alignment explanation
Indices: 1391679--1392040 Score: 602
Period size: 105 Copynumber: 3.4 Consensus size: 105
1391669 GCTAACGTAA
*
1391679 TGGAGAAAAATAATAGCTTTCAAATAGGCAAAATAATAACTTTCGAATATCTATACATATTGTTT
1 TGGAGAAAAATAATAGCTTTCGAATAGGCAAAATAATAACTTTCGAATATCTATACATATTGTTT
*
1391744 TACTGGTTTACTGCTTGGCAGCAATGTTTTTATGCTTTCG
66 TACTGGTTTACTGCTTGGCAGCAGTGTTTTTATGCTTTCG
* * *
1391784 TGGAGAAAAATAATAGCTTTTGAATAGGAAAAATAATAACTTTCGAATATCTAAACATATTGTTT
1 TGGAGAAAAATAATAGCTTTCGAATAGGCAAAATAATAACTTTCGAATATCTATACATATTGTTT
*
1391849 TACTGGTTTACTGCTTGGCAGCAGTGTTTTTATGTTTTCG
66 TACTGGTTTACTGCTTGGCAGCAGTGTTTTTATGCTTTCG
1391889 TGGAGAAAAATAATAGCTTTCGAATAGGCAAAATAATAACTTTCGAATATCTATACATATTGTTT
1 TGGAGAAAAATAATAGCTTTCGAATAGGCAAAATAATAACTTTCGAATATCTATACATATTGTTT
* *
1391954 TACTAGTTTACTGTTTGGCAGCAGTGTTTTCTA--CTTTCG
66 TACTGGTTTACTGCTTGGCAGCAGTGTTTT-TATGCTTTCG
* *
1391993 TGGAGAAAAATAATAGCTTTCGAATAGGTAAAATAATAGCTTTTCGAA
1 TGGAGAAAAATAATAGCTTTCGAATAGGCAAAATAATAAC-TTTCGAA
1392041 ACGTGAACAA
Statistics
Matches: 241, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
104 43 0.18
105 196 0.81
106 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (105 bp):
TGGAGAAAAATAATAGCTTTCGAATAGGCAAAATAATAACTTTCGAATATCTATACATATTGTTT
TACTGGTTTACTGCTTGGCAGCAGTGTTTTTATGCTTTCG
Found at i:1395049 original size:12 final size:12
Alignment explanation
Indices: 1395032--1395056 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1395022 TATGTGAAAC
1395032 TTCACAAAGTGG
1 TTCACAAAGTGG
1395044 TTCACAAAGTGG
1 TTCACAAAGTGG
1395056 T
1 T
1395057 GACTTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TTCACAAAGTGG
Found at i:1398348 original size:20 final size:20
Alignment explanation
Indices: 1398323--1398365 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1398313 TCTAAGAGCC
*
1398323 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
1398343 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
1398363 CAT
1 CAT
1398366 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:1406077 original size:13 final size:13
Alignment explanation
Indices: 1406056--1406090 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1406046 CCCACTTACT
1406056 TTTCACTTTTCAC
1 TTTCACTTTTCAC
* *
1406069 TTTCTCTTTTTAC
1 TTTCACTTTTCAC
1406082 TTTCACTTT
1 TTTCACTTT
1406091 CTAGTTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCACTTTTCAC
Found at i:1408137 original size:7 final size:7
Alignment explanation
Indices: 1408125--1408156 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1408115 CGCATAAAAA
1408125 AAAGAAG
1 AAAGAAG
1408132 AAAGAAG
1 AAAGAAG
1408139 AAAGAA-
1 AAAGAAG
1408145 AAA-AAG
1 AAAGAAG
1408151 AAAGAA
1 AAAGAA
1408157 ATATAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.09
6 6 0.26
7 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:1408742 original size:20 final size:20
Alignment explanation
Indices: 1408717--1408759 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1408707 TCTAAGAGCC
*
1408717 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
1408737 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
1408757 CAT
1 CAT
1408760 GTAGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:1414534 original size:21 final size:21
Alignment explanation
Indices: 1414510--1414568 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1414500 TGAAAAATGA
*
1414510 AGCAAAGGAAGCAGAGAGAGC
1 AGCAGAGGAAGCAGAGAGAGC
* ** *
1414531 AGCAGTGGAAGCAGCCAGGGC
1 AGCAGAGGAAGCAGAGAGAGC
*
1414552 AGCAGCGGAAGCAGAGA
1 AGCAGAGGAAGCAGAGA
1414569 AAGAAGTAGC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.41, T:0.02
Consensus pattern (21 bp):
AGCAGAGGAAGCAGAGAGAGC
Found at i:1415074 original size:43 final size:43
Alignment explanation
Indices: 1415027--1415294 Score: 298
Period size: 43 Copynumber: 6.3 Consensus size: 43
1415017 TCGACCTTTA
* * *
1415027 GCGGCGTTTGTATGAAAAATGCCGCGAAATC-TCAACACCTATT
1 GCGGCGTTTGTATGAAAAACGCCGCTAAA-CATCAACACCTACT
* *
1415070 GCGGCGTTTGCGAT-AAAAACGCCGCTAAACATTAACACCTACT
1 GCGGCGTTTG-TATGAAAAACGCCGCTAAACATCAACACCTACT
*
1415113 ACGGCGTTTG--TGATAAAACGCCGCTAAACATCAACACCTACT
1 GCGGCGTTTGTATGA-AAAACGCCGCTAAACATCAACACCTACT
* * *
1415155 GCGGCGTTT-AAGGGAAAAACGCTGC-AAATCATCAACACCTACT
1 GCGGCGTTTGTA-TGAAAAACGCCGCTAAA-CATCAACACCTACT
* *
1415198 GCGGCGTTTGTGA-GAAAAATGCCGCTAAACATCAACACCTATT
1 GCGGCGTTTGT-ATGAAAAACGCCGCTAAACATCAACACCTACT
* * * *
1415241 GCGGCGTTTGTCTGACAAACGCCGCTAAATATCAACACCTATT
1 GCGGCGTTTGTATGAAAAACGCCGCTAAACATCAACACCTACT
1415284 GCGGCGTTTGT
1 GCGGCGTTTGT
1415295 CATAACGCCA
Statistics
Matches: 195, Mismatches: 18, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 39 0.20
43 146 0.75
44 7 0.04
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (43 bp):
GCGGCGTTTGTATGAAAAACGCCGCTAAACATCAACACCTACT
Found at i:1422523 original size:22 final size:22
Alignment explanation
Indices: 1422497--1422587 Score: 139
Period size: 22 Copynumber: 4.1 Consensus size: 22
1422487 TAAAACTCGA
1422497 GACTCGAA-CTCGATTCAAGCTC
1 GACTC-AAGCTCGATTCAAGCTC
1422519 GACTCAAGCTCGATTCAAGCTC
1 GACTCAAGCTCGATTCAAGCTC
*
1422541 GACTCAAGCTCGATTTAAGCTC
1 GACTCAAGCTCGATTCAAGCTC
* *
1422563 AACTCAAGCTCGATTTAAGCTC
1 GACTCAAGCTCGATTCAAGCTC
1422585 GAC
1 GAC
1422588 AGGTTAAGTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
21 2 0.03
22 63 0.97
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (22 bp):
GACTCAAGCTCGATTCAAGCTC
Found at i:1422525 original size:11 final size:11
Alignment explanation
Indices: 1422505--1422587 Score: 103
Period size: 11 Copynumber: 7.5 Consensus size: 11
1422495 GAGACTCGAA
*
1422505 CTCGATTCAAG
1 CTCGACTCAAG
1422516 CTCGACTCAAG
1 CTCGACTCAAG
*
1422527 CTCGATTCAAG
1 CTCGACTCAAG
1422538 CTCGACTCAAG
1 CTCGACTCAAG
* *
1422549 CTCGATTTAAG
1 CTCGACTCAAG
*
1422560 CTCAACTCAAG
1 CTCGACTCAAG
* *
1422571 CTCGATTTAAG
1 CTCGACTCAAG
1422582 CTCGAC
1 CTCGAC
1422588 AGGTTAAGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (11 bp):
CTCGACTCAAG
Found at i:1425265 original size:7 final size:7
Alignment explanation
Indices: 1425250--1425297 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
1425240 GTGCATAACT
1425250 TAAACCC
1 TAAACCC
*
1425257 TAAATCC
1 TAAACCC
*
1425264 TAAACCT
1 TAAACCC
*
1425271 TAAACAC
1 TAAACCC
1425278 TAAACCC
1 TAAACCC
1425285 TAAACCC
1 TAAACCC
1425292 TAAACC
1 TAAACC
1425298 TTATCACATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:1425397 original size:14 final size:14
Alignment explanation
Indices: 1425378--1425407 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1425368 TATAATTATC
*
1425378 AATAATGTATTTTT
1 AATAATGTAATTTT
1425392 AATAATGTAATTTT
1 AATAATGTAATTTT
1425406 AA
1 AA
1425408 AAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:1438625 original size:23 final size:22
Alignment explanation
Indices: 1438599--1438642 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
1438589 TATAAAAAAA
1438599 TATTTTTTATTAAATATTTTTAG
1 TATTTTTTATTAAAT-TTTTTAG
*
1438622 TATTTTTTATTTAATTTTTTA
1 TATTTTTTATTAAATTTTTTA
1438643 AATAATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTAG
Found at i:1440024 original size:23 final size:23
Alignment explanation
Indices: 1439998--1440060 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1439988 ATAATTTTGT
1439998 CTTTGTGATACGTTTATATTTAC
1 CTTTGTGATACGTTTATATTTAC
*
1440021 CTTTGTGATACGTTTATATTTAT
1 CTTTGTGATACGTTTATATTTAC
*
1440044 CTTTGTGACACGTTTAT
1 CTTTGTGATACGTTTAT
