Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 146 of 182
Found at i:44885914 original size:33 final size:33
Alignment explanation
Indices: 44885865--44885941 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
44885855 AGTCCAATCA
* * **
44885865 AACACACAAGATGCTCACACGAGCTAATCCCTCC
1 AACACACCA-ATGCTCACAAGAGCTAATCCAACC
* *
44885899 AACACACCAATGCTCATAAGAGCTAATCTAACC
1 AACACACCAATGCTCACAAGAGCTAATCCAACC
44885932 AACACACCAA
1 AACACACCAA
44885942 ACAAAGTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 29 0.78
34 8 0.22
ACGTcount: A:0.42, C:0.35, G:0.09, T:0.14
Consensus pattern (33 bp):
AACACACCAATGCTCACAAGAGCTAATCCAACC
Found at i:44892772 original size:43 final size:43
Alignment explanation
Indices: 44892720--44892946 Score: 273
Period size: 43 Copynumber: 5.3 Consensus size: 43
44892710 TTTTGAAAAT
* *
44892720 AAACGCCGCTAACGACCATGACCTTTAGCGGCGCTTTTTCCAT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* *
44892763 AAACACCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * *
44892806 AAACGCCACTATAGACCATGACCTTTAGCGGCG-ATTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTC-CAC
* *
44892849 AAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTT-CCAC
* * * * *
44892893 AAACGCCGCTATAGAACA--ACCTTTAGCGACGC-TTCTCGCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTC-CAC
44892934 AAACGCCGCTAAA
1 AAACGCCGCTAAA
44892947 AACATATTAT
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
41 17 0.11
42 16 0.10
43 102 0.65
44 23 0.15
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
Found at i:44892865 original size:86 final size:87
Alignment explanation
Indices: 44892720--44892946 Score: 311
Period size: 86 Copynumber: 2.6 Consensus size: 87
44892710 TTTTGAAAAT
* *
44892720 AAACGCCGCTA-ACGACCATGACCTTTAGCGGCGCTTTT-TCCATAAACACCGCTAAAGACCATG
1 AAACGCCGCTATA-GACCATGACCTTTAGCGGCGCTTTTCT-CAAAAACGCCGCTAAAGACCATG
44892783 ACCTTTAGCGGCGCTTTTT-TCAC
64 ACCTTTAGCGGCGCTTTTTATCAC
* * *
44892806 AAACGCCACTATAGACCATGACCTTTAGCGGCGATTTTCTCACAAACGCCGCTAAAGACCATGAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGACCATGAC
*
44892871 CTTTAGTGGCGCTTTTTATCAC
66 CTTTAGCGGCGCTTTTTATCAC
* * * *
44892893 AAACGCCGCTATAGAACA--ACCTTTAGCGACGCTTCTCGCAAAAACGCCGCTAAA
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAA
44892947 AACATATTAT
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
85 31 0.25
86 73 0.58
87 22 0.17
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (87 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGACCATGAC
CTTTAGCGGCGCTTTTTATCAC
Found at i:44895794 original size:15 final size:17
Alignment explanation
Indices: 44895776--44895813 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
44895766 GGATAAGGAA
44895776 AAAAATTAT-AAAT-AT
1 AAAAATTATAAAATAAT
*
44895791 AAAAATTCTAAAATAAT
1 AAAAATTATAAAATAAT
44895808 AAAAAT
1 AAAAAT
44895814 AAATAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAAATAAT
Found at i:44898492 original size:137 final size:138
Alignment explanation
Indices: 44898326--44898710 Score: 499
Period size: 137 Copynumber: 2.7 Consensus size: 138
44898316 AACGCCGCTA
* * ** *
44898326 TTTCATTTTGAACAAAATAACACTATTTTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAA
1 TTTCATTTTGAACAAAACAACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAA
* * * *
44898391 TTGATTTACTTTTTGCAGCGTTTCTATAAAAAATGCCGCAATTGCTTACCTTTAGCGGC-AT-TC
66 TTGATTTATTTTTTGCGGCGTTT-TTTAAAAAA-GCCGCAATTGCTTACCTTTAGCGGCTATGCC
44898454 GC-AAAATTT
129 GCAAAAATTT
* * *
44898463 TTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAACAACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAA
*
44898528 TTGATTTATTTTTTGCGGCGTGTTTTTAAAAACA-CCGCTATTGCTTACCTTTAGCGGCGTTTTT
66 TTGATTTATTTTTTGCGGCGT-TTTTTAAAAA-AGCCGCAATTGCTTACCTTTAGCGGC-----T
44898592 ATGCCGCAAAAATTT
124 ATGCCGCAAAAATTT
* * *
44898607 TTTCATTTTGAACAAAACAACGCCGTTTTCCTATTCTAAAAATTTTGTATTTTGTTTTTTTATAA
1 TTTCATTTTGAACAAAACAACGCCGTTTTGCTATTCTAAAAATTTTTTATTTT-ATTTTTTATAA
44898672 ATTGATTTATTTTTTGCGGCGTTTTTTAAAAAACGCCGC
65 ATTGATTTATTTTTTGCGGCGTTTTTTAAAAAA-GCCGC
44898711 TATTTCATTT
Statistics
Matches: 217, Mismatches: 18, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
136 23 0.11
137 83 0.38
138 3 0.01
142 2 0.01
143 4 0.02
144 66 0.30
145 36 0.17
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (138 bp):
TTTCATTTTGAACAAAACAACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAA
TTGATTTATTTTTTGCGGCGTTTTTTAAAAAAGCCGCAATTGCTTACCTTTAGCGGCTATGCCGC
AAAAATTT
Found at i:44899364 original size:15 final size:14
Alignment explanation
Indices: 44899344--44899431 Score: 65
Period size: 14 Copynumber: 6.1 Consensus size: 14
44899334 TCGACCCCTG
44899344 AATCCCTAAACCTT
1 AATCCCTAAACCTT
44899358 AAATCCCT-AACTCTT
1 -AATCCCTAAAC-CTT
* *
44899373 AACCCCT-AACATCT
1 AATCCCTAAACCT-T
*
44899387 AATCCCTAAACCCCT
1 AATCCCTAAA-CCTT
*
44899402 AACCCCTAAACCTT
1 AATCCCTAAACCTT
*
44899416 AAATCCC-AACCCTT
1 -AATCCCTAAACCTT
44899430 AA
1 AA
44899432 ACCATAATCC
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
13 3 0.05
14 28 0.47
15 27 0.46
16 1 0.02
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCCCTAAACCTT
Found at i:44899432 original size:21 final size:22
Alignment explanation
Indices: 44899393--44899445 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
44899383 ATCTAATCCC
* *
44899393 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
44899415 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
44899436 T-AATCCCTAA
1 TAAATCCCTAA
44899446 TTCATAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Found at i:44899741 original size:15 final size:15
Alignment explanation
Indices: 44899708--44899746 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
44899698 AAATCCAAAC
*
44899708 CCCTAATCC-ATAAT
1 CCCTAAACCTATAAT
*
44899722 CCCTAAACCTATACT
1 CCCTAAACCTATAAT
44899737 CCCTAAACCT
1 CCCTAAACCT
44899747 TAAAATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (15 bp):
CCCTAAACCTATAAT
Found at i:44900188 original size:114 final size:114
Alignment explanation
Indices: 44900000--44900645 Score: 908
Period size: 114 Copynumber: 5.7 Consensus size: 114
44899990 GCGCTTTTCC
* * *
44900000 AAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
* * * *
44900065 GCTTCCTCAAAAACGCTGCTAAAGCCCTAAACATTAGCGGCGCTTTCTT
66 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * *
44900114 AAAAACGCCACAAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
* * *
44900179 GCTTTCTCAAAAACGCCGCTAAAGCCTTGGGCATTAGCGGCGCTTT-TCC
66 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCT-T
*
44900228 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
*
44900293 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCGTTCA-CGGCGCTTTCTT
66 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATT-AGCGGCGCTTTCTT
* *
44900342 AGAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG--TTTTTGCGGT
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
* *
44900405 GCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTT
66 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * * * *
44900454 AAAAATGCTGCTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTAGGCTTAGTTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
* * * *
44900519 GCTTT-TCCAAAAATGACGCTAAAGCCCTGAGCATTGGCGGCGCTTTCTC
66 GCTTTCT-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
* * * ** *
44900568 AGAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACAACCTCGTTGGGCTTAGG-TTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
*
44900632 GCTTTCTCCAAAAC
66 GCTTTCTCAAAAAC
44900646 ACCACTAATG
Statistics
Matches: 471, Mismatches: 53, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
111 1 0.00
112 100 0.21
113 22 0.05
114 346 0.73
115 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (114 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
Found at i:44900523 original size:226 final size:226
Alignment explanation
Indices: 44899991--44900644 Score: 927
Period size: 226 Copynumber: 2.9 Consensus size: 226
44899981 TTTTTAACGG
* *
44899991 CGCTTTTCCAAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTT
1 CGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
* * * * * *
44900056 TTTTGTGGCGCTTCCTCAAAAACGCTGCTAAAGCCCTAAACATTAGCGGCGCTTTCTTAAAAACG
66 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA-CGGCGCTTTCTTAGAAACG
* * * *
44900121 CCACAAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCT
130 CCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCC
* * *
44900186 CAAAAACGCCGCTAAAGCCTTGGGCATTAGCGG
194 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGA
*
44900219 CGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTT
1 CGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
*
44900284 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCGTTCACGGCGCTTTCTTAGAAACG
66 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATT-ACGGCGCTTTCTTAGAAACG
*
44900349 CCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTGCGGTGCTTTCCC
130 CCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCCC
44900413 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGA
195 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGA
* * * * * *
44900445 CGC-TTTCTTAAAAATGCTGCTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTAGGCTTAGTTT
1 CGCTTTTC-CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
* * * *
44900509 TTTTTGCGGCGCTTT-TCCAAAAATGACGCTAAAGCCCTGAGCATTGGCGGCGCTTTCTCAGAAA
65 TTTTTGCGGCGCTTTCT-CAAAAACGCCGCTAAAGCCCTGAGCATT-ACGGCGCTTTCTTAGAAA
* * ** *
44900573 CGCCGCTAAATCCCCGAAAGCTCGGGAAACAACCTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTC
128 CGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTC
44900638 TCCAAAA
193 -CCAAAA
44900645 CACCACTAAT
Statistics
Matches: 384, Mismatches: 37, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
225 5 0.01
226 196 0.51
227 15 0.04
228 167 0.43
229 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (226 bp):
CGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTACGGCGCTTTCTTAGAAACGC
CGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCCCA
AAAACGCCGCTAAAGCCCTGAGCATTAGCGA
Found at i:44900613 original size:340 final size:340
Alignment explanation
Indices: 44900002--44900645 Score: 972
Period size: 340 Copynumber: 1.9 Consensus size: 340
44899992 GCTTTTCCAA
* *
44900002 AAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGTGGCGC
1 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG-TTTTTTGCGGCGC
* *
44900067 TTCCTCAAAAACGCTGCTAAAGCCCTAAACATTAGCGGCGCTTTCTTAAAAACGCCACAAAATCC
65 TTCCTCAAAAACGCCGCTAAAGCCCTAAACATTAGCGACGCTTTCTTAAAAACGCCACAAAATCC
* * *
44900132 CCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCG
130 CCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGACG
* *
44900197 CTAAAGCCTTGGGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
195 CTAAAGCCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
* *
44900262 CGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCGT
260 CAACCTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCGT
44900327 TCACGGCGCTTTCTTAG
324 TCACGGCGCTTTCTTAG
* *
44900344 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTGCGGTGCT
1 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTGCGGCGC-
* * * ** *
44900408 TTCC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAATGCTGCTAAATCC
65 TTCCTCAAAAACGCCGCTAAAGCCCTAAACATTAGCGACGCTTTCTTAAAAACGCCACAAAATCC
* * *
44900472 CCGAAAGCTTAGAAAACGGCGTCGTTAGGCTTAGTTTTTTTTGCGGCGCTTT-TCCAAAAATGAC
