Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 220 of 356
Found at i:72064031 original size:53 final size:53
Alignment explanation
Indices: 72063853--72064055 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 53
72063843 GGGTTTAAGG
* * * * *
72063853 ATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGA
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAA-GA
* * * * * *
72063908 A-ATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAA-A
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAGA
* * * *
72063961 GATCCCATGTAAGACCATACCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGA
1 -ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAGA
* *
72064015 ATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
72064056 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
53 45 0.38
54 35 0.30
55 38 0.32
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAGA
Found at i:72071433 original size:53 final size:53
Alignment explanation
Indices: 72071252--72071458 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
72071242 ATTAGGGTTT
* * * * * *
72071252 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
72071306 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * *
72071361 AAAGAT-CCTATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
72071414 AAGGATACCATGTAAGACCATGTCAAGACATGGCGATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
72071459 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
53 44 0.36
54 41 0.33
55 38 0.31
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:72073062 original size:39 final size:38
Alignment explanation
Indices: 72073006--72073105 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 38
72072996 TAAATATAAT
* * * *
72073006 AATTATAATTACCATAATTATAATAATGTTTGA-CAGGAA
1 AATTACAATTACAATAATTATAATAATATTCGATC--GAA
* *
72073045 AATTACCATTACAATAATTATAATAATATTCGATCGTA
1 AATTACAATTACAATAATTATAATAATATTCGATCGAA
*
72073083 AATTATAATTACAATAATTATAA
1 AATTACAATTACAATAATTATAA
72073106 CAAGGATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
38 23 0.44
39 28 0.54
40 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (38 bp):
AATTACAATTACAATAATTATAATAATATTCGATCGAA
Found at i:72074238 original size:31 final size:30
Alignment explanation
Indices: 72074185--72074242 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
72074175 CCTTTGTATA
72074185 ATTTTCTATTTAGTTTAAATTTTATTTTTT
1 ATTTTCTATTTAGTTTAAATTTTATTTTTT
*
72074215 ATTTTCT-TTTAGGGTTTAGATTTTATTT
1 ATTTTCTATTTA--GTTTAAATTTTATTT
72074243 ACATTTGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 7 0.28
31 14 0.56
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (30 bp):
ATTTTCTATTTAGTTTAAATTTTATTTTTT
Found at i:72086499 original size:12 final size:12
Alignment explanation
Indices: 72086484--72086509 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72086474 GTAATGGACA
72086484 TTGGACATTTAT
1 TTGGACATTTAT
72086496 TTGGACATTTAT
1 TTGGACATTTAT
72086508 TT
1 TT
72086510 TGGTGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:72092829 original size:16 final size:16
Alignment explanation
Indices: 72092808--72092844 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
72092798 GTAGATCAGT
72092808 AAAAGCCGAAATACCA
1 AAAAGCCGAAATACCA
*
72092824 AAAAGCTGAAATACCA
1 AAAAGCCGAAATACCA
72092840 AAAAG
1 AAAAG
72092845 TCAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.19, G:0.14, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATACCA
Found at i:72093108 original size:28 final size:27
Alignment explanation
Indices: 72093074--72093151 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
72093064 ATAAATGTGA
* *
72093074 ATTGGGCTTGATGGGCCATATAAACATT
1 ATTGGGCCT-ATGGGCCATATAAACATG
* * *
72093102 TTTGGGCCTAACGGGCCATATAAATATG
1 ATTGGGCCT-ATGGGCCATATAAACATG
72093130 ATTGGGCCTAGTGGGCCATATA
1 ATTGGGCCTA-TGGGCCATATA
72093152 TAGTTATGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (27 bp):
ATTGGGCCTATGGGCCATATAAACATG
Found at i:72094006 original size:11 final size:11
Alignment explanation
Indices: 72093990--72094014 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
72093980 TCGTACCTAG
72093990 AAGAAAAAAAA
1 AAGAAAAAAAA
72094001 AAGAAAAAAAA
1 AAGAAAAAAAA
72094012 AAG
1 AAG
72094015 GCTTCATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:72095269 original size:40 final size:40
Alignment explanation
Indices: 72095210--72095357 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
72095200 TATTCGGATG
72095210 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
72095250 ATGTCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
72095290 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGCGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
72095330 ATAACCGGGCTAAGTCCCGAAGGCATTT
1 ATAACCGGGCTAAGTCCCGAAGGCATTT
72095358 AAGCGATTAG
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:72097005 original size:63 final size:63
Alignment explanation
Indices: 72096906--72097027 Score: 244
Period size: 63 Copynumber: 1.9 Consensus size: 63
72096896 CTACCATGGA
72096906 TGTGTATCGGTTGGGTGGGTCGATATTTATATCCCCACATGATGTGTCAGGGGACAGAGCTGG
1 TGTGTATCGGTTGGGTGGGTCGATATTTATATCCCCACATGATGTGTCAGGGGACAGAGCTGG
72096969 TGTGTATCGGTTGGGTGGGTCGATATTTATATCCCCACATGATGTGTCAGGGGACAGAG
1 TGTGTATCGGTTGGGTGGGTCGATATTTATATCCCCACATGATGTGTCAGGGGACAGAG
72097028 GATGGATTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.30
Consensus pattern (63 bp):
TGTGTATCGGTTGGGTGGGTCGATATTTATATCCCCACATGATGTGTCAGGGGACAGAGCTGG
Found at i:72100083 original size:16 final size:16
Alignment explanation
Indices: 72100062--72100104 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
72100052 GTAGATCGGC
*
72100062 AAAAGCCGAAATG-CA
1 AAAAGCCAAAATGTCA
72100077 GAAAAGCCAAAATGTCA
1 -AAAAGCCAAAATGTCA
72100094 AAAAGCCAAAA
1 AAAAGCCAAAA
72100105 GTTTGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAATGTCA
Found at i:72100400 original size:28 final size:28
Alignment explanation
Indices: 72100316--72100405 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
72100306 TGAGTATGAC
*
72100316 TATAAATGTGAATTGGG-CTTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* * *
72100345 TATAAACGTGATTTGGGCCTAATAGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
72100374 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
72100402 TATA
1 TATA
72100406 CAAGTATGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.38
29 30 0.58
30 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:72105116 original size:23 final size:23
Alignment explanation
Indices: 72105090--72105136 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
72105080 TTGTATGTTA
72105090 AGCTTTTGGCATGATTAATTTGG
1 AGCTTTTGGCATGATTAATTTGG
72105113 AGCTTTTGGCATGATTAATTTGG
1 AGCTTTTGGCATGATTAATTTGG
72105136 A
1 A
72105137 TTGAGTGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.43
Consensus pattern (23 bp):
AGCTTTTGGCATGATTAATTTGG
Found at i:72106003 original size:12 final size:12
Alignment explanation
Indices: 72105988--72106013 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72105978 GTAATAGACA
72105988 TTGGACATTTAT
1 TTGGACATTTAT
72106000 TTGGACATTTAT
1 TTGGACATTTAT
72106012 TT
1 TT
72106014 TGGTGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:72107523 original size:15 final size:15
Alignment explanation
Indices: 72107480--72107528 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
72107470 TCTGAAACAG
* *
72107480 TAGATAGTGAAACTT
1 TAGATTGTGAAACTA
* *
72107495 TACATTTTGAAAACTA
1 TAGATTGTG-AAACTA
72107511 TAGATTGTGAAACTA
1 TAGATTGTGAAACTA
72107526 TAG
1 TAG
72107529 TGAAACTGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (15 bp):
TAGATTGTGAAACTA
Found at i:72108533 original size:22 final size:22
Alignment explanation
Indices: 72108505--72108549 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
72108495 TTTAGCATGG
72108505 AAGTGTTATTGCAGTCACTAAC
1 AAGTGTTATTGCAGTCACTAAC
72108527 AAGTGTTATTGCAGTCACTAAC
1 AAGTGTTATTGCAGTCACTAAC
72108549 A
1 A
72108550 TTGGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (22 bp):
AAGTGTTATTGCAGTCACTAAC
Found at i:72114780 original size:25 final size:25
Alignment explanation
Indices: 72114751--72114798 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
72114741 TTATAATATG
* * *
72114751 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
72114776 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
72114799 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:72114865 original size:20 final size:20
Alignment explanation
Indices: 72114835--72114921 Score: 156
Period size: 20 Copynumber: 4.3 Consensus size: 20
72114825 ATTTTGATAA
*
72114835 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
72114855 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
72114875 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
72114895 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
72114915 ACATGAT
1 ACATGAT