1440061 CTTTGTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.52
Consensus pattern (23 bp):
CTTTGTGATACGTTTATATTTAC
Found at i:1443615 original size:46 final size:46
Alignment explanation
Indices: 1443515--1443620 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
1443505 TGCTTGAATT
* * *
1443515 CTGCATTAAATGACCTCTAAAAAGTAGCTAAAACAGTATATTATTT
1 CTGCAATAAATGACATCTAAAAAGTAGCTAAAACAGTATATTATTG
* * * *
1443561 TTGTAATAAATTACATCTAAAAAGTAGCTGAAAC-G-ATGCATTATTG
1 CTGCAATAAATGACATCTAAAAAGTAGCTAAAACAGTAT--ATTATTG
1443607 CTGCAATAAATGAC
1 CTGCAATAAATGAC
1443621 CTATGAAAAG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
44 2 0.04
45 1 0.02
46 45 0.94
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (46 bp):
CTGCAATAAATGACATCTAAAAAGTAGCTAAAACAGTATATTATTG
Found at i:1444040 original size:276 final size:276
Alignment explanation
Indices: 1443463--1444156 Score: 803
Period size: 276 Copynumber: 2.5 Consensus size: 276
1443453 ATAGTTGCTG
* * ** * ** *
1443463 AAGATGTTAATGCACCACTA-TTTCACTTGTTTTCTGAACAAATGCTTGAATTCTGCATTAAATG
1 AAGATGATAATGCAACACTATTTTCACCCGTTTTCTGAATAGTTGCTTGAATTATGCATTAAATG
* * * * ** * * *
1443527 ACCTCTAAAAAGTAGCTAAAACAGTAT--ATTATTTTTGTAATAAATTACATCTAAAAAGTAGCT
66 ACATCTGAAAAGTAGGTGAAAC-G-ATGCATTATTGCTGCAATAAATGACATCTAAAATGTAGCT
* * * *
1443590 GAAACGATGCATTATTGCTGCAATAAATGACCTAT-GAAAAGTATTTGAATAAGTGAATAATTTG
129 GAAACGATG---TA-T--T--AAT---TGAGC-ATCGAAAAGTAGTTGAAGAAGTGAATAATGTG
1443654 GTCTGGTTAAAATACATATTTTTTATGATTTGAAGTGACAATTAAACAATGAAAAGTTTTTTTAT
182 GTCTGGTTAAAATACATATTTTTTATGATTTGAAGTGACAATTAAACAATGAAAAGTTTTTTTAT
1443719 TTGAGTTGATATATCACTAAGAAGTTGCAA
247 TTGAGTTGATATATCACTAAGAAGTTGCAA
* *
1443749 AAGATGATAATGCAACATTATTTTCACCCGTTTTCTGAATAGTTGCTTGAATTCTGCATTAAATT
1 AAGATGATAATGCAACACTATTTTCACCCGTTTTCTGAATAGTTGCTTGAATTATGCATTAAA-T
* * *
1443814 G-CATTTGAAAAGTAGGTGAAACGATGTATTATTGCTGCAATAAATGACCTCTGAAAA-GTAGCT
65 GACATCTGAAAAGTAGGTGAAACGATGCATTATTGCTGCAATAAATGACATCT-AAAATGTAGCT
*
1443877 GAAACGATGTATTAATTGAGCATCGAAAAGTAGTTGAAGCAGTGAATAATGTGG-CTTGGTTAAA
129 GAAACGATGTATTAATTGAGCATCGAAAAGTAGTTGAAGAAGTGAATAATGTGGTC-TGGTTAAA
* * * * *
1443941 CTACA-CTTTTTTATGATTTGAAGTGACAATTCAACACTG-AAATTTTTTTCTGATTTGAGTTGA
193 ATACATATTTTTTATGATTTGAAGTGACAATTAAACAATGAAAAGTTTTTT-T-ATTTGAGTTGA
* *
1444004 TATATCACTGAGAAGTTGCAG
256 TATATCACTAAGAAGTTGCAA
* *
1444025 AAGATGATAATGCAACACTATTTTGACCCGTTTTCTGAATAGTTTCTTGAATTATGCATTAAATG
1 AAGATGATAATGCAACACTATTTTCACCCGTTTTCTGAATAGTTGCTTGAATTATGCATTAAATG
* * *
1444090 ACATCTGAAAAGTAGTTGAAACGGTGCATTATTGTTGCAATAAATGACATCTAAAATGTAGCTGA
66 ACATCTGAAAAGTAGGTGAAACGATGCATTATTGCTGCAATAAATGACATCTAAAATGTAGCTGA
1444155 AA
131 AA
1444157 GATTGAAGAT
Statistics
Matches: 357, Mismatches: 40, Indels: 32
0.83 0.09 0.07
Matches are distributed among these distances:
274 9 0.03
275 41 0.11
276 186 0.52
279 3 0.01
281 1 0.00
283 1 0.00
284 2 0.01
285 2 0.01
286 18 0.05
287 88 0.25
288 6 0.02
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (276 bp):
AAGATGATAATGCAACACTATTTTCACCCGTTTTCTGAATAGTTGCTTGAATTATGCATTAAATG
ACATCTGAAAAGTAGGTGAAACGATGCATTATTGCTGCAATAAATGACATCTAAAATGTAGCTGA
AACGATGTATTAATTGAGCATCGAAAAGTAGTTGAAGAAGTGAATAATGTGGTCTGGTTAAAATA
CATATTTTTTATGATTTGAAGTGACAATTAAACAATGAAAAGTTTTTTTATTTGAGTTGATATAT
CACTAAGAAGTTGCAA
Found at i:1447215 original size:6 final size:6
Alignment explanation
Indices: 1447204--1447239 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1447194 ACTCTTCATT
1447204 CTTCTC CTTCTC CTTCTC CTT-T- -TTCTC CTTCTC CTT
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTT
1447240 ATTTTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
3 2 0.07
4 1 0.04
5 1 0.04
6 23 0.85
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (6 bp):
CTTCTC
Found at i:1447229 original size:15 final size:15
Alignment explanation
Indices: 1447211--1447239 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1447201 ATTCTTCTCC
1447211 TTCTCCTTCTCCTTT
1 TTCTCCTTCTCCTTT
1447226 TTCTCCTTCTCCTT
1 TTCTCCTTCTCCTT
1447240 ATTTTTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
TTCTCCTTCTCCTTT
Found at i:1453992 original size:14 final size:14
Alignment explanation
Indices: 1453973--1454004 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1453963 ATATTTTTAC
*
1453973 ATAAATAATTTAAT
1 ATAAATAACTTAAT
1453987 ATAAATAACTTAAT
1 ATAAATAACTTAAT
1454001 ATAA
1 ATAA
1454005 GTTTCTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAATAACTTAAT
Found at i:1454302 original size:50 final size:50
Alignment explanation
Indices: 1454177--1454318 Score: 205
Period size: 49 Copynumber: 2.8 Consensus size: 50
1454167 AGATGTACAT
* * *
1454177 ACTTACATCGGTGTAAGTATGTGTAAAGTGTTACACTTTTTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACAC--TTTTTATTTTATTC
* *
1454229 ACTTACACCGATGT-AGTATGTGTTAAGTGCTACACTTTTTGTTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTATTTTATTC
*
1454278 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACATTTTTT
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTT
1454319 TTAATGAGTT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 26 0.32
50 25 0.30
51 19 0.23
52 12 0.15
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (50 bp):
ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTATTTTATTC
Found at i:1457722 original size:9 final size:9
Alignment explanation
Indices: 1457702--1457733 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
1457692 GGGTATATTT
1457702 TTAAAATT-
1 TTAAAATTA
1457710 TTAAAATTA
1 TTAAAATTA
1457719 TTAAAATTA
1 TTAAAATTA
1457728 -TAAAAT
1 TTAAAAT
1457734 AATTGAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.61
9 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAAAATTA
Found at i:1458567 original size:18 final size:18
Alignment explanation
Indices: 1458541--1458587 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
1458531 GATAATAAAA
*
1458541 TTAATATTT-AATATTATT
1 TTAAAATTTAAATA-TATT
1458559 TTAAAATTTAAATATATT
1 TTAAAATTTAAATATATT
*
1458577 TTAACATTTAA
1 TTAAAATTTAA
1458588 GAGACATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAAATTTAAATATATT
Found at i:1459194 original size:2 final size:2
Alignment explanation
Indices: 1459187--1459226 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
1459177 AATCATCTTT
*
1459187 TA TA TA TA TA TA TA TA TA TA TA -A AA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1459227 TGAGTAGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1459281 original size:18 final size:18
Alignment explanation
Indices: 1459260--1459296 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1459250 CTTAGTACTA
1459260 GACAAAATGACCATCATG
1 GACAAAATGACCATCATG
1459278 GACAAAATGACCATCATG
1 GACAAAATGACCATCATG
1459296 G
1 G
1459297 CAACTCCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (18 bp):
GACAAAATGACCATCATG
Found at i:1464930 original size:21 final size:21
Alignment explanation
Indices: 1464904--1464945 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1464894 CTTCTGAAGT
*
1464904 ATGATACGGATATGTGCATCA
1 ATGATACGGATATGTACATCA
1464925 ATGATACGGATATGTACATCA
1 ATGATACGGATATGTACATCA
1464946 TGCTTTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (21 bp):
ATGATACGGATATGTACATCA
Found at i:1468731 original size:13 final size:13
Alignment explanation
Indices: 1468713--1468737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1468703 TCCTAGTCTG
1468713 ATAACATAACATC
1 ATAACATAACATC
