Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 148 of 187
Found at i:44663798 original size:26 final size:25
Alignment explanation
Indices: 44663718--44663798 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 25
44663708 TTCGATCACG
44663718 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCA-GCTACTA
* ** *
44663744 CGTGTA-TAGGATAGTG-ATGGTCAC-A
1 TGTGTAGTACTAT-GTGCA-GCT-ACTA
44663769 TGTGTAGTACTATGTGCAGACTACTA
1 TGTGTAGTACTATGTGCAG-CTACTA
44663795 TGTG
1 TGTG
44663799 AACTGGTATC
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
25 19 0.47
26 21 0.52
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (25 bp):
TGTGTAGTACTATGTGCAGCTACTA
Found at i:44674188 original size:27 final size:26
Alignment explanation
Indices: 44674129--44674189 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
44674119 AAATGGGTCC
* * *
44674129 GCTCACACGAGTTATGAAACGGGTCT
1 GCTCACACAAGTTATGAAAAGGGCCT
*
44674155 GCTCACACAAGTTGTGAAAAAGGGCCT
1 GCTCACACAAGTTATG-AAAAGGGCCT
44674182 GCTCACAC
1 GCTCACAC
44674190 GAGCTGTGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (26 bp):
GCTCACACAAGTTATGAAAAGGGCCT
Found at i:44674197 original size:27 final size:27
Alignment explanation
Indices: 44674106--44674197 Score: 91
Period size: 26 Copynumber: 3.5 Consensus size: 27
44674096 CATGGTTGAG
*
44674106 CACACGAGCTGT-AAAATGGGTCC-GCT
1 CACACGAGCTGTGAAAAAGGG-CCTGCT
* * * *
44674132 CACACGAGTTATG-AAACGGGTCTGCT
1 CACACGAGCTGTGAAAAAGGGCCTGCT
* *
44674158 CACACAAGTTGTGAAAAAGGGCCTGCT
1 CACACGAGCTGTGAAAAAGGGCCTGCT
44674185 CACACGAGCTGTG
1 CACACGAGCTGTG
44674198 GAGTATCCGC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
25 1 0.02
26 30 0.57
27 22 0.42
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (27 bp):
CACACGAGCTGTGAAAAAGGGCCTGCT
Found at i:44676205 original size:43 final size:43
Alignment explanation
Indices: 44676139--44676401 Score: 264
Period size: 43 Copynumber: 6.1 Consensus size: 43
44676129 AACGCCACTA
* * *
44676139 AAAG-TCATGACCTTTAGCGGCGCTTATCCCACAAAAGCTGCT
1 AAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAAGCCGCT
* * * *
44676181 ATAGATCATGATCTTTAGCAGCGCTTCT-CTCACAAACGCCGCT
1 AAAGATCATGACCTTTAGCGGCGCTTCTAC-CACAAAAGCCGCT
* * * *
44676224 AAAGAACAAGACCGTTAGTGGCGCTTCTACCACAAACA-CCGCT
1 AAAGATCATGACCTTTAGCGGCGCTTCTACCACAAA-AGCCGCT
*
44676267 AAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGCCGCT
1 AAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAAGCCGCT
* * *
44676310 AAAGATCATGACCTTTAGAGGCGCTTCTACCAC-AACGCCACT
1 AAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAAGCCGCT
* * * * * * * *
44676352 AAAGAACACGACCTTTAGTGACACTTATACCACAAATGCCACT
1 AAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAAGCCGCT
44676395 ATAAGAT
1 A-AAGAT
44676402 GACTTTTAGC
Statistics
Matches: 185, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
42 39 0.21
43 141 0.76
44 5 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
AAAGATCATGACCTTTAGCGGCGCTTCTACCACAAAAGCCGCT
Found at i:44676401 original size:129 final size:129
Alignment explanation
Indices: 44676128--44676401 Score: 349
Period size: 129 Copynumber: 2.1 Consensus size: 129
44676118 TTTTAAAAAT
* * *
44676128 AAACGCCACTAAA-AGTCATGACCTTTAGCGGCGCTTATCCCACAAAAGCTGCTATAGATCATGA
1 AAACGCCACTAAAGA-TCATGACCTTTAGCGGCGCTTATACCACAAAAGCCGCTAAAGATCATGA
* * * * *
44676192 TCTTTAGCAGCGCTTCTCTCACAAACGCCGCTAAAGAACAAGACCGTTAGTGGCGCTTCTACCAC
65 CCTTTAGCAGCGCTTCTCTCACAAACGCCACTAAAGAACAAGACCGTTAGTGACACTTATACCAC
* * * *
44676257 AAACACCGCTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGCCGCTAAAGATCATGAC
1 AAACGCCACTAAAGATCATGACCTTTAGCGGCGCTTATACCACAAAAGCCGCTAAAGATCATGAC
* *
44676322 CTTTAG-AGGCGCTTCTAC-CAC-AACGCCACTAAAGAACACGACCTTTAGTGACACTTATACCA
66 CTTTAGCA-GCGCTTCT-CTCACAAACGCCACTAAAGAACAAGACCGTTAGTGACACTTATACCA
44676384 C
129 C
*
44676385 AAATGCCACTATAAGAT
1 AAACGCCACTA-AAGAT
44676402 GACTTTTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
128 45 0.36
129 77 0.62
130 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (129 bp):
AAACGCCACTAAAGATCATGACCTTTAGCGGCGCTTATACCACAAAAGCCGCTAAAGATCATGAC
CTTTAGCAGCGCTTCTCTCACAAACGCCACTAAAGAACAAGACCGTTAGTGACACTTATACCAC
Found at i:44681882 original size:22 final size:22
Alignment explanation
Indices: 44681829--44681893 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
44681819 GTATGTTTGT
* *
44681829 AAAGTTGGGGGTTTCAAGGGGGG
1 AAAGTTGGGGATTT-TAGGGGGG
*
44681852 -AA-TTAGGGATTTTAGGGGGG
1 AAAGTTGGGGATTTTAGGGGGG
*
44681872 AAAGTTGGGGA-TTTCGGGGGG
1 AAAGTTGGGGATTTTAGGGGGG
44681893 A
1 A
44681894 GGGGATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 7 0.20
21 20 0.57
22 8 0.23
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (22 bp):
AAAGTTGGGGATTTTAGGGGGG
Found at i:44683007 original size:7 final size:7
Alignment explanation
Indices: 44682997--44683043 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
44682987 ACTAACTCTT
44682997 AACCCCA
1 AACCCCA
44683004 AACCCCA
1 AACCCCA
44683011 AACCCCA
1 AACCCCA
44683018 AACCCCA
1 AACCCCA
* *
44683025 AACCACT
1 AACCCCA
44683032 AACCCCTA
1 AACCCC-A
44683040 AACC
1 AACC
44683044 TTATTTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
7 31 0.89
8 4 0.11
ACGTcount: A:0.43, C:0.53, G:0.00, T:0.04
Consensus pattern (7 bp):
AACCCCA
Found at i:44683228 original size:7 final size:7
Alignment explanation
Indices: 44683218--44683254 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
44683208 AACCCTAAAT
44683218 CCCTAAC
1 CCCTAAC
44683225 CCCTAAC
1 CCCTAAC
*
44683232 CTCTAAC
1 CCCTAAC
44683239 CCCTAAC
1 CCCTAAC
*
44683246 CACTAAC
1 CCCTAAC
44683253 CC
1 CC
44683255 ATAAATCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.54, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAC
Found at i:44683297 original size:13 final size:14
Alignment explanation
Indices: 44683279--44683308 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44683269 ACAACCCTTA
44683279 AATCAA-AATCCCT
1 AATCAATAATCCCT
44683292 AATCAATAATCCCT
1 AATCAATAATCCCT
44683306 AAT
1 AAT
44683309 TTCATACTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCAATAATCCCT
Found at i:44683577 original size:21 final size:21
Alignment explanation
Indices: 44683553--44683619 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
44683543 TAGTATTTTA
*
44683553 ATTTCTCCATTTTTAACAAAT
1 ATTTATCCATTTTTAACAAAT
* * *
44683574 ATTTTTCTATTTTTTATTTC-AA-
1 ATTTATCCA-TTTTTA--ACAAAT
44683596 ATTTATCCATTTTTAACAAAT
1 ATTTATCCATTTTTAACAAAT
44683617 ATT
1 ATT
44683620 CAATTAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 16 0.46
22 13 0.37
23 2 0.06
24 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTATCCATTTTTAACAAAT
Found at i:44683765 original size:41 final size:41
Alignment explanation
Indices: 44683695--44683934 Score: 279
Period size: 41 Copynumber: 5.9 Consensus size: 41
44683685 AAATGCTATG
* * *
44683695 GCGGCGCTTTTTCAAAAACGCCTCTAAATCCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
44683736 GCGGGGCTTCTTGAAAAACGCCACTAAATCCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
44683777 GCGGCGCTTCTTGAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** *
44683818 GCGGCGCTT-TATCAAAAACGCCACTAAAGATCTGAGCATTA
1 GCGGCGCTTCT-TCAAAAACGCCGCTAAAGCCCCGAGCATTA