130 CCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTTTTTTTGCGGCGCTTTCT-CAAAAACGAC
* * * *
44900536 GCTAAAGCCCTGAGCATTGGCGGCGC-TTTCTCAGAAACGCCGCTAAATCCCCGAAAGCTCGGGA
194 GCTAAAGCCCTGAGCATTAGCGGCGCTTTTC-CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAA
*
44900600 AACAACCTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTCCAAAAC
258 AACAACCTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAAC
44900646 ACCACTAATG
Statistics
Matches: 272, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
339 29 0.11
340 190 0.70
341 4 0.01
342 49 0.18
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (340 bp):
AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTGCGGCGCT
TCCTCAAAAACGCCGCTAAAGCCCTAAACATTAGCGACGCTTTCTTAAAAACGCCACAAAATCCC
CGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGACGC
TAAAGCCCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
AACCTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCGTTC
ACGGCGCTTTCTTAG
Found at i:44900866 original size:22 final size:23
Alignment explanation
Indices: 44900823--44900867 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
44900813 TTAAATTTTC
* **
44900823 CTACTATAATCCCTAACGTTTAA
1 CTACTATAAACCCTAAAATTTAA
44900846 CTAC-ATAAACCCTAAAATTTAA
1 CTACTATAAACCCTAAAATTTAA
44900868 AATTTTGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.31
Consensus pattern (23 bp):
CTACTATAAACCCTAAAATTTAA
Found at i:44901020 original size:23 final size:23
Alignment explanation
Indices: 44900994--44901039 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44900984 TCTAATTGAG
44900994 TAAGACTGTTGAACCTTGATGTT
1 TAAGACTGTTGAACCTTGATGTT
44901017 TAAGACTGTTGAACCTTGATGTT
1 TAAGACTGTTGAACCTTGATGTT
44901040 GAATCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (23 bp):
TAAGACTGTTGAACCTTGATGTT
Found at i:44907630 original size:143 final size:143
Alignment explanation
Indices: 44907271--44907758 Score: 786
Period size: 143 Copynumber: 3.4 Consensus size: 143
44907261 TTAGGATTCT
*
44907271 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
44907336 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
44907401 AAGGCCTAATGGCCG
129 AAGGCCTAATGGCCG
*
44907416 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
44907481 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
44907544 GGCCTAATGGCCG
131 GGCCTAATGGCCG
*
44907557 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
* * * *
44907622 TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATATGAGATA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATATATGTGATA
* *
44907686 AGGCCGAATGGCCA
130 AGGCCTAATGGCCG
* * * * *
44907700 ATGTGATGAATATGAACA-TGTGTATGTGTGATAAGGCCGAAAGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
44907759 AGAACACTTT
Statistics
Matches: 325, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
141 94 0.29
143 164 0.50
144 2 0.01
145 65 0.20
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCG
Found at i:44907764 original size:47 final size:47
Alignment explanation
Indices: 44907271--44907758 Score: 764
Period size: 47 Copynumber: 10.3 Consensus size: 47
44907261 TTAGGATTCT
* *
44907271 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44907318 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
44907367 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
44907416 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44907463 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44907510 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44907557 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
44907604 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * * *
44907653 ATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
44907700 ATGTGATGAATATGAACA-TGTGTATGTGTGATAAGGCCGAAAGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
44907747 ATGTGATGAATG
1 ATGTGATGAATG
44907759 AGAACACTTT
Statistics
Matches: 423, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 285 0.67
49 137 0.32
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:44919270 original size:49 final size:49
Alignment explanation
Indices: 44919190--44919370 Score: 312
Period size: 49 Copynumber: 3.7 Consensus size: 49
44919180 TATTTGAATA
44919190 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
44919237 AATGTGAAAGTGTATATATATGTGATGAGGCCTAATGACTGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44919286 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
44919335 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
44919371 AAGAATGTGC
Statistics
Matches: 125, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
47 12 0.10
49 113 0.90
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44929838 original size:17 final size:17
Alignment explanation
Indices: 44929813--44929861 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
44929803 GATAAGTATA
*
44929813 CATTCTCATTGCATTTT
1 CATTGTCATTGCATTTT
* *
44929830 CATTGTCATTACATATT
1 CATTGTCATTGCATTTT
*
44929847 CA-TGTCAATGCATTT
1 CATTGTCATTGCATTT
44929862 GGGGACAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.47
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:44931568 original size:22 final size:22
Alignment explanation
Indices: 44931528--44931607 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
44931518 GCACTAATGA
*
44931528 ACAAAGAGCACTAAAGTGCTAT
1 ACAAAGAGCACTGAAGTGCTAT
* * *
44931550 ACAAAGAGCACCGATGTGCTAA
1 ACAAAGAGCACTGAAGTGCTAT
** *
44931572 ACGGAGAGCACTGACGTGCTAGT
1 ACAAAGAGCACTGAAGTGCTA-T
44931595 AATCAAAGAGCAC
1 -A-CAAAGAGCAC
44931608 GAACATGCTA
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
22 35 0.80
24 1 0.02
25 8 0.18
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (22 bp):
ACAAAGAGCACTGAAGTGCTAT
Found at i:44932524 original size:10 final size:10
Alignment explanation
Indices: 44932509--44932538 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44932499 TCTTTCTCTT
44932509 TTTCTTTTTC
1 TTTCTTTTTC
44932519 TTTCTTTTTC
1 TTTCTTTTTC
*
44932529 TTTCTATTTC
1 TTTCTTTTTC
44932539 GTTTTTGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:44932538 original size:16 final size:16
Alignment explanation
Indices: 44932505--44932544 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
44932495 TCCTTCTTTC
* *
44932505 TCTTTTTCTTTTTCTT
1 TCTTTTTCTTTCTATT
44932521 TCTTTTTCTTTCTATT
1 TCTTTTTCTTTCTATT
44932537 TCGTTTTT
1 TC-TTTTT
44932545 GCTTCTCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.78
Consensus pattern (16 bp):
TCTTTTTCTTTCTATT
Found at i:44932608 original size:5 final size:5
Alignment explanation
Indices: 44932598--44932652 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
44932588 TTATTTGTTC
44932598 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
44932648 ATAAT
1 ATAAT
44932653 TACAAATATC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:44934685 original size:21 final size:21
Alignment explanation
Indices: 44934646--44934685 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44934636 AAATAAACAA
*
44934646 AATGCAATTAAAAACATAATT
1 AATGCAATAAAAAACATAATT
44934667 AATGCAA-AAAAAACTATAA
1 AATGCAATAAAAAAC-ATAA
44934686 AACTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (21 bp):
AATGCAATAAAAAACATAATT
Found at i:44937636 original size:29 final size:31
Alignment explanation
Indices: 44937598--44937662 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
44937588 AAGTTGTAGA
* *
44937598 TTTAGTCCATGTACT-AT-AATTTAATCAAT
1 TTTAGCCCATGTACTCATCAAATTAATCAAT
*
44937627 TTTAGCCCATGTACTCTTCAAATTAATCAAT
1 TTTAGCCCATGTACTCATCAAATTAATCAAT
44937658 TTTAG
1 TTTAG
44937663 TCCCTATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 14 0.45
30 1 0.03
31 16 0.52
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (31 bp):
TTTAGCCCATGTACTCATCAAATTAATCAAT
Found at i:44939944 original size:25 final size:26
Alignment explanation
Indices: 44939910--44939963 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
44939900 ACATTATTTC
*
44939910 TAAATTTAAAAATTTTAAAT-CTATT
1 TAAAATTAAAAATTTTAAATACTATT
*
44939935 TAAAATTAAAATTTTTAAATACTATT
1 TAAAATTAAAAATTTTAAATACTATT
44939961 TAA
1 TAA
44939964 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAAATTAAAAATTTTAAATACTATT
Found at i:44940691 original size:110 final size:107
Alignment explanation
Indices: 44940498--44940701 Score: 309
Period size: 110 Copynumber: 1.9 Consensus size: 107
44940488 TTTTTGGGTG
44940498 TTGGTCTGTCAATGGCCGGCACCCAGTACGAAAAAAAGGAAAAAAAAAATATTTTGGGTGCTGGC
1 TTGGTCTGTCAATGGCCGGCACCCAGTACGAAAAAAAGGAAAAAAAAAATATTTTGGGTGCTGGC
* *
44940563 CTGTCAATGGCCGGCACCCAGTACAGTAAAAAAATTCGAGTT
66 CTGTCAATGGCCGACACCCAATACAGTAAAAAAATTCGAGTT
* * * * *
44940605 TTGGTCTGTTAATGGCCGGCACCAGAGTACGAAAAAAAGTAAAAAAAAAATTTTTTTTGGGTTCT
1 TTGGTCTGTCAATGGCCGGCACC-CAGTACGAAAAAAAGGAAAAAAAAAA--TATTTTGGGTGCT
*
44940670 GGCCTGTCAATGGCTGACACCCAATACAGTAA
63 GGCCTGTCAATGGCCGACACCCAATACAGTAA
44940702 TTTTTTTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 22 0.26
108 24 0.28
110 40 0.47
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (107 bp):
TTGGTCTGTCAATGGCCGGCACCCAGTACGAAAAAAAGGAAAAAAAAAATATTTTGGGTGCTGGC
CTGTCAATGGCCGACACCCAATACAGTAAAAAAATTCGAGTT
Found at i:44940861 original size:111 final size:111
Alignment explanation
Indices: 44940703--44940946 Score: 384
Period size: 112 Copynumber: 2.2 Consensus size: 111
44940693 ATACAGTAAT
*
44940703 TTTTTTTTTACTTTTTTCGTATACTGATACCTGCATTGACACGAAAAAAAGTAAAAAAAAAA-TT
1 TTTTTTTTTACTTTTTTCGTATACTGATACCTGCATTGACACGAAAAAAACTAAAAAAAAAATTT
* *
44940767 TACTATACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAA
66 TACTATACTGGGTGCCGACCATTGACAAGCCAGCACCCAAAAAAAA
*
44940813 TTTTTTTTTACCTTTTTCGTATACTGATACCTG-ATAATGACACGAAAAAAACTAAAAAAAAAAT
1 TTTTTTTTTACTTTTTTCGTATACTGATACCTGCAT--TGACACGAAAAAAACTAAAAAAAAAAT
* * *
44940877 TTTACTGTACTGGGTGCCGACCATTGACAAGCTAGCACTCAAAAAAAA
64 TTTACTATACTGGGTGCCGACCATTGACAAGCCAGCACCCAAAAAAAA
44940925 TTTTTTTTTACTTTTTTTCGTA
1 TTTTTTTTTAC-TTTTTTCGTA
44940947 CTCTGGTGCC
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
109 2 0.02
110 32 0.26
111 25 0.20
112 54 0.44
113 9 0.07
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (111 bp):
TTTTTTTTTACTTTTTTCGTATACTGATACCTGCATTGACACGAAAAAAACTAAAAAAAAAATTT
TACTATACTGGGTGCCGACCATTGACAAGCCAGCACCCAAAAAAAA
Found at i:44941782 original size:11 final size:11
Alignment explanation
Indices: 44941768--44941793 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44941758 CTCCAATATT
44941768 CTCTCAAATTC
1 CTCTCAAATTC
44941779 CTCTCAAATTC
1 CTCTCAAATTC
44941790 CTCT
1 CTCT
44941794 TAAAAAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:44942969 original size:7 final size:7
Alignment explanation
Indices: 44942957--44942982 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44942947 TAGTCGATTG
44942957 GTATTTA
1 GTATTTA
44942964 GTATTTA
1 GTATTTA
44942971 GTATTTA
1 GTATTTA
44942978 GTATT
1 GTATT
44942983 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:44944249 original size:117 final size:116
Alignment explanation
Indices: 44944128--44944337 Score: 298
Period size: 116 Copynumber: 1.8 Consensus size: 116
44944118 ATAAAATAGA
* *
44944128 AATTTAAATTT-ACATTTTTAATATAATAGAAATTCTTTTAAATAAACACAATATTTTGAATATT
1 AATTT-AATTTAACATTTTTAATAAAATAGAAATTCTTTTAAAT-AACACAATATTCTGAATATT
44944192 TCTATATTATTTCATTTAATAAAATA-AAATGTTATTTTGAATGAAGTAATTGT
64 TCTATATTATTTCATTTAA-AAAATATAAATGTTATTTTGAATGAAGTAATTGT
* * ** **
