Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 14 of 33
Found at i:1923812 original size:20 final size:20
Alignment explanation
Indices: 1923769--1923820 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1923759 CTTAACTGTT
* *
1923769 TGTATCGATACA-CATAAGA
1 TGTATCGATACATCACAAAA
*
1923788 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
1923808 TGTATCGATACAT
1 TGTATCGATACAT
1923821 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:1928154 original size:20 final size:21
Alignment explanation
Indices: 1928117--1928155 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
1928107 TAACTATTTA
1928117 TCAAGAGGGAGAAATTTTTTT
1 TCAAGAGGGAGAAATTTTTTT
1928138 TCAA-AGGGA-AAATTTTTT
1 TCAAGAGGGAGAAATTTTTT
1928156 AACAAGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 5 0.28
21 4 0.22
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (21 bp):
TCAAGAGGGAGAAATTTTTTT
Found at i:1928747 original size:13 final size:13
Alignment explanation
Indices: 1928729--1928753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1928719 CATTATGCTT
1928729 TGTATCGATACAA
1 TGTATCGATACAA
1928742 TGTATCGATACA
1 TGTATCGATACA
1928754 TGTTCATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1928784 original size:20 final size:20
Alignment explanation
Indices: 1928738--1928794 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
1928728 TTGTATCGAT
*
1928738 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
1928757 TC-ATTGTATTGATACATGG
1 ACAATTGTATCGATACATGG
1928776 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
1928795 AAACTGGCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:1928848 original size:20 final size:19
Alignment explanation
Indices: 1928823--1928876 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
1928813 CTACCACTGT
1928823 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
1928843 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
1928863 TTGTATCGATACAT
1 TTGTATCGATACAT
1928877 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:1931912 original size:195 final size:196
Alignment explanation
Indices: 1931574--1932163 Score: 898
Period size: 195 Copynumber: 3.0 Consensus size: 196
1931564 CCATGTCCTT
* * *
1931574 AACAAAACCTTTTGAGCCACATTTCTTTTCGATCATTTTAAACATAGCCCAATACCCATGATTGT
1 AACAAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATAACCATGATTGC
* * *
1931639 GGAATCAAGCACAGATCTTTCCTGGTAAATATAAGTCCCTATATCCTCTAATTTCACATTGAGGA
66 GGAATCAAGCAAAGATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGA
* *
1931704 TAAACAAAAAGGTGAAACATGCTTGCAAGAAAGGAAAGAAAAGGGGAATTCATACATGGATTTTC
131 TAAACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAGGGGAATTCATACATGGATTTTC
1931769 A
196 A
* *
1931770 AACAAAACCTTTTGAGCCACATTT-TTTTTGATCATTTTAAACATAGCCCAATAATCGTGATTGC
1 AACAAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATAACCATGATTGC
* *
1931834 AGAATTAAGCAAAGATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGA
66 GGAATCAAGCAAAGATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGA
* * *
1931899 TAAATAGAAAGGTGAAACATGTTTGCAAGAATGGAAAGAAAAGGGAAATTCATACATGGATTTTC
131 TAAACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAGGGGAATTCATACATGGATTTTC
1931964 AA
196 -A
* *** *
1931966 AAAAAAACCTTTTGAGCTTTATTTCTTTTTGATCATTTTAAACATAACCCAAT-ACCTATGATTG
1 AACAAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATAACC-ATGATTG
* * *
1932030 GGGAATCAAGCACAA-ATCCTTCTTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAG
65 CGGAATCAAGCA-AAGATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAG
* **
1932094 GATAAGCAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAAAGGAATTCATACATGGATTT
129 GATAAACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAGGGGAATTCATACATGGATTT
1932159 TCA
194 TCA
1932162 AA
1 AA
1932164 AAATAACAAA
Statistics
Matches: 357, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
195 155 0.43
196 50 0.14
197 150 0.42
198 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (196 bp):
AACAAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATAACCATGATTGC
GGAATCAAGCAAAGATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGA
TAAACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAGGGGAATTCATACATGGATTTTC
A
Found at i:1932097 original size:197 final size:196
Alignment explanation
Indices: 1931577--1932166 Score: 891
Period size: 197 Copynumber: 3.0 Consensus size: 196
1931567 TGTCCTTAAC
* * *
1931577 AAAACCTTTTGAGCCACATTTCTTTTCGATCATTTTAAACATAGCCCAATACCCATGATTGTGGA
1 AAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATACCTATGATTGCGGA
* * *
1931642 ATCAAGCACAGATCTTTCCTGGTAAATATAAGTCCCTATATCCTCTAATTTCACATTGAGGATAA
66 ATCAAGCACAAATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGATAA
* *
1931707 ACAAAAAGGTGAAACATGCTTGCAAGAAAGGAAAGAAAAGGGGAATTCATACATGGATTTTC-AA
131 ACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAA-GGGAATTCATACATGGATTTTCAAA
*
1931771 AC
195 AA
* * *
1931773 AAAACCTTTTGAGCCACATTT-TTTTTGATCATTTTAAACATAGCCCAATA-ATCGTGATTGCAG
1 AAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATACCT-ATGATTGCGG
*
1931836 AATTAAGCA-AAGATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGAT
65 AATCAAGCACAA-ATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGAT
* *
1931900 AAATAGAAAGGTGAAACATGTTTGCAAGAATGGAAAGAAAAGGGAAATTCATACATGGATTTTCA
129 AAACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAGGG-AATTCATACATGGATTTTCA
1931965 AAAA
193 AAAA
*** * *
1931969 AAAACCTTTTGAGCTTTATTTCTTTTTGATCATTTTAAACATAACCCAATACCTATGATTGGGGA
1 AAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATACCTATGATTGCGGA
* *
1932034 ATCAAGCACAAATCCTTCTTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGATAA
66 ATCAAGCACAAATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGATAA
* *
1932099 GCAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAAAGGAATTCATACATGGATTTTCAAA
131 ACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAG-AAAAGGGAATTCATACATGGATTTTCAAA
1932164 AA
195 AA
1932166 A
1 A
1932167 TAACAAAAAG
Statistics
Matches: 356, Mismatches: 30, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
194 4 0.01
195 149 0.42
196 42 0.12
197 152 0.43
198 9 0.03
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (196 bp):
AAAACCTTTTGAGCCACATTTCTTTTTGATCATTTTAAACATAGCCCAATACCTATGATTGCGGA
ATCAAGCACAAATCATTCCTGGTAAATATAAGTCCCTATATTCTCTAATTTCACATTGAGGATAA
ACAGAAAGGTGAAACATGCTTGCAAGAATGGAAAGAAAAGGGAATTCATACATGGATTTTCAAAA
A
Found at i:1932551 original size:24 final size:24
Alignment explanation
Indices: 1932523--1932581 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1932513 CTTCTAAATA
* *
1932523 AGAAATAGAAAAATAAAAAAAAAG
1 AGAAAAAGAAAAAGAAAAAAAAAG
*
1932547 AGAAAAAGAAAGAG-AAAAAAAAG
1 AGAAAAAGAAAAAGAAAAAAAAAG
*
1932570 A-AAAAACAAAAA
1 AGAAAAAGAAAAA
1932582 CCACAAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 9 0.30
23 10 0.33
24 11 0.37
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAAAAAAAAAG
Found at i:1932580 original size:12 final size:11
Alignment explanation
Indices: 1932537--1932580 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
1932527 ATAGAAAAAT
1932537 AAAAAAAAAGA
1 AAAAAAAAAGA
*
1932548 GAAAAAGAAAGA
1 -AAAAAAAAAGA
*
1932560 GAAAAAAAAGA
1 AAAAAAAAAGA
1932571 AAAAACAAAA
1 AAAAA-AAAA
1932581 ACCACAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1933392 original size:114 final size:112
Alignment explanation
Indices: 1933188--1933410 Score: 279
Period size: 114 Copynumber: 2.0 Consensus size: 112
1933178 TAAGAAGAAC
** * * * * *
1933188 ATCAAATTTGTCTGATTTTCAAAGAAATTCATATTTTATACATTCCGATCCATTCGTGCCTAGGA
1 ATCAAATTTACCTGATTTTAAAAAAAAATCAGATTTTATACATTCCGATCCATTCATGCCTAGGA
*
1933253 AAATGGGGCACGTATCCTATGAGTTTTAAAACTTTTGAGCCCAACAAT
66 AAATGGGGCACGTATCCTATCAGTTTTAAAA-TTTTGAGCCCAACAAT
*
1933301 ATCAAATTTACCTGATTTTAAAAAAAAAATCAGATTTTATATGATT-CGATCCATTCATGCCTAG
1 ATCAAATTTACCTGATTTT-AAAAAAAAATCAGATTTTATA-CATTCCGATCCATTCATGCCTAG
* * * *
1933365 GAAAATGGGGCATGTA-CTCTATCAGTTTTGAAATTTTTAGGCCAAC
64 GAAAATGGGGCACGTATC-CTATCAGTTTTAAAATTTTGAGCCCAAC
1933411 CAAAGTTTCC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
113 29 0.31
114 62 0.66
115 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (112 bp):
ATCAAATTTACCTGATTTTAAAAAAAAATCAGATTTTATACATTCCGATCCATTCATGCCTAGGA
AAATGGGGCACGTATCCTATCAGTTTTAAAATTTTGAGCCCAACAAT
Found at i:1933855 original size:88 final size:86
Alignment explanation
Indices: 1933635--1933966 Score: 211
Period size: 88 Copynumber: 3.8 Consensus size: 86
1933625 AATTAGACTG
* ** *
1933635 CATTAATATTTGCATTATTCCATATGCATATGCCTTTTTATTGACACTTGCATTTGCATCATTTC
1 CATTAGTATTTGCATTATTCCATATGCAT-TGCC-TTTTATTGATGCTTGCATTTGCATTATTTC
* * *
1933700 ATGCACATCAACATTTTGGATGA
64 ATACACATCAACATTTTAGATAA
* ** * * * * * *
1933723 CATTGGTATTTGTGTCATTTCATATGCATTCGTCTCTTTGTTGATGTTTGCATTTGCATTGTTTG
1 CATTAGTATTTGCATTATTCCATATGCATT-GCCT-TTTATTGATGCTTGCATTTGCATTATTT-
* **
1933788 ACCTACAC-T-TGCATTTTAGATAA
63 -CATACACATCAACATTTTAGATAA
* *
1933811 CATTAGTATTTGCATTATTCCATATGCATCTGCCTTTATATTGATGCTTGCATTTACATTACTTC
1 CATTAGTATTTGCATTATTCCATATGCAT-TGCCTTT-TATTGATGCTTGCATTTGCATTATTTC
* * ** ** * *
1933876 GTGCACATCTGCACCATTAAATGA
64 ATACACATCAACA-TTTTAGATAA
** * * * * *
1933900 TTTTGGTATTTGCATCA-TCTCATATGCATTTGCCATTTTATTGATACTTGCATTTACATCATTT
1 CATTAGTATTTGCATTATTC-CATATGCA-TTGCC-TTTTATTGATGCTTGCATTTGCATTATTT
1933964 CAT
63 CAT
1933967 GTGCGTCGCA
Statistics
Matches: 188, Mismatches: 44, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
86 5 0.03
87 5 0.03
88 111 0.59
89 58 0.31
90 9 0.05
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.45
Consensus pattern (86 bp):
CATTAGTATTTGCATTATTCCATATGCATTGCCTTTTATTGATGCTTGCATTTGCATTATTTCAT
ACACATCAACATTTTAGATAA
Found at i:1934622 original size:92 final size:92
Alignment explanation
Indices: 1934492--1934701 Score: 230
Period size: 93 Copynumber: 2.3 Consensus size: 92
1934482 CTTTTTCAAT
* * * * * * *
1934492 CACTAGATGCTATTGATGCGTTACAAAGCCTGATTTTCTTAGGGCG-AGGATATCTCGACCAT-T
1 CACTAGATGATATTGATGCATCACAAAGCATGATTTTCTT-GGGCGAAAGATATCCCGACC-TCA
*
1934555 CATTCCTAATCATATCCCTT-T-CTTTTAGC
64 CATTCCTAATCACAT--CTTATCCTTTTAGC
* * *
1934584 CACTAGATGGTATTGATGTATCACAAAGCATGATTTTCTTGGGGGTAAAGATATCCCGACCTCAC
1 CACTAGATGATATTGATGCATCACAAAGCATGATTTTCTTGGGCG-AAAGATATCCCGACCTCAC
1934649 ATTCCTAATCACATCTTATCCTTTTAGC
65 ATTCCTAATCACATCTTATCCTTTTAGC
* *
1934677 CACTAGATGATATTGGTGCACCACA
1 CACTAGATGATATTGATGCATCACA
1934702 TAACCTAATT
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
91 7 0.07
92 37 0.37
93 55 0.56
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (92 bp):
CACTAGATGATATTGATGCATCACAAAGCATGATTTTCTTGGGCGAAAGATATCCCGACCTCACA
TTCCTAATCACATCTTATCCTTTTAGC
Found at i:1935335 original size:49 final size:49
Alignment explanation
Indices: 1935200--1935343 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
1935190 TTCACCCTAG
* * *
1935200 CCAACCTTTCAATTGGTTGACTTTATCAGTTTCCCCTTAGTCAACCCTT
1 CCAACCTTACAATTGGTTGACTTTATCAGTTTCGCCTTGGTCAACCCTT
* *
1935249 TCAACCTTACAATTGGTTGACTTTATCAGTTTCGCCTTGGTCAACTCTT
1 CCAACCTTACAATTGGTTGACTTTATCAGTTTCGCCTTGGTCAACCCTT
* *
1935298 CCAACCTTACAATTGGTTGACTTTATCAGTTTTGCCTTGGTTAACC
1 CCAACCTTACAATTGGTTGACTTTATCAGTTTCGCCTTGGTCAACC
1935344 TTTTTAACTT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (49 bp):
CCAACCTTACAATTGGTTGACTTTATCAGTTTCGCCTTGGTCAACCCTT
Found at i:1935372 original size:40 final size:41
Alignment explanation
Indices: 1935313--1935548 Score: 171
Period size: 41 Copynumber: 5.8 Consensus size: 41
1935303 CTTACAATTG
* *
1935313 GTTGACTTTATC-AGTTTTGCCTTGGTTAACCTTTTTAACTT