** *
44683859 GCGGCGCTT-TATCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTCT-TCAAAAACGCCGCTAAAGCCCCGAGCATTA
*
44683900 GCGGTGCTTTCTT-AAAAACGCCGCTAAAGCCCCGA
1 GCGGCGC-TTCTTCAAAAACGCCGCTAAAGCCCCGA
44683935 AAGATACAAA
Statistics
Matches: 177, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 172 0.97
42 3 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:44683917 original size:123 final size:123
Alignment explanation
Indices: 44683695--44683934 Score: 313
Period size: 123 Copynumber: 2.0 Consensus size: 123
44683685 AAATGCTATG
* * ** * *
44683695 GCGGCGCTTTTTCAAAAACGCCTCTAAATCCCCGAGCATTAGCGGGGCTTCTTGAAAAACGCCAC
1 GCGGCGCTTTATCAAAAACGCCACTAAAGACCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCAC
** *
44683760 TAAATCCCCGAGCATTAGCGGCGCTTCTTGAAAAATGCCGCTAAAGCCCCGAGCATTA
66 TAAAGACCCGAGCATTAGCGGCGCTTCTTGAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
44683818 GCGGCGCTTTATCAAAAACGCCACTAAAGATCTGAGCATTAGCGGCGCTT-TATCAAAAACGCCG
1 GCGGCGCTTTATCAAAAACGCCACTAAAGACCCGAGCATTAGCGGCGCTTCT-TCAAAAACGCCA
* * *
44683882 CTAAAGATCTGAGCATTAGCGGTGCTTTCTT-AAAAACGCCGCTAAAGCCCCGA
65 CTAAAGACCCGAGCATTAGCGGCGC-TTCTTGAAAAACGCCGCTAAAGCCCCGA
44683935 AAGATACAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
122 1 0.01
123 94 0.94
124 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (123 bp):
GCGGCGCTTTATCAAAAACGCCACTAAAGACCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCAC
TAAAGACCCGAGCATTAGCGGCGCTTCTTGAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:44707991 original size:49 final size:47
Alignment explanation
Indices: 44707925--44708019 Score: 127
Period size: 49 Copynumber: 2.0 Consensus size: 47
44707915 GATAATAACA
* * *
44707925 TGCCAAAGCCATGTCCCAGAAATGGTTTTACATGGGATGTTTCTTATAC
1 TGCCAAAGCCATATCCCAGAAATGGTCTTACATGAGA-G-TTCTTATAC
* *
44707974 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTTATA
1 TGCCAAAGCCATATCCCAGAAATGGTCTTACATGAGAGTTCTTATA
44708020 TCGGTGCCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
47 8 0.20
48 1 0.02
49 32 0.78
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (47 bp):
TGCCAAAGCCATATCCCAGAAATGGTCTTACATGAGAGTTCTTATAC
Found at i:44708049 original size:50 final size:50
Alignment explanation
Indices: 44707974--44708119 Score: 166
Period size: 50 Copynumber: 2.9 Consensus size: 50
44707964 TTTCTTATAC
** * ** *
44707974 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTTATATCGG
1 TGCCAATGCCACGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * ** * *
44708024 TGCCCATGCCACGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCACGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* *
44708074 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCACGTCCCAGACATGGTCTTACATGAGACCTCTCATA
44708120 ACCTCAATGA
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCACGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:44715299 original size:39 final size:40
Alignment explanation
Indices: 44715254--44715425 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
44715244 GCTCCTCGTT
* * *
44715254 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
44715294 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
44715333 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
44715373 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
44715413 CAAATGCCTTCGG
1 CAAATGCCTTCGG
44715426 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44715354 original size:40 final size:39
Alignment explanation
Indices: 44715256--44715478 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
44715246 TCCTCGTTCA
* * * *