1468726 ATAACATAACAT
1 ATAACATAACAT
1468738 ATTCAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAACATAACATC
Found at i:1471818 original size:21 final size:23
Alignment explanation
Indices: 1471794--1471835 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
1471784 GGTTAAAAAC
1471794 TATAAAC-TATCA-AAAGGCATA
1 TATAAACGTATCATAAAGGCATA
*
1471815 TATAAACGTGTCATAAAGGCA
1 TATAAACGTATCATAAAGGCA
1471836 AAAAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (23 bp):
TATAAACGTATCATAAAGGCATA
Found at i:1472506 original size:13 final size:13
Alignment explanation
Indices: 1472486--1472517 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1472476 AATTAAATAT
1472486 AAAA-TACTAAAA
1 AAAATTACTAAAA
1472498 AAAATTACTAAAA
1 AAAATTACTAAAA
1472511 AAAATTA
1 AAAATTA
1472518 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATTACTAAAA
Found at i:1472547 original size:37 final size:37
Alignment explanation
Indices: 1472472--1472549 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
1472462 TTGAATATTT
*
1472472 AAAAAATTAAATATAAAATACTAAAAAAAATTACTAA
1 AAAAAATTAAATATAAAATACTAAAAAAAACTACTAA
* * *
1472509 AAAAAATTAAATATATATATACT-AAAAATACTATTAA
1 AAAAAATTAAATATA-AAATACTAAAAAAAACTACTAA
1472546 AAAA
1 AAAA
1472550 TGAAAGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 30 0.83
38 6 0.17
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (37 bp):
AAAAAATTAAATATAAAATACTAAAAAAAACTACTAA
Found at i:1472657 original size:18 final size:20
Alignment explanation
Indices: 1472617--1472658 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1472607 AACTTAAATG
1472617 TATTTTTAAAATATATAATA
1 TATTTTTAAAATATATAATA
1472637 TATTTTTAAAATATATAATA
1 TATTTTTAAAATATATAATA
1472657 TA
1 TA
1472659 CATAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTTTAAAATATATAATA
Found at i:1473155 original size:14 final size:14
Alignment explanation
Indices: 1473105--1473162 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
1473095 TCTTAATGGT
*
1473105 AATTTTAAATATATA
1 AATTTT-AATTTATA
*
1473120 ATATTTTAATAATT-TT
1 A-ATTTTAAT--TTATA
1473136 AATTTTAATTTATA
1 AATTTTAATTTATA
1473150 AATTTTAATTTAT
1 AATTTTAATTTAT
1473163 TTTTTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.06
14 14 0.39
15 12 0.33
16 7 0.19
17 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTAATTTATA
Found at i:1473215 original size:15 final size:15
Alignment explanation
Indices: 1473178--1473206 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1473168 TAAATATGTG
1473178 AATATTTATATTTTA
1 AATATTTATATTTTA
1473193 AATATTTATATTTT
1 AATATTTATATTTT
1473207 TTAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTATATTTTA
Found at i:1473361 original size:21 final size:21
Alignment explanation
Indices: 1473335--1473392 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
1473325 TAAGAATCAC
1473335 CACATCAATATCATAAAATGT
1 CACATCAATATCATAAAATGT
*
1473356 CACATCAATATCATAAACTGT
1 CACATCAATATCATAAAATGT
1473377 CACATCAATATCATAA
1 CACATCAATATCATAA
1473393 TAGTCAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (21 bp):
CACATCAATATCATAAAATGT
Found at i:1475497 original size:35 final size:35
Alignment explanation
Indices: 1475452--1475535 Score: 161
Period size: 35 Copynumber: 2.4 Consensus size: 35
1475442 GCGTGCCAAT
1475452 TAATT-TTGTTTTATTAAATAATATATTTTGATTA
1 TAATTATTGTTTTATTAAATAATATATTTTGATTA
1475486 TAATTATTGTTTTATTAAATAATATATTTTGATTA
1 TAATTATTGTTTTATTAAATAATATATTTTGATTA
1475521 TAATTATTGTTTTAT
1 TAATTATTGTTTTAT
1475536 CATCTCAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 5 0.10
35 44 0.90
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (35 bp):
TAATTATTGTTTTATTAAATAATATATTTTGATTA
Found at i:1475515 original size:17 final size:18
Alignment explanation
Indices: 1475460--1475520 Score: 74
Period size: 17 Copynumber: 3.5 Consensus size: 18
1475450 ATTAATTTTG
1475460 TTTT-ATTAAATAATATA
1 TTTTGATTAAATAATATA
* *
1475477 TTTTGATTATAATTAT-TG
1 TTTTGATTA-AATAATATA
1475495 TTTT-ATTAAATAATATA
1 TTTTGATTAAATAATATA
1475512 TTTTGATTA
1 TTTTGATTA
1475521 TAATTATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 5 0.14
17 13 0.36
18 13 0.36
19 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTGATTAAATAATATA
Found at i:1475533 original size:18 final size:17
Alignment explanation
Indices: 1475452--1475535 Score: 75
Period size: 18 Copynumber: 4.9 Consensus size: 17
1475442 GCGTGCCAAT
1475452 TAATT-TTGTTTTATTA
1 TAATTATTGTTTTATTA
* *
1475468 -AATAATATATTTTGATTA
1 TAATTAT-TGTTTT-ATTA
1475486 TAATTATTGTTTTATTA
1 TAATTATTGTTTTATTA
* *
1475503 -AATAATATATTTTGATTA
1 TAATTAT-TGTTTT-ATTA
1475521 TAATTATTGTTTTAT
1 TAATTATTGTTTTAT
1475536 CATCTCAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
15 3 0.06
16 6 0.11
17 16 0.30
18 18 0.34
19 10 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
TAATTATTGTTTTATTA
Found at i:1476144 original size:14 final size:15
Alignment explanation
Indices: 1476113--1476145 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1476103 TTAATCATGA
1476113 TATTGTTCATGATAT
1 TATTGTTCATGATAT
*
1476128 TATTGTT-ATGGTAT
1 TATTGTTCATGATAT
1476142 TATT
1 TATT
1476146 ATCATATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (15 bp):
TATTGTTCATGATAT
Found at i:1476472 original size:39 final size:40
Alignment explanation
Indices: 1476369--1476475 Score: 155
Period size: 39 Copynumber: 2.7 Consensus size: 40
1476359 GTTGCCAAAA
* *
1476369 GTAAAATCAAAGGATTAGTTCCTTTCGATTATTGGATTGC
1 GTAAAATTAAAGGATTAGTTCCTTTTGATTATTGGATTGC
* *
1476409 G-AAAATTAAAAGATTAGTTCCTTTTGATTATTGGGTTG-
1 GTAAAATTAAAGGATTAGTTCCTTTTGATTATTGGATTGC
*
1476447 GTAAAATTAAAGGATTAATTCCTTTTGAT
1 GTAAAATTAAAGGATTAGTTCCTTTTGAT
1476476 ATGTTTGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.02
39 58 0.97
40 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (40 bp):
GTAAAATTAAAGGATTAGTTCCTTTTGATTATTGGATTGC
Found at i:1476677 original size:58 final size:58
Alignment explanation
Indices: 1476604--1476897 Score: 344
Period size: 58 Copynumber: 5.1 Consensus size: 58
1476594 AATATTGCAT
* * *
1476604 TGATCCTAACTTTGTAAGGAAAATAGATTGTTGAATTTATATCCTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAA
** *
1476662 TGATTCTAACTTTGTAAGG-AAATAGGTTGTTGAATTTATATCCTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAA
*
1476719 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTG-GATATCTTGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGA-ATCTTAAA
* * * ** **
1476777 TGATTTTAACTTTGTAAGAAAAATAAATTGTCGAATTTATTTTATTGAGAAT-TGTGGA
1 TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCT-TAAA
* * ** * * *
1476835 TGATTCTATCCTT-TAAAAAGAAATAAATTGTTAAATTTATTTTCTTGAGAATATTAAA
1 TGATTCTAACTTTGTAAGGA-AAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAA
1476893 TGATT
1 TGATT
1476898 TTATTTTGTT
Statistics
Matches: 209, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
57 64 0.31
58 142 0.68
59 3 0.01
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAA
Found at i:1477089 original size:39 final size:38
Alignment explanation
Indices: 1476982--1477093 Score: 154
Period size: 38 Copynumber: 2.9 Consensus size: 38
1476972 TATATGATTC
* *
1476982 TATTTT-TAAAATGAAATAAATAGTTGGATTTATTTTCT
1 TATTTTGTAAAA-GAAATAAATTGTTGAATTTATTTTCT
* * *
1477020 TGTTTTGTAAAAGAAATAATTTGTTAAATTTATTTTCT
1 TATTTTGTAAAAGAAATAAATTGTTGAATTTATTTTCT
1477058 TATTTTGTAAAAGAAAATAAATTGTTGAATTTATTT
1 TATTTTGTAAAAG-AAATAAATTGTTGAATTTATTT