1 GTTGGCTTTATCGA-TTTTGCCTTGGTCAACCTTTTTAACTT
* * * * *
1935354 GTTGGGTTTATCGA-TTTGCCCTAGCCAACC-TTTT-AGTT
1 GTTGGCTTTATCGATTTTGCCTTGGTCAACCTTTTTAACTT
* * * * * * *
1935392 GGTTGACTTGATCGGTTTTGCCCTAGTCAACCTTTATAACTC
1 -GTTGGCTTTATCGATTTTGCCTTGGTCAACCTTTTTAACTT
* * * *
1935434 ATTAGTTTTATCGATTTTGCCTTGGTCAACC-TTTCAA-TT
1 GTTGGCTTTATCGATTTTGCCTTGGTCAACCTTTTTAACTT
* * * *
1935473 GGTTGACTTTATCGATTTTACCTTGGTCAACCCTTCTAACTT
1 -GTTGGCTTTATCGATTTTGCCTTGGTCAACCTTTTTAACTT
* *
1935515 GTTGGCTTTATC-AGTTTCGCCTTGGACAACCTTT
1 GTTGGCTTTATCGA-TTTTGCCTTGGTCAACCTTT
1935549 CAATCGATTA
Statistics
Matches: 148, Mismatches: 38, Indels: 18
0.73 0.19 0.09
Matches are distributed among these distances:
38 3 0.02
39 15 0.10
40 58 0.39
41 67 0.45
42 5 0.03
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (41 bp):
GTTGGCTTTATCGATTTTGCCTTGGTCAACCTTTTTAACTT
Found at i:1935396 original size:178 final size:178
Alignment explanation
Indices: 1935072--1935423 Score: 447
Period size: 179 Copynumber: 2.0 Consensus size: 178
1935062 TCACCTTGGC
* * **
1935072 CAACCTTTCAATTGATTGACTTTATTAGTTTCACCTGGTCAACCCTTCCAACCTTTTAATTGGTT
1 CAACCTTACAATTGATTGACTTTATCAGTTTCACCTGGTCAACCCTTCCAACCTTACAATTGGTT
* * *
1935137 GATTTTATCGGTTTTGCCCTGATAAACCCTTCTAACCTATTGCCTTTATCTATTTCACCCTAGCC
66 GACTTTATCAGTTTTGCCCTGATAAACCCTTCTAACCTATTGCCTTTATCGATTTCACCCTAGCC
*
1935202 AACCTTTCAATTGGTTGACTTTATCAG-TTTCCCCTTAGTCAACCCTTT
131 AACCTTTCAATTGGTTGACTTGATCAGTTTTCCCC-TAGTCAACCCTTT
* * *
1935250 CAACCTTACAATTGGTTGACTTTATCAGTTTCGCCTTGGTCAACTCTTCCAACCTTACAATTGGT
1 CAACCTTACAATTGATTGACTTTATCAGTTTCACC-TGGTCAACCCTTCCAACCTTACAATTGGT
* * * * * * * ** *
1935315 TGACTTTATCAGTTTTGCCTTGGTTAACCTTTTTAACTTGTTGGGTTTATCGATTT-GCCCTAGC
65 TGACTTTATCAGTTTTGCCCTGATAAACCCTTCTAACCTATTGCCTTTATCGATTTCACCCTAGC
* * * *
1935379 CAACCTTTTAGTTGGTTGACTTGATCGGTTTTGCCCTAGTCAACC
130 CAACCTTTCAATTGGTTGACTTGATCAGTTTTCCCCTAGTCAACC
1935424 TTTATAACTC
Statistics
Matches: 147, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
178 71 0.48
179 76 0.52
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (178 bp):
CAACCTTACAATTGATTGACTTTATCAGTTTCACCTGGTCAACCCTTCCAACCTTACAATTGGTT
GACTTTATCAGTTTTGCCCTGATAAACCCTTCTAACCTATTGCCTTTATCGATTTCACCCTAGCC
AACCTTTCAATTGGTTGACTTGATCAGTTTTCCCCTAGTCAACCCTTT
Found at i:1935502 original size:81 final size:81
Alignment explanation
Indices: 1935299--1935658 Score: 321
Period size: 81 Copynumber: 4.4 Consensus size: 81
1935289 TCAACTCTTC
* * * *
1935299 CAACCTTACAATTGGTTGACTTTATC-AGTTTTGCCTTGGTTAACCTTTTTAACTTGTTGGGTTT
1 CAACCTTTCAATTGGTTGACTTTATCGA-TTTTGCCTTGGTCAACCTTTATAACTTGTTGGCTTT
* * *
1935363 ATCGA-TTTGCCCTAGC
65 ATCGATTTTGCCTTGGA
* * * * * * ** * *
1935379 CAACCTTTTAGTTGGTTGACTTGATCGGTTTTGCCCTAGTCAACCTTTATAACTCATTAGTTTTA
1 CAACCTTTCAATTGGTTGACTTTATCGATTTTGCCTTGGTCAACCTTTATAACTTGTTGGCTTTA
*
1935444 TCGATTTTGCCTTGGT
66 TCGATTTTGCCTTGGA
* * *
1935460 CAACCTTTCAATTGGTTGACTTTATCGATTTTACCTTGGTCAACCCTTCTAACTTGTTGGCTTTA
1 CAACCTTTCAATTGGTTGACTTTATCGATTTTGCCTTGGTCAACCTTTATAACTTGTTGGCTTTA
*
1935525 TC-AGTTTCGCCTTGGA
66 TCGA-TTTTGCCTTGGA
* * * * * *
1935541 CAACCTTTCAATCGATTAACTTTATCGATTTTGCCCTTAACTTGGTGAACCTTTCTAACCTGTTG
1 CAACCTTTCAATTGGTTGACTTTATCGATTTTG--C----CTTGGTCAACCTTTATAACTTGTTG
* * * * *
1935606 GCTTTATCGGTTTCGCCCTAGC
60 GCTTTATCGATTTTGCCTTGGA
*
1935628 CAACCTTTCAATCGGTTGACTTTATCGATTT
1 CAACCTTTCAATTGGTTGACTTTATCGATTT
1935659 CACCCTGGCT
Statistics
Matches: 226, Mismatches: 44, Indels: 13
0.80 0.16 0.05
Matches are distributed among these distances:
80 56 0.25
81 101 0.45
83 1 0.00
87 68 0.30
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (81 bp):
CAACCTTTCAATTGGTTGACTTTATCGATTTTGCCTTGGTCAACCTTTATAACTTGTTGGCTTTA
TCGATTTTGCCTTGGA
Found at i:1935620 original size:87 final size:83
Alignment explanation
Indices: 1935440--1935658 Score: 262
Period size: 87 Copynumber: 2.6 Consensus size: 83
1935430 ACTCATTAGT
* * * * *
1935440 TTTATCGATTTTGCCTTGGTCAACCTTTCAATTGGTTGACTTTATCGA--TTTTACCTTGGTCAA
1 TTTATCGGTTTCGCCTTGGACAACCTTTCAATCGGTTGACTTTATCGATTTTTTAACTTGGTCAA
*
1935503 CCCTTCTAACTTGTTGGC
66 CCCTTCTAACCTGTTGGC
* * *
1935521 TTTATCAGTTTCGCCTTGGACAACCTTTCAATCGATTAACTTTATCGATTTTGCCCTTAACTTGG
1 TTTATCGGTTTCGCCTTGGACAACCTTTCAATCGGTTGACTTTATCGATTTT----TTAACTTGG
* *
1935586 TGAACCTTTCTAACCTGTTGGC
62 TCAACCCTTCTAACCTGTTGGC
* * *
1935608 TTTATCGGTTTCGCCCTAGCCAACCTTTCAATCGGTTGACTTTATCGATTT
1 TTTATCGGTTTCGCCTTGGACAACCTTTCAATCGGTTGACTTTATCGATTT
1935659 CACCCTGGCT
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
81 41 0.36
83 2 0.02
87 72 0.63
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.42
Consensus pattern (83 bp):
TTTATCGGTTTCGCCTTGGACAACCTTTCAATCGGTTGACTTTATCGATTTTTTAACTTGGTCAA
CCCTTCTAACCTGTTGGC
Found at i:1935654 original size:40 final size:40
Alignment explanation
Indices: 1935299--1935658 Score: 167
Period size: 40 Copynumber: 8.8 Consensus size: 40
1935289 TCAACTCTTC
* * * *
1935299 CAACCTTACAATTGGTTGACTTTATC-AGTTTTGCCTTGGT
1 CAACCTTTCAATCGGTTGACTTTATCGA-TTTTGCCCTAGT
* * * ** *
1935339 TAACCTTTTTAA-CTTGTTGGGTTTATCGA-TTTGCCCTAGC
1 CAACC-TTTCAATC-GGTTGACTTTATCGATTTTGCCCTAGT
* * * * *
1935379 CAACCTTTTAGTTGGTTGACTTGATCGGTTTTGCCCTAGT
1 CAACCTTTCAATCGGTTGACTTTATCGATTTTGCCCTAGT
* * * * *
1935419 CAACCTTTATAACTC-ATT-AGTTTTATCGATTTTGCCTTGGT
1 CAACCTTT-CAA-TCGGTTGA-CTTTATCGATTTTGCCCTAGT
* * * *
1935460 CAACCTTTCAATTGGTTGACTTTATCGATTTTACCTTGGT
1 CAACCTTTCAATCGGTTGACTTTATCGATTTTGCCCTAGT
* * * * * * *
1935500 CAACCCTTCTAA-CTTGTTGGCTTTATC-AGTTTCGCCTTGGA
1 CAACCTTTC-AATC-GGTTGACTTTATCGA-TTTTGCCCTAGT
* *
1935541 CAACCTTTCAATCGATTAACTTTATCGATTTTGCCCTTAACTTGGT
1 CAACCTTTCAATCGGTTGACTTTATCGATTTTGCCC-T-A----GT
* * * * * * *
1935587 GAACCTTTCTAACCTGTTGGCTTTATCGGTTTCGCCCTAGC
1 CAACCTTTC-AATCGGTTGACTTTATCGATTTTGCCCTAGT
1935628 CAACCTTTCAATCGGTTGACTTTATCGATTT
1 CAACCTTTCAATCGGTTGACTTTATCGATTT
1935659 CACCCTGGCT
Statistics
Matches: 236, Mismatches: 62, Indels: 44
0.69 0.18 0.13
Matches are distributed among these distances:
39 16 0.07
40 102 0.43
41 85 0.36
42 2 0.01
45 1 0.00
46 10 0.04
47 20 0.08
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (40 bp):
CAACCTTTCAATCGGTTGACTTTATCGATTTTGCCCTAGT
Found at i:1935952 original size:42 final size:42
Alignment explanation
Indices: 1935906--1936107 Score: 156
Period size: 42 Copynumber: 4.7 Consensus size: 42
1935896 CGAGTAAATC
* ** *
1935906 TTTTATCTTTTGTTGACTTGTCGGTTCAATCTTGGTTAACCT
1 TTTTATCCTTTGTTGACTTGTCGGTTCAATCCAGGTAAACCT
* * * * *
1935948 TTTTATCCTTTGTTTACTTATCGACTT-AGTCCCAGGTAAATCT
1 TTTTATCCTTTGTTGACTTGTCG-GTTCAAT-CCAGGTAAACCT
* * *
1935991 TTTTATCCTTTGTTGACTTGTTGGTTCAATCCCGGTCAACCT
1 TTTTATCCTTTGTTGACTTGTCGGTTCAATCCAGGTAAACCT
* * * * * * *
1936033 TTTTATCCTTTGTTTACCTATTGGCTT-AGTCCCTGAGTAAATCT
1 TTTTATCCTTTGTTGACTTGTCGG-TTCAAT-CCAG-GTAAACCT
* *
1936077 TTTTATCCTTTGTTAACTTGTTGGTTCAATC
1 TTTTATCCTTTGTTGACTTGTCGGTTCAATC
1936108 TCGATCAATT
Statistics
Matches: 125, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
42 56 0.45
43 40 0.32
44 29 0.23
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.49
Consensus pattern (42 bp):
TTTTATCCTTTGTTGACTTGTCGGTTCAATCCAGGTAAACCT
Found at i:1935996 original size:43 final size:41
Alignment explanation
Indices: 1935946--1936175 Score: 165
Period size: 42 Copynumber: 5.4 Consensus size: 41
1935936 CTTGGTTAAC
*
1935946 CTTTTTATCCTTTGTTTACTTATCGACTTAGTCCCAGGTAAAT
1 CTTTTTATCCTTTGTTTACTTATTG-CTTAGTCCC-GGTAAAT
* * * * * *
1935989 CTTTTTATCCTTTGTTGACTTGTTGGTTCAATCCCGGTCAAC
1 CTTTTTATCCTTTGTTTACTTATTGCTT-AGTCCCGGTAAAT
*
1936031 CTTTTTATCCTTTGTTTACCTATTGGCTTAGTCCCTGAGTAAAT
1 CTTTTTATCCTTTGTTTACTTATT-GCTTAGTCCC-G-GTAAAT
* * * * * * *
1936075 CTTTTTATCCTTTGTTAACTTGTTGGTTCAATCTCGATCAAT
1 CTTTTTATCCTTTGTTTACTTATTGCTT-AGTCCCGGTAAAT
* * * ** *
1936117 -TTTTGTCTCCTTTGTTTACCTGTTGGCTTAGTCCTAAGAAAAT
1 CTTTT-TATCCTTTGTTTACTTATT-GCTTAGTCC-CGGTAAAT
*
1936160 CCTTTTATCCTTTGTT
1 CTTTTTATCCTTTGTT
1936176 GGCTTGTCAG
Statistics
Matches: 143, Mismatches: 35, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
41 4 0.03
42 56 0.39
43 51 0.36
44 32 0.22
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.48
Consensus pattern (41 bp):
CTTTTTATCCTTTGTTTACTTATTGCTTAGTCCCGGTAAAT
Found at i:1936018 original size:85 final size:85
Alignment explanation
Indices: 1935863--1936522 Score: 539
Period size: 85 Copynumber: 7.8 Consensus size: 85
1935853 TTGGTTAATT
* * *
1935863 TTTTTAT-CTTTCGTTTACCTATCGACGTAGTCTC-GAGTAAAT-CTTTTATCTTTTGTTGACTT
1 TTTTTATCCTTT-GTTTACCTATCGACTTAGTCCCAG-GTAAATCCTTTTATCCTTTGTTGACTT
* *
1935925 GTCGGTTCAATCTTGGTTAACC
64 GTCGGTTCAATCTCGGTCAACC
* *
1935947 TTTTTATCCTTTGTTTACTTATCGACTTAGTCCCAGGTAAATCTTTTTATCCTTTGTTGACTTGT
1 TTTTTATCCTTTGTTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTGT
* *
1936012 TGGTTCAATCCCGGTCAACC
66 CGGTTCAATCTCGGTCAACC
* * * * *
1936032 TTTTTATCCTTTGTTTACCTATTGGCTTAGTCCCTGAGTAAATCTTTTTATCCTTTGTTAACTTG
1 TTTTTATCCTTTGTTTACCTATCGACTTAGTCCCAG-GTAAATCCTTTTATCCTTTGTTGACTTG
* * *
1936097 TTGGTTCAATCTCGATCAA-T
65 TCGGTTCAATCTCGGTCAACC
* * * * * * * *
1936117 TTTTGTCTCCTTTGTTTACCTGTTGGCTTAGTCCTAAGAAAATCCTTTTATCCTTTGTTGGCTTG
1 TTTT-TATCCTTTGTTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTG
* * * * *
1936182 TCAGTTTAACCCCGATCAACC
65 TCGGTTCAATCTCGGTCAACC
* * * * *
1936203 TTTGTATCCTTTGTTTACCTATC-AGTTTAGTTCTAGGGTAAATCCTTTTTATCCTTTGTTGTCT
1 TTTTTATCCTTTGTTTACCTATCGA-CTTAGTCCCA-GGTAAATCC-TTTTATCCTTTGTTGACT
* * * * *
1936267 TGTCAGTTTAACCCCGATCAA-C
63 TGTCGGTTCAATCTCGGTCAACC
* * * **
1936289 TTTGTATCTTTTGTTTATCTATC-AGCTTAGTCTTAGGTAAATCCTTTTATCCTTTGTTGACTTG
1 TTTTTATCCTTTGTTTACCTATCGA-CTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTG
** * *
1936353 TAAGTTTAATCTTGGTCAACC
65 TCGGTTCAATCTCGGTCAACC
* * * * * * * *
1936374 ATTTTATCCTTTATGTACCTGTCGACTTAATCCCAAGTAAATCCTTTTATCATTTGTTGACTTAT
1 TTTTTATCCTTTGTTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTGT
* * *
1936439 TGGTTCAATCTCAGTC-A-G
66 CGGTTCAATCTCGGTCAACC
* * * * ** * *
1936457 TTTTTGTCTTCTTTGTTTACCTGAT-GGCTTAGTCTCGGGTAACCCCTTTCATACTTTGTTGACT
1 TTTTTATC--CTTTGTTTACCT-ATCGACTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACT
1936521 TG
63 TG
1936523 ACTGCTTGGT
Statistics
Matches: 474, Mismatches: 88, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
83 6 0.01
84 66 0.14
85 250 0.53
86 114 0.24
87 38 0.08
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (85 bp):
TTTTTATCCTTTGTTTACCTATCGACTTAGTCCCAGGTAAATCCTTTTATCCTTTGTTGACTTGT
CGGTTCAATCTCGGTCAACC
Found at i:1936134 original size:171 final size:170
Alignment explanation
Indices: 1935863--1936476 Score: 596
Period size: 171 Copynumber: 3.6 Consensus size: 170
1935853 TTGGTTAATT
* * *
1935863 TTTTTAT-CTTTCGTTTACCTATCGACGTAGTCTCGAGTAAATC-TTTTATCTTTTGTTGACTTG
1 TTTTTATCCTTT-GTTTACCTATCGACTTAGTCCCGAGTAAATCTTTTTATCCTTTGTTGACTTG
* * * * *
1935926 TCGGTTCAATCTTGGTTAACCTTTT-TATCCTTTGTTTACTTATCGACTTAGTCCCAGGTAAATC
65 TCGGTTCAATCTCGATCAA-TTTTTGTATCCTTTGTTTACTTATCGACTTAGTCCTAGGTAAATC
* ** *
1935990 TTTTTATCCTTTGTTGACTTGTTGGTTCAATCCCGGTCAACC
129 CTTTTATCCTTTGTTGACTTGTAAGTTTAATCCCGGTCAACC
* * *
1936032 TTTTTATCCTTTGTTTACCTATTGGCTTAGTCCCTGAGTAAATCTTTTTATCCTTTGTTAACTTG
1 TTTTTATCCTTTGTTTACCTATCGACTTAGTCCC-GAGTAAATCTTTTTATCCTTTGTTGACTTG
* * * * * * * *
1936097 TTGGTTCAATCTCGATCAATTTTTGTCTCCTTTGTTTACCTGTTGGCTTAGTCCTAAGAAAATCC
65 TCGGTTCAATCTCGATCAATTTTTGTATCCTTTGTTTACTTATCGACTTAGTCCTAGGTAAATCC
* * * *
1936162 TTTTATCCTTTGTTGGCTTGTCAGTTTAACCCCGATCAACC
130 TTTTATCCTTTGTTGACTTGTAAGTTTAATCCCGGTCAACC
* * ** * *
1936203 TTTGTATCCTTTGTTTACCTATC-AGTTTAGTTCTAGGGTAAATCCTTTTTATCCTTTGTTGTCT