44944245 AATTTACTTTAATATTTTTAATAAAATAGATTTTCTTTTAAATAAGTCAATATTCTGAATATTTC
1 AATTTAATTTAACATTTTTAATAAAATAGAAATTCTTTTAAATAACACAATATTCTGAATATTTC
*
44944310 TATATTATTTGATTTAAAAAATATAAAT
66 TATATTATTTCATTTAAAAAATATAAAT
44944338 AATACAAAGT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
115 6 0.07
116 43 0.52
117 33 0.40
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (116 bp):
AATTTAATTTAACATTTTTAATAAAATAGAAATTCTTTTAAATAACACAATATTCTGAATATTTC
TATATTATTTCATTTAAAAAATATAAATGTTATTTTGAATGAAGTAATTGT
Found at i:44947450 original size:67 final size:68
Alignment explanation
Indices: 44947342--44947473 Score: 185
Period size: 67 Copynumber: 2.0 Consensus size: 68
44947332 ATTGAATGTA
* * ** *
44947342 AGGGGTTGCTAAGTGCAGATTCTCTGAATTATTGATTCTAAAGGT-GATGCTAAGTGCAGATTCC
1 AGGGGTTGCTAAGTACAGATTCCCCAAATTATTGATTCTAAAAGTGGATGCTAAGTGCAGATTCC
44947406 TCG
66 TCG
* * *
44947409 AGGGGTTGCTAAGTACTGATTCCCCAAATTATTGATTCTAAAAGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTACAGATTCCCCAAATTATTGATTCTAAAAGTGGATGCTAAGTGCAGATTCC
44947474 ACTGTATCCT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
67 39 0.70
68 17 0.30
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (68 bp):
AGGGGTTGCTAAGTACAGATTCCCCAAATTATTGATTCTAAAAGTGGATGCTAAGTGCAGATTCC
TCG
Found at i:44947552 original size:41 final size:43
Alignment explanation
Indices: 44947452--44947561 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
44947442 GATTCTAAAA
* * *
44947452 GTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGGAAG
1 GTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATAT-GAAG
*
44947496 G-GGTTGCTATGTGCTGATTCC-CCGTATCAC-TGAATAT-AAG
1 GTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGAATATGAAG
*
44947536 GTGGATGCTAAGTGCTGATTCCACCG
1 GTGGTTGCTAAGTGCTGATTCCACCG
44947562 AGTAACGGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
40 4 0.07
41 18 0.32
42 14 0.25
43 20 0.35
44 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
GTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATATGAAG
Found at i:44950280 original size:126 final size:126
Alignment explanation
Indices: 44950055--44950346 Score: 437
Period size: 126 Copynumber: 2.3 Consensus size: 126
44950045 TCAGGCCAAA
*
44950055 CAGGAGCTAC-AGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACATTTGCTGACAAAG
1 CAGGAGCTACTA-TAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAGTACATTTGCTGACAAAG
*
44950119 CATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCAAAATTATTTTTT
65 CATCCTACTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCAAAATTATTTTTT
* *
44950181 CAGGAGCTATTATAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAGTACTTTTG-TAGACAAAG
1 CAGGAGCTACTATAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAGTACATTTGCT-GACAAAG
* * ** **
44950245 CATCGTACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTTTTGAAATTATTTTTT
65 CATCCTACTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCAAAATTATTTTTT
*
44950307 CAGGAGCTACTGTAGCAAAAG-AGCGTCCACGTGGGAGCTT
1 CAGGAGCTACTATAGCAAAAGCA-CGTCCACGTGGGAGCTT
44950347 TTTTAAATTA
Statistics
Matches: 151, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
125 2 0.01
126 148 0.98
127 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (126 bp):
CAGGAGCTACTATAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAGTACATTTGCTGACAAAGC
ATCCTACTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCAAAATTATTTTTT
Found at i:44950608 original size:96 final size:95
Alignment explanation
Indices: 44950383--44950678 Score: 340
Period size: 96 Copynumber: 3.2 Consensus size: 95
44950373 AGTAACCCTA
* * *
44950383 AACCCCAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACTCTAATCT-AT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAAT
*
44950447 TTTTT--TAATTTATAATTAATTTACTC---
65 TTTTTAAAAATTTATAATTAATTTACTCAAG
* * * *
44950473 AACACTAAACCCTAATTTATTTCATTTTTCCTTAAAAACCTTTAACACTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATT
44950538 TTTTAAAAAATTT-TAATTAATTTACTCAAG
66 TTTT-AAAAATTTATAATTAATTTACTCAAG
* * * * * *
44950568 TAACCCTAAACCCTAATTTAATTGATTTTTCTTTACAAACCATAAACACGAAA-CCTAAACCAA-
1 -AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAAT
* * *
44950631 TTTTGAAAAATTTATAATTAATTTAATTAAG
65 TTTTTAAAAATTTATAATTAATTTACTCAAG
44950662 AAACCCTAAACCCTAAT
1 -AACCCTAAACCCTAAT
44950679 CCCTTATTTA
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
89 34 0.19
90 28 0.16
92 14 0.08
93 13 0.07
94 35 0.20
95 8 0.05
96 44 0.25
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.38
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATT
TTTTAAAAATTTATAATTAATTTACTCAAG
Found at i:44951370 original size:9 final size:9
Alignment explanation
Indices: 44951233--44951370 Score: 57
Period size: 9 Copynumber: 14.6 Consensus size: 9
44951223 AATTTATTTA
44951233 AAAAATTAT
1 AAAAATTAT
44951242 --AAATTAT
1 AAAAATTAT
*
44951249 -AAAATAAAT
1 AAAAAT-TAT
44951258 AAAAATATATTT
1 AAAAAT-TA--T
44951270 AAAAATTTAT
1 AAAAA-TTAT
*
44951280 AAAAACGTATT
1 AAAAA-TTA-T
*
44951291 AAAATTCTAT
1 AAAAAT-TAT
* *
44951301 GAAAATCAT
1 AAAAATTAT
44951310 AAAAATTAT
1 AAAAATTAT
*
44951319 CAAAATTAT
1 AAAAATTAT
** *
44951328 TCAAAGTAT
1 AAAAATTAT
*
44951337 TAAAATTGAT
1 AAAAATT-AT
*
44951347 ATAAACTTAT
1 A-AAAATTAT
*
44951357 CAAAATTAT
1 AAAAATTAT
44951366 AAAAA
1 AAAAA
44951371 AAAATCATAA
Statistics
Matches: 97, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
7 7 0.07
8 4 0.04
9 41 0.42
10 24 0.25
11 12 0.12
12 8 0.08
13 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:44952292 original size:29 final size:29
Alignment explanation
Indices: 44952250--44952331 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
44952240 ACTTAGAGAT
* *
44952250 GAGTGATCTAAATCTTAAGGTATATACAC
1 GAGTGATCTAAATCTTTAGGTATAGACAC
*
44952279 GAGTGATCTAAATCTTTAGGTATAGAGAC
1 GAGTGATCTAAATCTTTAGGTATAGACAC
*
44952308 AAGTGATCTAAATCTTTAGGTATA
1 GAGTGATCTAAATCTTTAGGTATA
44952332 AAAGTGAGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (29 bp):
GAGTGATCTAAATCTTTAGGTATAGACAC
Found at i:44954355 original size:50 final size:50
Alignment explanation
Indices: 44954280--44954467 Score: 243
Period size: 50 Copynumber: 3.7 Consensus size: 50
44954270 GGTAAAGAGA
44954280 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGATAA-G
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA-AACG
* * *
44954330 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGGGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAACG
** * * * * * *
44954380 TCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACTGATATGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA-AACG
*
44954431 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
44954468 TGTTTTGATC
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
49 2 0.02
50 82 0.69
51 34 0.29
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAACG
Found at i:44954460 original size:101 final size:100
Alignment explanation
Indices: 44954286--44954467 Score: 274
Period size: 100 Copynumber: 1.8 Consensus size: 100
44954276 GAGATCCCAT
* * * * * *
44954286 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGATAAGTCCCATGTAAGACCATGTTTG
1 GTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAAATCCCATGTAAGACCATGTCTG
44954351 GGACATGGCGTTGGCACCGGGATGAAAGGTCCCCC
66 GGACATGGCGTTGGCACCGGGATGAAAGGTCCCCC
* *
44954386 GTAAGACCATGTCTGGGACATGACATGGGCACTGATATGAGAACATCCCATGTAAGACCATGTCT
1 GTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAA-ATCCCATGTAAGACCATGTCT
*
44954451 GGGACATGGCTTTGGCA
65 GGGACATGGCGTTGGCA
44954468 TGTTTTGATC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 37 0.51
101 35 0.49
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAAATCCCATGTAAGACCATGTCTG
GGACATGGCGTTGGCACCGGGATGAAAGGTCCCCC
Found at i:44966134 original size:21 final size:22
Alignment explanation
Indices: 44966108--44966148 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44966098 TTAAGAAGGC
*
44966108 TTTAATGA-GGTATTTAAGGGG
1 TTTAATAAGGGTATTTAAGGGG
*
44966129 TTTAATAAGGGTTTTTAAGG
1 TTTAATAAGGGTATTTAAGG
44966149 TTAAACTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (22 bp):
TTTAATAAGGGTATTTAAGGGG
Found at i:44966439 original size:16 final size:16
Alignment explanation
Indices: 44966418--44966448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44966408 TTAAATAACT
*
44966418 AAAATAAATGAATGAG
1 AAAATAAATAAATGAG
44966434 AAAATAAATAAATGA
1 AAAATAAATAAATGA
44966449 CTTAAATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (16 bp):
AAAATAAATAAATGAG
Found at i:44971836 original size:40 final size:40
Alignment explanation
Indices: 44971753--44972015 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
44971743 TTGAATGCTG
* * * * * *
44971753 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
44971793 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
44971833 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
44971873 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
44971913 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44971953 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44971992 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44972016 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44972035 original size:79 final size:80
Alignment explanation
Indices: 44971792--44972050 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
44971782 AAGTGAATAT
* * * * * *
44971792 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
44971856 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
44971872 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
44971937 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
44971952 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
44972016 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
44972031 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
44972051 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:44977844 original size:26 final size:26
Alignment explanation
Indices: 44977808--44977884 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
44977798 TTTTGAGATT
*
44977808 TTTTA-TT-ATTTATTTATTATTTTA
1 TTTTATTTAATTTATTTATTACTTTA
*
44977832 TTTTCTTTAATTTATTTATTACTTTA
1 TTTTATTTAATTTATTTATTACTTTA
*
44977858 TTTTATTTTA-TTATTTATTAC-TTA
1 TTTTATTTAATTTATTTATTACTTTA
44977882 TTT
1 TTT
44977885 GGATATTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.21
25 13 0.28
26 24 0.51
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTATTTAATTTATTTATTACTTTA
Found at i:44977847 original size:22 final size:23
Alignment explanation
Indices: 44977809--44977873 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
44977799 TTTGAGATTT
*
44977809 TTTATTATTTATTTATTATTTTA-
1 TTTATT-TTAATTTATTATTTTAC
*
44977832 TTT-TCTTTAATTTATT-TATTAC
1 TTTAT-TTTAATTTATTATTTTAC
*
44977854 TTTATTTTATTTTATTATTT
1 TTTATTTTAATTTATTATTT
44977874 ATTACTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.12
22 23 0.68
23 7 0.21
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTTAATTTATTATTTTAC
Found at i:44977856 original size:17 final size:18
Alignment explanation
Indices: 44977824--44977874 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
44977814 TATTTATTTA
*
44977824 TTATTTTATTTTCTTTAAT
1 TTATTTTA-TTACTTTAAT
*
44977843 TTA-TTTATTACTTTATT
1 TTATTTTATTACTTTAAT
44977860 TTATTTTATTA-TTTA
1 TTATTTTATTACTTTA
44977875 TTACTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 15 0.52
18 11 0.38