1477094 ACCTGAGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 39 0.61
39 25 0.39
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (38 bp):
TATTTTGTAAAAGAAATAAATTGTTGAATTTATTTTCT
Found at i:1477189 original size:96 final size:97
Alignment explanation
Indices: 1477025--1477273 Score: 274
Period size: 96 Copynumber: 2.6 Consensus size: 97
1477015 TTTCTTGTTT
* * * * * * * *
1477025 TGTAAAA-GAAATAATTTGTTA-AATTTATTTTCTTATTTTGTAAAAGAAAATAAATTGTTGAAT
1 TGTAAAAGGAAATAAATTG-TAGAATTTATTTTCCTATTTTGAAAAAGGAAATAAATCGGTAAAA
*
1477088 TTATTTACCTGAGAATC-TCACATGATTCTGATA
65 TTATTTACCTAAGAATCTTCA-ATGATTCTGATA
*
1477121 TGTAAAAGGAAATAAATTGTAGAATTTATTTTTCCTA-TTTG-AGAAGGAAATAAATCGGTAAAA
1 TGTAAAAGGAAATAAATTGTAGAATTTA-TTTTCCTATTTTGAAAAAGGAAATAAATCGGTAAAA
* * *
1477184 TTATTTTCCTAATAATCTTGAATGATTCTGATA
65 TTATTTACCTAAGAATCTTCAATGATTCTGATA
* * * * *
1477217 TATAAAAGAAAATAAATCGTTGGATTTATTTTCCTATTTTGAAAAAGGAAATAAATC
1 TGTAAAAGGAAATAAATTGTAGAATTTATTTTCCTATTTTGAAAAAGGAAATAAATC
1477274 ATAGAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
95 8 0.06
96 78 0.60
97 36 0.28
98 7 0.05
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (97 bp):
TGTAAAAGGAAATAAATTGTAGAATTTATTTTCCTATTTTGAAAAAGGAAATAAATCGGTAAAAT
TATTTACCTAAGAATCTTCAATGATTCTGATA
Found at i:1477283 original size:39 final size:39
Alignment explanation
Indices: 1477217--1477311 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
1477207 GATTCTGATA
* * * * * *
1477217 TATAAAAGAAAATAAATCGTTGGATTTATTTTCCTATTT
1 TATAAAAGGAAATAAATCATAGAATTTAGTTTCCTAGTT
*
1477256 TGA-AAAAGGAAATAAATCATAGAATTTAGTTTCCTGGTT
1 T-ATAAAAGGAAATAAATCATAGAATTTAGTTTCCTAGTT
1477295 TATAAAAGGAAATAAAT
1 TATAAAAGGAAATAAAT
1477312 TTCCTATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.02
39 45 0.96
40 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (39 bp):
TATAAAAGGAAATAAATCATAGAATTTAGTTTCCTAGTT
Found at i:1477315 original size:26 final size:26
Alignment explanation
Indices: 1477285--1477337 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1477275 TAGAATTTAG
*
1477285 TTTCCTGGTTTATAAAAGGAAATAAA
1 TTTCCTAGTTTATAAAAGGAAATAAA
* * *
1477311 TTTCCTATTTTGTCAAAGGAAATAAA
1 TTTCCTAGTTTATAAAAGGAAATAAA
1477337 T
1 T
1477338 CGAAACAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (26 bp):
TTTCCTAGTTTATAAAAGGAAATAAA
Found at i:1477411 original size:39 final size:40
Alignment explanation
Indices: 1477354--1477451 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 40
1477344 AAAGCAAAAC
* *
1477354 AAATCGTTTGATTTATTTTTC-TATTTTGTAAAATGAAAT
1 AAATCGTTGGATTTATTTTTCTTATTTTGTAAAAGGAAAT
* *
1477393 AAATCGTTGGATTCA-TTTTCTTGTTTTGTAAAAGGAAAT
1 AAATCGTTGGATTTATTTTTCTTATTTTGTAAAAGGAAAT
*
1477432 AAACCGTTGGATTTATTTTT
1 AAATCGTTGGATTTATTTTT
1477452 TAGGAATCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 5 0.10
39 42 0.82
40 4 0.08
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (40 bp):
AAATCGTTGGATTTATTTTTCTTATTTTGTAAAAGGAAAT
Found at i:1479556 original size:16 final size:16
Alignment explanation
Indices: 1479535--1479571 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1479525 TTTCCTCCCT
1479535 CAAGCTTTAAGAGTTC
1 CAAGCTTTAAGAGTTC
1479551 CAAGCTTTAAGAGTTC
1 CAAGCTTTAAGAGTTC
1479567 CAAGC
1 CAAGC
1479572 CTAGACTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (16 bp):
CAAGCTTTAAGAGTTC
Found at i:1481317 original size:26 final size:26
Alignment explanation
Indices: 1481281--1481358 Score: 120
Period size: 26 Copynumber: 2.9 Consensus size: 26
1481271 AGAGTCGAGG
1481281 GTTCTACGTGGTCCTTCGGGACATGT
1 GTTCTACGTGGTCCTTCGGGACATGT
1481307 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGAC--ATGT
* *
1481335 GTTATATGTGGTCCTTCGGGACAT
1 GTTCTACGTGGTCCTTCGGGACAT
1481359 AGTGGTCCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.50
28 24 0.50
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (26 bp):
GTTCTACGTGGTCCTTCGGGACATGT
Found at i:1481345 original size:28 final size:28
Alignment explanation
Indices: 1481285--1481359 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
1481275 TCGAGGGTTC
*
1481285 TACGTGGTCCTTCGGGAC--ATGTGTTC
1 TACGTGGTCCTTCGGGACATATGTGTTA
1481311 TACGTGGTCCTTCGGGACATATGTGTTA
1 TACGTGGTCCTTCGGGACATATGTGTTA
*
1481339 TATGTGGTCCTTCGGGACATA
1 TACGTGGTCCTTCGGGACATA
1481360 GTGGTCCTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.40
28 27 0.60
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (28 bp):
TACGTGGTCCTTCGGGACATATGTGTTA
Found at i:1484362 original size:19 final size:20
Alignment explanation
Indices: 1484338--1484375 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1484328 GAAGAACATC
1484338 TTAATGA-TGTATCGATACA
1 TTAATGAGTGTATCGATACA
1484357 TTAATGAGTGTATCGATAC
1 TTAATGAGTGTATCGATAC
1484376 CCCCTTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (20 bp):
TTAATGAGTGTATCGATACA
Found at i:1485071 original size:26 final size:27
Alignment explanation
Indices: 1485042--1485110 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
1485032 CTACGTGGAA
*
1485042 CTTCGGGACATA-TGTTCTATGTGGTC
1 CTTCGGGACATAGTGTTATATGTGGTC
* *
1485068 CTTCAGGATATATGTGTTATATGTGGTC
1 CTTCGGGACATA-GTGTTATATGTGGTC
*
1485096 CTTTGGGACATAGTG
1 CTTCGGGACATAGTG
1485111 GTCCTTCGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 10 0.29
27 3 0.09
28 22 0.63
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (27 bp):
CTTCGGGACATAGTGTTATATGTGGTC
Found at i:1486305 original size:21 final size:21
Alignment explanation
Indices: 1486279--1486331 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
1486269 TCTAGTGTTG
1486279 GTATCGATACTGCATGAAGCA
1 GTATCGATACTGCATGAAGCA
1486300 GTATCGATACTGCATGAAGCA
1 GTATCGATACTGCATGAAGCA
1486321 GTATCGATACT
1 GTATCGATACT
1486332 ATTCTTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (21 bp):
GTATCGATACTGCATGAAGCA
Found at i:1489317 original size:14 final size:15
Alignment explanation
Indices: 1489290--1489322 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1489280 TTAATCATGA
1489290 TATTGTTCATGATAT
1 TATTGTTCATGATAT
1489305 TATTGTT-ATGATAT
1 TATTGTTCATGATAT
1489319 TATT
1 TATT
1489323 ACTATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (15 bp):
TATTGTTCATGATAT
Found at i:1491475 original size:2 final size:2
Alignment explanation
Indices: 1491464--1491684 Score: 166
Period size: 2 Copynumber: 114.0 Consensus size: 2
1491454 TTGAAACAAT
1491464 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1491505 TA T- TA TA TA TA -A TA TA -A TA TA TA TGA TGA -A TG T- TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A T-A TA TA TA TA T-A
* * * * *
1491543 TA -A TA TGA TG CA TG TA TA TA TA TCA TA -A TA TA CA T- TA TA TT
1 TA TA TA T-A TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
* * * * *
1491584 TA TG CA TA CA -A TA TA AA TA TA CT- TA TA TA -A GTA TA CA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
1491624 TA CT- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1491665 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1491685 AGAATATGTG
Statistics
Matches: 177, Mismatches: 20, Indels: 44
0.73 0.08 0.18
Matches are distributed among these distances:
1 15 0.08
2 149 0.84
3 13 0.07
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1491882 original size:16 final size:16
Alignment explanation
Indices: 1491748--1491903 Score: 53
Period size: 16 Copynumber: 9.8 Consensus size: 16
1491738 TGTGTGTGTA
1491748 TATATAAAGTATATA-