1 TTTTTATCCTTTGTTTACCTATCGA-CTTAG-TCCCGAGTAAAT-CTTTTTATCCTTTGTTGACT
* * * * * * *
1936267 TGTCAGTTTAACCCCGATCAA-CTTTGTATCTTTTGTTTA-TCTATC-AGCTTAGTCTTAGGTAA
63 TGTCGGTTCAATCTCGATCAATTTTTGTATCCTTTGTTTACT-TATCGA-CTTAGTCCTAGGTAA
**
1936329 ATCCTTTTATCCTTTGTTGACTTGTAAGTTTAATCTTGGTCAACC
126 ATCCTTTTATCCTTTGTTGACTTGTAAGTTTAATCCCGGTCAACC
* * * * * * * * *
1936374 ATTTTATCCTTTATGTACCTGTCGACTTAATCCCAAGTAAATCCTTTTATCATTTGTTGACTTAT
1 TTTTTATCCTTTGTTTACCTATCGACTTAGTCCCGAGTAAATCTTTTTATCCTTTGTTGACTTGT
* * * *
1936439 TGGTTCAATCTC-AGTCAGTTTTTGTCTTCTTTGTTTAC
66 CGGTTCAATCTCGA-TCAATTTTTGTATCCTTTGTTTAC
1936477 CTGATGGCTT
Statistics
Matches: 351, Mismatches: 81, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
168 1 0.00
169 54 0.15
170 39 0.11
171 220 0.63
172 37 0.11
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (170 bp):
TTTTTATCCTTTGTTTACCTATCGACTTAGTCCCGAGTAAATCTTTTTATCCTTTGTTGACTTGT
CGGTTCAATCTCGATCAATTTTTGTATCCTTTGTTTACTTATCGACTTAGTCCTAGGTAAATCCT
TTTATCCTTTGTTGACTTGTAAGTTTAATCCCGGTCAACC
Found at i:1937604 original size:167 final size:165
Alignment explanation
Indices: 1937421--1937984 Score: 605
Period size: 167 Copynumber: 3.4 Consensus size: 165
1937411 TTTGAACATC
* * *
1937421 AAAATTCTTTAAATATCATTATTTAATTCACATTAAATAAGTTTTGAAAAATTATTTTATTTTCA
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATAAGTTTTGAAAAATTATTTTATTTTCA
* *
1937486 TAAGTTTTTCATTTTTCCTTTGAAATTTTCCTTATTTTTGAAATACAGAGTTTTCTACTCCGTAA
66 TAAGTTTTTCATTTTTCCTTTGAAATTCTCC-TATTTTTGAAATATAGAGTTTTCTACTCCGTAA
*
1937551 ATGTTTTTGAGGGGATTTTTCTTGCTTTATAATTTTT
130 ATATTTTT-AGGGGATTTTTCTTGCTTTATAATTTTT
1937588 AAAATTCATCAAATATCATCATTTAATTCACATTAAATAAGTTTTGAAAAATTCA-TTTATTTTC
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATAAGTTTTGAAAAATT-ATTTTATTTTC
* *
1937652 ATAAGTTTTTCATTTTTTCCTTTGAAATTCTCCTATTTTTGATATATAGAGTTTTCTACTCGGTA
65 ATAAGTTTTTCA-TTTTTCCTTTGAAATTCTCCTATTTTTGAAATATAGAGTTTTCTACTCCGTA
* *
1937717 AATATTTTCAAGGGGATTTTTCTTG-GTT-T-A----T
129 AATATTTT-TAGGGGATTTTTCTTGCTTTATAATTTTT
* * **** * *** *
1937748 --AATTCGTCAAATATCATCATTTGATTCGTGGTAAATTAGTTTTGAATTTTTTTTTTATTTTCA
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATAAGTTTTGAAAAATTATTTTATTTTCA
* * * * ***
1937811 TAAGTTTTTCATTTTTTCTTTGAAATTCTCCTATTTTTGAAAAATTGAGTTTTCTATTTTATAAA
66 TAAGTTTTTCATTTTTCCTTTGAAATTCTCCTATTTTTGAAATATAGAGTTTTCTACTCCGTAAA
* *
1937876 TATTTTTAGAGGGATTTTTC-TCCATTTAAAATTTTT
131 TATTTTTAG-GGGATTTTTCTTGC-TTTATAATTTTT
* ** * * * * *
1937912 AAAATTCATCAAACATTGTCA-TTAGACTCTCATTAAATCAGTTTTGAAAATTTCAATTTATTTT
1 AAAATTCATCAAATATCATCATTTA-ATTCACATTAAATAAGTTTTGAAAAATT-ATTTTATTTT
*
1937976 -ATGAGTTTT
64 CATAAGTTTT
1937985 GAATTTTTTT
Statistics
Matches: 331, Mismatches: 49, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
156 3 0.01
157 62 0.19
158 64 0.19
160 2 0.01
164 2 0.01
165 3 0.01
166 45 0.14
167 130 0.39
168 20 0.06
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (165 bp):
AAAATTCATCAAATATCATCATTTAATTCACATTAAATAAGTTTTGAAAAATTATTTTATTTTCA
TAAGTTTTTCATTTTTCCTTTGAAATTCTCCTATTTTTGAAATATAGAGTTTTCTACTCCGTAAA
TATTTTTAGGGGATTTTTCTTGCTTTATAATTTTT
Found at i:1938800 original size:21 final size:21
Alignment explanation
Indices: 1938776--1938815 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1938766 GTGATATTTA
1938776 TCATGTCATATCTT-TGTTGAT
1 TCATGTCATAT-TTATGTTGAT
*
1938797 TCATGTTATATTTATGTTG
1 TCATGTCATATTTATGTTG
1938816 TTTTAGGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (21 bp):
TCATGTCATATTTATGTTGAT
Found at i:1947155 original size:13 final size:13
Alignment explanation
Indices: 1947137--1947161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1947127 AATTTTTTGA
1947137 GTATCGATACATT
1 GTATCGATACATT
1947150 GTATCGATACAT
1 GTATCGATACAT
1947162 ACTTGGTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1953923 original size:13 final size:13
Alignment explanation
Indices: 1953905--1953929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1953895 CATAAAATGT
1953905 TGTATCGATACAA
1 TGTATCGATACAA
1953918 TGTATCGATACA
1 TGTATCGATACA
1953930 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1954012 original size:13 final size:13
Alignment explanation
Indices: 1953994--1954018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1953984 ATTACTCAAA
1953994 TGTATCGATACAT
1 TGTATCGATACAT
1954007 TGTATCGATACA
1 TGTATCGATACA
1954019 CCGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1954083 original size:52 final size:52
Alignment explanation
Indices: 1954027--1954147 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1954017 CACCGATCTT
*
1954027 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1954079 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1954131 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1954148 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1958059 original size:28 final size:28
Alignment explanation
Indices: 1958032--1958652 Score: 697
Period size: 28 Copynumber: 21.5 Consensus size: 28
1958022 GCGTTCATCT
* * * *
1958032 TTTCAAAGCCCACAGGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1958060 TTTCAAAGCCCACAAGTCAATGACA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1958087 TCTTCAAAAGACCACAAGTCAGTGGCACCC
1 T-TTC-AAAGCCCACAAGTCAGTGGCACCC
*
1958117 TTTCAAAGCCCGCAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* *
1958147 TTTAAAAGCTCACACAAATCAGTGGCACCC
1 TTTCAAAGC-C-CACAAGTCAGTGGCACCC
** *
1958177 TTTCAAAGCCCGTAAGTCAGTGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1958205 TTCCAAAGCCCACAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* *
1958235 TTTCAAAGCCCACACAAATCAATGGCACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
*
1958265 TTCCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1958293 TTCCAAAGCCCACAAGTCAATGGCATACCT
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* *
1958323 TTTCAAAGCCCACACAAATTAGTGGCACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
* *
1958353 TTCCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1958381 TTTCAAAGCCCACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1958409 TTTTAAAGCCCACAAGTTAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* *
1958439 TTTCAAAGCCTATACAAATCAGTGGCACCC
1 TTTCAAAGCC--CACAAGTCAGTGGCACCC
1958469 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1958497 TTTCAAAGCCCATAAGTCAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
1958525 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1958553 TTTCATAGCCCACAACTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1958581 TTTCACAGCCCACAAGTCAGTGGTATCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
1958610 -TTCAAACCCCACAAGTCAGTGGCATCCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA--CCC
1958639 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
1958653 CAAGTCGGTG
Statistics
Matches: 502, Mismatches: 69, Indels: 42
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.00
28 312 0.62
29 32 0.06
30 106 0.21
31 5 0.01
32 46 0.09
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:1958212 original size:88 final size:85
Alignment explanation
Indices: 1958032--1958652 Score: 696
Period size: 88 Copynumber: 7.2 Consensus size: 85
1958022 GCGTTCATCT
* * * * * * * *
1958032 TTTCAAAGCCCACAGGTTAGTGGC-ATCTTTTCAAAGCCCACAAGTCAATGACA-TCTCTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACAAATCAGTGGCACCCT-TTC-AA
*
1958095 AGACCACAAGTCAGTGGCACCC
64 AGCCCACAAGTCAGTGGCACCC
* *
1958117 TTTCAAAGCCCGCAAGTCAGTGGCATACCCTTTAAAAGCTCACACAAATCAGTGGCACCCTTTCA
1 TTTCAAAGCCCACAAGTCAGTGGC-TACCCTTTCAAAGC-C-CACAAATCAGTGGCACCCTTTCA
** *
1958182 AAGCCCGTAAGTCAGTGGCACCA
63 AAGCCCACAAGTCAGTGGCACCC
* * *
1958205 TTCCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACACAAATCAATGGCACCCTTCCA
1 TTTCAAAGCCCACAAGTCAGTGGC-TACCCTTTCAAAG-CC-CACAAATCAGTGGCACCCTTTCA
1958270 AAGCCCACAAGTCAGTGGCACCC
63 AAGCCCACAAGTCAGTGGCACCC
* * * * *
1958293 TTCCAAAGCCCACAAGTCAATGGCATACCTTTTCAAAGCCCACACAAATTAGTGGCACCCTTCCA
1 TTTCAAAGCCCACAAGTCAGTGGC-TACCCTTTCAAAG-CC-CACAAATCAGTGGCACCCTTTCA
*
1958358 AAGCCCACAAGTCAATGGCACCC
63 AAGCCCACAAGTCAGTGGCACCC
* * *
1958381 TTTCAAAGCCCACAAGTCAGTGG-TACCCTTTTAAAGCCCACAAGTTAGTGGCATACCCTTTCAA
1 TTTCAAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACAAATCAGTGGC--ACCCTTTCAA
* *
1958445 AGCCTATACAAATCAGTGGCACCC
64 AGCC--CACAAGTCAGTGGCACCC
* * * *
1958469 TTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAG
1958533 CCCACAAGTCAGTGGCACCC
66 CCCACAAGTCAGTGGCACCC
* * * * *
1958553 TTTCATAGCCCACAACTCAGTGGC-ACCCTTTCACAGCCCACAAGTCAGTGGTATCCC-TTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACAAATCAGTGGCA-CCCTTTCAAA
*
1958616 CCCCACAAGTCAGTGGCATCCCC
65 GCCCACAAGTCAGTGGCA--CCC
1958639 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
1958653 CAAGTCGGTG
Statistics
Matches: 470, Mismatches: 52, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
84 100 0.21
85 24 0.05
86 52 0.11
87 10 0.02
88 266 0.57
89 16 0.03
90 2 0.00
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACCC
Found at i:1958285 original size:116 final size:112
Alignment explanation
Indices: 1958032--1958652 Score: 697
Period size: 116 Copynumber: 5.4 Consensus size: 112
1958022 GCGTTCATCT
* * * * * * *
1958032 TTTCAAAGCCCACAGGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAATGACA-TCTCTTCAAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCT-TTC-AAA
* * *
1958096 GACCACAAGTCAGTGGCACCCTTTCAAAGCCCGCAAGTCAGTGGCATACCC
64 GCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCC
* * ** * *
1958147 TTTAAAAGCTCACACAAATCAGTGGCACCCTTTCAAAGCCCGTAAGTCAGTGGCACCATTCCAAA
1 TTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
1958212 GCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACACAAATCAATGGCACCC
64 GCCCACAAATCAGTGGC--ACCCTTTCAAAG-CC-CACAAGTCAGTGGCACCC
* * * *
1958265 TTCCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGCATACCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAAA
* * *
1958330 GCCCACACAAATTAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGCACCC
64 G-CC-CACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1958381 TTTCAAAGCCCACAAGTCAGTGGTACCCTTTTAAAGCCCACAAGTTAGTGGCATACCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAAA
*
1958446 GCCTATACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
64 GCC--CACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
1958497 TTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCATAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1958562 CCACAACTCAGTGGCACCCTTTCACAGCCCACAAGTCAGTGGTATCCC
66 CCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
1958610 -TTCAAACCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACA
1 TTTCAAAGCCCACAAGTCAGTGGCA--CCCTTTCAAAGCCCACA
1958653 CAAGTCGGTG
Statistics
Matches: 435, Mismatches: 56, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
112 61 0.14
113 3 0.01
114 28 0.06
115 10 0.02
116 222 0.51
117 39 0.09
118 45 0.10
119 4 0.01
120 23 0.05
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (112 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:1958688 original size:25 final size:25
Alignment explanation
Indices: 1958640--1958689 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1958630 GGCATCCCCT
*
1958640 TTCAAAGCCCACACAAGTCGGTGGC
1 TTCAAAGCCCACACAAGTCAGTGGC
* *
1958665 TTCAAAGCCCACATAAGTTAGTGGC
1 TTCAAAGCCCACACAAGTCAGTGGC
1958690 ACCTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (25 bp):
TTCAAAGCCCACACAAGTCAGTGGC
Found at i:1959728 original size:20 final size:19
Alignment explanation
Indices: 1959652--1959726 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1959642 TTTTACCCAG
*