19 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTTATTACTTTAAT
Found at i:44979764 original size:15 final size:15
Alignment explanation
Indices: 44979739--44979773 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44979729 GACTCTATTT
*
44979739 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
44979753 TAATTAATATTAAGA
1 TAATTAATATTAAGA
44979768 TAATTA
1 TAATTA
44979774 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:44984327 original size:2 final size:2
Alignment explanation
Indices: 44984320--44984345 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44984310 TTGAATTAGA
44984320 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
44984346 GTTCTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44984430 original size:63 final size:63
Alignment explanation
Indices: 44984346--44984711 Score: 459
Period size: 63 Copynumber: 5.9 Consensus size: 63
44984336 ATATATATAT
* ** * *
44984346 GTTCTATAAGATGAATTTAATTTTATGAATTATATAAATATGTTAGCCGAATGTACGTTTTGA
1 GTTCTATAAGTTGAAACTAATTGTATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGA
44984409 GTT-TGATAAGTTGAAACTAATTGTATGAATTATAT--ATATGTTAGCC-AATGTATGTTTTGA
1 GTTCT-ATAAGTTGAAACTAATTGTATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGA
* *
44984469 GTTCTATAAGCTG-AACTTAATT-TGATGAATTATATAAATATGTTAGCCAAATGTATGTTTTGA
1 GTTCTATAAGTTGAAAC-TAATTGT-ATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGA
*
44984532 GTT-TGATAAGTTGAAACTAATTGTATGAA-T-TATAAATATGTTAGCC-AATGTATGTATTGA
1 GTTCT-ATAAGTTGAAACTAATTGTATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGA
* * * *
44984592 GTTCTATGAGTTGAAACTAATTGTATAAATTATATATATATGTTAGTCGAATGTATGTTTTGA
1 GTTCTATAAGTTGAAACTAATTGTATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGA
* ** * *
44984655 GTTCTATAAGATGAATTTAATTGTTTGAATTATAT--ATATGTTATCCGAATGTATGTT
1 GTTCTATAAGTTGAAACTAATTGTATGAATTATATAAATATGTTAGCCGAATGTATGTT
44984712 GGCTATAAAG
Statistics
Matches: 268, Mismatches: 21, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
59 4 0.01
60 77 0.29
61 50 0.19
62 28 0.10
63 105 0.39
64 4 0.01
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (63 bp):
GTTCTATAAGTTGAAACTAATTGTATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGA
Found at i:44984530 original size:123 final size:123
Alignment explanation
Indices: 44984346--44984711 Score: 522
Period size: 123 Copynumber: 3.0 Consensus size: 123
44984336 ATATATATAT
* * *
44984346 GTTCTATAAGATGAATTTAATTTTATGAATTATATAAATATGTTAGCCGAATGTACGTTTTGAGT
1 GTTCTATAAGATGAACTTAATTTGATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGAGT
44984411 TTGATAAGTTGAAACTAATTGTATGAATTATATATATGTTAGCCAATGTATGTTTTGA
66 TTGATAAGTTGAAACTAATTGTATGAATTATATATATGTTAGCCAATGTATGTTTTGA
* *
44984469 GTTCTATAAGCTGAACTTAATTTGATGAATTATATAAATATGTTAGCCAAATGTATGTTTTGAGT
1 GTTCTATAAGATGAACTTAATTTGATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGAGT
* *
44984534 TTGATAAGTTGAAACTAATTGTATGAATTATAAATATGTTAGCCAATGTATGTATTGA
66 TTGATAAGTTGAAACTAATTGTATGAATTATATATATGTTAGCCAATGTATGTTTTGA
* * * * *
44984592 GTTCTATGAGTTGAAAC-TAA-TTGTATAAATTATATATATATGTTAGTCGAATGTATGTTTTGA
1 GTTCTATAAGATG-AACTTAATTTG-ATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGA
* ** * *
44984655 GTTCT-ATAAGATGAATTTAATTGTTTGAATTATATATATGTTATCCGAATGTATGTT
64 GTT-TGATAAGTTGAAACTAATTGTATGAATTATATATATGTTAGCC-AATGTATGTT
44984712 GGCTATAAAG
Statistics
Matches: 219, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
122 3 0.01
123 203 0.93
124 13 0.06
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (123 bp):
GTTCTATAAGATGAACTTAATTTGATGAATTATATAAATATGTTAGCCGAATGTATGTTTTGAGT
TTGATAAGTTGAAACTAATTGTATGAATTATATATATGTTAGCCAATGTATGTTTTGA
Found at i:44989559 original size:29 final size:27
Alignment explanation
Indices: 44989522--44989630 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 27
44989512 GTGTTCATTA
44989522 AAAGGTTTGCCACAAAGGCTTACCTTT
1 AAAGGTTTGCCACAAAGGCTTACCTTT
* * *
44989549 CCAAAGTTTTGCCACAAAGGTTTTCCTTT
1 --AAAGGTTTGCCACAAAGGCTTACCTTT
**
44989578 AACAGGTTCACCACAAAGGC-TATCCTTT
1 AA-AGGTTTGCCACAAAGGCTTA-CCTTT
*
44989606 AAGAGGTTTGCCACAAAGTCTTACC
1 AA-AGGTTTGCCACAAAGGCTTACC
44989631 CTTCCATAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
27 3 0.05
28 36 0.55
29 26 0.40
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (27 bp):
AAAGGTTTGCCACAAAGGCTTACCTTT
Found at i:44989892 original size:53 final size:53
Alignment explanation
Indices: 44989806--44990062 Score: 160
Period size: 53 Copynumber: 4.8 Consensus size: 53
44989796 TTAAATCTTT
* * * * *
44989806 CCATATGATTCCATAACCCACCAGTTACTGTCTTACATGATATGG-GCTTTTTC
1 CCATATAATGCCATAACCCACCAGTTACTGTCTTACACGATATGGTG-TTCTAC
44989859 CCATATAATGCCATAACCCA-CATGTTA-TGGTCTTACACGATATGGTGTTCTAC
1 CCATATAATGCCATAACCCACCA-GTTACT-GTCTTACACGATATGGTGTTCTAC
* * ** * * * * *
44989912 CCATATCATGCCATAACCTAATAGTTACAGTCTTACACAACATGGTTTTTTTAC
1 CCATATAATGCCATAACCCACCAGTTACTGTCTTACACGATATGG-TGTTCTAC
* * ** * * * * * * **
44989966 CCATATGATGTCATAACCCATTAGTTACAGCCTTACACAACATTGTCTTCTTT
1 CCATATAATGCCATAACCCACCAGTTACTGTCTTACACGATATGGTGTTCTAC
** * * * * *
44990019 TTATATGATGCCATAACCCACTAATTACGGTCTTACATGATATG
1 CCATATAATGCCATAACCCACCAGTTACTGTCTTACACGATATG
44990063 TTCCTTCAGT
Statistics
Matches: 164, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
52 3 0.02
53 114 0.70
54 47 0.29
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (53 bp):
CCATATAATGCCATAACCCACCAGTTACTGTCTTACACGATATGGTGTTCTAC
Found at i:44989982 original size:54 final size:53
Alignment explanation
Indices: 44989806--44990008 Score: 176
Period size: 53 Copynumber: 3.8 Consensus size: 53
44989796 TTAAATCTTT
* * ** * ** * *
44989806 CCATATGATTCCATAACCCACCAGTTACTGTCTTACATGATATGGGCTTTTT-C
1 CCATATAATGCCATAACCCAATAGTTACAGTCTTACACAACAT-GGTTTTTTAC
** * * * *
44989859 CCATATAATGCCATAACCCACAT-GTTATGGTCTTACACGATATGGTGTTCTAC
1 CCATATAATGCCATAACCCA-ATAGTTACAGTCTTACACAACATGGTTTTTTAC
* *
44989912 CCATATCATGCCATAACCTAATAGTTACAGTCTTACACAACATGGTTTTTTTAC
1 CCATATAATGCCATAACCCAATAGTTACAGTCTTACACAACATGG-TTTTTTAC
* * * *
44989966 CCATATGATGTCATAACCCATTAGTTACAGCCTTACACAACAT
1 CCATATAATGCCATAACCCAATAGTTACAGTCTTACACAACAT
44990009 TGTCTTCTTT
Statistics
Matches: 123, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 7 0.06
53 72 0.59
54 44 0.36
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (53 bp):
CCATATAATGCCATAACCCAATAGTTACAGTCTTACACAACATGGTTTTTTAC
Found at i:44994324 original size:61 final size:62
Alignment explanation
Indices: 44994206--44994324 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 62
44994196 TCAAAAGATG
* * * *
44994206 AAGAAATTCCCTACAAGACAAGGACAGAAGAATCAACAATGACATTCTTTGCACAAAGGAAT
1 AAGAAATTCCCTACAAGACAAAGACAGAAAAAACAACAATAACATTCTTTGCACAAAGGAAT
* * *
44994268 AAGAAATTCCCTGCAAGACAAAGACA-AAAAAACAACAGTAAGATTCTTTGCACAAAG
1 AAGAAATTCCCTACAAGACAAAGACAGAAAAAACAACAATAACATTCTTTGCACAAAG
44994325 AAAAAGCTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 26 0.52
62 24 0.48
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (62 bp):
AAGAAATTCCCTACAAGACAAAGACAGAAAAAACAACAATAACATTCTTTGCACAAAGGAAT
Found at i:44997945 original size:3 final size:3
Alignment explanation
Indices: 44997939--44997996 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
44997929 CTACTACTAC
44997939 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44997987 TTA TTA TTA T
1 TTA TTA TTA T
44997997 ACTCTTACTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45001801 original size:17 final size:17
Alignment explanation
Indices: 45001779--45001822 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
45001769 CCATTTGGGC
45001779 CGTGTGGGCCATACTGG
1 CGTGTGGGCCATACTGG
45001796 CGTGTGGGCCATACTGG
1 CGTGTGGGCCATACTGG
45001813 CGTGTGGGCC
1 CGTGTGGGCC
45001823 CATATAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.09, C:0.25, G:0.43, T:0.23
Consensus pattern (17 bp):
CGTGTGGGCCATACTGG
Found at i:45007040 original size:51 final size:51
Alignment explanation
Indices: 45006964--45007080 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
45006954 TCTGATCAGT
45006964 GACAAGTGATAAGTGGTAGATTTAGCTACACTTATCTAATCAGTGACAAGC
1 GACAAGTGATAAGTGGTAGATTTAGCTACACTTATCTAATCAGTGACAAGC
* * * *
45007015 GACAAGCGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAGT
1 GACAAGTGATAAGTGGTAGATTTAGCTACACTTATCTAATCAGTGACAAGC
45007066 GACAAGTGATAAGTG
1 GACAAGTGATAAGTG
45007081 TGATCCATGT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (51 bp):
GACAAGTGATAAGTGGTAGATTTAGCTACACTTATCTAATCAGTGACAAGC
Found at i:45015226 original size:18 final size:18
Alignment explanation
Indices: 45015193--45015243 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
45015183 CAAAGGGCAC
*
45015193 AGAAGAGATAAGAGAGGAA
1 AGAAAAGAT-AGAGAGGAA
45015212 AGAAAAGATAGAGAGGAA
1 AGAAAAGATAGAGAGGAA
*
45015230 AG-AAAGATGGAGAG
1 AGAAAAGATAGAGAG
45015244 AAATGGGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.37
18 11 0.37
19 8 0.27
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.06
Consensus pattern (18 bp):
AGAAAAGATAGAGAGGAA
Found at i:45017153 original size:30 final size:30
Alignment explanation
Indices: 45017119--45017181 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
45017109 ACTTAACAAG
45017119 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
45017149 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
45017179 CAA
1 CAA
45017182 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:45019432 original size:21 final size:20
Alignment explanation
Indices: 45019406--45019491 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 20
45019396 ATAATAATAA
*
45019406 ATAATTTAATCATATTTTAAT
1 ATAATTTAAT-ATATTTAAAT
45019427 ATAA-TT-AT-TA-TTAAAT
1 ATAATTTAATATATTTAAAT
* **
45019443 ATAATTTAATAAAAATAATAT
1 ATAATTTAATATATTTAA-AT
*
45019464 ATAATTTAATAATATGTTTAAT
1 ATAATTTAAT-ATAT-TTAAAT
45019486 ATAATT
1 ATAATT
45019492 ATTTTTATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
16 9 0.18
17 4 0.08
18 2 0.04
19 3 0.06
20 5 0.10
21 16 0.31
22 10 0.20
23 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (20 bp):
ATAATTTAATATATTTAAAT
Found at i:45019434 original size:55 final size:56
Alignment explanation
Indices: 45019364--45019494 Score: 183
Period size: 55 Copynumber: 2.3 Consensus size: 56
45019354 TTGTTATTAA
** *
45019364 ATTTTAATAGGATTATTATTAAAAATAATTTAAT-AATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAAATAATAAATAATTTAATAAT
* *
45019419 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAAT--AAATAATAAATAATTTAATAAT
45019477 ATGTTTAATATAATTATT
1 AT-TTTAATATAATTATT
45019495 TTTATATTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 31 0.46
58 21 0.31
59 15 0.22
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (56 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAAATAATAAATAATTTAATAAT
Found at i:45019440 original size:26 final size:27
Alignment explanation
Indices: 45019364--45019498 Score: 87
Period size: 29 Copynumber: 4.8 Consensus size: 27
45019354 TTGTTATTAA
** *
45019364 ATTTTAATAGGATTATTA-TTAAAAAT
1 ATTTTAATATAATTATTATTTAATAAT
* * * *
45019390 AATTTAATAATAATAAATAATTTAATCAT
1 ATTTTAAT-ATAAT-TATTATTTAATAAT
*
45019419 ATTTTAATATAATTATTATTAAAT-AT
1 ATTTTAATATAATTATTATTTAATAAT
* *
45019445 AATTTAATAAAAATAATATATAATTTAATAAT
1 -ATTT--T-AATATAAT-TATTATTTAATAAT
45019477 ATGTTTAATATAATTATT-TTTA
1 AT-TTTAATATAATTATTATTTA
45019499 TATTAAATTA
Statistics
Matches: 83, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
26 9 0.11
27 19 0.23
28 11 0.13