72114922 GTATTCATAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:72114882 original size:11 final size:11
Alignment explanation
Indices: 72114846--72114921 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
72114836 CATGGTATGT
72114846 ATGATATGCAC
1 ATGATATGCAC
* *
72114857 ATGACATG--T
1 ATGATATGCAC
72114866 ATGATATGCAC
1 ATGATATGCAC
*
72114877 ATGATATG--T
1 ATGATATGCAC
72114886 ATGATATGCAC
1 ATGATATGCAC
*
72114897 ATGATATG--T
1 ATGATATGCAC
72114906 ATGATATGCAC
1 ATGATATGCAC
72114917 ATGAT
1 ATGAT
72114922 GTATTCATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:72114891 original size:9 final size:9
Alignment explanation
Indices: 72114841--72114913 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
72114831 ATAAACATGG
72114841 TATGTATGA
1 TATGTATGA
*
72114850 TATGCACATGA
1 TATG--TATGA
*
72114861 CATGTATGA
1 TATGTATGA
*
72114870 TATGCACATGA
1 TATG--TATGA
72114881 TATGTATGA
1 TATGTATGA
*
72114890 TATGCACATGA
1 TATG--TATGA
72114901 TATGTATGA
1 TATGTATGA
72114910 TATG
1 TATG
72114914 CACATGATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 27 0.54
11 23 0.46
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (9 bp):
TATGTATGA
Found at i:72114998 original size:24 final size:24
Alignment explanation
Indices: 72114971--72115115 Score: 184
Period size: 24 Copynumber: 6.0 Consensus size: 24
72114961 GAGGAAGTGC
*
72114971 AAAAGGGCTTATGCCCCAGTTACTA
1 AAAAGGGCTTATGCCCCAGTTA-TT
*
72114996 AAAAGAGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
**
72115020 AAAAGGGCTTATGCCCCAGTTACC
1 AAAAGGGCTTATGCCCCAGTTATT
*
72115044 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
72115068 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
72115092 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
72115116 ATGATAAAGC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
24 73 0.70
25 31 0.30
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:72123181 original size:26 final size:26
Alignment explanation
Indices: 72123110--72123232 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
72123100 CCTCTTTAAT
**
72123110 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
72123135 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
72123160 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
72123186 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
72123212 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
72123233 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 32 0.36
26 57 0.64
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:72123222 original size:52 final size:51
Alignment explanation
Indices: 72123110--72123232 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
72123100 CCTCTTTAAT
72123110 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
*
72123160 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
72123212 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
72123233 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 9 0.13
51 25 0.36
52 35 0.51
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:72123287 original size:16 final size:16
Alignment explanation
Indices: 72123266--72123296 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72123256 ACCCAACCCA
*
72123266 ATGCAGCATGTCATGT
1 ATGCAGAATGTCATGT
72123282 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
72123297 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:72124097 original size:27 final size:27
Alignment explanation
Indices: 72124035--72124112 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
72124025 GGGCATATTT
72124035 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
72124062 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
72124089 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
72124113 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:72124183 original size:27 final size:27
Alignment explanation
Indices: 72124153--72124435 Score: 198
Period size: 27 Copynumber: 10.4 Consensus size: 27
72124143 GTAAATCTAC
**
72124153 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
** ***
72124180 AAACCAATTGTATTTCCATAATTTT-T
1 AAACCAAGGGTATTTTGGTAATTTTGT
** *
72124206 AGAAAGTTAAGGGTATTTCT-GTAACTTTGT
1 --AAA-CCAAGGGTATTT-TGGTAATTTTGT
** * *
72124236 AAATTAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTTGGTAATTTTGT
** * ***
72124263 AAATTAAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTTGGTAATTTTGT
* **
72124290 AAACC-AGTGGTATTTTGGCAATTTTAC
1 AAACCAAG-GGTATTTTGGTAATTTTGT
* **
72124317 AAACC-AGTGGTATTTTAGTAATTTTAC
1 AAACCAAG-GGTATTTTGGTAATTTTGT
* *
72124344 AGA-CTAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
72124370 AAACCAAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
*
72124397 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTGGTAATTTTGT
* *
72124424 AAATCGAGGGTA
1 AAACCAAGGGTA
72124436 AAACGGTAAT
Statistics
Matches: 213, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
26 23 0.11
27 169 0.79
28 6 0.03
29 14 0.07
30 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTGGTAATTTTGT
Found at i:72124382 original size:80 final size:81
Alignment explanation
Indices: 72124243--72124421 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 81
72124233 TGTAAATTAG
* * *
72124243 GGGTATTTTGGTAATTTTATAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
72124308 CAATTTTACAAACC-A
66 CAATTTTACAAACCAA
* * ***
72124323 GTGGTATTTTAGTAATTTTACAGACT-AGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTT
1 G-GGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTT
* **
72124386 GGTAATTTTGTAAACCAA
64 GGCAATTTTACAAACCAA
72124404 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
72124422 GTAAATCGAG
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 61 0.72
81 24 0.28
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
CAATTTTACAAACCAA
Found at i:72124444 original size:27 final size:27
Alignment explanation
Indices: 72124414--72124485 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
72124404 GGGTATTTTA
*
72124414 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
72124441 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
72124468 GTAATTCTATAAATCGAG
1 GTAATTCTGTAAATCGAG
72124486 TGTACTTTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:72124444 original size:54 final size:54
Alignment explanation
Indices: 72124349--72124462 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
72124339 TTTACAGACT
* **** *
72124349 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTGTAAACCAAGGGTAAAACGGTAATTCTGTAAACCA
* * * *
72124403 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAACCAAGGGTAAAACGGTAATTCTGTAAACCA
72124457 AGGGTA
1 AGGGTA
72124463 AAACGGTAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTGTAAACCAAGGGTAAAACGGTAATTCTGTAAACCA
Found at i:72129031 original size:21 final size:21
Alignment explanation
Indices: 72129006--72129047 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
72128996 AATGGAAATC
72129006 CATGTTTCACTAAAGAAATGA
1 CATGTTTCACTAAAGAAATGA
72129027 CATGTTTCACTAAAGAAATGA
1 CATGTTTCACTAAAGAAATGA
72129048 ACTACTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
CATGTTTCACTAAAGAAATGA
Found at i:72130428 original size:38 final size:38
Alignment explanation
Indices: 72130369--72130445 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
72130359 GGTCACACCC
*
72130369 TATGGTTGAAACAAATTGAATCCAAATATAGTTGGCAT
1 TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
*
72130407 TATGGTTGAAACGAATGGAATCCAAATATAGTTGGCAT
1 TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
72130445 T
1 T
72130446 GTTTTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (38 bp):
TATGGTTGAAACAAATGGAATCCAAATATAGTTGGCAT
Found at i:72137747 original size:43 final size:42
Alignment explanation
Indices: 72137618--72137771 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
72137608 TGAGACTATG
* *
72137618 TGTAAGACCATATCTGGGATATGGCATCAATATGAGA-CTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGATC-TCA
* * *
72137660 TGTAAGACCATATCTGGGATATGGCATCGATGCGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATACGAGATCTCA
* * *
72137702 TGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATACGAGATCTCA
*
72137745 TGTAAGACCATATATGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
72137772 TGGTATCGTA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 61 0.64
43 35 0.36
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATACGAGATCTCA
Found at i:72138712 original size:12 final size:12
Alignment explanation
Indices: 72138695--72138723 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
72138685 TTGAGCACAA
72138695 GGGCAGAGACAC
1 GGGCAGAGACAC
72138707 GGGCAGAGACAC
1 GGGCAGAGACAC
72138719 GGGCA
1 GGGCA
72138724 TGTGTCTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.24, G:0.45, T:0.00
Consensus pattern (12 bp):
GGGCAGAGACAC
Found at i:72140549 original size:27 final size:27
Alignment explanation