1959652 ATGTATCAATATATTTTTCA
1 ATGTATCGATATATTTTT-A
* *
1959672 ATGTATCGATATATGTATGA
1 ATGTATCGATATAT-TTTTA
*
1959692 ATGTATCGATACATTCTTTA
1 ATGTATCGATATATT-TTTA
1959712 ATGTATCGATATATT
1 ATGTATCGATATATT
1959727 CTGTCCTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.93
21 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (19 bp):
ATGTATCGATATATTTTTA
Found at i:1959766 original size:91 final size:91
Alignment explanation
Indices: 1959600--1959773 Score: 226
Period size: 91 Copynumber: 1.9 Consensus size: 91
1959590 TTTTTACCCA
* * * *
1959600 AATGTATCGATACATGTATAAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCAATATA
1 AATGTATCGATACATGTATAAATGTATCGATACATTCTGTCCTTTTACCCAAATATATCAATACA
**
1959665 TTTTTCAATGTATCGATATATGTATG
66 TTAATCAATGTATCGATATATGTATG
* * * *
1959691 AATGTATCGATACAT-TCTTTAATGTATCGATATATTCTGTCCTTTTACCCAAATATATCGATAC
1 AATGTATCGATACATGT-ATAAATGTATCGATACATTCTGTCCTTTTACCCAAATATATCAATAC
1959755 ATTGAAT-AATGTATCGATA
65 ATT-AATCAATGTATCGATA
1959774 CATTTAGTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
90 1 0.01
91 69 0.97
92 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (91 bp):
AATGTATCGATACATGTATAAATGTATCGATACATTCTGTCCTTTTACCCAAATATATCAATACA
TTAATCAATGTATCGATATATGTATG
Found at i:1963442 original size:16 final size:16
Alignment explanation
Indices: 1963416--1963457 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
1963406 GGAAGAAAAT
*
1963416 AAATCAAAATTTGTTGA
1 AAAT-AAAATTTCTTGA
1963433 AAATAAAA-TTCTTGA
1 AAATAAAATTTCTTGA
*
1963448 AAAGAAAATT
1 AAATAAAATT
1963458 ATCGAACTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (16 bp):
AAATAAAATTTCTTGA
Found at i:1967735 original size:22 final size:18
Alignment explanation
Indices: 1967695--1967743 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 18
1967685 CAATTCCTTT
1967695 TCAAAATTCATCTTTTTCATA
1 TCAAAA-TCATCTTTTTC--A
1967716 TCAAAATCATCTATTTTTCA
1 TCAAAATCATC--TTTTTCA
1967736 TCAAAATC
1 TCAAAATC
1967744 TTCATCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 14 0.54
21 6 0.23
22 6 0.23
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCAAAATCATCTTTTTCA
Found at i:1970626 original size:22 final size:21
Alignment explanation
Indices: 1970577--1970629 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1970567 TTTCAATATC
1970577 AATAAATGTTTTAGAGTTATA
1 AATAAATGTTTTAGAGTTATA
*
1970598 AATAAATGTTTTTGAGCTT-TA
1 AATAAATGTTTTAGAG-TTATA
1970619 AATCAAATGTT
1 AAT-AAATGTT
1970630 ATTTAAGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (21 bp):
AATAAATGTTTTAGAGTTATA
Found at i:1970765 original size:20 final size:20
Alignment explanation
Indices: 1970742--1970808 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
1970732 CACACCCAGA
1970742 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
1970762 TGTATCGATAC---A----T
1 TGTATCGATACATTATGCTT
*
1970775 TGTATCAATACATTATGCTT
1 TGTATCGATACATTATGCTT
1970795 TGTATCGATACATT
1 TGTATCGATACATT
1970809 TTATCGATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.29
16 1 0.03
17 1 0.03
20 25 0.66
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:1970779 original size:13 final size:13
Alignment explanation
Indices: 1970761--1970820 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
1970751 ACATTATGCT
1970761 TTGTATCGATACA
1 TTGTATCGATACA
*
1970774 TTGTATCAATACA
1 TTGTATCGATACA
*
1970787 -T-TAT-G---CT
1 TTGTATCGATACA
1970794 TTGTATCGATACA
1 TTGTATCGATACA
*
1970807 TTTTATCGATACA
1 TTGTATCGATACA
1970820 T
1 T
1970821 GCTCATTGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 1 0.03
11 3 0.08
12 1 0.03
13 26 0.72
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1970786 original size:33 final size:33
Alignment explanation
Indices: 1970742--1970839 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
1970732 CACACCCAGA
1970742 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
*
1970775 TGTATCAATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
* ** *
1970808 TTTATCGATACATGCT-CATTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
1970840 ACTCAATTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 15 0.25
33 44 0.75
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:1970854 original size:20 final size:19
Alignment explanation
Indices: 1970805--1970858 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
1970795 TGTATCGATA
* *
1970805 CATTTTATCGATACATGCT
1 CATTATATCGATACATACT
*
1970824 CATTGTATCGATACATACT
1 CATTATATCGATACATACT
1970843 CAATTATATCGATACA
1 C-ATTATATCGATACA
1970859 AGAAACTGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (19 bp):
CATTATATCGATACATACT
Found at i:1970917 original size:20 final size:20
Alignment explanation
Indices: 1970889--1970941 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1970879 CTAAGTGAAA
* *
1970889 TGTACCGATACATGGAA-CAT
1 TGTATCGATACAT-GAAGAAT
1970909 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
*
1970929 TGTATTGATACAT
1 TGTATCGATACAT
1970942 TATGCCCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:1971325 original size:19 final size:19
Alignment explanation
Indices: 1971282--1971355 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
1971272 CACACCCAGA
* *
1971282 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
*
1971302 TGTATCGATACATGCTCAT
1 TGTATCGATACATGATCAT
1971321 TGTATCGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AT
*
1971341 TTTATCGATACATGA
1 TGTATCGATACATGA
1971356 AACTAGCAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:1971401 original size:13 final size:13
Alignment explanation
Indices: 1971383--1971431 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
1971373 CTATCACTAT
1971383 TTGTATCGATACA
1 TTGTATCGATACA
1971396 TTGTATCGATACA
1 TTGTATCGATACA
1971409 -TG-AT-G--A-A
1 TTGTATCGATACA
1971416 TTGTATCGATACA
1 TTGTATCGATACA
1971429 TTG
1 TTG
1971432 CTTGTAACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 3 0.10
13 17 0.57
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1979510 original size:19 final size:20
Alignment explanation
Indices: 1979486--1979536 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1979476 CAATACAATG
**
1979486 TATCGATACATGTTC-ATTA
1 TATCGATACATGGACAATTA
*
1979505 TATCGATACATGGACAATTG
1 TATCGATACATGGACAATTA
1979525 TATCGATACATG
1 TATCGATACATG
1979537 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCGATACATGGACAATTA
Found at i:1979530 original size:20 final size:20
Alignment explanation
Indices: 1979480--1979536 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
1979470 TTGTATCAAT
*
1979480 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
1979499 TC-ATTATATCGATACATGG
1 ACAATTGTATCGATACATGG
1979518 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
1979537 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:1988256 original size:19 final size:19
Alignment explanation
Indices: 1988194--1988265 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
1988184 ACCTTTGAAC
** *
1988194 GTATCGATACACATTCAGAT
1 GTATCGATACATGTTCA-TT
*
1988214 GTATCGATACAT-TATGCTTT
1 GTATCGATACATGT-T-CATT
1988234 GTATCGATACATGTTCATT
1 GTATCGATACATGTTCATT
1988253 GTATCGATACATG
1 GTATCGATACATG
1988266 AAACTAACAG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 17 0.38
20 26 0.58
21 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (19 bp):
GTATCGATACATGTTCATT
Found at i:1991604 original size:154 final size:156
Alignment explanation
Indices: 1991265--1991604 Score: 406
Period size: 154 Copynumber: 2.2 Consensus size: 156
1991255 GCACCTAGTA
* * *
1991265 ATCCC-AAAAGACTTAAAAA-GATGATAGATGGGATGAACCTATCCTAAAATGCCTACCTTCGGC
1 ATCCCTAAAAGACTTAAAAAGGATAATAGATGGGATGAACCTATCCTAAAATGCCCACCTTCAGC
* * *
1991328 ATAAAAACAGACCTGGTGACAACCTAAGACTTAGTTCTAAATAATTATGAAAATGCCCCTAGGGA
66 ATAAAAACAGACCTGGTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATGACCCTAGGGA
1991393 ATAACTTCAACGTAAAAGTACCCGAT
131 ATAACTTCAACGTAAAAGTACCCGAT
* * *
1991419 A-CCCTTAAAGGACTTAAAAAGGATAAGAGATGGGATGAACCTATCCT-AAATGCCCACCTTTAG
1 ATCCC-TAAAAGACTTAAAAAGGATAATAGATGGGATGAACCTATCCTAAAATGCCCACCTTCAG
** * * * *
1991482 CATAAAAGTAGATCTGGTGACAA-CTAGGAGTTGGTTCTAAAAAATTACGAAAAT-ACCCTA-GG
65 CATAAAAACAGACCTGGTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATGACCCTAGGG
* * * *
1991544 AGATACCTTCAACGTGAAAGTGTCTCGAT
130 A-ATAACTTCAACGTAAAAGT-ACCCGAT
* * *
1991573 ATCCCTAAATGACCTAAAAAGGATCATAGATG
1 ATCCCTAAAAGACTTAAAAAGGATAATAGATG
1991605 AGATAGAATG
Statistics
Matches: 157, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
152 3 0.02
153 25 0.16
154 56 0.36
155 49 0.31
156 24 0.15
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.23
Consensus pattern (156 bp):
ATCCCTAAAAGACTTAAAAAGGATAATAGATGGGATGAACCTATCCTAAAATGCCCACCTTCAGC
ATAAAAACAGACCTGGTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATGACCCTAGGGA
ATAACTTCAACGTAAAAGTACCCGAT
Found at i:1993343 original size:13 final size:13
Alignment explanation
Indices: 1993325--1993361 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1993315 TCCATTTTTT
1993325 TCTTCTCTTTCTC
1 TCTTCTCTTTCTC
1993338 TCTTCTCTTT-T-
1 TCTTCTCTTTCTC
*
1993349 TCTTCTTTTTCTC
1 TCTTCTCTTTCTC
1993362 CTCATGCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TCTTCTCTTTCTC
Found at i:1993908 original size:9 final size:9
Alignment explanation
Indices: 1993894--1993920 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1993884 ATATTAGATG
1993894 AATTTTAAA
1 AATTTTAAA
1993903 AATTTTAAA
1 AATTTTAAA
1993912 AATTTTAAA
1 AATTTTAAA
1993921 CTGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTTTAAA
Found at i:1994218 original size:166 final size:164
Alignment explanation
Indices: 1993926--1994458 Score: 556
Period size: 166 Copynumber: 3.2 Consensus size: 164
1993916 TTAAACTGAA
* * * * * *
1993926 AAAAATCCCCTCAAAAACATTTATGGAGTAAAAAACTTCGTTTTTCAAAAATAGGAGAATTTCAA
1 AAAAATCCCCCCAAAAACATTTACGAAGTAAAAAACTTCGTATTTCGAAAATA-GAGAATTTCAG
* * * * * *
1993991 GAAAAAATTCAAAACTTATGAAAATAAATTAATTTTTCAAAACTGATTTCATATAAATTAAATAA
65 GAAAAAATTAAAAACTAATGAAAATGAATGAATTTTTTAAAACTGATTTAATATAAATTAAATAA
*
1994056 TAACATTTGATGAATTTTAAAAATTAAACACCAAG
130 TAATATTTGATGAATTTTAAAAATTAAACACCAAG
*** * * * *
1994091 AAAAATCCTTTCAAAAACATTTACGGAGTAGAAAACTCCGTATTTCGAAAATTAGAGAGTTTCGA
1 AAAAATCCCCCCAAAAACATTTACGAAGTAAAAAACTTCGTATTTCGAAAA-TAGAGAATTTC-A
* * * * **
1994156 GGAAAAAATAAAAAACTCATGAAGATGAGTGAATTTTTTAAAACTGATTTAATCCAAATTAAATA
64 GGAAAAAATTAAAAACTAATGAAAATGAATGAATTTTTTAAAACTGATTTAATATAAATTAAATA
* * *
1994221 ATAATATTTTATTAATTTTAAAAATTAAAAACCAAG
129 ATAATATTTGATGAATTTTAAAAATTAAACACCAAG
* *
1994257 AAAAATCTCCCCCAAAAA-AATTACGAAGTAAAAAACTTCGTATTTTAGAAACA-AGAGAATTTC
1 AAAAATC-CCCCCAAAAACATTTACGAAGTAAAAAACTTCGTA-TTTCGAAA-ATAGAGAATTTC
* * * *
1994320 AAGGAAAAAATTAAAAA-TGAATGAAAATGAATGAATTCTTTAAAACTAATTTAATGTTAATTAA
63 -AGGAAAAAATTAAAAACT-AATGAAAATGAATGAATTTTTTAAAACTGATTTAATATAAATTAA
* * *
1994384 AGAATAATATTTGATGGATTTTAAAAATTTTAAAC-CCATG
126 ATAATAATATTTGATGAATTTTAAAAA--TTAAACACCAAG
** *
1994424 -AAAATCCTTCCAAAAAAATTTACGAAG-AAGAAAAC
1 AAAAATCCCCCCAAAAACATTTACGAAGTAA-AAAAC
1994459 CCCATAATTT
Statistics
Matches: 306, Mismatches: 52, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
165 63 0.21
166 219 0.72
167 18 0.06
168 6 0.02
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.30
Consensus pattern (164 bp):
AAAAATCCCCCCAAAAACATTTACGAAGTAAAAAACTTCGTATTTCGAAAATAGAGAATTTCAGG
AAAAAATTAAAAACTAATGAAAATGAATGAATTTTTTAAAACTGATTTAATATAAATTAAATAAT
AATATTTGATGAATTTTAAAAATTAAACACCAAG
Found at i:1994870 original size:13 final size:13
Alignment explanation