29 21 0.25
30 8 0.10
31 11 0.13
32 4 0.05
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (27 bp):
ATTTTAATATAATTATTATTTAATAAT
Found at i:45019517 original size:59 final size:58
Alignment explanation
Indices: 45019364--45019518 Score: 174
Period size: 55 Copynumber: 2.7 Consensus size: 58
45019354 TTGTTATTAA
** * * *
45019364 ATTTTAATAGGATTATTATTAAAAATAATTTAA-T--AATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAAATTAATTAAAATAATAAATAATTTAATAAT
* * *
45019419 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATATAAATTAATTAAAATAATAAATAATTTAATAAT
* *
45019477 ATGTTTAATATAATTATTTTTATAT-TAAATTATATTAAAATA
1 AT-TTTAATATAATTATTATTAAATATAAATTA-ATTAAAATA
45019519 TTTTTTAGCT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
55 30 0.35
58 27 0.32
59 28 0.33
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATAAATTAATTAAAATAATAAATAATTTAATAAT
Found at i:45023343 original size:17 final size:17
Alignment explanation
Indices: 45023323--45023357 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45023313 AACGGCATAG
45023323 AAATAATAT-AAACAAAT
1 AAATAA-ATGAAACAAAT
45023340 AAATAAATGAAACAAAT
1 AAATAAATGAAACAAAT
45023357 A
1 A
45023358 TACATAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAATGAAACAAAT
Found at i:45026230 original size:17 final size:18
Alignment explanation
Indices: 45026208--45026268 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
45026198 TTATTTATGT
45026208 ATATATATAAACTAT-TA
1 ATATATATAAACTATATA
*
45026225 ATATATTATATACTATATA
1 ATATA-TATAAACTATATA
* *
45026244 ATATGATATAGCATTATATA
1 ATAT-ATATA-AACTATATA
45026264 ATATA
1 ATATA
45026269 GTAAGAGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.14
18 9 0.24
19 11 0.30
20 12 0.32
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:45026245 original size:19 final size:19
Alignment explanation
Indices: 45026207--45026253 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
45026197 ATTATTTATG
45026207 TATATATATAAACTATTAA
1 TATATATATAAACTATTAA
*
45026226 TATAT-TATATACTATATAA
1 TATATATATAAACTAT-TAA
45026245 TATGATATA
1 TAT-ATATA
45026254 GCATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 9 0.38
19 11 0.46
20 2 0.08
21 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
TATATATATAAACTATTAA
Found at i:45026962 original size:12 final size:12
Alignment explanation
Indices: 45026932--45026972 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
45026922 TAATCAGATG
*
45026932 CAGATGCATAAT
1 CAGATACATAAT
* *
45026944 CAAATACATATT
1 CAGATACATAAT
45026956 CAGATACATAAT
1 CAGATACATAAT
45026968 CAGAT
1 CAGAT
45026973 CCTACCCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (12 bp):
CAGATACATAAT
Found at i:45030617 original size:29 final size:29
Alignment explanation
Indices: 45030575--45030630 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
45030565 AGACTTATCA
45030575 TAACTCTGATTGTTCAAGAGATTCATTCT
1 TAACTCTGATTGTTCAAGAGATTCATTCT
45030604 TAACTCTGATTGTTCAAGAGATTCATT
1 TAACTCTGATTGTTCAAGAGATTCATT
45030631 TTTTTCGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (29 bp):
TAACTCTGATTGTTCAAGAGATTCATTCT
Found at i:45035182 original size:3 final size:3
Alignment explanation
Indices: 45035174--45035208 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
45035164 AAATGTCTAA
* *
45035174 ATT ATT ATT ATT ATT ATT ACT ATT ACT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45035209 CAGTTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:45035888 original size:150 final size:147
Alignment explanation
Indices: 45035574--45035891 Score: 385
Period size: 150 Copynumber: 2.1 Consensus size: 147
45035564 AAAGAGAAAG
* * *
45035574 TTTAGATTTT-AACAAATAAAAATATGTTTTTTTAGTTATTTTAAAGGAAAGTTTAAAATTTTAA
1 TTTAGATTTTGAA-AAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAATTTAAAATTTTAA
* *
45035638 AACAAAGTTTTGATTTTTTTTTTCTCAACTACTTCAAAATAAAAACTTTAATCTTTAAGAAAATT
65 AACAAAGTTTTGA--TTTTTTTTCTAAACTACTTCAAAATAAAAACTTTAATCTTTAAGAAAAGT
* *
45035703 AGTGTTTTTTAAAAAAAAAG
128 AATGTTTTTTAAAAAAAAAC
45035723 TTTAGATTTTGAAAAATAAAAATATGTTTTTTAAAGTCATTTTAAAGGAAAATTTAAAATTTTAA
1 TTTAGATTTTGAAAAATAAAAATATGTTTTTT-AAGTCATTTTAAAGGAAAATTTAAAATTTTAA
* * * ** * *
45035788 AACAAAGTTTTGA-TTTTTTT-TAAACTATTTCGAAAT-TAGGCTTTGATTTTTAAGAAAAGTAA
65 AACAAAGTTTTGATTTTTTTTCTAAACTACTTCAAAATAAAAACTTTAATCTTTAAGAAAAGTAA
* *
45035850 TGATTTTTTCTAAACAAAAC
130 TG-TTTTTT-AAAAAAAAAC
*
45035870 TTT-GATTTTGCAAAAAAAAAAA
1 TTTAGATTTTG-AAAAATAAAAA
45035892 ATTTGGCCAC
Statistics
Matches: 147, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
145 21 0.14
146 26 0.18
147 27 0.18
149 29 0.20
150 44 0.30
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (147 bp):
TTTAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAATTTAAAATTTTAAA
ACAAAGTTTTGATTTTTTTTCTAAACTACTTCAAAATAAAAACTTTAATCTTTAAGAAAAGTAAT
GTTTTTTAAAAAAAAAC
Found at i:45042047 original size:39 final size:39
Alignment explanation
Indices: 45042004--45042082 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
45041994 TATTACACAT
* * *
45042004 ATAATCGCCTAACATACAAGTATATATCACAATACTCAA
1 ATAATCACATAACATACAAGCATATATCACAATACTCAA
**
45042043 ATAATCACATAACATTTAAGCATATATCACAATACTCAA
1 ATAATCACATAACATACAAGCATATATCACAATACTCAA
45042082 A
1 A
45042083 ACATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.27
Consensus pattern (39 bp):
ATAATCACATAACATACAAGCATATATCACAATACTCAA
Found at i:45043291 original size:31 final size:31
Alignment explanation
Indices: 45043198--45043293 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
45043188 GGCAAATTAC
*
45043198 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
45043229 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
45043261 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
45043292 AA
1 AA
45043294 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:45045797 original size:17 final size:18
Alignment explanation
Indices: 45045767--45045817 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
45045757 GGCAACTTTT
45045767 TTTTTTGCGCTTTTGCGC
1 TTTTTTGCGCTTTTGCGC
* *
45045785 TTTTTTGC-TTTTTGCTC
1 TTTTTTGCGCTTTTGCGC
45045802 TTTTTTTTGCGCTTTT
1 --TTTTTTGCGCTTTT
45045818 TTACTCTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 8 0.30
20 4 0.15
ACGTcount: A:0.00, C:0.18, G:0.16, T:0.67
Consensus pattern (18 bp):
TTTTTTGCGCTTTTGCGC
Found at i:45045808 original size:28 final size:28
Alignment explanation
Indices: 45045777--45045873 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
45045767 TTTTTTGCGC
45045777 TTTTGCGCTTTTTTGCTTTTTGCTCTTTT
1 TTTTGCGCTTTTTTGCTTTTTGCTC-TTT
* * *
45045806 TTTTGCGCTTTTTTACTCTCT-CTCTTT
1 TTTTGCGCTTTTTTGCTTTTTGCTCTTT
45045833 TTTTGCGCTTTTTTGCTTTTTTTG-T-TTT
1 TTTTGCGCTTTTTTGC--TTTTTGCTCTTT
45045861 TTTTGCGCTTTTT
1 TTTTGCGCTTTTT
45045874 ACTTTTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 18 0.31
28 19 0.32
29 22 0.37
ACGTcount: A:0.01, C:0.18, G:0.12, T:0.69
Consensus pattern (28 bp):
TTTTGCGCTTTTTTGCTTTTTGCTCTTT
Found at i:45045860 original size:8 final size:9
Alignment explanation
Indices: 45045829--45045882 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
45045819 TACTCTCTCT
45045829 CTTTTTTTG
1 CTTTTTTTG
*
45045838 CGCTTTTTTG
1 C-TTTTTTTG
45045848 CTTTTTTTG
1 CTTTTTTTG
*
45045857 TTTTTTTTG
1 CTTTTTTTG
** *
45045866 CGCTTTTTA
1 CTTTTTTTG
45045875 CTTTTTTT
1 CTTTTTTT
45045883 TTGCTTTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.02, C:0.13, G:0.11, T:0.74
Consensus pattern (9 bp):
CTTTTTTTG
Found at i:45045862 original size:18 final size:18
Alignment explanation
Indices: 45045841--45045890 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
45045831 TTTTTTGCGC
*
45045841 TTTTTTGCTTTTT-TTGTT
1 TTTTTTGCTTTTTACT-TT
45045859 TTTTTTGCGCTTTTTACTTT
1 TTTTTT--GCTTTTTACTTT
45045879 TTTTTTGCTTTT
1 TTTTTTGCTTTT
45045891 ATTTAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 12 0.43
20 15 0.54
21 1 0.04
ACGTcount: A:0.02, C:0.10, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTTGCTTTTTACTTT
Found at i:45045880 original size:28 final size:27
Alignment explanation
Indices: 45045777--45045884 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
45045767 TTTTTTGCGC
*
45045777 TTTTGCGCTTTTTTGCTTTTTGCTCTTTT
1 TTTTGCGCTTTTTTACTTTTT-CT-TTTT
* * *
45045806 TTTTGCGCTTTTTTACTCTCTCTCTTT
1 TTTTGCGCTTTTTTACTTTTTCTTTTT
* *
45045833 TTTTGCGCTTTTTTGCTTTTTTTGTTTT
1 TTTTGCGCTTTTTTACTTTTTCT-TTTT
45045861 TTTTGCGC-TTTTTACTTTTT-TTTT
1 TTTTGCGCTTTTTTACTTTTTCTTTT
45045885 GCTTTTATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.04
26 1 0.01
27 33 0.49
28 13 0.19
29 18 0.26
ACGTcount: A:0.02, C:0.17, G:0.11, T:0.70
Consensus pattern (27 bp):
TTTTGCGCTTTTTTACTTTTTCTTTTT
Found at i:45046477 original size:32 final size:32
Alignment explanation
Indices: 45046436--45046497 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
45046426 GGCAAATTAC
45046436 AAGAGTAATTGAATCCTAATAAAACTCTTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTTA
45046468 AAGAGTAATTGAATCCTAATAAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTT
45046498 AAAATTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTTA
Found at i:45050692 original size:15 final size:15
Alignment explanation
Indices: 45050672--45050706 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
45050662 TATATATGCC
45050672 ACAATAATAAATACA
1 ACAATAATAAATACA
*
45050687 ACAATAATAAATATA
1 ACAATAATAAATACA
45050702 ACAAT
1 ACAAT
45050707 GGCATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:45050849 original size:24 final size:24
Alignment explanation
Indices: 45050796--45050866 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
45050786 TAAACGAGCA
*
45050796 AAATTAAT-ATAAATGAAA-ACAC-
1 AAATTAATAAAAAATGAAAGA-ACT
45050818 AAATTAATAAACAAATGAAAGAACT
1 AAATTAATAAA-AAATGAAAGAACT
45050843 AAA-TAATAAAAAAT-AAAGAA-T
1 AAATTAATAAAAAATGAAAGAACT
45050864 AAA
1 AAA
45050867 AGGTACATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 4 0.09
22 14 0.32
23 5 0.11
24 17 0.39
25 4 0.09
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (24 bp):
AAATTAATAAAAAATGAAAGAACT
Found at i:45051028 original size:3 final size:3
Alignment explanation
Indices: 45051020--45051061 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
45051010 ATACTTATAT
45051020 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45051062 GTAGATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:45052888 original size:44 final size:44
Alignment explanation
Indices: 45052817--45053766 Score: 363
Period size: 44 Copynumber: 21.9 Consensus size: 44
45052807 ACCCAATGTG
* * * *
45052817 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCT-GTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTA
* * *
45052861 AT-TCGCTCCACTGTAACTTCAGGGAGATAAAATTATTGGCTTTA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTA
* *** *
45052905 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TGGCTTTA
* **
45052950 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTT-GATTAC-TTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTAG-TGGCTTTA
* * *
45052994 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGAT-AC---A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TGGCTTTA
* * * **
45053035 ATCTGCT-CTCTGCAACTTCAGAGAGATAAAATCT-GTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTA
*
45053078 ATCTGCTCCACTGCAA-TCTCAGGGAGATAGGATTA-TCGGCTTTA
1 ATCTGCTCCACTGCAACT-TCAGGGAGATAAGATTAGT-GGCTTTA
* * * * * ***