44715256 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
44715295 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
44715334 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
44715374 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
44715414 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
44715455 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44715479 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:44715438 original size:80 final size:79
Alignment explanation
Indices: 44715254--44715478 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
44715244 GCTCCTCGTT
* * * * *
44715254 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
44715318 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
44715333 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
44715398 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
44715413 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
44715477 GA
63 GA
44715479 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:44715487 original size:41 final size:41
Alignment explanation
Indices: 44715410--44715487 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44715400 TTTGTATCTC
* * *
44715410 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44715451 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44715488 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44723263 original size:40 final size:40
Alignment explanation
Indices: 44723163--44723427 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
44723153 GCTCCTCGTT
* * * *
44723163 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
44723203 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44723242 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44723282 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
44723322 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
44723362 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44723403 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44723428 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44723387 original size:80 final size:80
Alignment explanation
Indices: 44723130--44723427 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
44723120 AAATCACGTA
* ** * * *
44723130 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
44723192 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
44723208 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
44723271 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
44723288 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
44723352 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
44723368 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
44723428 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:44723436 original size:41 final size:41
Alignment explanation
Indices: 44723359--44723436 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44723349 TTTGTATCTC
* * *
44723359 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44723400 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44723437 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44734834 original size:20 final size:22
Alignment explanation
Indices: 44734803--44734843 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
44734793 TCGTCATCTT
44734803 CCATTCGTTCTTTT-TTTTTCG
1 CCATTCGTTCTTTTATTTTTCG
44734824 CCATT-GTTCTTTTATTTTTC
1 CCATTCGTTCTTTTATTTTTC
44734844 CTTTTTCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.07, C:0.22, G:0.07, T:0.63
Consensus pattern (22 bp):
CCATTCGTTCTTTTATTTTTCG
Found at i:44737489 original size:12 final size:12