Indices: 1994852--1994877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1994842 CCACTATTTC
1994852 TATCGATACATTG
1 TATCGATACATTG
1994865 TATCGATACATTG
1 TATCGATACATTG
1994878 CTTGTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2002959 original size:22 final size:22
Alignment explanation
Indices: 2002928--2002969 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2002918 ATTTTTTTTA
2002928 TTTGACAAAGGGAGAGAAATGC
1 TTTGACAAAGGGAGAGAAATGC
* *
2002950 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGAGAGAAAT
2002970 ATATTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGAGAGAAATGC
Found at i:2006636 original size:19 final size:20
Alignment explanation
Indices: 2006596--2006663 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
2006586 TTTTATACTT
* *
2006596 TGTATCGATACATCATTCAA
1 TGTATCGATGCATTATTCAA
2006616 TGTATCGATGCATTA-TCAA
1 TGTATCGATGCATTATTCAA
2006635 TGTATCGATGCATTATTCAA
1 TGTATCGATGCATTATTCAA
2006655 TGTATCGAT
1 TGTATCGAT
2006664 ACATGCAGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.42
20 26 0.58
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATGCATTATTCAA
Found at i:2012858 original size:42 final size:42
Alignment explanation
Indices: 2012803--2012921 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2012793 TTTTTCTCTC
* *
2012803 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2012845 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2012887 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2012922 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2012862 original size:12 final size:11
Alignment explanation
Indices: 2012836--2012911 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2012826 TCTATTATCT
*
2012836 CTCCTGTCTCTC
1 CTCCTATCTC-C
2012848 CTCCTATCATCC
1 CTCCTATC-TCC
2012860 CTCCTATCT--
1 CTCCTATCTCC
*
2012869 CTACTATCT--
1 CTCCTATCTCC
*
2012878 CTCCTGTCTCTC
1 CTCCTATCTC-C
2012890 CTCCTATCATCC
1 CTCCTATC-TCC
*
2012902 CTCCTCTCTC
1 CTCCTATCTC
2012912 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2012863 original size:24 final size:24
Alignment explanation
Indices: 2012827--2012912 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2012817 CCTCCTCTCT
* *
2012827 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
2012851 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
2012872 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
2012893 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
2012913 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:2012887 original size:18 final size:18
Alignment explanation
Indices: 2012818--2012888 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2012808 CCTGTCATCC
* *
2012818 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
2012836 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
2012858 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
2012878 CTCCTGTCTCT
1 CTCCTGTCTCT
2012889 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:2019255 original size:162 final size:162
Alignment explanation
Indices: 2018983--2019301 Score: 593
Period size: 162 Copynumber: 2.0 Consensus size: 162
2018973 CGAGAGAGTC
2018983 ATCCAAATTAAGCAAAAAGCCTGCATTTGCTAGAAAGAAAGAGGGAGAGGCCAATGCCATCAGTT
1 ATCCAAATTAAGCAAAAAGCCTGCATTTGCTAGAAAGAAAGAGGGAGAGGCCAATGCCATCAGTT
2019048 ATGCCAACCCGACACGACCAAGACACCATTGAGCACCTAGTCCTTATTACCTAAGTGCACCTTAC
66 ATGCCAACCCGACACGACCAAGACACCATTGAGCACCTAGTCCTTATTACCTAAGTGCACCTTAC
2019113 CCAAGCCTAGTCATGATACCTCCCCAGTTGGT
131 CCAAGCCTAGTCATGATACCTCCCCAGTTGGT
* *
2019145 ATCCAAATTGAGCAAGAAGCCTGCATTTGCTAGAAAGAAAGAGGGAGAGGCCAATGCCATCAGTT
1 ATCCAAATTAAGCAAAAAGCCTGCATTTGCTAGAAAGAAAGAGGGAGAGGCCAATGCCATCAGTT
* * *
2019210 ATGCCAACTCGACGCGACCAAGACACCATTGAGCACCTGGTCCTTATTACCTAAGTGCACCTTAC
66 ATGCCAACCCGACACGACCAAGACACCATTGAGCACCTAGTCCTTATTACCTAAGTGCACCTTAC
2019275 CCAAGCCTAGTCATGATACCTCCCCAG
131 CCAAGCCTAGTCATGATACCTCCCCAG
2019302 CCGGTGTACG
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 152 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (162 bp):
ATCCAAATTAAGCAAAAAGCCTGCATTTGCTAGAAAGAAAGAGGGAGAGGCCAATGCCATCAGTT
ATGCCAACCCGACACGACCAAGACACCATTGAGCACCTAGTCCTTATTACCTAAGTGCACCTTAC
CCAAGCCTAGTCATGATACCTCCCCAGTTGGT
Found at i:2020552 original size:14 final size:14
Alignment explanation
Indices: 2020516--2020562 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
2020506 AAAAGATAAA
*
2020516 AAAAC-AAAAAAAT
1 AAAACAAAAAAAAC
*
2020529 GAAACGAAAAAAAAC
1 AAAAC-AAAAAAAAC
2020544 AAAACAAAAAAAAGC
1 AAAACAAAAAAAA-C
2020559 AAAA
1 AAAA
2020563 AAGCTCCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 16 0.57
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (14 bp):
AAAACAAAAAAAAC
Found at i:2021870 original size:31 final size:31
Alignment explanation
Indices: 2021796--2022339 Score: 261
Period size: 31 Copynumber: 17.4 Consensus size: 31
2021786 CGTGGCACCC
* * * *
2021796 TTCCTAAAGTCCATGACTCAGTAGCATCTCAT
1 TTCC-AAAGTCCACGACTCAGTGGCATTTCTT
* *
2021828 TTCTCAAAGTCCACGACTCAATGTCATTTCTT
1 TTC-CAAAGTCCACGACTCAGTGGCATTTCTT
* * *
2021860 TTCCAAAGTCCACAACTCAATGGCATCTC-T
1 TTCCAAAGTCCACGACTCAGTGGCATTTCTT
* *
2021890 TCCCAAAGTCCACGACTCAGTGGTATTTCTT
1 TTCCAAAGTCCACGACTCAGTGGCATTTCTT
* * *
2021921 CTT-CAAAGTCCATGACTTAGTGGCATCAT-TT
1 -TTCCAAAGTCCACGACTCAGTGGCAT-TTCTT
* * * *
2021952 TTCTAAA-TCTACAACTCAGTGGTATCCTT-TT
1 TTCCAAAGTCCACGACTCAGTGGCAT--TTCTT
* * *
2021983 TT-CTAAGTCCATGACTCAGTAGCATCCTT-TT
1 TTCCAAAGTCCACGACTCAGTGGCAT--TTCTT
*
2022014 TTCTTCAAAGTCCACGACTCAATGGCATTTCTT
1 TTC--CAAAGTCCACGACTCAGTGGCATTTCTT
* *
2022047 CTT-CAAAGTCCACGACTCATTGGCATCTCTT
1 -TTCCAAAGTCCACGACTCAGTGGCATTTCTT
*
2022078 TT-CTAAGTCCACGACTCAGTGGCATCCTT-TT
1 TTCCAAAGTCCACGACTCAGTGGCAT--TTCTT
* * *
2022109 TTCTTCCAAGTCCACGACTCAGTGGCGTCTCTT
1 TTC--CAAAGTCCACGACTCAGTGGCATTTCTT
* *
2022142 CTCC-AAGTCCACGACTCAATGGCACCCTTT-TT
1 TTCCAAAGTCCACGACTCAGTGGCA---TTTCTT
* * *
2022174 CTT-C-AAGTCTACCACTCTGTGGCACTTTTTTCTT
1 -TTCCAAAGTCCACGACTCAGTGGCA----TTTCTT
** * **
2022208 TT-CAAACCCCATGACTCTA-TGGCA---CCC
1 TTCCAAAGTCCACGACTC-AGTGGCATTTCTT
* * *
2022235 TTCTAAAGTCCATGACTCAGTGGCATCTCTT
1 TTCCAAAGTCCACGACTCAGTGGCATTTCTT
* *
2022266 TTCC-AAGTCCACAACTCAGTGGCAACCTTCTT
1 TTCCAAAGTCCACGACTCAGTGGC-A-TTTCTT
* *
2022298 CTTCC-AAGTCCACGATTTAGTGGCA--TCTT
1 -TTCCAAAGTCCACGACTCAGTGGCATTTCTT
*
2022327 TTCTCTAAGTCCA
1 TTC-CAAAGTCCA
2022340 TAACTCCGTG
Statistics
Matches: 398, Mismatches: 78, Indels: 74
0.72 0.14 0.13
Matches are distributed among these distances:
27 4 0.01
28 20 0.05
29 5 0.01
30 107 0.27
31 112 0.28
32 57 0.14
33 36 0.09
34 57 0.14
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (31 bp):
TTCCAAAGTCCACGACTCAGTGGCATTTCTT
Found at i:2021918 original size:61 final size:60
Alignment explanation
Indices: 2021801--2022159 Score: 276
Period size: 61 Copynumber: 5.8 Consensus size: 60
2021791 CACCCTTCCT
* * * *
2021801 AAAGTCCATGACTCAGTAGCATCTCATTTCTCAAAGTCCACGACTCAAT-GTCATTTCTTTTCC
1 AAAGTCCACGACTCAGTGGCATCTC--TTCCCAAAGTCCACGACTCAGTGGT-ATTTCTTTT-C
* *
2021864 AAAGTCCACAACTCAATGGCATCTCTTCCCAAAGTCCACGACTCAGTGGTATTTCTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGTATTTCTT-TTC
* * * * * * *
2021925 AAAGTCCATGACTTAGTGGCATCATTTTTCTAAA-TCTACAACTCAGTGGTATCCTT-TTTTC
1 AAAGTCCACGACTCAGTGGCATC-TCTTCCCAAAGTCCACGACTCAGTGGTAT--TTCTTTTC
* * * * * * *
2021986 TAAGTCCATGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAATGGCATTTCTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-C--TCTTC-CCAAAGTCCACGACTCAGTGGTATTTCTT-TTC
* ** * * *
2022051 AAAGTCCACGACTCATTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGG--T-ATTTCTT-TTC
* *
2022115 CAAGTCCACGACTCAGTGGCGTCTCTTCTCC-AAGTCCACGACTCA
1 AAAGTCCACGACTCAGTGGCATCTCTTC-CCAAAGTCCACGACTCA
2022160 ATGGCACCCT
Statistics
Matches: 239, Mismatches: 42, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
61 104 0.44
62 17 0.07
63 29 0.12
64 53 0.22
65 36 0.15
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.33
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGTATTTCTTTTC
Found at i:2022027 original size:95 final size:95
Alignment explanation
Indices: 2021802--2022345 Score: 390
Period size: 95 Copynumber: 5.8 Consensus size: 95
2021792 ACCCTTCCTA
* ** * *
2021802 AAGTCCATGACTCAGTAGCAT-CTCATTTC-TCAAAGTCCACGACTCAATGTCATTTCTT-TTCC
1 AAGTCCACGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATTTCTTCTT-C
* ** *
2021864 AAAGTCCACAACTCAATGGCATCTCTTCCCA
65 AAAGTCCACAACTCAGTGGCATCTCTTTTCT
* * * * * *
2021895 AAGTCCACGACTCAGT-G-GT-ATTTCTTCTTCAAAGTCCATGACTTAGTGGCA--TCATTTTTC
1 AAGTCCACGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATTTC-TTCTTC
* * *
2021955 TAAA-TCTACAACTCAGTGGTATCCTTTTTTCT
65 -AAAGTCCACAACTCAGTGGCAT-CTCTTTTCT
* *
2021987 AAGTCCATGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAATGGCATTTCTTCTTCA
1 AAGTCCACGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATTTCTTCTTCA
* *
2022052 AAGTCCACGACTCATTGGCATCTCTTTTCT
66 AAGTCCACAACTCAGTGGCATCTCTTTTCT
* * * * *
2022082 AAGTCCACGACTCAGTGGCATCCTTTTTTCTTCCAAGTCCACGACTCAGTGGCGTCTCTTC-TCC
1 AAGTCCACGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATTTCTTCTTCA
* * *
2022146 AAGTCCACGACTCAATGGCA-CCCTTTTTCTT
66 AAGTCCACAACTCAGTGGCATCTC-TTTTC-T
* * * * ** * **
2022177 CAAGTCTACCACTCTGTGGCA--CTTTTTTCTTTTCAAACCCCATGACTCTA-TGGCA-CCCTTC
1 -AAGTCCACGACTCAGTAGCATCCTTTTTTC--TTCAAAGTCCACGACTC-AGTGGCATTTCTTC
** *
2022238 -T-AAAGTCCATGACTCAGTGGCATCTCTTTTCC
62 TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCT
* * * * * * *
2022270 AAGTCCACAACTCAGTGGCAACC-TTCTTCTTCCAAGTCCACGATTTAGTGGCATCTT-TTC-TC
1 AAGTCCACGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAT-TTCTTCTTC
* *
2022332 TAAGTCCATAACTC
65 AAAGTCCACAACTC
2022346 CGTGACACCT
Statistics
Matches: 360, Mismatches: 67, Indels: 48
0.76 0.14 0.10
Matches are distributed among these distances:
90 3 0.01
91 39 0.11
92 66 0.18
93 35 0.10
94 59 0.16
95 102 0.28
96 53 0.15
97 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (95 bp):
AAGTCCACGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATTTCTTCTTCA
AAGTCCACAACTCAGTGGCATCTCTTTTCT
Found at i:2022051 original size:126 final size:124
Alignment explanation
Indices: 2021801--2022165 Score: 375
Period size: 126 Copynumber: 2.9 Consensus size: 124
2021791 CACCCTTCCT
* * * * * *
2021801 AAAGTCCATGACTCAGTAGCATCTCATTTCTCAAAGTCCACGACTCAATGTCAT--TTCTTTTC-
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCT-AAA-TCCACAACTCAGTGGCATCCTT-TTTTCT
* * * * * *
2021863 -CAAAGTCCACAACTCAATGGCATCTCTTCCCAAAGTCCACGACTCAGTGGTATTTCTTCTTC
63 TC-AAGTCCACGACTCAGTAGCATCTCTTCTCAAAGTCCACGACTCAATGGCATTTCTTCTTC
* * * *
2021925 AAAGTCCATGACTTAGTGGCATCAT-TTTTCTAAATCTACAACTCAGTGGTATCCTTTTTTC-T-
1 AAAGTCCACGACTCAGTGGCATC-TCTTTTCTAAATCCACAACTCAGTGGCATCCTTTTTTCTTC
* *
2021987 AAGTCCATGACTCAGTAGCATCCTTTTTTCTTCAAAGTCCACGACTCAATGGCATTTCTTCTTC
65 AAGTCCACGACTCAGTAGCAT-C--TCTTC-TCAAAGTCCACGACTCAATGGCATTTCTTCTTC
* * *
2022051 AAAGTCCACGACTCATTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTTTCTTCC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCTAAATCCACAACTCAGTGGCATCCTTTTTTCTT-C
* * *
2022116 AAGTCCACGACTCAGTGGCGTCTCTTCTCCAAGTCCACGACTCAATGGCA
65 AAGTCCACGACTCAGTAGCATCTCTTCTCAAAGTCCACGACTCAATGGCA
2022166 CCCTTTTTCT
Statistics
Matches: 201, Mismatches: 28, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
122 30 0.15
123 9 0.04
124 28 0.14
125 28 0.14
126 86 0.43
127 1 0.00
128 1 0.00
129 18 0.09
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (124 bp):
AAAGTCCACGACTCAGTGGCATCTCTTTTCTAAATCCACAACTCAGTGGCATCCTTTTTTCTTCA
AGTCCACGACTCAGTAGCATCTCTTCTCAAAGTCCACGACTCAATGGCATTTCTTCTTC