45053122 ATCTGCTCTACTGTAATTTCAGGGAGATCAGATTTGCCATCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TGGCTTTA
* * **
45053167 GTCTAC-CTCACTGCAACTTCA-GGAGGATAAGACTT-GCTTAC-TTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTAG-TGGCTTTA
* ** * * *
45053211 GTCTGCTCCACTGCAACTTCAAAGAGATAAGACTGGAT-GC---G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TGGCTTTA
* * *
45053252 ATCTGCTCC-CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTA
* * * *
45053295 ATCCGCTCCACTGCAACCTCAGGG-GAATAGGATTA-TCGGCTCTA
1 ATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTAGT-GGCTTTA
* *
45053339 ATCTGCTCCACTGCAACTTCAGGGAGATCAGATT--TGCCATATTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTGGC---TTTA
** * **
45053384 GCCTGC-CTTACTGCAACTTCA-GGAGGATAAGACTT-GCTTAC-TTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTAG-TGGCTTTA
* * * * *
45053428 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGATCT-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TG-GCTTTA
* * *
45053473 AT-T-CT---CTGTAACTTCA--GAGATAAGATCTA-AGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTA
* *
45053510 ATCCGCTCCACTGCAACCTT-AGGGAGATAGGATTA-TCGGCTTTA
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTAGT-GGCTTTA
* * *
45053554 ATCTGCTCCACCGCAACTTCAGAGAGATAAGATT--TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTGGC-T-TT-A
* * **
45053599 GTCTGC-CTCACTGCAATTTCA-GGAGGATAAGACTT-GTTTAC-TTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTAG-TGGCTTTA
* * * *
45053643 GTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGAT-GC---G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TGGCTTTA
* * * * *
45053684 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTA-AGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTA
* * * * *
45053727 ATCTGTTCTACTGCAACCTCAGGGAGATAGGATTATTGGC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTGGC
45053767 CACCGATCTG
Statistics
Matches: 687, Mismatches: 139, Indels: 160
0.70 0.14 0.16
Matches are distributed among these distances:
36 3 0.00
37 3 0.00
38 9 0.01
39 5 0.01
40 75 0.11
41 25 0.04
42 10 0.01
43 53 0.08
44 362 0.53
45 129 0.19
46 9 0.01
48 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTTTA
Found at i:45053050 original size:217 final size:217
Alignment explanation
Indices: 45052739--45053762 Score: 1409
Period size: 217 Copynumber: 4.7 Consensus size: 217
45052729 TAGTCTGTTC
* * * * *
45052739 CACTGCAATTTCAAGG-GGATAAGACTTGCTTTCTTGAGTATACTCTACTGCAACTTCAGGGAGA
1 CACTGCAACTTC-AGGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGA
* * * **
45052803 TAAGACCCA-ATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATTCGC
64 TAAGA-CTAGATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATTCGC
* ** *
45052867 TCCACTGTAACTTCAGGGAGATAAAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
127 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
45052932 TAAGATTCGCCATCTTCAGTCTGCCT
192 TAAGATTTGCCATCTTCAGTCTGCCT
*
45052958 CACTGCAACTTCAGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * ** *
45053023 AGACTAGATACAATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTGTGATTTTAA-TCTGCTCC
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATTC-GCTCC
* * * *
45053087 ACTGCAA-TCTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCTACTGTAATTTCAGGGAGATC
130 ACTGCAACT-TCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* *
45053151 AGATTTGCCATCTTTAGTCTACCT
194 AGATTTGCCATCTTCAGTCTGCCT
**
45053175 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAAGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * *
45053240 AGACTGGATGCGATCTGCTCCCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATTCGCTCCA
* * *
45053305 CTGCAACCTCAGGG-GAATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATCA
131 CTGCAACTTCAGGGAG-ATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
45053369 GATTTGCCATATTTAGCCTGCCT
195 GATTTGCCATCTTCAGTCTGCCT
* *
45053392 TACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* ** * *
45053457 AGACTAGATGTGATCTATTCTCTGTAACTTC--AGAGATAAGATCTAAGGTTTTAATCCGCTCCA
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATTCGCTCCA
* *
45053520 CTGCAACCTT-AGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCAGAGAGATAA
131 CTGCAA-CTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
45053584 GATTTGCCATCTTCAGTCTGCCT
195 GATTTGCCATCTTCAGTCTGCCT
* * *
45053607 CACTGCAATTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCATTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * *
45053672 AGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAA-TCTGTTCT
66 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATTC-GCTCC
*
45053736 ACTGCAACCTCAGGGAGATAGGATTAT
130 ACTGCAACTTCAGGGAGATAGGATTAT
45053763 TGGCCACCGA
Statistics
Matches: 718, Mismatches: 74, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
215 194 0.27
216 10 0.01
217 442 0.62
218 44 0.06
219 28 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATTCGCTCCA
CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ATTTGCCATCTTCAGTCTGCCT
Found at i:45053092 original size:84 final size:85
Alignment explanation
Indices: 45052869--45053106 Score: 252
Period size: 89 Copynumber: 2.7 Consensus size: 85
45052859 TAATTCGCTC
* * **
45052869 CACTGTAACTTCAGGGAGATAAAATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCA-GGAGATAAAA-TCTTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
45052934 AGATTCGCCATCTTCAGTCTGCCT
64 AGACTAG-CA-CTACAATCTGCCT
* *
45052958 CACTGCAACTTCAGGAGGATAAGA-CTTGATTACTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGA-GATAAAATCTTGATT--TTAATCTGCTCCACTGCAACTTCAGGGAGAT
45053022 AAGACTAG-A-TACAATCTG-CT
63 AAGACTAGCACTACAATCTGCCT
*
45053042 CTCTGCAACTTCAGAGAGATAAAATCTGTGATTTTAATCTGCTCCACTGCAA-TCTCAGGGAGAT
1 CACTGCAACTTCAG-GAGATAAAATCT-TGATTTTAATCTGCTCCACTGCAACT-TCAGGGAGAT
45053106 A
63 A
45053107 GGATTATCGG
Statistics
Matches: 129, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
83 1 0.01
84 50 0.39
85 11 0.09
86 5 0.04
87 5 0.04
88 3 0.02
89 54 0.42
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (85 bp):
CACTGCAACTTCAGGAGATAAAATCTTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ACTAGCACTACAATCTGCCT
Found at i:45065647 original size:15 final size:15
Alignment explanation
Indices: 45065627--45065661 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
45065617 TATATATGCC
45065627 ACAATAATAAATACA
1 ACAATAATAAATACA
*
45065642 ACAATAATAAATATA
1 ACAATAATAAATACA
45065657 ACAAT
1 ACAAT
45065662 GGCATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:45065824 original size:21 final size:24
Alignment explanation
Indices: 45065764--45065824 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
45065754 AAAATAATAT
45065764 AAATGAAA-ACAC-AAATTAATAAAC
1 AAATGAAAGA-ACTAAA-TAATAAAC
45065788 AAATGAAAGAACTAAATAATAAA-
1 AAATGAAAGAACTAAATAATAAAC
45065811 AAAT-AAAGAA-TAAA
1 AAATGAAAGAACTAAA
45065825 AGGTACATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 4 0.11
24 17 0.49
25 4 0.11
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.16
Consensus pattern (24 bp):
AAATGAAAGAACTAAATAATAAAC
Found at i:45065984 original size:3 final size:3
Alignment explanation
Indices: 45065976--45066014 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
45065966 ATACTTATAT
45065976 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45066015 GTAGATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:45067860 original size:41 final size:41
Alignment explanation
Indices: 45067803--45067903 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
45067793 GAGAACGTTA
* *
45067803 ACAAGCTTAGGCGTTTCATTACAATAACCCTAATCAATCTC
1 ACAAGCTTAGGCGTTTCATTACAAGAACCCTAATCAATCCC
** * *
45067844 ACAAGCTTAGATGTTTCATTACAAGGACCTTAATCAATCCC
1 ACAAGCTTAGGCGTTTCATTACAAGAACCCTAATCAATCCC
*
45067885 ACAAGTTTAGGCGTTTCAT
1 ACAAGCTTAGGCGTTTCAT
45067904 ATTGGGTTCG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (41 bp):
ACAAGCTTAGGCGTTTCATTACAAGAACCCTAATCAATCCC
Found at i:45068469 original size:19 final size:18
Alignment explanation
Indices: 45068447--45068484 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
45068437 ATTTCGTCTA
45068447 TTTATTTATTTTTATATTT
1 TTTATTTATTTTT-TATTT
45068466 TTTATTTATTTTTTATTT
1 TTTATTTATTTTTTATTT
45068484 T
1 T
45068485 CTCTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTATTTATTTTTTATTT
Found at i:45068477 original size:11 final size:11
Alignment explanation
Indices: 45068445--45068483 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
45068435 AAATTTCGTC
45068445 TATTTATTTATT
1 TATTTATTT-TT
45068457 T-TTATATTTTT
1 TATT-TATTTTT
45068468 TATTTATTTTT
1 TATTTATTTTT
45068479 TATTT
1 TATTT
45068484 TCTCTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:45069814 original size:17 final size:17
Alignment explanation
Indices: 45069782--45069821 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
45069772 ATCAAGAGTT
*
45069782 TCTTCCCTTTTTTCTCA
1 TCTTCCATTTTTTCTCA
45069799 -CTTCCATTTATTTCTCA
1 TCTTCCATTT-TTTCTCA
45069816 TCTTCC
1 TCTTCC
45069822 TCACTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (17 bp):
TCTTCCATTTTTTCTCA
Found at i:45072561 original size:20 final size:20
Alignment explanation
Indices: 45072533--45072578 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45072523 AAAGAAGAAG
*
45072533 AAAATAACAACAAAACAATA
1 AAAAAAACAACAAAACAATA
* * *
45072553 AAAAAAACAAGAAAGCAGTA
1 AAAAAAACAACAAAACAATA
45072573 AAAAAA
1 AAAAAA
45072579 TAAACATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.76, C:0.11, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAAAACAACAAAACAATA
Found at i:45075446 original size:89 final size:89
Alignment explanation
Indices: 45075292--45075554 Score: 367
Period size: 89 Copynumber: 3.0 Consensus size: 89
45075282 TATAAAAAAA
* **
45075292 CGCCACTAAAGAAAACACTAGCGGCG--TTCCA--AAAACGCCAC-AAAAAACCAAACCCAACGA
1 CGCCACTAAAGAAAACATTAGCGGCGTTTTTGAGGAAAACGCCACAAAAAAACCAAACCCAACGA
* *
45075352 TGTCGTTTGTCGACCTTTTGGGGG
66 CGTCGTTTGTTGACCTTTTGGGGG
* * *
45075376 CGCCACTAAAGAAAACATTAGCGTCATTTTTTG-GGAAAACGCCACAAAAAAATCAAACCCAACG
1 CGCCACTAAAGAAAACATTAGCGGC-GTTTTTGAGGAAAACGCCACAAAAAAACCAAACCCAACG
45075440 ACGTCGTTTGTTGACCTTTTGGGGG
65 ACGTCGTTTGTTGACCTTTTGGGGG
* ** *
45075465 CGCCACTAAAGAAAACATTAGTGGCGTTTTTGAGGAAAACGCTGCAAAAAAACCAAACCCAACAA
1 CGCCACTAAAGAAAACATTAGCGGCGTTTTTGAGGAAAACGCCACAAAAAAACCAAACCCAACGA
45075530 CGTCGTTTGTTGACCTTTTGGGGG
66 CGTCGTTTGTTGACCTTTTGGGGG
45075554 C
1 C
45075555 TTTAGTGGCG
Statistics
Matches: 157, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
84 23 0.15
87 2 0.01
88 16 0.10
89 116 0.74
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (89 bp):
CGCCACTAAAGAAAACATTAGCGGCGTTTTTGAGGAAAACGCCACAAAAAAACCAAACCCAACGA
CGTCGTTTGTTGACCTTTTGGGGG
Found at i:45075623 original size:41 final size:41
Alignment explanation
Indices: 45075578--45075705 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
45075568 TCAGAATATT
* * **
45075578 GCCGCTAATGTTCGGGGTTTTAGCGGCGTTTTTAGTTTTGC
1 GCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAGATAAGC
* * *
45075619 GCCGCTAATGCTCGTGGTTTTAGCGGCGTTTATGGATAAGC
1 GCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAGATAAGC
* * * *
45075660 ACCACTAATGCTCGGGTTTTTAGCGGCGTTTTT-GACAAAGC
1 GCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAGA-TAAGC
45075701 GCCGC
1 GCCGC
45075706 AAAAATCATT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 2 0.03
41 69 0.97
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.34