Alignment explanation
Indices: 44737472--44737496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44737462 TGTAAACATA
44737472 ATATATAAATAT
1 ATATATAAATAT
44737484 ATATATAAATAT
1 ATATATAAATAT
44737496 A
1 A
44737497 AAAGGATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:44743725 original size:16 final size:16
Alignment explanation
Indices: 44743706--44743746 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
44743696 TCTAATCAAC
*
44743706 CTAAAAATTAATTAAA
1 CTAAAAATTAACTAAA
*
44743722 CTAAAAATTAACTAAT
1 CTAAAAATTAACTAAA
*
44743738 TTAAAAATT
1 CTAAAAATT
44743747 GAAAATAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (16 bp):
CTAAAAATTAACTAAA
Found at i:44744365 original size:22 final size:21
Alignment explanation
Indices: 44744326--44744370 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
44744316 TACAAAAAGT
*
44744326 ATAAAAAACACTAAACTAAAA
1 ATAAAAAAAACTAAACTAAAA
*
44744347 ATAAAATAAAACTAGACTAAAA
1 ATAAAA-AAAACTAAACTAAAA
44744369 AT
1 AT
44744371 CCTAAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.69, C:0.11, G:0.02, T:0.18
Consensus pattern (21 bp):
ATAAAAAAAACTAAACTAAAA
Found at i:44746580 original size:21 final size:22
Alignment explanation
Indices: 44746544--44746585 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
44746534 AACCAAAATA
*
44746544 AAATTAAGTTGATTTATTATACT
1 AAATTAAG-TGATTTAATATACT
44746567 AAATTAAG-GATTTAATATA
1 AAATTAAGTGATTTAATATA
44746586 GAAGTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (22 bp):
AAATTAAGTGATTTAATATACT
Found at i:44747802 original size:16 final size:17
Alignment explanation
Indices: 44747781--44747813 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44747771 GTTAGACATC
*
44747781 CACTTTT-ATGTGTGAA
1 CACTTTTCAAGTGTGAA
44747797 CACTTTTCAAGTGTGAA
1 CACTTTTCAAGTGTGAA
44747814 TACATTCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (17 bp):
CACTTTTCAAGTGTGAA
Found at i:44752694 original size:34 final size:34
Alignment explanation
Indices: 44752656--44752720 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
44752646 AAATACGAGA
** * * *
44752656 ATTTTTTTTAAACATGAAGATTTTTGAAACAATT
1 ATTTTTTGAAAACACGAAAATTTTTAAAACAATT
44752690 ATTTTTTGAAAACACGAAAATTTTTAAAACA
1 ATTTTTTGAAAACACGAAAATTTTTAAAACA
44752721 CAAGAAGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (34 bp):
ATTTTTTGAAAACACGAAAATTTTTAAAACAATT
Found at i:44752847 original size:18 final size:17
Alignment explanation
Indices: 44752692--44753097 Score: 188
Period size: 18 Copynumber: 24.1 Consensus size: 17
44752682 AAACAATTAT
44752692 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
44752710 TTTTTAAAACAC-AAGAA
1 TTTTTGAAACACGAA-AA
* *
44752727 GTTTAGAAACAC-AAAA
1 TTTTTGAAACACGAAAA
*
44752743 TATTTT-AAA-ATGAAAA
1 T-TTTTGAAACACGAAAA
*
44752759 -TTTTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
* **
44752775 TCTTTGGAAACACGAATT
1 T-TTTTGAAACACGAAAA
*
44752793 TTTTTGAAACACGGAAA
1 TTTTTGAAACACGAAAA
* ** *
44752810 TTTATGATGCACGGAAA
1 TTTTTGAAACACGAAAA
44752827 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
44752844 -ATTT-AAA-AAAAAAA
1 TTTTTGAAACACGAAAA
* * * *
44752858 TTTTAG-AACTCCAGAA
1 TTTTTGAAACACGAAAA
* **
44752874 TTGTTGAAAACACGAGGA
1 TTTTTG-AAACACGAAAA
44752892 TTTTTGAAACACGAAAAA
1 TTTTTGAAACACG-AAAA
** * * *
44752910 TTTTAAAAACAAGGAAG
1 TTTTTGAAACACGAAAA
* **
44752927 CTTTTGAAACACGGGGAA
1 TTTTTGAAACAC-GAAAA
* *
44752945 TTTTTGAAAATATGAAAA
1 TTTTTG-AAACACGAAAA
44752963 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
44752981 TTTTT-AAACACGAGAAA
1 TTTTTGAAACACGA-AAA
* *
44752998 TTTTTTTTGAAAAGAAGAAAA