Found at i:2022276 original size:30 final size:30
Alignment explanation
Indices: 2021802--2022339 Score: 316
Period size: 30 Copynumber: 17.2 Consensus size: 30
2021792 ACCCTTCCTA
* * *
2021802 AAGTCCATGACTCAGTAGCATCTCATTTCTCA
1 AAGTCCACGACTCAGTGGCATCTC-TTT-TCC
* * *
2021834 AAGTCCACGACTCAATGTCATTTCTTTTCC
1 AAGTCCACGACTCAGTGGCATCTCTTTTCC
* * *
2021864 AAAGTCCACAACTCAATGGCATCTC-TTCCC
1 -AAGTCCACGACTCAGTGGCATCTCTTTTCC
* * *
2021894 AAAGTCCACGACTCAGTGGTATTTCTTCTTCA
1 -AAGTCCACGACTCAGTGGCATCTCTT-TTCC
* * *
2021926 AAGTCCATGACTTAGTGGCATCAT-TTTTCT
1 AAGTCCACGACTCAGTGGCATC-TCTTTTCC
* * * * * *
2021956 AAATCTACAACTCAGTGGTATCCTTTTTTCT
1 AAGTCCACGACTCAGTGGCAT-CTCTTTTCC
* * *
2021987 AAGTCCATGACTCAGTAGCATCCTTTTTTCTTC
1 AAGTCCACGACTCAGTGGCAT-CTCTTTTC--C
* * *
2022020 AAAGTCCACGACTCAATGGCATTTCTTCTTCA
1 -AAGTCCACGACTCAGTGGCATCTCTT-TTCC
* *
2022052 AAGTCCACGACTCATTGGCATCTCTTTTCT
1 AAGTCCACGACTCAGTGGCATCTCTTTTCC
*
2022082 AAGTCCACGACTCAGTGGCATCCTTTTTTCTTCC
1 AAGTCCACGACTCAGTGGCAT-C--TCTT-TTCC
* *
2022116 AAGTCCACGACTCAGTGGCGTCTCTTCTCC
1 AAGTCCACGACTCAGTGGCATCTCTTTTCC
* *
2022146 AAGTCCACGACTCAATGGCA-CCCTTTTTCTTC
1 AAGTCCACGACTCAGTGGCATCTC-TTTTC--C
* * * * *
2022178 AAGTCTACCACTCTGTGGCACTTTTTTCTTTTCA
1 AAGTCCACGACTCAGTGGCA----TCTCTTTTCC
** * * * *
2022212 AACCCCATGACTCTA-TGGCA-CCCTTCT-A
1 AAGTCCACGACTC-AGTGGCATCTCTTTTCC
*
2022240 AAGTCCATGACTCAGTGGCATCTCTTTTCC
1 AAGTCCACGACTCAGTGGCATCTCTTTTCC
* *
2022270 AAGTCCACAACTCAGTGGCAACCTTCTTCTTCC
1 AAGTCCACGACTCAGTGGC-ATC-TCTT-TTCC
* * *
2022303 AAGTCCACGATTTAGTGGCATCT-TTTCTCT
1 AAGTCCACGACTCAGTGGCATCTCTTT-TCC
2022333 AAGTCCA
1 AAGTCCA
2022340 TAACTCCGTG
Statistics
Matches: 394, Mismatches: 82, Indels: 62
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.00
28 17 0.04
29 12 0.03
30 122 0.31
31 107 0.27
32 45 0.11
33 27 0.07
34 57 0.14
36 5 0.01
37 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (30 bp):
AAGTCCACGACTCAGTGGCATCTCTTTTCC
Found at i:2022599 original size:33 final size:32
Alignment explanation
Indices: 2022270--2022890 Score: 490
Period size: 33 Copynumber: 19.0 Consensus size: 32
2022260 TCTCTTTTCC
* **
2022270 AAGTCCACAACTCAGTGGCAACCTTCTT-CTTCC
1 AAGTCCACAACTCCGTGGC-ACCTT-TTCCTTTT
* * ** * *
2022303 AAGTCCACGATTTAGTGGCATCTTTT-C-TCT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
2022333 AAGTCCATAACTCCGTGACACCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
2022365 AAGTTCACAACTCCATGGCACTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
2022397 AAGTCCATAACTCTGTGGCACCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
2022429 AAGTCCACAACTTCGTGGCACCCTTCTTCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTCCTTTT
2022463 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
*
2022496 AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
2022528 AAGTCCACAACTCCATGGCGTCC-TTT-CTTTT
1 AAGTCCACAACTCCGTGGC-ACCTTTTCCTTTT
* * *
2022559 AAAGCCCACAACTCCGTGGCACCATTTTCCATTA
1 -AAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
* * *
2022593 AAGCCCATAACTCCATGGCACCCTTTGTCC---T
1 AAGTCCACAACTCCGTGGCA-CCTTT-TCCTTTT
* ** ***
2022624 ---CCCACAACTTTGTGGCACCCTTTTTCCTCCAA
1 AAGTCCACAACTCCGTGGCA-CC-TTTTCCT-TTT
* **
2022656 AAGCCCACAACTCTATGGCACCCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CC-TTTTCCTTTT
* ***
2022690 AAGCCCACAACTCCGTGGCACCCTTTTTCCTCCAA
1 AAGTCCACAACTCCGTGGCA-CC-TTTTCCT-TTT
*
2022725 AAGTCCACAACTCTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
**
2022758 AAGTCCACAACTCCGTGGCACCCTTTTTCCTCTAA
1 AAGTCCACAACTCCGTGGCA-CC-TTTTCCT-TTT
* * * *
2022793 AAATCCCCAACTCCGTGGTACTTTATTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
*
2022826 AAGTCCACAACTCCTTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
* * *
2022859 AAGTTCACAACTTCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
2022891 CAAAAGCCTA
Statistics
Matches: 482, Mismatches: 81, Indels: 51
0.79 0.13 0.08
Matches are distributed among these distances:
28 19 0.04
29 3 0.01
30 21 0.04
31 11 0.02
32 129 0.27
33 152 0.32
34 83 0.17
35 64 0.13
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:2022632 original size:28 final size:28
Alignment explanation
Indices: 2022596--2022653 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
2022586 TCCATTAAAG
*
2022596 CCCATAACTCCATGGCACCCTTTGTCCT
1 CCCACAACTCCATGGCACCCTTTGTCCT
*** *
2022624 CCCACAACTTTGTGGCACCCTTTTTCCT
1 CCCACAACTCCATGGCACCCTTTGTCCT
2022652 CC
1 CC
2022654 AAAAGCCCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.16, C:0.43, G:0.10, T:0.31
Consensus pattern (28 bp):
CCCACAACTCCATGGCACCCTTTGTCCT
Found at i:2022675 original size:35 final size:35
Alignment explanation
Indices: 2022624--2022794 Score: 204
Period size: 34 Copynumber: 5.0 Consensus size: 35
2022614 CCTTTGTCCT
* *
2022624 CCCACAACTTTGTGGCACCCTTTTTCCTCCAAAAG
1 CCCACAACTCTGTGGCACCCTTTTTCCTCTAAAAG
* **
2022659 CCCACAACTCTATGGCACCCTTTTTCCT-TTTAAG
1 CCCACAACTCTGTGGCACCCTTTTTCCTCTAAAAG
* *
2022693 CCCACAACTCCGTGGCACCCTTTTTCCTCCAAAAG
1 CCCACAACTCTGTGGCACCCTTTTTCCTCTAAAAG
* * **
2022728 TCCACAACTCTGTGGCA-CCTTGTTCCT-TTTAAG
1 CCCACAACTCTGTGGCACCCTTTTTCCTCTAAAAG
* *
2022761 TCCACAACTCCGTGGCACCCTTTTTCCTCTAAAA
1 CCCACAACTCTGTGGCACCCTTTTTCCTCTAAAA
2022795 ATCCCCAACT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
33 19 0.17
34 47 0.42
35 47 0.42
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.30
Consensus pattern (35 bp):
CCCACAACTCTGTGGCACCCTTTTTCCTCTAAAAG
Found at i:2022804 original size:68 final size:65
Alignment explanation
Indices: 2022333--2022890 Score: 506
Period size: 68 Copynumber: 8.5 Consensus size: 65
2022323 TCTTTTCTCT
* * * * *
2022333 AAGTCCATAACTCCGTGACACCTTTTCCTTTTAAGTTCACAACTCCATGGCA-CTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTA
* * * * *
2022397 AAGTCCATAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTCTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTT
*
2022462 T
65 A
*
2022463 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCACC-TTTTCCTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
*
2022527 T
65 A
* * * * *
2022528 AAGTCCACAACTCCATGGCGTCC-TTT-CTTTTAAAGCCCACAACTCCGTGGCACCATTTTCCAT
1 AAGTCCACAACTCCGTGGC-ACCTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTCCTT
2022591 TA
64 TA
* * * * **
2022593 AAGCCCATAACTCCATGGCACCCTTTGTCC---T---CCCACAACTTTGTGGCACCCTTTTTCCT
1 AAGTCCACAACTCCGTGGCA-CCTTT-TCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCT
**
2022652 CCAA
63 -TTA
* ** *
2022656 AAGCCCACAACTCTATGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTTCCT
1 AAGTCCACAACTCCGTGGCA-CC-TTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCT
**
2022721 CCAA
63 -TTA
*
2022725 AAGTCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTCCTC
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCT-
*
2022790 TAA
63 TTA
* * * * * *
2022793 AAATCCCCAACTCCGTGGTACTTTATTCCTTTTAAGTCCACAACTCCTTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
*
2022858 T
65 A
* * *
2022859 AAGTTCACAACTTCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
2022891 CAAAAGCCTA
Statistics
Matches: 421, Mismatches: 53, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
61 15 0.04
62 8 0.02
63 30 0.07
64 72 0.17
65 62 0.15
66 58 0.14
67 38 0.09
68 90 0.21
69 48 0.11
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (65 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTA
Found at i:2022921 original size:35 final size:35
Alignment explanation
Indices: 2022865--2022931 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2022855 TTTTAAGTTC
* **
2022865 ACAACTTCGTGGCACCTTTTTCTTTTCAAAAGCCT
1 ACAACTTCATGGCACCTTTTTCCCTTCAAAAGCCT
2022900 ACAACTTCATGGCA-CTCTTTTCCCTTCAAAAG
1 ACAACTTCATGGCACCT-TTTTCCCTTCAAAAG
2022932 TCCGCAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.34
Consensus pattern (35 bp):
ACAACTTCATGGCACCTTTTTCCCTTCAAAAGCCT
Found at i:2023170 original size:32 final size:31
Alignment explanation
Indices: 2023120--2023215 Score: 138
Period size: 32 Copynumber: 3.0 Consensus size: 31
2023110 CCAATGGAGA
*
2023120 AACCTTTTTAAAGCCCACACAAGTTGGTGGC
1 AACCTTTTAAAAGCCCACACAAGTTGGTGGC
*
2023151 AACCTTCTTAAAAGCCCACACAAGTCGGTGGC
1 AACCTT-TTAAAAGCCCACACAAGTTGGTGGC
* *
2023183 AACCCTTTCAAAAGCCCACACAAGTTCGTGGC
1 AA-CCTTTTAAAAGCCCACACAAGTTGGTGGC
2023215 A
1 A
2023216 TTTTTTTCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
31 6 0.10
32 48 0.83
33 4 0.07
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (31 bp):
AACCTTTTAAAAGCCCACACAAGTTGGTGGC
Found at i:2023382 original size:61 final size:61
Alignment explanation
Indices: 2023272--2023388 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 61
2023262 ACCTTTAAAT
* * *
2023272 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCTCTTATGATCCTTCTCATCTTTAAGC
1 CCAATATCGCTAGCCCTGAATCAGCATATTGGCGCTCTTATCATCCTTCTCATCTTTAAGC
*
2023333 CCAATATCGCTAGCCCTGAATCAGCATATTGGC-ATCTTTATCA-CTCTTCTCATCTT
1 CCAATATCGCTAGCCCTGAATCAGCATATTGGCGCTC-TTATCATC-CTTCTCATCTT
2023389 CATCATCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 3 0.06
61 47 0.94
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (61 bp):
CCAATATCGCTAGCCCTGAATCAGCATATTGGCGCTCTTATCATCCTTCTCATCTTTAAGC
Found at i:2024065 original size:20 final size:20
Alignment explanation
Indices: 2024040--2024083 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2024030 TTTTACCCAG
* *
2024040 ATGTATCGATACTTTATTCA
1 ATGTATCGATACATCATTCA
*
2024060 ATGTATTGATACATCATTCA
1 ATGTATCGATACATCATTCA
2024080 ATGT
1 ATGT
2024084 GTCGCAACGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATCATTCA
Found at i:2025172 original size:28 final size:28
Alignment explanation
Indices: 2025132--2025203 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2025122 AAAAAAAAAT
* ** *
2025132 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2025160 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2025188 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2025204 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2025254 original size:52 final size:52
Alignment explanation
Indices: 2025192--2025528 Score: 176
Period size: 52 Copynumber: 6.4 Consensus size: 52
2025182 AAATAACGAG
*
2025192 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
2025244 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACTGGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAA-TCGGA
* * * * *
2025297 -TTGGAGTATCCCCAATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAATCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* * **** * * *
2025348 GTTGGAGTATCCCC--TCG-AAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAAT-GGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
* *
2025403 GTTGGAGTATCCCCGATTGTGAAGAGATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * *
2025457 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
2025508 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
2025529 GAGAATTGAG
Statistics
Matches: 210, Mismatches: 48, Indels: 54
0.67 0.15 0.17
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 2 0.01
51 38 0.18
52 75 0.36
53 34 0.16
54 27 0.13
55 18 0.09
56 3 0.01
57 4 0.02
58 3 0.01
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:2025411 original size:27 final size:27
Alignment explanation
Indices: 2025335--2025419 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
2025325 AGTGTTTTAG
*
2025335 CGATAAA-ATCGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTAT-CCC
2025362 TCGA-AAATAACGGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* * *
2025389 CGATGATTAATGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