Indices: 72140519--72140696 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
72140509 ATATTGAGCC
* *
72140519 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
72140546 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
72140573 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
72140601 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
72140628 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
72140655 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
72140682 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
72140697 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:72140658 original size:82 final size:81
Alignment explanation
Indices: 72140540--72140695 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
72140530 TGCTATATAA
* * * *
72140540 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
72140605 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72140622 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
72140686 CCCTTAGTGC
65 CACTTAGTGC
72140696 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:72142797 original size:28 final size:26
Alignment explanation
Indices: 72142733--72142797 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
72142723 AGCAAAGTTG
72142733 CTAATAACAGTAAACGTGGCAAAGCCA
1 CTAAT-ACAGTAAACGTGGCAAAGCCA
* *
72142760 CCAGA-GCAGTAATTACGTGGCAAAGCCA
1 CTA-ATACAGTAA--ACGTGGCAAAGCCA
72142788 CTAATACAGT
1 CTAATACAGT
72142798 GCTTCCTCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
26 6 0.20
27 3 0.10
28 21 0.70
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
CTAATACAGTAAACGTGGCAAAGCCA
Found at i:72157780 original size:17 final size:17
Alignment explanation
Indices: 72157758--72157810 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
72157748 AAGGGACATT
72157758 ATGAATGAATTCAGAAA
1 ATGAATGAATTCAGAAA
**
72157775 ATGAATAGTAATTC--ATT
1 ATGAAT-G-AATTCAGAAA
72157792 ATGAATGAATTCAGAAA
1 ATGAATGAATTCAGAAA
72157809 AT
1 AT
72157811 AAATAGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 5 0.18
16 1 0.04
17 16 0.57
18 1 0.04
19 5 0.18
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
ATGAATGAATTCAGAAA
Found at i:72157797 original size:34 final size:34
Alignment explanation
Indices: 72157754--72157821 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
72157744 ATTTAAGGGA
*
72157754 CATTATGAATGAATTCAGAAAATGAATAGTAATT
1 CATTATGAATGAATTCAGAAAATAAATAGTAATT
72157788 CATTATGAATGAATTCAGAAAATAAATAGTAATT
1 CATTATGAATGAATTCAGAAAATAAATAGTAATT
72157822 GACTTGAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (34 bp):
CATTATGAATGAATTCAGAAAATAAATAGTAATT
Found at i:72158154 original size:29 final size:31
Alignment explanation
Indices: 72158108--72158168 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
72158098 AAAAAAATAC
*
72158108 AATTTAATTTCAGTTTTAAAATCAAA-TTAA
1 AATTTAATTTCAGCTTTAAAATCAAACTTAA
*
72158138 AATTTGATTT-AGCTTTAAAATCAAACTTAA
1 AATTTAATTTCAGCTTTAAAATCAAACTTAA
72158168 A
1 A
72158169 GACTAATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (31 bp):
AATTTAATTTCAGCTTTAAAATCAAACTTAA
Found at i:72158181 original size:30 final size:29
Alignment explanation
Indices: 72158122--72158187 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
72158112 TAATTTCAGT
* * *
72158122 TTTAAAATCAAATTAAAATTTGATTTAGC
1 TTTAAAATCAAATTAAAATCTAATGTAGC
72158151 TTTAAAATCAAACTTAAAGA-CTAATGTAGC
1 TTTAAAATCAAA-TTAAA-ATCTAATGTAGC
*
72158181 TTGAAAA
1 TTTAAAA
72158188 AGCCTATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 12 0.39
30 18 0.58
31 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (29 bp):
TTTAAAATCAAATTAAAATCTAATGTAGC
Found at i:72158872 original size:9 final size:9
Alignment explanation
Indices: 72158860--72158924 Score: 66
Period size: 9 Copynumber: 7.7 Consensus size: 9
72158850 TTGCCCTAAT
72158860 TGTTTTACA
1 TGTTTTACA
*
72158869 TGTTTTA-T
1 TGTTTTACA
72158877 TGTTTTAC-
1 TGTTTTACA
72158885 -GTTTTACA
1 TGTTTTACA
*
72158893 TGTGTTACA
1 TGTTTTACA
*
72158902 TGTTTTA-T
1 TGTTTTACA
*
72158910 TGTTATACA
1 TGTTTTACA
72158919 TGTTTT
1 TGTTTT
72158925 TATGATAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
7 7 0.16
8 13 0.29
9 25 0.56
ACGTcount: A:0.18, C:0.08, G:0.14, T:0.60
Consensus pattern (9 bp):
TGTTTTACA
Found at i:72158880 original size:17 final size:17
Alignment explanation
Indices: 72158858--72158924 Score: 84
Period size: 17 Copynumber: 4.0 Consensus size: 17
72158848 AATTGCCCTA
72158858 ATTGTTTTACATGTTTT
1 ATTGTTTTACATGTTTT
72158875 ATTGTTTTAC--GTTTT
1 ATTGTTTTACATGTTTT
* *
72158890 ACATGTGTTACATGTTTT
1 A-TTGTTTTACATGTTTT
*
72158908 ATTGTTATACATGTTTT
1 ATTGTTTTACATGTTTT
72158925 TATGATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
15 6 0.14
16 7 0.17
17 23 0.55
18 6 0.14
ACGTcount: A:0.19, C:0.07, G:0.13, T:0.60
Consensus pattern (17 bp):
ATTGTTTTACATGTTTT
Found at i:72158888 original size:24 final size:26
Alignment explanation
Indices: 72158861--72158924 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
72158851 TGCCCTAATT
*
72158861 GTTTTACATGTTTTA-TTGTTTTA-C
1 GTTTTACATGTTTTACATGTTTTATC
* *
72158885 GTTTTACATGTGTTACATGTTTTATT
1 GTTTTACATGTTTTACATGTTTTATC
*
72158911 GTTATACATGTTTT
1 GTTTTACATGTTTT
72158925 TATGATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 14 0.42
25 7 0.21
26 12 0.36
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (26 bp):
GTTTTACATGTTTTACATGTTTTATC
Found at i:72159251 original size:37 final size:37
Alignment explanation
Indices: 72159200--72159275 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
72159190 CTAAATTGGG
*
72159200 TTACAAAGCTTTACCGTAAAAACATAACTTGAATACA
1 TTACAAAGCATTACCGTAAAAACATAACTTGAATACA
*
72159237 TTACAAAGCATTACCGTAAAAGCATAACTTGAATACA
1 TTACAAAGCATTACCGTAAAAACATAACTTGAATACA
72159274 TT
1 TT
72159276 CATTTCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (37 bp):
TTACAAAGCATTACCGTAAAAACATAACTTGAATACA
Found at i:72160265 original size:17 final size:17
Alignment explanation
Indices: 72160243--72160282 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
72160233 GGTCTCCAAT
72160243 GAGCTTCTCAA-TCGAAC
1 GAGCTTCTCAACT-GAAC
72160260 GAGCTTCTCAACTGAAC
1 GAGCTTCTCAACTGAAC
72160277 GAGCTT
1 GAGCTT
72160283 TCGATTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (17 bp):
GAGCTTCTCAACTGAAC
Found at i:72166454 original size:79 final size:81
Alignment explanation
Indices: 72166353--72166537 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
72166343 GCTACTCGTT
* *
72166353 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
72166416 GTATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
72166433 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
72166497 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
72166513 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
72166538 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:72166537 original size:40 final size:40
Alignment explanation
Indices: 72166334--72166537 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
72166324 CGGAATTTAA
** *
72166334 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72166374 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72166414 CCGTATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72166453 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
72166493 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
72166533 CCGGA
1 CCGGA
72166538 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:72171737 original size:28 final size:28
Alignment explanation
Indices: 72171705--72171832 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
72171695 ATAGTAAGTC
*
72171705 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
72171733 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
72171762 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
72171790 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
72171819 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72171833 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:72171795 original size:57 final size:57
Alignment explanation
Indices: 72171704--72171832 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
72171694 TATAGTAAGT
*
72171704 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
72171761 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
72171818 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
72171833 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:72176047 original size:15 final size:15
Alignment explanation
Indices: 72176027--72176062 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
72176017 GAATTTTTGA
72176027 TTGAATAAATTAAAT
1 TTGAATAAATTAAAT
72176042 TTGAATAAATTAAAT
1 TTGAATAAATTAAAT
72176057 TTGAAT
1 TTGAAT
72176063 TTATATAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
TTGAATAAATTAAAT
Found at i:72187218 original size:20 final size:20
Alignment explanation
Indices: 72187195--72187243 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