1 ---TTTTTG-AAACACGAAAA
44753019 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
44753037 --TTTGAAA-AC-----
1 TTTTTGAAACACGAAAA
44753046 -TTTTGAAACACGAGAAA
1 TTTTTGAAACACGA-AAA
44753063 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
44753081 --TTTGAAACACGGAAA
1 TTTTTGAAACACGAAAA
44753096 TT
1 TT
44753098 GTTTTTTTTA
Statistics
Matches: 291, Mismatches: 64, Indels: 67
0.69 0.15 0.16
Matches are distributed among these distances:
10 7 0.02
11 2 0.01
14 11 0.04
15 24 0.08
16 42 0.14
17 81 0.28
18 98 0.34
19 12 0.04
20 5 0.02
21 3 0.01
22 6 0.02
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:44753018 original size:38 final size:38
Alignment explanation
Indices: 44752963--44753083 Score: 111
Period size: 44 Copynumber: 3.0 Consensus size: 38
44752953 AATATGAAAA
*
44752963 TTTTTGAAAACACGAAAATTTTT-AAACACGAGAAATTT
1 TTTTTGAAAACAAGAAAATTTTTAAAACACGA-AAATTT
*
44753001 TTTTTGAAAAGAAGAAAATTTTTGAAAACACGAAAATTT
1 TTTTTGAAAACAAGAAAATTTTT-AAAACACGAAAATTT
* *
44753040 GAAAACTTTTG-AAACACGAGAAATTTTTGAAAACACGAAAATTT
1 -----TTTTTGAAAACAAGA-AAATTTTT-AAAACACGAAAATTT
44753084 GAAACACGGA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
38 21 0.30
39 6 0.09
40 8 0.11
43 6 0.09
44 29 0.41
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (38 bp):
TTTTTGAAAACAAGAAAATTTTTAAAACACGAAAATTT
Found at i:44753043 original size:26 final size:26
Alignment explanation
Indices: 44753014--44753065 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
44753004 TTGAAAAGAA
*
44753014 GAAAATTTTTGAAAACACGA-AAATTT
1 GAAAACTTTTG-AAACACGAGAAATTT
44753040 GAAAACTTTTGAAACACGAGAAATTT
1 GAAAACTTTTGAAACACGAGAAATTT
44753066 TTGAAAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (26 bp):
GAAAACTTTTGAAACACGAGAAATTT
Found at i:44753154 original size:30 final size:31
Alignment explanation
Indices: 44753120--44753178 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
44753110 AACACGAATA
* *
44753120 TATTTTTTTGAAACATG-GGAAATTTTTTAT
1 TATTTTTTTGAAACACGAGAAAATTTTTTAT
44753150 TATTTTTTTGAAACACGAGAAAATTTTTT
1 TATTTTTTTGAAACACGAGAAAATTTTTT
44753179 GAAACACGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (31 bp):
TATTTTTTTGAAACACGAGAAAATTTTTTAT
Found at i:44753198 original size:20 final size:19
Alignment explanation
Indices: 44753148--44753197 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
44753138 GAAATTTTTT
44753148 ATTATTTTTTTGAAACACG
1 ATTATTTTTTTGAAACACG
** *
44753167 AGAAAATTTTTTGAAACACG
1 A-TTATTTTTTTGAAACACG
44753187 ATTATTTTTTT
1 ATTATTTTTTT
44753198 TAAAAAAAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (19 bp):
ATTATTTTTTTGAAACACG
Found at i:44754009 original size:14 final size:14
Alignment explanation
Indices: 44753992--44754026 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
44753982 TATTTTTTTC
44753992 TTTCTTTTTTCCTT
1 TTTCTTTTTTCCTT
*
44754006 TTTCTTTTTTCTTT
1 TTTCTTTTTTCCTT
44754020 TTTCTTT
1 TTTCTTT
44754027 CTCTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTTCCTT
Found at i:44754019 original size:25 final size:25
Alignment explanation
Indices: 44753985--44754072 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 25
44753975 TGTAAGATAT
44753985 TTTTTTCTTTCTTTTTTC-CTTTTTC
1 TTTTTTCTTT-TTTTTTCTCTTTTTC
44754010 TTTTTTCTTTTTTCTTTCTCTTTTTC
1 TTTTTTCTTTTTT-TTTCTCTTTTTC
* * *
44754036 TTCTCTCTTTTTTCTTCTCTTTTT-
1 TTTTTTCTTTTTTTTTCTCTTTTTC
*
44754060 TTCCTTTCTTTTT
1 TT-TTTTCTTTTT
44754073 CTTCTTCTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.09
25 33 0.59
26 18 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTTCTTTTTTTTTCTCTTTTTC