2025416 CGAT
1 CGAT
2025420 TGTGAAGAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 3 0.06
27 30 0.59
28 18 0.35
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:2025484 original size:212 final size:212
Alignment explanation
Indices: 2025127--2025530 Score: 616
Period size: 212 Copynumber: 1.9 Consensus size: 212
2025117 GAAGAAAAAA
* *
2025127 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* *
2025192 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
* * *
2025257 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACTGGGA-TTGGAGTATCCCCAATTGTGGAAA
131 CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAA-TCGGAGTTGGAATATCCCCAATTGTGGAAA
2025321 AATTAGTGTTTTAGCGAT
195 AATTAGTGTTTTAGCGAT
* * * *
2025339 AAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAATGGG
1 AAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* *
2025403 GTTGGAGTATCCCCGATTGTGAAGAGATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATC
66 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* * *
2025468 CCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
129 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCAATTGTGGA
2025531 GAATTGAGAA
Statistics
Matches: 173, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 32 0.18
212 102 0.59
213 39 0.23
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (212 bp):
AAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCAATTGTGGAAAA
ATTAGTGTTTTAGCGAT
Found at i:2025503 original size:51 final size:53
Alignment explanation
Indices: 2025407--2025525 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
2025397 AATGGGGTTG
* * *
2025407 GAGTATCCCCGATTGTGAAGAGATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAGATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
2025461 GAGTATCCCCGATTATAGAA-A-ATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTAT-GAAGAGATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
2025512 GAATATCCCCGATT
1 GAGTATCCCCGATT
2025526 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
53 6 0.10
54 16 0.27
55 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAGATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:2027968 original size:19 final size:19
Alignment explanation
Indices: 2027944--2027998 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
2027934 CAGTAGCTAA
* *
2027944 TTATGTATCAATATAATAC
1 TTATGTATCAATACAAAAC
**
2027963 TTATGTATTGATACAAAAC
1 TTATGTATCAATACAAAAC
*
2027982 TTATGTATCGATACAAA
1 TTATGTATCAATACAAA
2027999 TCGTTGAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATGTATCAATACAAAAC
Found at i:2029838 original size:28 final size:27
Alignment explanation
Indices: 2029806--2029866 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
2029796 ATACCAAATT
* *
2029806 TTATTTAGCGGGGATACTCCAACCCCCA
1 TTATTTAGAGGGAATACTCCAA-CCCCA
**
2029834 TTATTCCGAGGGAATACTCCAACCCCA
1 TTATTTAGAGGGAATACTCCAACCCCA
2029861 TT-TTTA
1 TTATTTA
2029867 AATTTGTCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
26 2 0.07
27 7 0.26
28 18 0.67
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
TTATTTAGAGGGAATACTCCAACCCCA
Found at i:2045402 original size:13 final size:13
Alignment explanation
Indices: 2045384--2045410 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2045374 ACATTATGCT
2045384 TTGTATCGATACA
1 TTGTATCGATACA
2045397 TTGTATCGATACA
1 TTGTATCGATACA
2045410 T
1 T
2045411 ATTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2045425 original size:32 final size:33
Alignment explanation
Indices: 2045365--2045429 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
2045355 CACACCCAGA
*
2045365 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
*
2045398 TGTATCGATACA-TATTCATTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
2045430 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAT
Found at i:2045440 original size:20 final size:19
Alignment explanation
Indices: 2045394--2045450 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2045384 TTGTATCGAT
**
2045394 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATGG
*
2045413 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
2045432 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
2045451 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2046410 original size:52 final size:53
Alignment explanation
Indices: 2046301--2046427 Score: 134
Period size: 52 Copynumber: 2.4 Consensus size: 53
2046291 AATGCCGCTG
* * * *
2046301 GCCTTGAATCAGCACATTGACACTCTCATTATCTTTAAGTCCAATATCACTAA
1 GCCTTGAATCAGCACATTGGCACTCTCATCATCATTAAGACCAATATCACTAA
* * * *
2046354 -CCTTGAATCAGCACATTGGCAC-CATCATCATCATTAAGACTAGTGTCGC-AA
1 GCCTTGAATCAGCACATTGGCACTC-TCATCATCATTAAGACCAATATCACTAA
* *
2046405 GCCTTGAATCTGTACATTGGCAC
1 GCCTTGAATCAGCACATTGGCAC
2046428 ATTTGTCAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
51 3 0.05
52 59 0.95
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (53 bp):
GCCTTGAATCAGCACATTGGCACTCTCATCATCATTAAGACCAATATCACTAA
Found at i:2047048 original size:21 final size:21
Alignment explanation
Indices: 2047016--2047065 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
2047006 AATTTTTATT
2047016 GATACA-ATAGTGTAAAGTATC
1 GATACATATAGTG-AAAGTATC
*
2047037 GATACATA-AGTGAATGTATC
1 GATACATATAGTGAAAGTATC
*
2047057 CATACATAT
1 GATACATAT
2047066 CTAAAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.56
21 10 0.40
22 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
GATACATATAGTGAAAGTATC
Found at i:2047179 original size:51 final size:53
Alignment explanation
Indices: 2047119--2047241 Score: 146
Period size: 52 Copynumber: 2.4 Consensus size: 53
2047109 TCTGGAATGA
** * *
2047119 AAATGTATCGATACAATT-TTCATTATATTGATAC-TTTTTGGATTTTGACCT
1 AAATGTATCGATACAATTCTTCATTATAAAGATACATTCTAGGATTTTGACCT
* * *
2047170 AAATGTATCGATAC-ATTCTTCATTGTAAAGGTACATTCTAGGTTTTTGACCT
1 AAATGTATCGATACAATTCTTCATTATAAAGATACATTCTAGGATTTTGACCT
*
2047222 AAATGTATCTATAC-ATTCTT
1 AAATGTATCGATACAATTCTT
2047242 TAATATATCG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 3 0.05
51 26 0.42
52 33 0.53
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (53 bp):
AAATGTATCGATACAATTCTTCATTATAAAGATACATTCTAGGATTTTGACCT
Found at i:2048563 original size:20 final size:19
Alignment explanation
Indices: 2048540--2048593 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
2048530 CACATGAAAT
2048540 TGTATCGATACAACT-TGCAA
1 TGTATCGATACAA-TGTG-AA
*
2048560 TGTAGCGATACATTATGTGAA
1 TGTATCGATACA--ATGTGAA
2048581 TGTATCGATACAA
1 TGTATCGATACAA
2048594 GTCATTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.38
21 14 0.48
22 3 0.10
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAATGTGAA
Found at i:2051481 original size:13 final size:13
Alignment explanation
Indices: 2051463--2051488 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2051453 TACAGCAAGT
2051463 ATGTATCGATACA
1 ATGTATCGATACA
2051476 ATGTATCGATACA
1 ATGTATCGATACA
2051489 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2053747 original size:21 final size:21
Alignment explanation
Indices: 2053714--2053758 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2053704 TTGCAAGTTG
*
2053714 AAATAAAGAAGTTCGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2053736 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2053756 AAA
1 AAA
2053759 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.07, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2055583 original size:15 final size:15
Alignment explanation
Indices: 2055563--2055593 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2055553 TAAAAATGTC
*
2055563 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2055578 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2055593 C
1 C
2055594 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2057691 original size:13 final size:13
Alignment explanation
Indices: 2057673--2057698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2057663 ACATTTTTCT
2057673 TTGTATCGATACA
1 TTGTATCGATACA
2057686 TTGTATCGATACA
1 TTGTATCGATACA
2057699 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2057862 original size:20 final size:20
Alignment explanation
Indices: 2057819--2057864 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2057809 AAATCTTCTG
2057819 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2057840 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2057860 CAAAA
1 CAAAA
2057865 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2060277 original size:13 final size:13
Alignment explanation
Indices: 2060259--2060284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2060249 TACAGCAAGT
2060259 ATGTATCGATACA
1 ATGTATCGATACA
2060272 ATGTATCGATACA
1 ATGTATCGATACA
2060285 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2064396 original size:32 final size:33
Alignment explanation
Indices: 2064341--2064404 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2064331 TTCAACGATT
2064341 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
* *
2064374 TGTATCGATGCAT-AAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCAATACA
2064405 TAAGTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:2064398 original size:19 final size:19
Alignment explanation
Indices: 2064340--2064424 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
2064330 TTTCAACGAT
2064340 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
2064360 TTGTATCAATAC--AA---
1 TTGTATCGATACATAAGTG
*
2064374 -TGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
*
2064392 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2064411 TTGTATCGATACAT
1 TTGTATCGATACAT
2064425 GAGGGCAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
13 9 0.17
15 2 0.04
17 2 0.04
19 30 0.56
20 11 0.20
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2064448 original size:51 final size:50
Alignment explanation
Indices: 2064393--2064539 Score: 179
Period size: 52 Copynumber: 2.9 Consensus size: 50
2064383 GCATAAGTGT
**
2064393 TGTATCGATACA-TAAGTTTTGTATCGATACATGAGGGCAAATTTGCCCAGA
1 TGTATCGATACACTAAG-AATGTATCGATACATGA-GGCAAATTTGCCCAGA
* * * *
2064444 TGTATCGATACACTATAAAATGTATCGATACATACAAGCAAATTTGCCCATA
1 TGTATCGATACACTA-AGAATGTATCGATACAT-GAGGCAAATTTGCCCAGA
*
2064496 TGTATCGATACACTATGAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTAAGAATGTATCGATACATG-AGGCAAATTT
2064540 TCATATTTCG
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
51 36 0.44
52 44 0.54
53 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (50 bp):
TGTATCGATACACTAAGAATGTATCGATACATGAGGCAAATTTGCCCAGA
Found at i:2064475 original size:52 final size:50
Alignment explanation
Indices: 2064412--2064539 Score: 184
Period size: 52 Copynumber: 2.5 Consensus size: 50
2064402 ACATAAGTTT
2064412 TGTATCGATACATGAGGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGA-GGCAAATTTGCCCAGATGTATCGATACACTAT-AAA
* * * *
2064464 TGTATCGATACATACAAGCAAATTTGCCCATATGTATCGATACACTATGAA
1 TGTATCGATACAT-GAGGCAAATTTGCCCAGATGTATCGATACACTATAAA
2064515 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATG-AGGCAAATTT
2064540 TCATATTTCG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
51 24 0.35
52 43 0.63
53 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (50 bp):
TGTATCGATACATGAGGCAAATTTGCCCAGATGTATCGATACACTATAAA
Found at i:2068230 original size:15 final size:15
Alignment explanation
Indices: 2068207--2068258 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
2068197 CGATACAATG
2068207 CATAATGTATCGATA
1 CATAATGTATCGATA
*
2068222 CATATTGTATCGATA
1 CATAATGTATCGATA
2068237 CAATTTTAATGTATCGATA
1 C-A---TAATGTATCGATA
2068256 CAT
1 CAT