Consensus pattern (41 bp):
GCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTAGATAAGC
Found at i:45076649 original size:14 final size:14
Alignment explanation
Indices: 45076630--45076670 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45076620 ACACTTGTAT
*
45076630 GGATTTAGGGTTTG
1 GGATTTAGGGTTTA
*
45076644 GGATTTAAGGTTTA
1 GGATTTAGGGTTTA
45076658 GGATTTAAGGGTT
1 GGATTT-AGGGTT
45076671 AAAAGTTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
GGATTTAGGGTTTA
Found at i:45076716 original size:15 final size:15
Alignment explanation
Indices: 45076682--45076716 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45076672 AAAGTTGAGA
45076682 GTTAGGGATTTAGGG
1 GTTAGGGATTTAGGG
* *
45076697 TTTAGGGATTTTGGG
1 GTTAGGGATTTAGGG
45076712 GTTAG
1 GTTAG
45076717 ATCGAGGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (15 bp):
GTTAGGGATTTAGGG
Found at i:45077879 original size:338 final size:332
Alignment explanation
Indices: 45077035--45078026 Score: 1010
Period size: 338 Copynumber: 2.9 Consensus size: 332
45077025 CACGTTTGGT
* * * * *
45077035 TTAAGTAAAATAATTTTTAGTGGCGTTTTTAAAAAAAAAAGCCAGAACTGTGCATTGAAGCTTAA
1 TTAAGCAAATTAATTTTTAGTGGCG-TTTT-AAAGAAAAAGCCAGAAATGTGCATTAAAGCTTAA
* * * ** **
45077100 TAAAACGGTGCAGTTTCTGATTAGAACTTTAACA-ATTAGTGGCTTTTTTTTTAAAACGCAGCT-
64 TAAAACGGTGCATTTTCGGATTAGAACTTTAA-ATTTTAGTGGCGATTTTTAGAAAACGCAG-TA
** * * *
45077163 AATGTTGAAGCAATTA-CGGCGTTTGTACAAGAAACGCCACAAAAGTGACTTAAAATTTTGGCTG
127 AATGTACAAGCAA-TAGCGGCGTTTGTACAAGAAACGCCGCAAAAGTGTCTTAAAATTTTGG-TA
* *
45077227 AACGACGTCGTTTCTGTCCACGATTTTTAACTTAGCATTTTCTCTATATTAATTAAACGGCGCCG
190 AACGACGTCGTTTCTGTACACG-TTTTTAACTTAGCATTTTCTCTATATTAATTCAACGGCGCCG
* * * * *
45077292 TTTATGTTAACTTTTAGTGGCGTTTCTTCAGGAAACGCCGCAAAAGTGACTTGAAATATTGGCTA
254 TTTCTCTTAA-TTTTAGTGGCGTTT-TTCACGAAACGCCGCAAAAGTGACTTAAAATATTGCCTA
45077357 AACATAGACGTCTAAC
317 AACATAGACGTCTAAC
* * *
45077373 TTAAGCAAATTAATTTTTAGTGGCGTTTTAAAGGAAAACGCCAGAAATGTGCATTAAATCTTAAC
1 TTAAGCAAATTAATTTTTAGTGGCGTTTTAAA-GAAAAAGCCAGAAATGTGCATTAAAGCTTAAT
* * * * * *
45077438 AAAACGGTGTCGTTTT-GGATTAGAACCTT-AATTCTTTGTGGGGATTCTTTAG-AAACGCTGCA
65 AAAACGGTG-CATTTTCGGATTAGAACTTTAAATT-TTAGTGGCGATT-TTTAGAAAACGCAGTA
* * *** * *
45077500 AATATACAAGCTATAGTAACGTTTGTTCAATAAACGCCGCAAAAGTGTCTTAAAATTTTTGGTAA
127 AATGTACAAGCAATAGCGGCGTTTGTACAAGAAACGCCGCAAAAGTGTCTTAAAA-TTTTGGTAA
* * * **
45077565 ACAACGTCGTCTCTGTACACGCTTTTATACTTAGCATTTTCTCTATATTAATTCAATAGCGCCGT
191 ACGACGTCGTTTCTGTACACGTTTTTA-ACTTAGCATTTTCTCTATATTAATTCAACGGCGCCGT
* * * * * *
45077630 TTCTTTTAATTTCTTGTCGCGTTTTTACACAAAACGCCACAAAAAGTGACATAAAATATTGCCTA
255 TTCTCTTAATTT-TAGTGGCGTTTTT-CACGAAACGCCGC-AAAAGTGACTTAAAATATTGCCTA
* *** * *
45077695 AACGTCTTCGTTTAGC
317 AACATAGACGTCTAAC
* * *
45077711 TTAAGCAAATTAATTTTTACTGGCGTTTTAGCAGAAAATGCCAGAAATGTGCATTAAAGCTTAAT
1 TTAAGCAAATTAATTTTTAGTGGCGTTTTA-AAGAAAAAGCCAGAAATGTGCATTAAAGCTTAAT
* * * *
45077776 AAAACGATGCCTTTTCGGATTAGAACTTTAAATTTTAGTGGCGCTTTTTAGAAAACGCCGTAAAT
65 AAAACGGTGCATTTTCGGATTAGAACTTTAAATTTTAGTGGCGATTTTTAGAAAACGCAGTAAAT
* * * *** * *
45077841 GTACAAGCAATAGCGGTGTTTGTCCAGGATTTGCCGCAAAATTGTCTTAAAATTTTGTCTAAACG
130 GTACAAGCAATAGCGGCGTTTGTACAAGAAACGCCGCAAAAGTGTCTTAAAATTTTG-GTAAACG
* * * * *
45077906 ACGCCATTTCTGTACTA-GTTTTTTAACTTAGAATTTTCTCTAAATTAATCCAACGGCGCCGTTT
194 ACGTCGTTTCTGTAC-ACG-TTTTTAACTTAGCATTTTCTCTATATTAATTCAACGGCGCCGTTT
*
45077970 CTCTTAATTTATAGTGGCGTTTTTGCACGAAACGCTGCAAAA-TGACTTAAAATATTG
257 CTCTTAATTT-TAGTGGCGTTTTT-CACGAAACGCCGCAAAAGTGACTTAAAATATTG
45078027 GCTTCCTTTG
Statistics
Matches: 533, Mismatches: 102, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
335 1 0.00
336 30 0.06
337 205 0.38
338 286 0.54
339 11 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (332 bp):
TTAAGCAAATTAATTTTTAGTGGCGTTTTAAAGAAAAAGCCAGAAATGTGCATTAAAGCTTAATA
AAACGGTGCATTTTCGGATTAGAACTTTAAATTTTAGTGGCGATTTTTAGAAAACGCAGTAAATG
TACAAGCAATAGCGGCGTTTGTACAAGAAACGCCGCAAAAGTGTCTTAAAATTTTGGTAAACGAC
GTCGTTTCTGTACACGTTTTTAACTTAGCATTTTCTCTATATTAATTCAACGGCGCCGTTTCTCT
TAATTTTAGTGGCGTTTTTCACGAAACGCCGCAAAAGTGACTTAAAATATTGCCTAAACATAGAC
GTCTAAC
Found at i:45078304 original size:6 final size:6
Alignment explanation
Indices: 45078293--45078318 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
45078283 CTTCTCTCCT
45078293 TTCCCC TTCCCC TTCCCC TTCCCC TT
1 TTCCCC TTCCCC TTCCCC TTCCCC TT
45078319 TAGTTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:45078407 original size:25 final size:25
Alignment explanation
Indices: 45078379--45078427 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
45078369 AGGTAAGGCC
45078379 CCTTCTCCTTCTTCCGTTCTTCATT
1 CCTTCTCCTTCTTCCGTTCTTCATT
* *
45078404 CCTTTTTCTTCTTCCGTTCTTCAT
1 CCTTCTCCTTCTTCCGTTCTTCAT
45078428 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.37, G:0.04, T:0.55
Consensus pattern (25 bp):
CCTTCTCCTTCTTCCGTTCTTCATT
Found at i:45081359 original size:30 final size:30
Alignment explanation
Indices: 45081323--45081379 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
45081313 TTATATTCAA
* *
45081323 TATTTTTGTAAGCGCAATACACATAAAAGG
1 TATTTTTGTAAGAGCAATACAAATAAAAGG
45081353 TATTTTTGTAAGAGCAATACAAATAAA
1 TATTTTTGTAAGAGCAATACAAATAAA
45081380 TATAATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (30 bp):
TATTTTTGTAAGAGCAATACAAATAAAAGG
Found at i:45081431 original size:19 final size:18
Alignment explanation
Indices: 45081389--45081434 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
45081379 ATATAATTGT
*
45081389 AATAATTTTTAATTCTTT
1 AATAATTTTTAATTCTTA
* *
45081407 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTCTTA
45081426 AATAATTTT
1 AATAATTTT
45081435 AAAAACTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTCTTA
Found at i:45081594 original size:21 final size:21
Alignment explanation
Indices: 45081546--45081601 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
45081536 CACCGCTGTT
*
45081546 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
45081567 TCCAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
45081588 -CTTAATCTCACCGC
1 TC-TAATCTCACCGC
45081602 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:45083129 original size:9 final size:9
Alignment explanation
Indices: 45083098--45083128 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45083088 CCGCTATATA
45083098 TTACATTAC
1 TTACATTAC
45083107 TTACATTAC
1 TTACATTAC
*
45083116 TTACCTTAC
1 TTACATTAC
45083125 TTAC
1 TTAC
45083129 CAAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (9 bp):
TTACATTAC
Found at i:45083155 original size:13 final size:13
Alignment explanation
Indices: 45083139--45083202 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
45083129 CAAAATATAT
*
45083139 TACATAACTTAAA
1 TACATTACTTAAA
45083152 TACATTACTTACTAA
1 TACATTACTTA--AA
45083167 -A-ATTTACTTAAA
1 TACA-TTACTTAAA
*
45083179 TATATTACTTAAA
1 TACATTACTTAAA
*
45083192 TACATGACTTA
1 TACATTACTTA
45083203 CTAAAGTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.05
13 30 0.70
14 9 0.21
15 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:45083196 original size:40 final size:38
Alignment explanation
Indices: 45083145--45083248 Score: 118
Period size: 40 Copynumber: 2.7 Consensus size: 38
45083135 ATATTACATA
** *
45083145 ACTTAAATACATTACTTACTAAAATTTACTTAAATATATT
1 ACTTAAATACATTACTTACTAAAATTTAAGT--ATATAAT
* *
45083185 ACTTAAATACATGACTTACTAAAGTTTAAGTATATAAT
1 ACTTAAATACATTACTTACTAAAATTTAAGTATATAAT
**
45083223 ACATTACTTACATTACTTACTAAAAT
1 AC-TTAAATACATTACTTACTAAAAT
45083249 ATATTACATT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
38 8 0.15
39 19 0.35
40 27 0.50
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.39
Consensus pattern (38 bp):
ACTTAAATACATTACTTACTAAAATTTAAGTATATAAT
Found at i:45083224 original size:30 final size:29
Alignment explanation
Indices: 45083190--45083321 Score: 96
Period size: 30 Copynumber: 4.5 Consensus size: 29
45083180 ATATTACTTA
*
45083190 AATACATGACTTACTAAAGTTTAAGTATAT
1 AATACATTACTTAC-AAAGTTTAAGTATAT
* * *
45083220 AATACATTACTTACATTACTTACTAA-AATAT
1 AATACATTACTTACA-AAGTT--TAAGTATAT
* *
45083251 ATTACATTACTTA-AATA-TATT-ACT-TA-
1 AATACATTACTTACAA-AGT-TTAAGTATAT
*
45083277 AATACATGACTTACTAAAGTTTAAGTATAT
1 AATACATTACTTAC-AAAGTTTAAGTATAT
45083307 AATACATTACTTACA
1 AATACATTACTTACA
45083322 TTACTTACTA
Statistics
Matches: 79, Mismatches: 11, Indels: 25
0.69 0.10 0.22
Matches are distributed among these distances:
26 11 0.14
27 6 0.08
28 6 0.08
29 5 0.06
30 32 0.41
31 16 0.20
32 3 0.04
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.39
Consensus pattern (29 bp):
AATACATTACTTACAAAGTTTAAGTATAT
Found at i:45083266 original size:18 final size:17
Alignment explanation
Indices: 45083234--45083276 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
45083224 CATTACTTAC
45083234 ATTACTTACTAAAATAT
1 ATTACTTACTAAAATAT
*
45083251 ATTACATTACTTAAATAT
1 ATTAC-TTACTAAAATAT
45083269 ATTACTTA
1 ATTACTTA
45083277 AATACATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTACTTACTAAAATAT
Found at i:45083276 original size:87 final size:87
Alignment explanation
Indices: 45083170--45083363 Score: 388
Period size: 87 Copynumber: 2.2 Consensus size: 87
45083160 TTACTAAAAT
45083170 TTACTTAAATATATTACTTAAATACATGACTTACTAAAGTTTAAGTATATAATACATTACTTACA
1 TTACTTAAATATATTACTTAAATACATGACTTACTAAAGTTTAAGTATATAATACATTACTTACA
45083235 TTACTTACTAAAATATATTACA
66 TTACTTACTAAAATATATTACA
45083257 TTACTTAAATATATTACTTAAATACATGACTTACTAAAGTTTAAGTATATAATACATTACTTACA
1 TTACTTAAATATATTACTTAAATACATGACTTACTAAAGTTTAAGTATATAATACATTACTTACA
45083322 TTACTTACTAAAATATATTACA
66 TTACTTACTAAAATATATTACA
45083344 TTACTTAAATATATTACTTA
1 TTACTTAAATATATTACTTA
45083364 CTAAAATTTA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 107 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.41
Consensus pattern (87 bp):
TTACTTAAATATATTACTTAAATACATGACTTACTAAAGTTTAAGTATATAATACATTACTTACA
TTACTTACTAAAATATATTACA
Found at i:45083288 original size:13 final size:13
Alignment explanation
Indices: 45083253--45083289 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
45083243 TAAAATATAT
45083253 TACATTACTTAAA
1 TACATTACTTAAA
*
45083266 TATATTACTTAAA
1 TACATTACTTAAA
*
45083279 TACATGACTTA
1 TACATTACTTA
45083290 CTAAAGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:45083317 original size:74 final size:69
Alignment explanation
Indices: 45083235--45083409 Score: 158
Period size: 74 Copynumber: 2.4 Consensus size: 69
45083225 ATTACTTACA
* * *
45083235 TTAC-TTACTAAAATATATTACATTACTTAAATATATTACTTAAATACATGACTTACTAAAGTTT
1 TTACATTACTTAAAT-TATTACATTACTTAAATACATTACTTAAATACATGACTTACTAAAATTT
45083299 AAGTATA-
65 -A-TA-AC
* * ** * * *
45083306 TAATACATTACTTACATTACTTAC-TAAAATATATTACATTACTTAAATATATTACTTACTAAAA
1 T--TACATTACTTAAATTA-TTACATTACTTA-AATACATTACTTAAATACATGACTTACTAAAA
45083370 TTTATAAC
62 TTTATAAC
45083378 TTACATTACTTAAATGTATTACATTACTTAAA
1 TTACATTACTTAAAT-TATTACATTACTTAAA
45083410 ATTTATATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
70 18 0.22
71 8 0.10
72 3 0.04
73 10 0.12
74 42 0.52
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.42
Consensus pattern (69 bp):
TTACATTACTTAAATTATTACATTACTTAAATACATTACTTAAATACATGACTTACTAAAATTTA
TAAC
Found at i:45083353 original size:18 final size:18
Alignment explanation
Indices: 45083321--45083409 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
45083311 CATTACTTAC
*
45083321 ATTAC-TTACTAAAATAT
1 ATTACATTACTTAAATAT
45083338 ATTACATTACTTAAATAT