72187185 GAACCACTCT
72187195 ATTTACTTACTTACCATTCC
1 ATTTACTTACTTACCATTCC
* *
72187215 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
72187235 ATTTACTTA
1 ATTTACTTA
72187244 GCATAAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:72187231 original size:15 final size:16
Alignment explanation
Indices: 72187201--72187233 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
72187191 CTCTATTTAC
72187201 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
72187217 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
72187232 TT
1 TT
72187234 CATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:72190338 original size:21 final size:21
Alignment explanation
Indices: 72190314--72190357 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
72190304 TTTAACTGTC
72190314 TAAGTATAATCCTATTTGAGT
1 TAAGTATAATCCTATTTGAGT
72190335 TAAGTATAATCCTATTTGAGT
1 TAAGTATAATCCTATTTGAGT
72190356 TA
1 TA
72190358 GGTGGTATAC
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:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (21 bp):
TAAGTATAATCCTATTTGAGT
Found at i:72195509 original size:65 final size:65
Alignment explanation
Indices: 72195405--72195560 Score: 240
Period size: 65 Copynumber: 2.4 Consensus size: 65
72195395 GGCGCTTACT
* **
72195405 GCATGTATAAGGCCTATGGCAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
1 GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
* * * *
72195470 GCATGTATAAGGCCCATGATTGTTGATGGGGATAGTGTAACTTGTGCGACTAACTAGCGCGTATT
1 GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
*
72195535 GCATGTATAATGCCCATGATAGTTGA
1 GCATGTATAAGGCCCATGATAGTTGA
72195561 CTTGAACTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 82 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (65 bp):
GCATGTATAAGGCCCATGATAGTTGATGGGAATAGTGTAACTTATGCGACTAACTAGCGCGTATA
Found at i:72198483 original size:40 final size:40
Alignment explanation
Indices: 72198415--72198620 Score: 319
Period size: 40 Copynumber: 5.2 Consensus size: 40
72198405 AACCCAAGTA
* *
72198415 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
72198454 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
72198494 CCTTCGGGACTTAGCCGGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
72198534 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
72198574 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
72198614 CCTTCGG
1 CCTTCGG
72198621 ATCTTAGTCC
Statistics
Matches: 160, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 13 0.08
40 146 0.91
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:72215164 original size:27 final size:27
Alignment explanation
Indices: 72215126--72215445 Score: 177
Period size: 27 Copynumber: 11.9 Consensus size: 27
72215116 AAGACCTCGG
*
72215126 GTTGTAAAATTACCGAAATTCCCCTTA
1 GTTGTAAAATTACCGAAATTACCCTTA
* * *
72215153 GTTGTAAAATTACTGAAA-TACCATTGG
1 GTTGTAAAATTACCGAAATTACCCTT-A
* *
72215180 GTTGTAAAATTATCGAAA-TACCCTCGA
1 GTTGTAAAATTACCGAAATTACCCT-TA
* * *
72215207 GTTATAAAATTACTGAAA-TATCCCTAA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
* *
72215234 TTTGTGAAATTACCGAAA-TATCCC-TA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
* *
72215260 GTTTGTAAAATTACC-AAAATACCCCTA
1 G-TTGTAAAATTACCGAAATTACCCTTA
* * **
72215287 GGTTGTAAAATTA-CTAAAATACCCTCGG
1 -GTTGTAAAATTACCGAAATTACCCT-TA
* *
72215315 GTTGTAAAATTACTGAAA-TATCCC-CA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
**
72215341 GTTTGTAAAATTATTGAAA-TACCCTCT-
1 G-TTGTAAAATTACCGAAATTACCCT-TA
72215368 GTTTGTAAAATTACCGAAA-TACCCTCT-
1 G-TTGTAAAATTACCGAAATTACCCT-TA
* *
72215395 GTTTGGAAAATTATCGAAA-TACCCTTA
1 G-TTGTAAAATTACCGAAATTACCCTTA
*
72215422 -TAGTGTAAAATTACC-AAAATACCC
1 GT--TGTAAAATTACCGAAATTACCC
72215446 CTGTAGGGTA
Statistics
Matches: 240, Mismatches: 35, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
27 207 0.86
28 11 0.05
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (27 bp):
GTTGTAAAATTACCGAAATTACCCTTA
Found at i:72215215 original size:54 final size:53
Alignment explanation
Indices: 72215125--72215445 Score: 267
Period size: 54 Copynumber: 6.0 Consensus size: 53
72215115 TAAGACCTCG
* * * * *
72215125 GGTTGTAAAATTACCGAAATTCCC-CTTAGTTGTAAAATTACTGAAATACCATTG
1 GGTTGTAAAATTATCGAAATACCCTC-GAGTTGTAAAATTACTGAAATACC-CTA
*
72215179 GGTTGTAAAATTATCGAAATACCCTCGAGTTATAAAATTACTGAAATATCCCTA
1 GGTTGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTACTGAAATA-CCCTA
** * * **
72215233 ATTTGTGAAATTACCGAAATATCCCT--AGTTTGTAAAATTACCAAAATACCCCTA
1 GGTTGTAAAATTATCGAAATA-CCCTCGAG-TTGTAAAATTACTGAAATA-CCCTA
* * *
72215287 GGTTGTAAAATTA-CTAAAATACCCTCGGGTTGTAAAATTACTGAAATATCCCCA
1 GGTTGTAAAATTATC-GAAATACCCTCGAGTTGTAAAATTACTGAAATA-CCCTA
* * * * *
72215341 GTTTGTAAAATTATTGAAATACCCTCTG-TTTGTAAAATTACCGAAATACCCTCT
1 GGTTGTAAAATTATCGAAATACCCTC-GAGTTGTAAAATTACTGAAATACCCT-A
* * ** **
72215395 GTTTGGAAAATTATCGAAATACCCTTATAG-TGTAAAATTACCAAAATACCC
1 GGTTGTAAAATTATCGAAATACCC-TCGAGTTGTAAAATTACTGAAATACCC
72215446 CTGTAGGGTA
Statistics
Matches: 219, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
53 10 0.05
54 199 0.91
55 10 0.05
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (53 bp):
GGTTGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTACTGAAATACCCTA
Found at i:72215393 original size:81 final size:81
Alignment explanation
Indices: 72215120--72215445 Score: 292
Period size: 81 Copynumber: 4.0 Consensus size: 81
72215110 GTCGTTAAGA
* * * * *
72215120 CCTCGGGTTGTAAAATTACCGAAATTCCC-CTTAGTTGTAAAATTACTGAAATA-CCATTGGGTT
1 CCTCTGGTTGTAAAATTACCGAAATACCCTC-TAGTTGTAAAATTACTGAAATATCC-CTAGTTT
72215183 GTAAAATTATCGAAATAC
64 GTAAAATTATCGAAATAC
* * * * * *
72215201 CCTC-GAGTTATAAAATTACTGAAATATCCCT-AATTTGTGAAATTACCGAAATATCCCTAGTTT
1 CCTCTG-GTTGTAAAATTACCGAAATA-CCCTCTAGTTGTAAAATTACTGAAATATCCCTAGTTT
* *
72215264 GTAAAATTACCAAAATAC
64 GTAAAATTATCGAAATAC
** ** *
72215282 CC-CTAGGTTGTAAAATTACTAAAATACCCTCGGGTTGTAAAATTACTGAAATATCCCCAGTTTG
1 CCTCT-GGTTGTAAAATTACCGAAATACCCTCTAGTTGTAAAATTACTGAAATATCCCTAGTTTG
*
72215346 TAAAATTATTGAAATAC
65 TAAAATTATCGAAATAC
* *
72215363 CCTCTGTTTGTAAAATTACCGAAATACCCTCT-GTTTGGAAAATTA-TCGAAATA-CCCTTA-TA
1 CCTCTGGTTGTAAAATTACCGAAATACCCTCTAG-TTGTAAAATTACT-GAAATATCCC-TAGT-
* * *
72215424 GTGTAAAATTACCAAAATAC
62 TTGTAAAATTATCGAAATAC
72215444 CC
1 CC
72215446 CTGTAGGGTA
Statistics
Matches: 200, Mismatches: 33, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
80 12 0.06
81 180 0.90
82 8 0.04
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (81 bp):
CCTCTGGTTGTAAAATTACCGAAATACCCTCTAGTTGTAAAATTACTGAAATATCCCTAGTTTGT
AAAATTATCGAAATAC
Found at i:72219299 original size:27 final size:27
Alignment explanation
Indices: 72219261--72219529 Score: 200
Period size: 27 Copynumber: 10.0 Consensus size: 27
72219251 GTTAAGACTG
72219261 TAGGTTGTAAAATTATCTAAATACCCC
1 TAGGTTGTAAAATTATCTAAATACCCC
* *
72219288 TAGGTTGTAAAATTATCGAAATA-CCA
1 TAGGTTGTAAAATTATCTAAATACCCC
*
72219314 TCAGGTTGTAAAA-TGTCTGAAATA-CCC
1 T-AGGTTGTAAAATTATCT-AAATACCCC
* * * * *
72219341 TCGATTTGTGAAATTACCGAAATACCCC
1 TAG-GTTGTAAAATTATCTAAATACCCC
* * * * *
72219369 CAGTTTATAAAATTATCGAAATACCCT
1 TAGGTTGTAAAATTATCTAAATACCCC
*
72219396 TAGGTTGTATAATTAT-TGAAATACCCC
1 TAGGTTGTAAAATTATCT-AAATACCCC
*
72219423 TAGGTTGTAAAATTA-CTGAAATA-CAC
1 TAGGTTGTAAAATTATCT-AAATACCCC
*
72219449 TCGGTTTGTAAAATTA-CTAATATA-CCC
1 TAGG-TTGTAAAATTATCTAA-ATACCCC
* *
72219476 TCAGTTTGTAAAATCATC-AAACTACCCC
1 T-AGGTTGTAAAATTATCTAAA-TACCCC
72219504 T-GGTTTGTAAAATTA-CTGAAATACCC
1 TAGG-TTGTAAAATTATCT-AAATACCC
72219530 TTGTAGTGTA
Statistics
Matches: 194, Mismatches: 32, Indels: 32
0.75 0.12 0.12
Matches are distributed among these distances:
26 17 0.09
27 162 0.84
28 15 0.08
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (27 bp):
TAGGTTGTAAAATTATCTAAATACCCC
Found at i:72219509 original size:54 final size:53
Alignment explanation
Indices: 72219262--72219530 Score: 226
Period size: 54 Copynumber: 5.0 Consensus size: 53
72219252 TTAAGACTGT
* *
72219262 AGGTTGTAAAATTATCTAAATACCCCTAGG-TTGTAAAATTATCGAAATACCATC
1 AGGTTGTAAAATTATC-AAATACCCCTAGGTTTGTAAAATTA-CTAAATACCCTC
* * * * * * *
72219316 AGGTTGTAAAATGTCTGAAATA-CCCTCGATTTGTGAAATTACCGAAATACCCCC
1 AGGTTGTAAAAT-TATCAAATACCCCTAGGTTTGTAAAATTA-CTAAATACCCTC
* * * * *
72219370 AGTTTATAAAATTATCGAAATACCCTTAGG-TTGTATAATTATTGAAATACCC-C
1 AGGTTGTAAAATTATC-AAATACCCCTAGGTTTGTAAAATTACT-AAATACCCTC
* * *
72219423 TAGGTTGTAAAATTACTGAAATA-CACTCGGTTTGTAAAATTACTAATATACCCTC
1 -AGGTTGTAAAATTA-TCAAATACCCCTAGGTTTGTAAAATTACTAA-ATACCCTC
* *
72219478 AGTTTGTAAAATCATCAAACTACCCCT-GGTTTGTAAAATTACTGAAATACCCT
1 AGGTTGTAAAATTATCAAA-TACCCCTAGGTTTGTAAAATTACT-AAATACCCT
72219531 TGTAGTGTAA
Statistics
Matches: 171, Mismatches: 31, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
53 18 0.11
54 140 0.82
55 13 0.08
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (53 bp):
AGGTTGTAAAATTATCAAATACCCCTAGGTTTGTAAAATTACTAAATACCCTC
Found at i:72219555 original size:81 final size:80