1 TATATAAAGTATATAT
*
1491763 AACTATAAAGTATATAT
1 TA-TATAAAGTATATAT
*
1491780 ATAAATATAAGTATATA-
1 -TATATA-AAGTATATAT
*
1491797 CAT-T--AGTATATAT
1 TATATAAAGTATATAT
* * * *
1491810 GTATGATGTATGTACATAAG
1 -TAT-AT-AAAGTATAT-AT
*
1491830 TATATATA-TATATA-
1 TATATAAAGTATATAT
*
1491844 TATATATA-TATATAT
1 TATATAAAGTATATAT
*
1491859 AAGTATAAAGTATATAT
1 TA-TATAAAGTATATAT
* *
1491876 TATAT-AAGCATAT-G
1 TATATAAAGTATATAT
1491890 TATATATAAGTATA
1 TATATA-AAGTATA
1491904 CACATAACTA
Statistics
Matches: 105, Mismatches: 19, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
12 8 0.08
14 21 0.20
15 11 0.10
16 33 0.31
17 11 0.10
18 12 0.11
19 8 0.08
20 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (16 bp):
TATATAAAGTATATAT
Found at i:1491897 original size:2 final size:2
Alignment explanation
Indices: 1491773--1491881 Score: 66
Period size: 2 Copynumber: 54.0 Consensus size: 2
1491763 AACTATAAAG
* * *
1491773 TA TA TA TA TA AA TA TA -A GTA TA TA CA T- TA GTA TA TA TG TA TGA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA T-A
* * *
1491816 TG TA TG TA CA TA -A GTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1491858 TA -A GTA TA AA GTA TA TA T- TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA
1491882 AGCATATGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
1 5 0.06
2 69 0.84
3 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1491903 original size:8 final size:8
Alignment explanation
Indices: 1491825--1491903 Score: 53
Period size: 8 Copynumber: 10.1 Consensus size: 8
1491815 ATGTATGTAC
1491825 ATAAGTAT
1 ATAAGTAT
1491833 ATATA-TAT
1 ATA-AGTAT
1491841 ATATA-TAT
1 ATA-AGTAT
1491849 ATATA-TAT
1 ATA-AGTAT
1491857 ATAAGTAT
1 ATAAGTAT
1491865 A-AAGTAT
1 ATAAGTAT
*
1491872 AT-ATTAT
1 ATAAGTAT
*
1491879 ATAAGCAT
1 ATAAGTAT
*
1491887 ATGTA-TAT
1 AT-AAGTAT
1491895 ATAAGTAT
1 ATAAGTAT
1491903 A
1 A
1491904 CACATAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
7 15 0.25
8 42 0.71
9 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (8 bp):
ATAAGTAT
Found at i:1491919 original size:38 final size:38
Alignment explanation
Indices: 1491827--1491903 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
1491817 GTATGTACAT
*
1491827 AAGTATATATATATATATA-TATATATATATATAAGTATA
1 AAGTATATAT-TATATA-AGCATATATATATATAAGTATA
*
1491866 AAGTATATATTATATAAGCATATGTATATATAAGTATA
1 AAGTATATATTATATAAGCATATATATATATAAGTATA
1491904 CACATAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
37 1 0.03
38 24 0.69
39 10 0.29
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (38 bp):
AAGTATATATTATATAAGCATATATATATATAAGTATA
Found at i:1492527 original size:12 final size:11
Alignment explanation
Indices: 1492503--1492553 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
1492493 AAATTGAAAG
1492503 TTAAATTATAT
1 TTAAATTATAT
1492514 TTAAATTATGAT
1 TTAAATTAT-AT
1492526 TT-AATTATTAT
1 TTAAATTA-TAT
* *
1492537 ATAAATTA-AA
1 TTAAATTATAT
1492547 TTAAATT
1 TTAAATT
1492554 TATAAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 7 0.21
11 17 0.50
12 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
TTAAATTATAT
Found at i:1492627 original size:18 final size:17
Alignment explanation
Indices: 1492602--1492644 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1492592 TCATGTTCAA
*
1492602 TAAA-TAAATTATTTAAT
1 TAAATTAAATTAATT-AT
1492619 TAAATTAAATTAATTAT
1 TAAATTAAATTAATTAT
1492636 TATAATTAA
1 TA-AATTAA
1492645 TATTTACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATTAAATTAATTAT
Found at i:1492659 original size:27 final size:26
Alignment explanation
Indices: 1492602--1492674 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 26
1492592 TCATGTTCAA
1492602 TAAATA-AATTATT-TAATTAA-A-T
1 TAAATATAATTATTATAATTAATATT
1492624 TAAAT-TAATTATTATAATTAATATT
1 TAAATATAATTATTATAATTAATATT
*
1492649 TACAATATAATGATTATAATTAATAT
1 TA-AATATAATTATTATAATTAATAT
1492675 AGAAAGTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
22 12 0.27
23 7 0.16
24 1 0.02
25 3 0.07
26 3 0.07
27 18 0.41
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
TAAATATAATTATTATAATTAATATT
Found at i:1492792 original size:19 final size:19
Alignment explanation
Indices: 1492768--1492809 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1492758 TATTATATAT
*
1492768 TCAAAATCTCACAACTTCA
1 TCAAAATCTCACAACTACA
*
1492787 TCAAAATCTTACAACTACA
1 TCAAAATCTCACAACTACA
1492806 TCAA
1 TCAA
1492810 TTGTAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (19 bp):
TCAAAATCTCACAACTACA
Found at i:1495985 original size:13 final size:12
Alignment explanation
Indices: 1495962--1495995 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1495952 ACGTTACGGT
1495962 AATTTAAAAAAA
1 AATTTAAAAAAA
*
1495974 TATTTAAAAAAA
1 AATTTAAAAAAA
*
1495986 AACTTAAAAA
1 AATTTAAAAA
1495996 TATTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AATTTAAAAAAA
Found at i:1497941 original size:14 final size:14
Alignment explanation
Indices: 1497895--1497941 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
1497885 CTTTTCTTCG
1497895 ATATTGAAAAATAA
1 ATATTGAAAAATAA
*
1497909 ATGTT-AAAAATAA
1 ATATTGAAAAATAA
*
1497922 TTTATTGAAAAATAA
1 -ATATTGAAAAATAA
1497937 ATATT
1 ATATT
1497942 TATTTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
ATATTGAAAAATAA
Found at i:1498886 original size:15 final size:15
Alignment explanation
Indices: 1498849--1498889 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
1498839 TTTGGTAAGC
*
1498849 TTCTCTTCTTTCTTT
1 TTCTTTTCTTTCTTT
1498864 TTCTTTTCTTTC-TT
1 TTCTTTTCTTTCTTT
1498878 TTCTGTTTCTTT
1 TTCT-TTTCTTT
1498890 GCTGCGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:1499406 original size:3 final size:3
Alignment explanation
Indices: 1499392--1499484 Score: 91
Period size: 3 Copynumber: 31.0 Consensus size: 3
1499382 GTTGTATCTG
* * * *
1499392 TAA TAA -AA TAA TAA TAT TAA TAA TAA TAA TAA TAT TAA TAA CAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1499439 CTAA TAA TAA TAA AAA TAA AAA TAA AAA TAA TAA -ATA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
1499485 AACCAAATGT
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
2 3 0.04
3 67 0.92
4 3 0.04
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:1499855 original size:124 final size:124
Alignment explanation
Indices: 1499626--1499857 Score: 281
Period size: 124 Copynumber: 1.9 Consensus size: 124
1499616 GTTGAATAAA
* *
1499626 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGTTGACCTA
1 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGCTAACCTA
* * * * * *
1499691 TTTCCTTCTGTGATAGAGTCATTAAAAATGTTAAATAAGCTCTTCTCATTATGAACTTC
66 TCTACTTCTGTGATAGAATCATGAAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
* * * *
1499750 TTCTT-TCTTT-TTCATATGAGTTCTTCTCATTATGAACTTT-TTCTGGAAAGGTTGATGCTAAT
1 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGG---GGATGATGCTAAC
* * *
1499812 CTATCTACTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCT
63 CTATCTACTTCTGTGATAGAATCATGAAAAAGGTTAAACAAGCTCT
1499858 GTAACATCCG
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
121 5 0.06
122 29 0.32
123 5 0.06
124 51 0.57
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.43
Consensus pattern (124 bp):
TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGCTAACCTA
TCTACTTCTGTGATAGAATCATGAAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
Found at i:1500592 original size:21 final size:21