2068259 TCTCGATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 16 0.52
16 1 0.03
18 1 0.03
19 13 0.42
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (15 bp):
CATAATGTATCGATA
Found at i:2068251 original size:19 final size:17
Alignment explanation
Indices: 2068192--2068257 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 17
2068182 GTTCCTAGAT
2068192 TGTATCGATACAATGCATAA
1 TGTATCGATACAAT---TAA
*
2068212 TGTATCGATAC-A-TAT
1 TGTATCGATACAATTAA
2068227 TGTATCGATACAATTTTAA
1 TGTATCGATACAA--TTAA
2068246 TGTATCGATACA
1 TGTATCGATACA
2068258 TTCTCGATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 13 0.32
16 1 0.03
19 15 0.38
20 11 0.28
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (17 bp):
TGTATCGATACAATTAA
Found at i:2068252 original size:34 final size:35
Alignment explanation
Indices: 2068190--2068258 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
2068180 AGGTTCCTAG
2068190 ATTGTATCGATACAATGCATAATGTATCGATACAT
1 ATTGTATCGATACAATGCATAATGTATCGATACAT
**
2068225 ATTGTATCGATACAAT-TTTAATGTATCGATACAT
1 ATTGTATCGATACAATGCATAATGTATCGATACAT
2068259 TCTCGATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (35 bp):
ATTGTATCGATACAATGCATAATGTATCGATACAT
Found at i:2070752 original size:20 final size:21
Alignment explanation
Indices: 2070729--2070781 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
2070719 CACATGAAAT
*
2070729 TGTATTGATACAT-AT-TGCAA
1 TGTATCGATACATAATGTG-AA
2070749 TGTATCGATACATAATGTGAA
1 TGTATCGATACATAATGTGAA
2070770 TGTATCGATACA
1 TGTATCGATACA
2070782 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.40
21 16 0.53
22 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATAATGTGAA
Found at i:2070773 original size:21 final size:20
Alignment explanation
Indices: 2070711--2070781 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
2070701 CCCTCATTTC
* *
2070711 TATCGATACACA-TGAAATTG
1 TATCGATACATATTGCAA-TG
*
2070731 TATTGATACATATTGCAATG
1 TATCGATACATATTGCAATG
2070751 TATCGATACATAATGTG-AATG
1 TATCGATACAT-AT-TGCAATG
2070772 TATCGATACA
1 TATCGATACA
2070782 AGTCATTGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
20 22 0.50
21 20 0.45
22 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (20 bp):
TATCGATACATATTGCAATG
Found at i:2075480 original size:13 final size:13
Alignment explanation
Indices: 2075462--2075487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2075452 CAATTTTTGG
2075462 TGTATCGATACAT
1 TGTATCGATACAT
2075475 TGTATCGATACAT
1 TGTATCGATACAT
2075488 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2075499 original size:32 final size:33
Alignment explanation
Indices: 2075442--2075505 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2075432 TACAAGCCAA
**
2075442 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2075475 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2075506 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2075512 original size:19 final size:18
Alignment explanation
Indices: 2075442--2075512 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
2075432 TACAAGCCAA
2075442 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
2075462 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2075475 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2075494 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2075513 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2075650 original size:71 final size:71
Alignment explanation
Indices: 2075567--2075720 Score: 299
Period size: 71 Copynumber: 2.2 Consensus size: 71
2075557 ACATTGCAAC
2075567 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
2075632 ACCTTA
66 ACCTTA
2075638 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
2075703 ACCTTA
66 ACCTTA
*
2075709 ATGTATTGATAC
1 ATGTATCGATAC
2075721 AAATACCTAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (71 bp):
ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
ACCTTA
Found at i:2075753 original size:71 final size:70
Alignment explanation
Indices: 2075567--2075743 Score: 194
Period size: 71 Copynumber: 2.5 Consensus size: 70
2075557 ACATTGCAAC
** * * * *
2075567 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACAATGAACTATGTATCAATAATTTTAA-GGTTTTGACAATTTTAGCCTAAGTCA
2075632 ACCTTA
65 ACCTTA
** * * * *
2075638 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACAATGAACTATGTATCAATAATTTTAA-GGTTTTGACAATTTTAGCCTAAGTCA
2075703 ACCTTA
65 ACCTTA
* *
2075709 ATGTATTGATACAAAT-ACCTATGTATCAATAATTT
1 ATGTATCGATAC-AATGAACTATGTATCAATAATTT
2075744 GATAAGTTTT
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 96 0.99
72 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (70 bp):
ATGTATCGATACAATGAACTATGTATCAATAATTTTAAGGTTTTGACAATTTTAGCCTAAGTCAA
CCTTA
Found at i:2078120 original size:13 final size:13
Alignment explanation
Indices: 2078102--2078126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2078092 GTAATCACCC
2078102 TGTATCGATACAT
1 TGTATCGATACAT
2078115 TGTATCGATACA
1 TGTATCGATACA
2078127 AAGAAAAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2082033 original size:21 final size:21
Alignment explanation
Indices: 2082004--2082048 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2081994 AAGTTTTTAT
*
2082004 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2082024 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2082046 TTT
1 TTT
2082049 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2084285 original size:13 final size:13
Alignment explanation
Indices: 2084267--2084292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2084257 CAATTTTTGG
2084267 TGTATCGATACAT
1 TGTATCGATACAT
2084280 TGTATCGATACAT
1 TGTATCGATACAT
2084293 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2084304 original size:32 final size:33
Alignment explanation
Indices: 2084247--2084310 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2084237 TACAAGCCAA
**
2084247 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2084280 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2084311 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2084317 original size:19 final size:18
Alignment explanation
Indices: 2084247--2084317 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
2084237 TACAAGCCAA
2084247 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
2084267 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2084280 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2084299 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2084318 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2084455 original size:71 final size:71
Alignment explanation
Indices: 2084372--2084525 Score: 299
Period size: 71 Copynumber: 2.2 Consensus size: 71
2084362 ACATTGCAAC
2084372 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
2084437 ACCTTA
66 ACCTTA
2084443 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
2084508 ACCTTA
66 ACCTTA
*
2084514 ATGTATTGATAC
1 ATGTATCGATAC
2084526 AAATACCTAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (71 bp):
ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
ACCTTA
Found at i:2084539 original size:71 final size:71
Alignment explanation
Indices: 2084372--2084548 Score: 239
Period size: 71 Copynumber: 2.5 Consensus size: 71
2084362 ACATTGCAAC
** * *
2084372 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACAATGAACTATGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
2084437 ACCTTA
66 ACCTTA
** * *
2084443 ATGTATCGATACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
1 ATGTATCGATACAATGAACTATGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
2084508 ACCTTA
66 ACCTTA
* * *
2084514 ATGTATTGATACAAAT-ACCTATGTATCAATACTTT
1 ATGTATCGATAC-AATGAACTATGTATCGATACTTT
2084549 GATATGTTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
71 97 0.99
72 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (71 bp):
ATGTATCGATACAATGAACTATGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCA
ACCTTA
Found at i:2086201 original size:26 final size:26
Alignment explanation
Indices: 2086171--2086222 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2086161 CACATAGCAA
2086171 TATCATAACAACCAATCAATAAATAC
1 TATCATAACAACCAATCAATAAATAC
2086197 TATCATAACAACCAATCAATAAATAC
1 TATCATAACAACCAATCAATAAATAC
2086223 ACCAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (26 bp):
TATCATAACAACCAATCAATAAATAC
Found at i:2090302 original size:72 final size:72
Alignment explanation
Indices: 2090185--2090399 Score: 421
Period size: 72 Copynumber: 3.0 Consensus size: 72
2090175 ACTTTAAACA
2090185 ACCCATGTTTGCTCCCTCTAAATCTTGCATGTGCAAGATTCTTGCATGGAATCTAATTCAAAATC
1 ACCCATGTTTGCTCCCTCTAAATCTTGCATGTGCAAGATTCTTGCATGGAATCTAATTCAAAATC
2090250 GTATTTC
66 GTATTTC
*
2090257 ACCCATGTTTGCTCCTTCTAAATCTTGCATGTGCAAGATTCTTGCATGGAATCTAATTCAAAATC
1 ACCCATGTTTGCTCCCTCTAAATCTTGCATGTGCAAGATTCTTGCATGGAATCTAATTCAAAATC
2090322 GTATTTC
66 GTATTTC
2090329 ACCCATGTTTGCTCCCTCTAAATCTTGCATGTGCAAGATTCTTGCATGGAATCTAATTCAAAATC
1 ACCCATGTTTGCTCCCTCTAAATCTTGCATGTGCAAGATTCTTGCATGGAATCTAATTCAAAATC
2090394 GTATTT
66 GTATTT
2090400 TGAATTTCAA
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 141 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (72 bp):
ACCCATGTTTGCTCCCTCTAAATCTTGCATGTGCAAGATTCTTGCATGGAATCTAATTCAAAATC
GTATTTC
Found at i:2093849 original size:9 final size:9
Alignment explanation
Indices: 2093837--2093869 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2093827 CATGTTTAAA
2093837 ATGTTGATC
1 ATGTTGATC
2093846 ATGTTGATC
1 ATGTTGATC
2093855 ATGTTGATC
1 ATGTTGATC
*
2093864 AAGTTG
1 ATGTTG
2093870 TAATCAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
ATGTTGATC
Found at i:2093850 original size:18 final size:18
Alignment explanation
Indices: 2093827--2093869 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2093817 TGGTTAAAAG
*
2093827 CATGTTTAAAATGTTGAT
1 CATGTTGAAAATGTTGAT
**
2093845 CATGTTGATCATGTTGAT
1 CATGTTGAAAATGTTGAT
*
2093863 CAAGTTG
1 CATGTTG
2093870 TAATCAAGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (18 bp):
CATGTTGAAAATGTTGAT
Found at i:2101098 original size:51 final size:51
Alignment explanation
Indices: 2101026--2101145 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
2101016 TCAAAAATAA
* * * * *
2101026 CGGGGTTGGAGTATTCTCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
* * *
2101077 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
*
2101128 CGAGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2101146 TCGGAAATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
Found at i:2101160 original size:79 final size:78
Alignment explanation
Indices: 2101077--2101300 Score: 283
Period size: 76 Copynumber: 2.9 Consensus size: 78
2101067 GAAATAAAAT
* *
2101077 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTGGAAATAAAGCC-GAGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGA-AAATTAATGTTTTGGAAATAAAACCAG-GGTTGGAGTA
2101141 TCCCCTCGGAAATAA
64 TCCCCTCGGAAATAA
* * * * *
2101156 CGGGGCTGGAGTATCCCCGATGA--AAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTGTC
1 CGGGGTTGGAGTATCCCCGATTATGAAAATTAATGTTTTGGAAATAAAACCAGGGTTGGAGTATC
2101219 CCCTCGGAAATAA
66 CCCTCGGAAATAA
* * * * * *
2101232 CGGGGTTGGAGTATCCCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCAGAGTTCGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAA-TTAATGTTTTGGAAATAAAACCAGGGTTGGAGTAT
2101297 CCCC
65 CCCC
2101301 AATTATGGAG
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
76 65 0.53
77 2 0.02
78 4 0.03
79 52 0.42
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAATTAATGTTTTGGAAATAAAACCAGGGTTGGAGTATC
CCCTCGGAAATAA
Done.