Alignment explanation
Indices: 72219261--72219556 Score: 273
Period size: 81 Copynumber: 3.7 Consensus size: 80
72219251 GTTAAGACTG
* * *
72219261 TAGG-TTGTAAAATTATCT-AAATACCCCTAGGTTGTAAAATTATCGAAATACCATCAGGTTGTA
1 TAGGTTTGTAAAATTA-CTGAAATA-CCCTAGTTTGTAAAATTATAGAAATACCCTCAGGTTGTA
72219324 AAATGTC-TGAAATA-CCC
64 AAA--TCATGAAATACCCC
* * * * * * * * *
72219341 TCGATTTGTGAAATTACCGAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTAGGTTGTAT
1 TAGGTTTGTAAAATTACTGAAATA-CCCTAGTTTGTAAAATTATAGAAATACCCTCAGGTTGTAA
*
72219406 AATTATTGAAATACCCC
65 AATCA-TGAAATACCCC
* * * *
72219423 TAGG-TTGTAAAATTACTGAAATACACTCGGTTTGTAAAATTACTA-ATATACCCTCAGTTTGTA
1 TAGGTTTGTAAAATTACTGAAATACCCT-AGTTTGTAAAATTA-TAGAAATACCCTCAGGTTGTA
*
72219486 AAATCATCAAACTACCCC
64 AAATCATGAAA-TACCCC
* *
72219504 T-GGTTTGTAAAATTACTGAAATACCCTTGTAGTGTAAAATTATAGAAATACCC
1 TAGGTTTGTAAAATTACTGAAATACCCTAGT-TTGTAAAATTATAGAAATACCC
72219557 CTGTAGGGTA
Statistics
Matches: 175, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
79 1 0.01
80 15 0.09
81 153 0.87
82 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (80 bp):
TAGGTTTGTAAAATTACTGAAATACCCTAGTTTGTAAAATTATAGAAATACCCTCAGGTTGTAAA
ATCATGAAATACCCC
Found at i:72219561 original size:27 final size:27
Alignment explanation
Indices: 72219376--72219570 Score: 106
Period size: 27 Copynumber: 7.2 Consensus size: 27
72219366 CCCCAGTTTA
72219376 TAAAATTA-TCGAAATA-CCCT-TAGGTTG
1 TAAAATTACT-GAAATACCCCTGTA-G-TG
* *
72219403 TATAATTATTGAAATACCCC--TAGGTTG
1 TAAAATTACTGAAATACCCCTGTA-G-TG
* * *
72219430 TAAAATTACTGAAATACACTCGGT-TTG
1 TAAAATTACTGAAATAC-CCCTGTAGTG
* *
72219457 TAAAATTACT-AATATACCCTCAGT-TTG
1 TAAAATTACTGAA-ATACCC-CTGTAGTG
* * *
72219484 TAAAATCA-TCAAACTACCCCTGGT-TTG
1 TAAAATTACTGAAA-TACCCCT-GTAGTG
*
72219511 TAAAATTACTGAAATACCCTTGTAGTG
1 TAAAATTACTGAAATACCCCTGTAGTG
*
72219538 TAAAATTA-TAGAAATACCCCTGTAGGG
1 TAAAATTACT-GAAATACCCCTGTAGTG
72219565 TAAAAT
1 TAAAAT
72219571 GACCGTTTTT
Statistics
Matches: 140, Mismatches: 15, Indels: 26
0.77 0.08 0.14
Matches are distributed among these distances:
26 9 0.06
27 120 0.86
28 10 0.07
30 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCCTGTAGTG
Found at i:72223185 original size:29 final size:29
Alignment explanation
Indices: 72223143--72223200 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
72223133 TTTTACGAAA
72223143 AAAAAGATTAATGTATTATCTGGAAGGAT
1 AAAAAGATTAATGTATTATCTGGAAGGAT
72223172 AAAAAGATTAATGTATTATCTGGAAGGAT
1 AAAAAGATTAATGTATTATCTGGAAGGAT
72223201 TTTAAGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AAAAAGATTAATGTATTATCTGGAAGGAT
Found at i:72228968 original size:27 final size:27
Alignment explanation
Indices: 72228906--72228983 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
72228896 GGGCATATTC
72228906 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
72228933 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
72228960 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
72228984 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:72229054 original size:27 final size:27
Alignment explanation
Indices: 72229024--72229131 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
72229014 GTAAATCTAC
72229024 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
72229051 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
72229077 AGAAAGTCAATGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
72229107 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
72229132 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 40 0.59
28 7 0.10
29 19 0.28
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:72229137 original size:27 final size:26
Alignment explanation
Indices: 72229088--72229216 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 26
72229078 GAAAGTCAAT
**
72229088 GGTATTTCT-GTAATTTTGTAAATCAGG
1 GGTATTT-TGGTAATTTTACAAAT-AGG
*
72229115 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAATAG-G
* * * *
72229142 GATATTTTGGTAATTTTATAACTTAAG
1 GGTATTTTGGTAATTTTACAA-ATAGG
* **
72229169 GGTATTTTGGTAATTCTATCCTATAGG
1 GGTATTTTGGTAATTTTA-CAAATAGG
* *
72229196 GGTATTTTAGTAATTTCACAA
1 GGTATTTTGGTAATTTTACAA
72229217 TCGAGGGTAA
Statistics
Matches: 78, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
26 3 0.04
27 74 0.95
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAATAGG
Found at i:72229333 original size:27 final size:27
Alignment explanation
Indices: 72229215--72229331 Score: 175
Period size: 27 Copynumber: 4.4 Consensus size: 27
72229205 GTAATTTCAC
*
72229215 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
72229242 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
72229269 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
72229296 AATCGAGGTTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
72229323 AATCG-GGGT
1 AATCGAGGGT
72229332 TACTTTGATA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.05
27 77 0.95
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:72231295 original size:23 final size:23
Alignment explanation
Indices: 72231268--72231320 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
72231258 TATCAACAAT
72231268 TATTTTGGTACCAATGAATTCAA
1 TATTTTGGTACCAATGAATTCAA
72231291 TATTTTGGTACCAATGAATTCAA
1 TATTTTGGTACCAATGAATTCAA
72231314 TATTTTG
1 TATTTTG
72231321 AGTTATTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (23 bp):
TATTTTGGTACCAATGAATTCAA
Found at i:72242489 original size:40 final size:40
Alignment explanation
Indices: 72242411--72242619 Score: 201
Period size: 40 Copynumber: 5.2 Consensus size: 40
72242401 AGGCTAACTC
* * * *
72242411 CCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGAT
1 CCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAGAT
* * *
72242452 CCGAAGGCATTCGTGCGAGTTG-CTATATCCGGGCTAAGA-
1 CCGAAGGCATTTGTGCTAG-CGACTATATCCGGGCTAAGAT
* * * *
72242491 CTCGAAGGCATTTGTGTTAGCGATTATATCCGGGCTAAAAC
1 C-CGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
*
72242532 CCGAAGGCATTTGTGCTAGCGACTATATCCGGGTTAAG-T
1 CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
* * * *
72242571 CCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGA-
1 -CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
72242611 CTCGAAGGC
1 C-CGAAGGC
72242620 CTTGTGCAAG
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
39 3 0.02
40 119 0.85
41 18 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
Found at i:72242610 original size:120 final size:121
Alignment explanation
Indices: 72242395--72242619 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
72242385 TATTCGAATG
** * *
72242395 ATATCCAGGCTAACTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
72242460 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACTCGAAGGCATTTGTGTTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACTCGAAGGCATTTGTGTTAGCGATT
* * **
72242516 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGTTAAG-TCCCGAAGG
1 ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
72242579 CATTTATGCTAG-TGACCACATCCGGGCTAAGACTCGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACTCGAAGGC
72242620 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 56 0.63
121 30 0.34
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (121 bp):
ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACTCGAAGGCATTTGTGTTAGCGATT
Found at i:72257905 original size:46 final size:46
Alignment explanation
Indices: 72257855--72258027 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
72257845 TGGTTGAGCA
*
72257855 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
72257901 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
72257948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
72257994 CCCGAGCTGGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
72258028 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 61 0.58
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:72258011 original size:93 final size:93
Alignment explanation
Indices: 72257852--72258022 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
72257842 GGATGGTTGA
* *
72257852 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
72257917 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
72257945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTGGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
72258010 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
72258023 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:72263305 original size:20 final size:20
Alignment explanation
Indices: 72263282--72263326 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
72263272 ACCTATTAAG
*
72263282 GTTAACTGAAACTCATATGA
1 GTTAACTGAAACCCATATGA
* *
72263302 GTTAACTGAAGCCCATGTGA
1 GTTAACTGAAACCCATATGA
72263322 GTTAA
1 GTTAA
72263327 ACGAAAAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
GTTAACTGAAACCCATATGA
Found at i:72268115 original size:24 final size:24
Alignment explanation