Alignment explanation
Indices: 1500566--1500610 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1500556 GATTTCTGGG
* *
1500566 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1500587 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1500608 CAA
1 CAA
1500611 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1502214 original size:22 final size:22
Alignment explanation
Indices: 1502186--1502274 Score: 142
Period size: 22 Copynumber: 4.0 Consensus size: 22
1502176 TATGGACATC
1502186 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
1502208 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
*
1502230 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTACGGTGCA
* *
1502252 ATTCTATGGGGCACTTCGGTGCA
1 ATTCTA-CGGGCACTACGGTGCA
1502275 TTTATACGAG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
22 49 0.77
23 15 0.23
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
ATTCTACGGGCACTACGGTGCA
Found at i:1502216 original size:13 final size:13
Alignment explanation
Indices: 1502198--1502257 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
1502188 TCTACGGGCA
1502198 CTACGGTGCAATT
1 CTACGGTGCAATT
1502211 CTACGG-GC-A--
1 CTACGGTGCAATT
1502220 CTACGGTGCAATT
1 CTACGGTGCAATT
1502233 CTACGG-GC-A--
1 CTACGGTGCAATT
*
1502242 CTTCGGTGCAATT
1 CTACGGTGCAATT
1502255 CTA
1 CTA
1502258 TGGGGCACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
9 11 0.30
10 4 0.11
11 4 0.11
12 4 0.11
13 14 0.38
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:1505475 original size:21 final size:21
Alignment explanation
Indices: 1505449--1505493 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1505439 GATTTCTGGG
* *
1505449 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1505470 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1505491 CAA
1 CAA
1505494 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1507082 original size:13 final size:13
Alignment explanation
Indices: 1507064--1507126 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
1507054 TCTACGGGCA
1507064 CTACGGTGCAATT
1 CTACGGTGCAATT
1507077 CTACGG-GC-A--
1 CTACGGTGCAATT
1507086 CTACGGTGCAATT
1 CTACGGTGCAATT
1507099 CTACGG-GC-A--
1 CTACGGTGCAATT
*
1507108 CTTCGGTGCAATT
1 CTACGGTGCAATT
1507121 CTACGG
1 CTACGG
1507127 GGCACTTCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
9 11 0.28
10 4 0.10
11 4 0.10
12 4 0.10
13 17 0.43
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:1507148 original size:23 final size:22
Alignment explanation
Indices: 1507052--1507140 Score: 151
Period size: 22 Copynumber: 4.0 Consensus size: 22
1507042 TATGGACATC
1507052 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
1507074 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTACGGTGCA
*
1507096 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTACGGTGCA
*
1507118 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTACGGTGCA
1507141 TTTATACGAG
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
22 50 0.77
23 15 0.23
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTACGGTGCA
Found at i:1507847 original size:16 final size:16
Alignment explanation
Indices: 1507826--1507881 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
1507816 TGTGAACTTC
*
1507826 TTCTTCTTCAGATGAG
1 TTCTTCTTCAGATGAA
*
1507842 TTCTTC-TCATTATGAA
1 TTCTTCTTCA-GATGAA
*
1507858 CTTTTTCTTCAGATGAA
1 -TTCTTCTTCAGATGAA
1507875 TTCTTCT
1 TTCTTCT
1507882 CATTATGAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 3 0.09
16 16 0.50
17 10 0.31
18 3 0.09
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (16 bp):
TTCTTCTTCAGATGAA
Found at i:1507871 original size:33 final size:35
Alignment explanation
Indices: 1507807--1507894 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 35
1507797 TGTTACAAGC
* *
1507807 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAAC-TCTTCTTCTTCAGATGAAT
1507843 TCTTCTCATTATGAACT-TT-TTCTTCAGATGAAT
1 TCTTCTCATTATGAACTCTTCTTCTTCAGATGAAT
1507876 TCTTCTCATTATGAACTCT
1 TCTTCTCATTATGAACTCT
1507895 ACCTGGCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
33 30 0.61
34 3 0.06
35 1 0.02
36 15 0.31
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.48
Consensus pattern (35 bp):
TCTTCTCATTATGAACTCTTCTTCTTCAGATGAAT
Found at i:1507889 original size:16 final size:16
Alignment explanation
Indices: 1507837--1507890 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
1507827 TCTTCTTCAG
*
1507837 ATGAGTTCTTCTCATT
1 ATGAATTCTTCTCATT
* *
1507853 ATGAACTTTTTCTTCA-G
1 ATGAA-TTCTTC-TCATT
1507870 ATGAATTCTTCTCATT
1 ATGAATTCTTCTCATT
1507886 ATGAA
1 ATGAA
1507891 CTCTACCTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.10
16 14 0.47
17 10 0.33
18 3 0.10
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (16 bp):
ATGAATTCTTCTCATT
Found at i:1508036 original size:113 final size:113
Alignment explanation
Indices: 1507862--1508253 Score: 642
Period size: 113 Copynumber: 3.5 Consensus size: 113
1507852 TATGAACTTT
* * * * * *
1507862 TTCTTCAGATGAATTCTTCTCATTATGAACTCTAC-CTGGCAATGTTAATCCATCAATTGATGAA
1 TTCTTCAGATGAATTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGAA
* ** *
1507926 TTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC
65 TTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
1507975 TTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAAT
1 TTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAAT
1508040 TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
66 TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
*
1508088 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAAT
1 TTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAAT
1508153 TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
66 TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
* * *
1508201 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCAT
1 TTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCAT
1508254 TGTTATGGAT
Statistics
Matches: 265, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
112 2 0.01
113 263 0.99
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCAGATGAATTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAAT
TCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
Found at i:1509146 original size:114 final size:114
Alignment explanation
Indices: 1508946--1509260 Score: 531
Period size: 114 Copynumber: 2.8 Consensus size: 114
1508936 ATGATCATGC
* * * * * *
1508946 AATTCATCTTTTAATTCCAATGGTTGGTTTTGGGTTTTATATCAAATCAGATCAGATAACTCAAA
1 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGATTCATAACAAACCAGATCAGATAACTCAAA
*
1509011 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACCATGAGCA
66 GCACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACCATGAGCA
* *
1509060 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGATTCATAACAAACCAGATCAGATAACTCAAA
*
1509125 GCACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GCACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACCATGAGCA
1509174 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGATTCATAACAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGATTCATAACAAACCAGATCAGATAACTCAAA
*
1509239 GCACACTTCAAGAAGATGCTAT
66 GCACACTTCCAGAAGATGCTAT
1509261 GAGCAAATTC
Statistics
Matches: 190, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 190 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (114 bp):
AATTCATCTTTTAAATCCAATGATTGGTTTTGGGATTCATAACAAACCAGATCAGATAACTCAAA
GCACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACCATGAGCA
Found at i:1509411 original size:83 final size:83
Alignment explanation
Indices: 1509216--1509610 Score: 648
Period size: 83 Copynumber: 4.7 Consensus size: 83
1509206 GGATTCATAA
* * * * *
1509216 CAAACCAGATCAGATAACTCAAAGCACACTTCAAGAAGATGCTATGAGCAAATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCATCTTTCAAA
* *
1509281 TTCAATAACT-GTTTTAC
66 TTCAATGATTGGTTTTAC
* *
1509298 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCATCTTTCAAA
*
1509363 TTCAATGATTAGTTTTAC
66 TTCAATGATTGGTTTTAC
* *
1509381 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCATCTTTCAAA
1509446 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
1509464 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCCA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGGGCACATTCATCTTTCAA
1509529 ATTCAATGATTGGTTTTAC
65 ATTCAATGATTGGTTTTAC
1509548 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTC
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGGGCACATTCATCTTTC
1509611 CAGCTAATGT
Statistics
Matches: 296, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
82 68 0.23
83 129 0.44
84 99 0.33
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCATCTTTCAAA
TTCAATGATTGGTTTTAC
Found at i:1509569 original size:167 final size:165
Alignment explanation
Indices: 1509216--1509608 Score: 660
Period size: 167 Copynumber: 2.4 Consensus size: 165
1509206 GGATTCATAA
* * * *
1509216 CAAACCAGATCAGATAACTCAAAGCACACTTCAAGAAGATGCTATGAGCAAATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCATCTTCCAAA
1509281 TTCAATAACTGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAG
66 TTCAATAACTGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAG
1509346 CACATTCATCTTTCAAATTCAATGATTAGTTTTAC
131 CACATTCATCTTTCAAATTCAATGATTAGTTTTAC
*
1509381 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCATCTTCCAAA
* * *
1509446 TTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
66 TTCAATAACT-GTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTA-TG
* * *
1509511 GGCACATTCATCTTTCCAATTCAATGATTGGTTTTAC
129 AGCACATTCATCTTTCAAATTCAATGATTAGTTTTAC
1509548 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGGGCACATTCATCTT
1509609 TCCAGCTAAT
Statistics
Matches: 213, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
165 68 0.32
166 50 0.23
167 80 0.38
168 15 0.07
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (165 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCATCTTCCAAA
TTCAATAACTGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAG
CACATTCATCTTTCAAATTCAATGATTAGTTTTAC
Found at i:1510768 original size:8 final size:8
Alignment explanation
Indices: 1510755--1510799 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
1510745 CCTCTTTTTC
1510755 TTTTTCTT
1 TTTTTCTT
1510763 TTTTTCTT
1 TTTTTCTT
*
1510771 TTCTTCTT
1 TTTTTCTT
*
1510779 TTTTT-TA
1 TTTTTCTT
*
1510786 TTTTTATT
1 TTTTTCTT
1510794 TTTTTC
1 TTTTTC
1510800 ATTAAGCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1510780 original size:22 final size:23
Alignment explanation
Indices: 1510752--1510795 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1510742 ACCCCTCTTT
*
1510752 TTCTTTTTCTT-TTTTTCTTTTC
1 TTCTTTTTCTTATTTTTATTTTC
*
1510774 TTCTTTTTTTTATTTTTATTTT
1 TTCTTTTTCTTATTTTTATTTT
1510796 TTTCATTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (23 bp):
TTCTTTTTCTTATTTTTATTTTC
Found at i:1523164 original size:15 final size:15
Alignment explanation
Indices: 1523127--1523167 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
1523117 TTTGGTAAGC
*
1523127 TTCTCTTCTTTCTTT
1 TTCTTTTCTTTCTTT
1523142 TTCTTTTCTTTC-TT
1 TTCTTTTCTTTCTTT
1523156 TTCTGTTTCTTT
1 TTCT-TTTCTTT
1523168 GCTGCGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:1523675 original size:3 final size:3
Alignment explanation
Indices: 1523661--1523754 Score: 86
Period size: 3 Copynumber: 31.0 Consensus size: 3
1523651 GTTGTATCTG
* * * *
1523661 TAA TAA -AA TAA TAA TAT TAA TAA TAT TAA TAT TAA TAA CAA -AA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
1523708 TAA TAA TAA TAA AAA TAA TAAA TAA TAAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA TA-A TAA TAA TAA
1523755 AACCAAATGT
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
2 5 0.07
3 61 0.81
4 9 0.12
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1523742 original size:23 final size:22
Alignment explanation
Indices: 1523662--1523751 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 22
1523652 TTGTATCTGT
* *
1523662 AATAA-AATAATAATATTAATA
1 AATAATAATAATAAAAATAATA
* *
1523683 ATATTAATATTAATAACAAA-ACT-
1 A-A-TAATAATAATAA-AAATAATA
1523706 AATAATAATAATAAAAATAATA
1 AATAATAATAATAAAAATAATA
*
1523728 AATAATAAATAATAAATATAATA
1 AATAAT-AATAATAAAAATAATA
1523751 A
1 A
1523752 TAAAACCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
20 3 0.05
21 14 0.25
22 8 0.15
23 20 0.36
24 9 0.16
25 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATAATAATAAAAATAATA
Found at i:1537489 original size:2 final size:2
Alignment explanation
Indices: 1537482--1537537 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1537472 ATTAACCAAA
1537482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1537524 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1537538 TTTAGCTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1553243 original size:23 final size:23
Alignment explanation
Indices: 1553198--1553257 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
1553188 GTATTATGAA
*
1553198 AATATTTATTTATAT-TTTAAAAT
1 AATA-TTATTTATTTATTTAAAAT
* *
1553221 CATATTATTTATTTATTTGAAAT
1 AATATTATTTATTTATTTAAAAT
1553244 AATATTATTT-TTTA
1 AATATTATTTATTTA
1553258 AATTATCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
AATATTATTTATTTATTTAAAAT
Found at i:1554335 original size:23 final size:23
Alignment explanation
Indices: 1554309--1554362 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1554299 TCTCCACTCT
1554309 TGGTCACTGATTTCAACAAGATA
1 TGGTCACTGATTTCAACAAGATA
1554332 TGGTCACTGATTTCAACAAGATA
1 TGGTCACTGATTTCAACAAGATA
*
1554355 TGATCACT
1 TGGTCACT
1554363 TTCGTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (23 bp):
TGGTCACTGATTTCAACAAGATA
Found at i:1554560 original size:27 final size:27
Alignment explanation
Indices: 1554511--1554602 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
1554501 TAAATTATAA
* ** *
1554511 ATTTTTAAATGAAAATAAAAATAAAAT
1 ATTTTTAAATTAAGTTAATAATAAAAT
1554538 ATTTTTAAATTAAGTTAATAATAAAAT
1 ATTTTTAAATTAAGTTAATAATAAAAT
*
1554565 ATATTT-AA-TAAGTTAAT-ATAAAAAT
1 ATTTTTAAATTAAGTTAATAAT-AAAAT
1554590 ATTTTTAAATTAA
1 ATTTTTAAATTAA
1554603 TATATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.04
25 19 0.34
26 4 0.07
27 31 0.55
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (27 bp):
ATTTTTAAATTAAGTTAATAATAAAAT
Found at i:1554582 original size:25 final size:27
Alignment explanation
Indices: 1554530--1554602 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 27
1554520 TGAAAATAAA
*
1554530 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATATTTAAATTAAGTTAAT
1554557 AATAAAATATATTT-AA-TAAGTTAAT
1 AATAAAATATATTTAAATTAAGTTAAT
*
1554582 -ATAAAAATATTTTTAAATTAA
1 AAT-AAAATATATTTAAATTAA
1554603 TATATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.05
25 19 0.46
26 4 0.10
27 16 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (27 bp):
AATAAAATATATTTAAATTAAGTTAAT