1 ATTACATTACTTAAATAT
*
45083356 ATTAC-TTACTAAAATTTAT
1 ATTACATTACTTAAA--TAT
*
45083375 AACTTACATTACTTAAATGT
1 -A-TTACATTACTTAAATAT
45083395 ATTACATTACTTAAA
1 ATTACATTACTTAAA
45083410 ATTTATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.48
19 4 0.06
20 3 0.05
21 4 0.06
22 8 0.13
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (18 bp):
ATTACATTACTTAAATAT
Found at i:45083361 original size:31 final size:30
Alignment explanation
Indices: 45083216--45083361 Score: 131
Period size: 31 Copynumber: 4.9 Consensus size: 30
45083206 AAGTTTAAGT
* *
45083216 ATATAATACATTACTTACATTACTTACTAAA
1 ATATATTACATTACTTAAATTA-TTACTAAA
*
45083247 ATATATTACATTACTTAAATATATTACTTAA
1 ATATATTACATTACTTAAAT-TATTACTAAA
* * * **
45083278 ATACATGAC-TTAC-TAAAGT-TTA--AGT
1 ATATATTACATTACTTAAATTATTACTAAA
* *
45083303 ATATAATACATTACTTACATTACTTACTAAA
1 ATATATTACATTACTTAAATTA-TTACTAAA
45083334 ATATATTACATTACTTAAATATATTACT
1 ATATATTACATTACTTAAAT-TATTACT
45083362 TACTAAAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
25 6 0.07
26 4 0.04
27 7 0.08
28 1 0.01
29 7 0.08
30 4 0.04
31 56 0.63
32 4 0.04
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (30 bp):
ATATATTACATTACTTAAATTATTACTAAA
Found at i:45083365 original size:39 final size:41
Alignment explanation
Indices: 45083317--45083416 Score: 120
Period size: 39 Copynumber: 2.5 Consensus size: 41
45083307 AATACATTAC
45083317 TTACATTACTTACTAAA-ATAT-A-TTACATTACTTAAATATA
1 TTACATTACTTA--AAATATATAACTTACATTACTTAAATATA
* *
45083357 TTAC-TTAC-TAAAATTTATAACTTACATTACTTAAATGTA
1 TTACATTACTTAAAATATATAACTTACATTACTTAAATATA
*
45083396 TTACATTACTTAAAATTTATA
1 TTACATTACTTAAAATATATA
45083417 TATATATATT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
36 3 0.06
37 3 0.06
38 3 0.06
39 25 0.47
40 8 0.15
41 11 0.21
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (41 bp):
TTACATTACTTAAAATATATAACTTACATTACTTAAATATA
Found at i:45083370 original size:17 final size:17
Alignment explanation
Indices: 45083321--45083381 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
45083311 CATTACTTAC
45083321 ATTACTTACTAAAATAT
1 ATTACTTACTAAAATAT
*
45083338 ATTACATTACTTAAATAT
1 ATTAC-TTACTAAAATAT
*
45083356 ATTACTTACTAAAATTT
1 ATTACTTACTAAAATAT
*
45083373 ATAACTTAC
1 ATTACTTAC
45083382 ATTACTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTACTTACTAAAATAT
Found at i:45083607 original size:16 final size:16
Alignment explanation
Indices: 45083586--45083988 Score: 106
Period size: 16 Copynumber: 26.6 Consensus size: 16
45083576 TAACATTTCT
45083586 TACATAACTTACATAA
1 TACATAACTTACATAA
*
45083602 TACATAA--TACA-CA
1 TACATAACTTACATAA
*
45083615 -ACTTAA-TTA-ATATTA
1 TACATAACTTACATA--A
*
45083630 TACATAACGTACATAA
1 TACATAACTTACATAA
*
45083646 TACATAA-TT-CA-CA
1 TACATAACTTACATAA
* * *
45083659 -ACTTAA-TTAAGATTA
1 TACATAACTT-ACATAA
*
45083674 TACATAACATACATAA
1 TACATAACTTACATAA
45083690 TACATAA--TAC----
1 TACATAACTTACATAA
* *
45083700 -ACATAACTTAAATAG
1 TACATAACTTACATAA
* *
45083715 TACATAACTAACATTA
1 TACATAACTTACATAA
* *
45083731 TACACAACTTACGTAA
1 TACATAACTTACATAA
* *
45083747 CTTAAATAACGTACATAA
1 --TACATAACTTACATAA
* *
45083765 TACATAAACTAACATTA
1 TACAT-AACTTACATAA
*
45083782 TACACAACTTACATAA
1 TACATAACTTACATAA
45083798 TACAT---TT-C-T--
1 TACATAACTTACATAA
*
45083807 TACATAACTTACATTA
1 TACATAACTTACATAA
* *
45083823 TACACAACTTAAATAA
1 TACATAACTTACATAA
*
45083839 T--ATTA--TACATAACA
1 TACATAACTTACAT-A-A
45083853 TACATAA--TACATAA
1 TACATAACTTACATAA
* *
45083867 TACACAACTTA-ATTA
1 TACATAACTTACATAA
* *
45083882 -AGATGA--TACATAACA
1 TACATAACTTACAT-A-A
45083897 TACATAA--TACATAA
1 TACATAACTTACATAA
*
45083911 TACACATAACTTACATAG
1 T--ACATAACTTACATAA
* *
45083929 TACATAACTAACATTA
1 TACATAACTTACATAA
* **
45083945 TACACAACTTATGTAA
1 TACATAACTTACATAA
* *
45083961 CTTAAATAACGTACATAA
1 --TACATAACTTACATAA
45083979 TACATAACTT
1 TACATAACTT
45083989 TGATAACTAA
Statistics
Matches: 276, Mismatches: 66, Indels: 90
0.64 0.15 0.21
Matches are distributed among these distances:
9 11 0.04
11 3 0.01
12 22 0.08
13 10 0.04
14 27 0.10
15 9 0.03
16 146 0.53
17 15 0.05
18 33 0.12
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:45083649 original size:44 final size:44
Alignment explanation
Indices: 45083586--45083916 Score: 280
Period size: 44 Copynumber: 7.7 Consensus size: 44
45083576 TAACATTTCT
*
45083586 TACATAACTTACATAATACATAATACACAACTTAATTAATATTA
1 TACATAACATACATAATACATAATACACAACTTAATTAATATTA
* * *
45083630 TACATAACGTACATAATACATAATTCACAACTTAATTAAGATTA
1 TACATAACATACATAATACATAATACACAACTTAATTAATATTA
45083674 TACATAACATACATAATACATAATACAC-A--TAACTTAA-A-TA
1 TACATAACATACATAATACATAATACACAACTTAA-TTAATATTA
* * ** * *
45083714 GTACATAAC-TAACATTATACACAACTTACGTAACTTAAATAACGTA-CA
1 -TACATAACAT-ACATAATACATAA--TACACAACTTAATTAA--TATTA
* * *
45083762 TA-AT-ACATA-A-ACTAACATTATACACAACTT-A--CATA--A
1 TACATAACATACATAAT-ACATAATACACAACTTAATTAATATTA
** * * *
45083798 TACATTTCTTACATAACTTACATTATACACAACTTAAATAATATTA
1 TACATAACATACATAA--TACATAATACACAACTTAATTAATATTA
* *
45083844 TACATAACATACATAATACATAATACACAACTTAATTAAGATGA
1 TACATAACATACATAATACATAATACACAACTTAATTAATATTA
45083888 TACATAACATACATAATACATAATACACA
1 TACATAACATACATAATACATAATACACA
45083917 TAACTTACAT
Statistics
Matches: 234, Mismatches: 29, Indels: 48
0.75 0.09 0.15
Matches are distributed among these distances:
36 3 0.01
37 4 0.02
38 3 0.01
39 2 0.01
40 4 0.02
41 40 0.17
42 14 0.06
43 5 0.02
44 129 0.55
45 6 0.03
46 20 0.09
47 2 0.01
48 2 0.01
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (44 bp):
TACATAACATACATAATACATAATACACAACTTAATTAATATTA
Found at i:45083833 original size:25 final size:23
Alignment explanation
Indices: 45083791--45083935 Score: 100
Period size: 25 Copynumber: 6.3 Consensus size: 23
45083781 ATACACAACT
***
45083791 TACATAATACATTTCTTACATAA
1 TACATAATACACAACTTACATAA
* *
45083814 CTTACATTATACACAACTTAAATAA
1 --TACATAATACACAACTTACATAA
* * *
45083839 T--ATTATACATAACATACATAA
1 TACATAATACACAACTTACATAA
*
45083860 TACATAATACACAACTTA-ATTA
1 TACATAATACACAACTTACATAA
* * * *
45083882 -AGATGATACATAACATACATAA
1 TACATAATACACAACTTACATAA
*
45083904 TACATAATACACATAACTTACATAG
1 TACATAATACAC--AACTTACATAA
45083929 TACATAA
1 TACATAA
45083936 CTAACATTAT
Statistics
Matches: 92, Mismatches: 22, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
21 31 0.34
22 6 0.07
23 21 0.23
25 34 0.37
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATACACAACTTACATAA
Found at i:45083845 original size:21 final size:21
Alignment explanation
Indices: 45083819--45083905 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
45083809 CATAACTTAC
*
45083819 ATTATACACAACTTAAATAAT
1 ATTATACACAACATAAATAAT
* *
45083840 ATTATACATAACATACATAAT
1 ATTATACACAACATAAATAAT
* * * *
45083861 ACATAATACACAACTTAATTAAG
1 --ATTATACACAACATAAATAAT
* * *
45083884 ATGATACATAACATACATAAT
1 ATTATACACAACATAAATAAT
45083905 A
1 A
45083906 CATAATACAC
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
21 34 0.69
23 15 0.31
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (21 bp):
ATTATACACAACATAAATAAT
Found at i:45083944 original size:214 final size:218
Alignment explanation
Indices: 45083593--45084129 Score: 867
Period size: 214 Copynumber: 2.5 Consensus size: 218
45083583 TCTTACATAA
* * *
45083593 CTTACATAA--TACATAATACACAACTTAATTAATATTATACATAACGTACATAATACATAATTC
1 CTTACATAACTTACATTATACACAACTTAAATAATATTATACATAACGTACATAATACATAATAC
45083656 ACAACTTAATTAAGATTATACATAACATACATAATACATAATACACATAACTTAAATAGTACATA
66 ACAACTTAATTAAGATTATACATAACATACATAATACATAATACACATAACTTAAATAGTACATA
45083721 ACTAACATTATACACAACTTACGTAACTTAAATAACGTACATAATAC-A-T-A-AACTAACATTA
131 ACTAACATTATACACAACTTACGTAACTTAAATAACGTACATAATACAATTGATAACTAACATTA
45083782 TACACAACTTACATAATACATTT
196 TACACAACTTACATAATACATTT
*
45083805 CTTACATAACTTACATTATACACAACTTAAATAATATTATACATAACATACATAATACATAATAC
1 CTTACATAACTTACATTATACACAACTTAAATAATATTATACATAACGTACATAATACATAATAC
* *
45083870 ACAACTTAATTAAGATGATACATAACATACATAATACATAATACACATAACTTACATAGTACATA
66 ACAACTTAATTAAGATTATACATAACATACATAATACATAATACACATAACTTAAATAGTACATA
*
45083935 ACTAACATTATACACAACTTATGTAACTTAAATAACGTACATAATACATAACTTTGATAACTAAC
131 ACTAACATTATACACAACTTACGTAACTTAAATAACGTACATAATAC--AA--TTGATAACTAAC
* *
45084000 ATTATAGACAACTTACATACTACATTT
192 ATTATACACAACTTACATAATACATTT
45084027 CTTACATAACTTACATTATACACAACTTAAATAATATTATACATAACGTACATAATACATAATAC
1 CTTACATAACTTACATTATACACAACTTAAATAATATTATACATAACGTACATAATACATAATAC
* * *
45084092 ACAACTT-A--AATATTATACATAACGTACCTAATACATAA
66 ACAACTTAATTAAGATTATACATAACATACATAATACATAA
45084130 ATATATATCA
Statistics
Matches: 301, Mismatches: 14, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
212 9 0.03
214 159 0.53
217 1 0.00
219 26 0.09
220 1 0.00
221 2 0.01
222 103 0.34
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (218 bp):
CTTACATAACTTACATTATACACAACTTAAATAATATTATACATAACGTACATAATACATAATAC
ACAACTTAATTAAGATTATACATAACATACATAATACATAATACACATAACTTAAATAGTACATA
ACTAACATTATACACAACTTACGTAACTTAAATAACGTACATAATACAATTGATAACTAACATTA
TACACAACTTACATAATACATTT
Found at i:45084067 original size:21 final size:22
Alignment explanation
Indices: 45084041--45084103 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
45084031 CATAACTTAC
45084041 ATTATACACAACTTAAATAAT-
1 ATTATACACAACTTAAATAATA
* * *
45084062 ATTATACATAACGTACATAATA
1 ATTATACACAACTTAAATAATA
*
45084084 CATAATACACAACTTAAATA
1 -ATTATACACAACTTAAATA
45084104 TTATACATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 18 0.55
23 15 0.45
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (22 bp):
ATTATACACAACTTAAATAATA
Found at i:45086476 original size:21 final size:21
Alignment explanation
Indices: 45086432--45086482 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
45086422 CTACAACTTA
* * * *
45086432 AAGCAGAGGCTGTAGCGAGGG
1 AAGCAGAGGCAGCAGCAAGAG
45086453 AAGCAGAGGCAGCAGCAAGAG
1 AAGCAGAGGCAGCAGCAAGAG
*
45086474 AAGCTGAGG
1 AAGCAGAGG
45086483 TTCAAAGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGAG
Found at i:45086900 original size:43 final size:43
Alignment explanation
Indices: 45086833--45087224 Score: 378
Period size: 43 Copynumber: 9.2 Consensus size: 43
45086823 TAAAATTATT
* * ** *
45086833 GGCGTTTAT-AAAAAA-TGCCGCTAAAGGTCCTGAGATATAGT
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
** * *
45086874 GGCGTTTGTGGAAAAAGCGCCACTAAAGGTCCTAATCTATAGC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* * * *
45086917 GGCGTTTTTAAAAAATGCGCCTCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* * *
45086960 GACATTTTTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* * * ** **
45087003 GTCGTTTGTAAAAGAAGCACTACTAAAGACCCTGATCTATAGC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* * *
45087046 GGCATTTGT-AAAAAAGCGTCGCTAAA-GACCTTGATCTATAGC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCC-TGATCTATAGC
* * **
45087088 GGTGTTTGTAAAAAAAGCGACGCTAAAGACCCTGATCTATAGC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* ** *
45087131 GGCGTTTGTAGAAAAAGCGCCGCTAAAGACCCTGCTCTATAGC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
** * ** * *
45087174 GGCGTTTGTGGAGAAAGCGCCGCTAAAGACCCTGCTCTATAAC
1 GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
45087217 GGCGTTTG
1 GGCGTTTG
45087225 CGACGTTGAC
Statistics
Matches: 296, Mismatches: 50, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
41 10 0.03
42 35 0.12
43 249 0.84
44 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (43 bp):
GGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
Done.