Indices: 72268061--72268108 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
72268051 TAGACCCAGT
72268061 GTCAATTAATGCATATATAGAACA
1 GTCAATTAATGCATATATAGAACA
72268085 GGGTCAATTAATGCATATATAGAA
1 --GTCAATTAATGCATATATAGAA
72268109 TCATCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (24 bp):
GTCAATTAATGCATATATAGAACA
Found at i:72270998 original size:20 final size:20
Alignment explanation
Indices: 72270975--72271019 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
72270965 ACCTATTAAG
*
72270975 GTTAACTGAAACTCATATGA
1 GTTAACTGAAACCCATATGA
* *
72270995 GTTAACTGAAGCCCATGTGA
1 GTTAACTGAAACCCATATGA
72271015 GTTAA
1 GTTAA
72271020 ACGAAAAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
GTTAACTGAAACCCATATGA
Found at i:72283304 original size:29 final size:30
Alignment explanation
Indices: 72283251--72283318 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
72283241 TCTTTGTAAA
72283251 TTTAGAATTTAGTCCCTATACTTTT-AT-T
1 TTTAGAATTTAGTCCCTATACTTTTCATAT
* * *
72283279 TTTAGGAATTTAGTCTCTCTATTTTTCATAT
1 TTTA-GAATTTAGTCCCTATACTTTTCATAT
72283310 TTTA-AATTT
1 TTTAGAATTT
72283319 TAGATCTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 2 0.06
31 5 0.15
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTAGAATTTAGTCCCTATACTTTTCATAT
Found at i:72283589 original size:29 final size:29
Alignment explanation
Indices: 72283532--72283588 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
72283522 TGGTTTAGTA
*
72283532 TGCAATTGTATATATGAATTTTAATTTTG
1 TGCAATTGTATATATAAATTTTAATTTTG
* *
72283561 TGCAATTTTATATATCAAATTTTGATTT
1 TGCAATTGTATATAT-AAATTTTAATTT
72283589 GATCCAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (29 bp):
TGCAATTGTATATATAAATTTTAATTTTG
Found at i:72286098 original size:14 final size:14
Alignment explanation
Indices: 72286079--72286116 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
72286069 GAGAAAAGAG
*
72286079 AGAAAGCAGGAAGT
1 AGAAAGCAGAAAGT
*
72286093 AGAAAGTAGAAAGT
1 AGAAAGCAGAAAGT
72286107 AGAAAG-AGAA
1 AGAAAGCAGAA
72286117 GAGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.58, C:0.03, G:0.32, T:0.08
Consensus pattern (14 bp):
AGAAAGCAGAAAGT
Found at i:72287103 original size:17 final size:19
Alignment explanation
Indices: 72287061--72287104 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
72287051 ATGAAATTTT
*
72287061 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
72287080 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
72287098 AA-TATTA
1 AATTATTA
72287105 CTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:72287214 original size:15 final size:15
Alignment explanation
Indices: 72287196--72287224 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
72287186 ATATTTATAA
72287196 AATTATTATTATTAT
1 AATTATTATTATTAT
72287211 AATTATTATTATTA
1 AATTATTATTATTA
72287225 GATAGGAAAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:72288434 original size:320 final size:320
Alignment explanation
Indices: 72287852--72288497 Score: 1247
Period size: 320 Copynumber: 2.0 Consensus size: 320
72287842 ATTGTAACCA
*
72287852 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTTGAGCGAAGGGGCAAGACAGATG
1 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGACAGATG
72287917 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
66 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
72287982 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
131 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
72288047 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
196 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
72288112 TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
261 TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
*
72288172 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGGCAGATG
1 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGACAGATG
72288237 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
66 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
*
72288302 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGTTGAGGCGGTGCCAACGGTGGGCTGATCG
131 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
*
72288367 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGGCCAAAAATCAAGGAGCAATTCGGGGAAT
196 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
*
72288432 TGGAATTTAGGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
261 TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
72288492 TATATT
1 TATATT
72288498 TTGGCCTTTA
Statistics
Matches: 321, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
320 321 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (320 bp):
TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGACAGATG
GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
Found at i:72288539 original size:5 final size:5
Alignment explanation
Indices: 72288519--72288564 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
72288509 GATTCAGTTT
* *
72288519 TTTTC TTCTA TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
72288565 CCTCTCTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:72289690 original size:26 final size:27
Alignment explanation
Indices: 72289643--72289705 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
72289633 TTTATTAAAC
* *
72289643 TACCCCTAAGTATGAAAATGACCATTT
1 TACCCCTAGGTATGAAAATGACCATTA
* *
72289670 TACCCCTAGGTGT-AAAATGACCGTTA
1 TACCCCTAGGTATGAAAATGACCATTA
72289696 TACCCCTAGG
1 TACCCCTAGG
72289706 GTTAATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (27 bp):
TACCCCTAGGTATGAAAATGACCATTA
Found at i:72290101 original size:60 final size:59
Alignment explanation
Indices: 72290019--72290163 Score: 186
Period size: 60 Copynumber: 2.4 Consensus size: 59
72290009 GGGCCCAACT
* * *
72290019 ATATTAATTTGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTA
1 ATATTGATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTA
* *
72290079 ATATTGATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTA
1 ATATTGATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTA
72290139 ATATTGATATGGGCTAAGGCCCAAT
1 ATATTGATATGGGCT-AGGCCCAAT
72290164 TAACACTGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
59 1 0.01
60 58 0.76
61 17 0.22
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (59 bp):
ATATTGATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTA
Found at i:72290161 original size:28 final size:27
Alignment explanation
Indices: 72290061--72290166 Score: 83
Period size: 28 Copynumber: 3.7 Consensus size: 27
72290051 ACTTGTAATA
*
72290061 GGGCTACGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCA-ATTAATATTGATAT
72290089 GGGCT-AGGCCCAA-T-ATACTCTGATACTGT
1 GGGCTAAGGCCCAATTAATA-T-TGATA---T
*
72290118 AAGGGGCTATGGCCCAGATTAATATTGATAT
1 ---GGGCTAAGGCCCA-ATTAATATTGATAT
72290149 GGGCTAAGGCCCAATTAA
1 GGGCTAAGGCCCAATTAA
72290167 CACTGATTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 6 0.10
27 11 0.17
28 17 0.27
29 1 0.02
31 1 0.02
32 5 0.08
33 6 0.10
34 6 0.10
35 2 0.03
36 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (27 bp):
GGGCTAAGGCCCAATTAATATTGATAT
Found at i:72292227 original size:17 final size:19
Alignment explanation
Indices: 72292185--72292228 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
72292175 ATGAAATTTT
*
72292185 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
72292204 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
72292222 AA-TATTA
1 AATTATTA
72292229 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:72292335 original size:15 final size:15
Alignment explanation
Indices: 72292317--72292345 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
72292307 ATATTTATAA
72292317 AATTATTATTATTAT
1 AATTATTATTATTAT
72292332 AATTATTATTATTA
1 AATTATTATTATTA
72292346 GATAGGAAAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:72295215 original size:27 final size:27
Alignment explanation
Indices: 72295176--72295288 Score: 86
Period size: 28 Copynumber: 3.9 Consensus size: 27
72295166 ACTTGTAATA
72295176 GGGCTACGGCCCAGATTAATACTGATAT
1 GGGCTACGGCCCA-ATTAATACTGATAT
*
72295204 GGGCTA-GGCCCAATATACTCTGATACTG-TAAG
1 GGGCTACGGCCCAAT-TA-----ATACTGAT-AT
* *
72295236 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTACGGCCCA-ATTAATACTGATAT
* *
72295264 GGGCTAAGGCCCAATTAACACTGAT
1 GGGCTACGGCCCAATTAATACTGAT
72295289 TTCTGAATAG
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
26 2 0.03
27 18 0.26
28 24 0.35
29 1 0.01
31 1 0.01
32 13 0.19
33 8 0.12
34 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (27 bp):
GGGCTACGGCCCAATTAATACTGATAT
Found at i:72295216 original size:60 final size:59
Alignment explanation
Indices: 72295143--72295278 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 59
72295133 TATATTAATT
*
72295143 TGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTAATACTGATA
1 TGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTGATA
* * *
72295203 TGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGATA
1 TGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTGATA
72295263 TGGGCTAAGGCCCAAT
1 TGGGCT-AGGCCCAAT
72295279 TAACACTGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
59 1 0.01
60 50 0.74
61 17 0.25
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (59 bp):
TGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTGATA
Found at i:72301377 original size:13 final size:13
Alignment explanation
Indices: 72301359--72301385 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72301349 ATTTCGGAGT
72301359 TTGTTTCTAAGTG
1 TTGTTTCTAAGTG
72301372 TTGTTTCTAAGTG
1 TTGTTTCTAAGTG
72301385 T
1 T
72301386 CTAGTTTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (13 bp):
TTGTTTCTAAGTG
Found at i:72303844 original size:48 final size:46
Alignment explanation
Indices: 72303732--72303852 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
72303722 TGATATGTGT
* * ** *
72303732 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCAAGATGAAA
* *
72303778 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCAAGAT-GA-AA
* *
72303826 GCTAGTGTAAGACCTGTCTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
72303853 GCGTCAGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 37 0.58
47 1 0.02
48 26 0.41
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCAAGATGAAA
Found at i:72305297 original size:46 final size:46
Alignment explanation
Indices: 72305221--72305430 Score: 228
Period size: 46 Copynumber: 4.5 Consensus size: 46
72305211 GATATTTGGG
* *
72305221 CATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
72305267 CATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * * * * * *
72305313 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
* *
72305360 CATCCGAACTCCTTGAGTTGATTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
72305406 C-TCCCAAGCTCGTTGAGTTGAGTCC
1 CATCCGAA-CTCGTTGAGTTGAGTCC
72305431 TGTGACACCC
Statistics
Matches: 131, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
45 6 0.05
46 91 0.69
47 33 0.25
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:72307950 original size:47 final size:47
Alignment explanation
Indices: 72307899--72308407 Score: 849
Period size: 47 Copynumber: 10.7 Consensus size: 47
72307889 TTAGGATTCT
* * *
72307899 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
72307946 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
72307993 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
72308040 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
72308089 ATGTGATGAATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
72308138 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
72308185 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
72308232 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
72308279 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
72308326 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
72308373 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
72308408 TCCCGAAGGG
Statistics
Matches: 442, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 347 0.79
49 94 0.21
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:72307974 original size:25 final size:25
Alignment explanation
Indices: 72307946--72308024 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
72307936 CTAATGGCCG
72307946 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
72307971 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
72307993 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
72308018 ATGTGAT
1 ATGTGAT
72308025 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:72308582 original size:37 final size:37
Alignment explanation
Indices: 72308526--72308604 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
72308516 CCGAGCTCTA
* * *
72308526 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
72308563 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
72308600 AAGAC
1 AAGAC
72308605 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:72311457 original size:20 final size:20
Alignment explanation
Indices: 72311406--72311448 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
72311396 GAGATCATAC
72311406 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
*
72311426 ACACGCCCGTGTGTATTGGG
1 ACACGCCCGTGTGCATTGGG
72311446 ACA
1 ACA
72311449 TGCCTGTGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGCATTGGG
Found at i:72316538 original size:48 final size:48
Alignment explanation
Indices: 72316471--72316611 Score: 183
Period size: 48 Copynumber: 2.9 Consensus size: 48
72316461 CACATGGTAG
* * *
72316471 GATGCCAATGCCATATCCCAGATATGGCCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACATATC
* * * **
72316519 GATGCCAATGTCATGTCCCAAACATGGCCTTACATGGAATCATAGGTC
1 GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACATATC
* * *
72316567 AATGCCAATGCCATGTCCCAAACATGGTCTTACATTGGATCACAT
1 GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACAT
72316612 GCTGGTGCTA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACATATC
Found at i:72319366 original size:30 final size:30
Alignment explanation
Indices: 72319332--72319392 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
72319322 TCCTTAACTC
72319332 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
72319362 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
72319392 A
1 A
72319393 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:72320881 original size:20 final size:19
Alignment explanation
Indices: 72320856--72320899 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
72320846 CCAGTAAAAT
72320856 ATTTTCCAGAAAATGATTTA
1 ATTTT-CAGAAAATGATTTA
* *
72320876 ATTTTCTGGAAATGATTTA
1 ATTTTCAGAAAATGATTTA
*
72320895 CTTTT
1 ATTTT
72320900 ATGGTGTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTTTCAGAAAATGATTTA
Found at i:72321365 original size:22 final size:22
Alignment explanation
Indices: 72321339--72321427 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
72321329 GTCCAAGTGC
72321339 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
72321361 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* * ** *
72321383 ATAACAACAACATT-GTCCAAATG
1 ATAAC--TAATATTACACCACATG
72321406 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
72321428 TAAAAGCATC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
22 32 0.60
23 11 0.21
24 10 0.19
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:72322422 original size:32 final size:32
Alignment explanation
Indices: 72322376--72322436 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
72322366 TGTCAATCAT
72322376 TTCAATATCCAACAAGCTT-AAAGCATAATAAA
1 TTCAATATCCAACAAGCTTGAAA-CATAATAAA
*
72322408 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTGAAACATAAT
72322437 CAATATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTGAAACATAATAAA
Found at i:72332326 original size:40 final size:40
Alignment explanation
Indices: 72332230--72332454 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
72332220 TTGAATGCTG
* *
72332230 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
72332269 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72332309 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72332349 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
72332389 TCAGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
72332430 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72332455 AACGAGGAGC
Statistics
Matches: 170, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
39 19 0.11
40 141 0.83
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72339115 original size:13 final size:13
Alignment explanation
Indices: 72339097--72339121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72339087 CCGAAACTAG
72339097 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
72339110 AAAGAAAAAAAA
1 AAAGAAAAAAAA
72339122 TGCTCATCCT
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:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:72340288 original size:40 final size:39
Alignment explanation
Indices: 72340199--72340417 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 39
72340189 TTGAATGCTA
* *
72340199 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGACAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAT
*
72340237 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACT-AT
72340278 TCCGGGCTAAG-CCCGAA-GCATTTGTGCGAG-TACTA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAT
* *
72340313 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT-AT
*
72340352 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAT
* *
72340391 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
72340418 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 9, Indels: 27
0.81 0.05 0.14
Matches are distributed among these distances:
34 4 0.03
35 12 0.08
36 14 0.09
37 8 0.05
38 14 0.09
39 30 0.19
40 64 0.41
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAT
Found at i:72340341 original size:74 final size:79