Found at i:1555421 original size:31 final size:31
Alignment explanation
Indices: 1555375--1555450 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
1555365 GTTAACTCAG
* *
1555375 GTGACCACATGTTAATTAAATAAAAACAAAA
1 GTGACCATATCTTAATTAAATAAAAACAAAA
* *
1555406 GTGACTATATCTTAATTAAATAAAAACCAAA
1 GTGACCATATCTTAATTAAATAAAAACAAAA
1555437 GTGACCATATCTTA
1 GTGACCATATCTTA
1555451 TTTTTTTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (31 bp):
GTGACCATATCTTAATTAAATAAAAACAAAA
Found at i:1558184 original size:2 final size:2
Alignment explanation
Indices: 1558177--1558208 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1558167 CATATAAAAG
1558177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1558209 TTTCATTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1558607 original size:9 final size:9
Alignment explanation
Indices: 1558593--1558623 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1558583 AAATGGATCC
1558593 TTTTTTATT
1 TTTTTTATT
1558602 TTTTTTATT
1 TTTTTTATT
*
1558611 TTTTTCATT
1 TTTTTTATT
1558620 TTTT
1 TTTT
1558624 ATTTCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTATT
Found at i:1560632 original size:107 final size:105
Alignment explanation
Indices: 1560456--1560665 Score: 296
Period size: 107 Copynumber: 2.0 Consensus size: 105
1560446 GGCTTGGTTA
* * *
1560456 AGGCTTACTTAGTTGCAGAGAAGACACAAAAGTGTCAAGAAGCATCTAAGGTCGTACATCCCGTT
1 AGGCTTACTTAGTTACAGAGAAGACACAAAAGTGTCAAGAAACATCTAAGGTCGTACATCCCGTC
* * *
1560521 AGACCTTAACTCTAATATTGCGACAGTTTGGGCTTGAAGG
66 AGACCTTAACTCTAATATTACGACAATTTGGACTTGAAGG
* * **
1560561 AGGCTTACTTAGTTACACAGAGAAGACCCAGAAA-TGTCAAGAAACGTCTAAGGTCGTATGTCCC
1 AGGCTTACTTAGTT--ACAGAGAAGACACA-AAAGTGTCAAGAAACATCTAAGGTCGTACATCCC
1560625 GTCAGACCTTAACTCTAATATTACGACAATTTGGACTTGAA
63 GTCAGACCTTAACTCTAATATTACGACAATTTGGACTTGAA
1560666 AGTTATGAGG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 14 0.15
107 75 0.82
108 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (105 bp):
AGGCTTACTTAGTTACAGAGAAGACACAAAAGTGTCAAGAAACATCTAAGGTCGTACATCCCGTC
AGACCTTAACTCTAATATTACGACAATTTGGACTTGAAGG
Found at i:1561094 original size:28 final size:29
Alignment explanation
Indices: 1561044--1561107 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
1561034 TTATATATTT
*
1561044 AATAT-TATAGTTATAGTTATATTATT-AA
1 AATATATATAGTTATACTTATATT-TTGAA
* *
1561072 AATATATATA-TTATACTTTTATTTTGAT
1 AATATATATAGTTATACTTATATTTTGAA
1561100 AATATATA
1 AATATATA
1561108 ATAAATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 2 0.06
28 25 0.81
29 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (29 bp):
AATATATATAGTTATACTTATATTTTGAA
Found at i:1562373 original size:26 final size:26
Alignment explanation
Indices: 1562344--1562412 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
1562334 ATTTACAATT
1562344 ACCCATACCATTAATCCAGTTCTAAA
1 ACCCATACCATTAATCCAGTTCTAAA
*
1562370 ACCCATACCATTAATCCATTTCTAAA
1 ACCCATACCATTAATCCAGTTCTAAA
1562396 ACCCATACCATTAATCC
1 ACCCATACCATTAATCC
1562413 TTTACGCAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.38, C:0.33, G:0.01, T:0.28
Consensus pattern (26 bp):
ACCCATACCATTAATCCAGTTCTAAA
Found at i:1563392 original size:36 final size:36
Alignment explanation
Indices: 1563319--1563393 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
1563309 AGCTAAATAG
* ** * *
1563319 AAAAGAAAATAAATATAAAAAAATGTCTAACATTAA
1 AAAAGAAAATAAATATAAAAAAATATAAAAAAGTAA
1563355 AAAAGAAAATAAATA-AAAAATAATATAAAAAAGTAA
1 AAAAGAAAATAAATATAAAAA-AATATAAAAAAGTAA
1563391 AAA
1 AAA
1563394 GGTTAGCTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 5 0.15
36 28 0.85
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (36 bp):
AAAAGAAAATAAATATAAAAAAATATAAAAAAGTAA
Found at i:1563437 original size:27 final size:27
Alignment explanation
Indices: 1563407--1563463 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
1563397 TAGCTAAATT
1563407 AAAAAAATG-AA-AATAAATTAAATAAA
1 AAAAAAATGTAAGAATAAA-TAAATAAA
* *
1563433 AAAAACATGTAAGATTAAATAAATAAA
1 AAAAAAATGTAAGAATAAATAAATAAA
1563460 AAAA
1 AAAA
1563464 GTAGACCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 14 0.52
28 5 0.19
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (27 bp):
AAAAAAATGTAAGAATAAATAAATAAA
Found at i:1564686 original size:5 final size:5
Alignment explanation
Indices: 1564676--1565083 Score: 664
Period size: 5 Copynumber: 83.2 Consensus size: 5
1564666 AATATTAGTT
1564676 TAATA TAATA TAATA TAATA T-ATA TAATA TAATA TAATA TAATA T-ATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1564724 TAATATA TAATA TAATA T-ATA TAATA TAATA T-ATA -AATA -AATAA
1 T-A-ATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAAT-A
1564768 TAATA TAATA TAATA TAATA -ATATA TAATA TAATA TAATA TAATA T-A-A
1 TAATA TAATA TAATA TAATA TA-ATA TAATA TAATA TAATA TAATA TAATA
1564816 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1564865 TAATA T-A-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1564913 TAATA TAATA TAATA TAATA TAATA TAATA -AATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1564962 TAATA TAATA TAATA TAATATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA T-A-ATA TAATA TAATA TAATA TAATA TAATA TAATA
1565014 T-ATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1565063 TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA T
1565084 GTAAATACTA
Statistics
Matches: 384, Mismatches: 0, Indels: 38
0.91 0.00 0.09
Matches are distributed among these distances:
3 4 0.01
4 38 0.10
5 327 0.85
6 7 0.02
7 8 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:1571728 original size:67 final size:62
Alignment explanation
Indices: 1571616--1571744 Score: 170
Period size: 67 Copynumber: 2.0 Consensus size: 62
1571606 TTTTCAAACT
*
1571616 TTTTACTATTCAAACTTAAATAAATATTATTTTAATTTGAAATATTCAAAAGTATATAATTATC
1 TTTTAATATTCAAACTTAAATAAATATTATTTTAATTTGAAATATTCAAAAG-A-ATAATTATC
* *
1571680 TTTTAATATTCAAAGTTAAAT-AATAAGTTATTTTTTAATTTGATATATTCAAAAGAATAATTAT
1 TTTTAATATTCAAACTTAAATAAAT-A-TTA--TTTTAATTTGAAATATTCAAAAGAATAATTAT
1571744 C
62 C
1571745 CTACTATATT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
63 3 0.05
64 20 0.34
65 12 0.21
66 1 0.02
67 22 0.38
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (62 bp):
TTTTAATATTCAAACTTAAATAAATATTATTTTAATTTGAAATATTCAAAAGAATAATTATC
Found at i:1571755 original size:65 final size:67
Alignment explanation
Indices: 1571640--1571768 Score: 176
Period size: 67 Copynumber: 2.0 Consensus size: 67
1571630 CTTAAATAAA
** *
1571640 TATTATTTTAATTTGAAATATTCAAAAGTATATAATTATCTTTTAATATTCAAAGTTAAATAATA
1 TATTATTTTAATTTGAAATATTCAAAAGTATATAATTATCTACTAATATTCAAA-TCAAATAATA
1571705 AGT
65 AGT
*
1571708 TATT-TTTTAATTTGATATATTCAAAAG-A-ATAATTATCCTACT-ATATTCAAATCAAATAATA
1 TATTATTTTAATTTGAAATATTCAAAAGTATATAATTAT-CTACTAATATTCAAATCAAATAATA
1571769 TCTTTCAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
64 9 0.16
65 17 0.30
66 4 0.07
67 22 0.39
68 4 0.07
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (67 bp):
TATTATTTTAATTTGAAATATTCAAAAGTATATAATTATCTACTAATATTCAAATCAAATAATAA
GT
Found at i:1571916 original size:2 final size:2
Alignment explanation
Indices: 1571909--1571965 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1571899 GTATTCCTTA
1571909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1571951 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1571966 AAGAAACTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.