Alignment explanation
Indices: 72340198--72340417 Score: 276
Period size: 74 Copynumber: 2.8 Consensus size: 79
72340188 TTTGAATGCT
* * *
72340198 ATCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTATA-CCGGGCTAAG-TCCCGAAGGCA
72340260 TTTGTGCGAGATACTAA
63 TTTGTGCGAGATACTAA
*
72340277 TTCCGGGCTAAG-CCCGAA-GCATTTGTGCG-AGTACTAT-CCGGG-TAAGTCCCGAAGGCATTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATACCGGGCTAAGTCCCGAAGGCATTT
*
72340337 GTGCGAGTTACTAA
66 GTGCGAGATACTAA
* * *
72340351 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAT-ACCGGGCTAAGTCCCGAAGGCATT
72340416 TG
65 TG
72340418 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
73 1 0.01
74 39 0.32
75 10 0.08
76 11 0.09
77 13 0.11
78 9 0.07
79 22 0.18
80 18 0.15
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAA
Found at i:72340397 original size:114 final size:116
Alignment explanation
Indices: 72340196--72340417 Score: 280
Period size: 114 Copynumber: 1.9 Consensus size: 116
72340186 TATTTGAATG
72340196 CTATCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCAT
1 CTATCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCAT
*
72340261 TTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAA-GCATTTGTGCGAGTA
66 TTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA
* * **
72340310 CTATCCGGG-TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAG
1 CTATCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAG
*
72340371 GCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
62 GCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAGTCCCGAAGGCATTTG
72340418 AACGAGGAGC
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
113 18 0.19
114 55 0.59
115 14 0.15
116 7 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (116 bp):
CTATCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCAT
TTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA
Found at i:72343602 original size:2 final size:2
Alignment explanation
Indices: 72343595--72343621 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
72343585 AAAGGAAAAT
72343595 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
72343622 CATATTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:72353873 original size:27 final size:27
Alignment explanation
Indices: 72353841--72353921 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
72353831 NNNNNNNATG
*
72353841 ATTTTGCCCTTATGTGATAAAATGATT
1 ATTTTGCCCTTATGTGGTAAAATGATT
* * * * *
72353868 ATTTTGTCCTTGTGTGGCAAAAAGAAT
1 ATTTTGCCCTTATGTGGTAAAATGATT
*
72353895 ATTTTGCCCTTCTGTGGTAAAATGATT
1 ATTTTGCCCTTATGTGGTAAAATGATT
72353922 GAAATGCCCC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTGCCCTTATGTGGTAAAATGATT
Found at i:72354270 original size:18 final size:19
Alignment explanation
Indices: 72354243--72354293 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
72354233 TGTTTGCATT
*
72354243 CTGCACTGATTACT-TTTA
1 CTGCACTGATTACTGGTTA
* *
72354261 CTGCATTGATCA-TGGTTA
1 CTGCACTGATTACTGGTTA
72354279 CTGCACTGATTACTG
1 CTGCACTGATTACTG
72354294 CCACTACTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.88
19 2 0.08
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (19 bp):
CTGCACTGATTACTGGTTA
Found at i:72361368 original size:79 final size:81
Alignment explanation
Indices: 72361232--72361416 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
72361222 TTGAATGATG
*
72361232 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
72361296 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
72361311 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
72361373 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
72361391 ACCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72361417 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:72361423 original size:40 final size:40
Alignment explanation
Indices: 72361232--72361416 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
72361222 TTGAATGATG
* * * *
72361232 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
72361272 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
72361312 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72361351 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
72361392 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72361417 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72361438 original size:79 final size:79
Alignment explanation
Indices: 72361285--72361449 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
72361275 GGACTAAGAT
* **
72361285 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
72361350 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
72361364 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGTATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
72361427 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
72361443 CCGAAGG
1 CCGAAGG
72361450 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:72371962 original size:15 final size:16
Alignment explanation
Indices: 72371939--72371973 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
72371929 TGAATATGAG
*
72371939 ATGAGAAAATATTGAA
1 ATGAGAAAATATAGAA
72371955 ATGA-AAAATATAGAA
1 ATGAGAAAATATAGAA
72371970 ATGA
1 ATGA
72371974 TTATGAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (16 bp):
ATGAGAAAATATAGAA
Found at i:72371973 original size:42 final size:45
Alignment explanation
Indices: 72371904--72372003 Score: 134
Period size: 42 Copynumber: 2.3 Consensus size: 45
72371894 TATGTGATTG
* *
72371904 ATATTGAATTGACAAAGATGAGAAATGAATATGAGATGAG-AA-A
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAATA
* *
72371947 ATATTGAAATGAAAAATAT-AGAAATGATTATGAGATGAGAAATA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAATA
72371991 ATATGTGAAATGA
1 ATAT-TGAAATGA
72372004 TGAATTGAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 19 0.38
43 18 0.36
44 5 0.10
45 8 0.16
ACGTcount: A:0.52, C:0.01, G:0.21, T:0.26
Consensus pattern (45 bp):
ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAATA
Found at i:72373565 original size:28 final size:29
Alignment explanation
Indices: 72373537--72373636 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
72373527 AATTAAACCC
* *
72373537 AATCATATTCGTATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
*
72373566 AATCAC-TTGTATATGGCCCATTAGGCCCA
1 AATCACATT-CATATGGCCCATTAGGCCCA
* *
72373595 AATCACATTTATATGGCCCGTTAGGCCC-
1 AATCACATTCATATGGCCCATTAGGCCCA
*
72373623 AGTCACATTCATAT
1 AATCACATTCATAT
72373637 TCATGCTCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 14 0.22
29 47 0.75
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCCA
Found at i:72373580 original size:29 final size:29
Alignment explanation
Indices: 72373548--72373636 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
72373538 ATCATATTCG
72373548 TATGGCCCATTAGGCCCAAATCAC-TTGTA
1 TATGGCCCATTAGGCCCAAATCACATT-TA
72373577 TATGGCCCATTAGGCCCAAATCACATTTA
1 TATGGCCCATTAGGCCCAAATCACATTTA
* * *
72373606 TATGGCCCGTTAGGCCC-AGTCACATTCA
1 TATGGCCCATTAGGCCCAAATCACATTTA
72373634 TAT
1 TAT
72373637 TCATGCTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 12 0.21
29 42 0.75
30 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTTA
Found at i:72378110 original size:21 final size:20
Alignment explanation
Indices: 72378086--72378133 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
72378076 AAAAGAAATG
* *
72378086 AGCTGAAACGATATGAAATCA
1 AGCTCAAACGAGATGAAA-CA
*
72378107 AGCTCAAACGAGCTGAAACA
1 AGCTCAAACGAGATGAAACA
72378127 AGCTCAA
1 AGCTCAA
72378134 GTGAGCTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.15
Consensus pattern (20 bp):
AGCTCAAACGAGATGAAACA
Found at i:72378139 original size:20 final size:21
Alignment explanation
Indices: 72378099--72378142 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
72378089 TGAAACGATA
72378099 TGAAATCAAGCTCAAACGAGC
1 TGAAATCAAGCTCAAACGAGC
**
72378120 TGAAA-CAAGCTCAAGTGAGC
1 TGAAATCAAGCTCAAACGAGC
72378140 TGA
1 TGA
72378143 TTGGAGCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (21 bp):
TGAAATCAAGCTCAAACGAGC
Found at i:72380327 original size:24 final size:19
Alignment explanation
Indices: 72380321--72380362 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
72380311 TCTCGATCTT
72380321 TTTTTCTTTTTC-CTTCTC
1 TTTTTCTTTTTCACTTCTC
72380339 TTTTTCTTTTTCACTT-TC
1 TTTTTCTTTTTCACTTCTC
72380357 TTTTTC
1 TTTTTC
72380363 AATTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCTTTTTCACTTCTC
Found at i:72380332 original size:6 final size:6
Alignment explanation
Indices: 72380321--72380379 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
72380311 TCTCGATCTT
* * ** **
72380321 TTTTTC TTTTTC CTTCTC TTTTTC TTTTTC ACTTTC TTTTTC -AATT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
72380367 TTTTTC TTTTTC T
1 TTTTTC TTTTTC T
72380380 CATTCTCTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
5 4 0.10
6 35 0.90
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Done.