Found at i:44754034 original size:14 final size:14
Alignment explanation
Indices: 44754004--44754078 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
44753994 TCTTTTTTCC
*
44754004 TTTTTCTTT-TTTCT
1 TTTTTCTTTCTCT-T
44754018 TTTTTCTTTCTC--
1 TTTTTCTTTCTCTT
44754030 TTTTTC-TTCTCTCT
1 TTTTTCTTTCTCT-T
44754044 TTTTTC-TTCTCTT
1 TTTTTCTTTCTCTT
44754057 TTTTTCCTTTCT-TT
1 TTTTT-CTTTCTCTT
*
44754071 TTCTTCTT
1 TTTTTCTT
44754079 CTTCTTCGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
11 5 0.09
12 6 0.11
13 9 0.17
14 28 0.53
15 5 0.09
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCTTTCTCTT
Found at i:44754059 original size:13 final size:12
Alignment explanation
Indices: 44753984--44754078 Score: 90
Period size: 13 Copynumber: 7.8 Consensus size: 12
44753974 GTGTAAGATA
44753984 TTTTTTTCTTTC
1 TTTTTTTCTTTC
*
44753996 -TTTTTTCCTT-
1 TTTTTTTCTTTC
*
44754006 TTTCTTT-TTTC
1 TTTTTTTCTTTC
44754017 -TTTTTTCTTTC
1 TTTTTTTCTTTC
*
44754028 TCTTTTTCTTCTC
1 TTTTTTTCTT-TC
44754041 TCTTTTTTCTTCTC
1 T-TTTTTTCTT-TC
44754055 TTTTTTTCCTTTC
1 TTTTTTT-CTTTC
44754068 TTTTTCTTCTT
1 TTTTT-TTCTT
44754079 CTTCTTCGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
10 7 0.10
11 18 0.26
12 8 0.12
13 19 0.28
14 17 0.25
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:44754662 original size:30 final size:29
Alignment explanation
Indices: 44754598--44754766 Score: 116
Period size: 30 Copynumber: 5.7 Consensus size: 29
44754588 CAAAGTTTCT
* *
44754598 GGGGCAAAAATGTAATATTA-AGAAA-AATA
1 GGGGCCAAAATGTAAT-TTATA-AAATATTA
44754627 TGGGGCCAAAATGTAATTTATATAAAGT-TTA
1 -GGGGCCAAAATGTAATTTATA-AAA-TATTA
* *
44754658 GGGGCCCAAATGTAATTTACAAAATATTA
1 GGGGCCAAAATGTAATTTATAAAATATTA
* * * * *
44754687 GGGGTCAAGATGAAAATTTAGAAAATGTTA
1 GGGGCCAAAATG-TAATTTATAAAATATTA
*
44754717 GGGGTCAAAATGTAAATTTGA-AAAAGT-TTA
1 GGGGCCAAAATGT-AATTT-ATAAAA-TATTA
*
44754747 -GGGCCAAAATATAATTTATA
1 GGGGCCAAAATGTAATTTATA
44754767 TTTTTTTGTA
Statistics
Matches: 115, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.01
28 7 0.06
29 28 0.24
30 75 0.65
31 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (29 bp):
GGGGCCAAAATGTAATTTATAAAATATTA
Found at i:44754754 original size:29 final size:29
Alignment explanation
Indices: 44754628--44754764 Score: 120
Period size: 30 Copynumber: 4.7 Consensus size: 29
44754618 AGAAAAATAT
*
44754628 GGGGCCAAAATGTAATTTATATAAAGTTTA
1 GGGGCCAAAATGTAATTTACA-AAAGTTTA
*
44754658 GGGGCCCAAATGTAATTTACAAAA-TATTA
1 GGGGCCAAAATGTAATTTACAAAAGT-TTA
* * * *
44754687 GGGGTCAAGATGAAAATTTAGAAAA-TGTTA
1 GGGGCCAAAATG-TAATTTACAAAAGT-TTA
*
44754717 GGGGTCAAAATGTAAATTTGA-AAAAGTTTA
1 GGGGCCAAAATGT-AATTT-ACAAAAGTTTA
*
44754747 -GGGCCAAAATATAATTTA
1 GGGGCCAAAATGTAATTTA
44754765 TATTTTTTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
27 1 0.01
28 6 0.07
29 25 0.28
30 56 0.62
31 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (29 bp):
GGGGCCAAAATGTAATTTACAAAAGTTTA
Found at i:44754843 original size:6 final size:6
Alignment explanation
Indices: 44754834--44754880 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
44754824 ATGAAAACAA
44754834 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
44754881 GGGCTAAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:44755408 original size:81 final size:76
Alignment explanation
Indices: 44755184--44755680 Score: 652
Period size: 74 Copynumber: 6.5 Consensus size: 76
44755174 CGATCCGAAA
* * * * * *
44755184 CTCAACTCACCTCTCGGATTATGATTTGACTTTT--GAAGA-ATAGAAATTGAAAAATACCTCGA
1 CTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAATT-AAAAATACCTC-A
* *
44755246 CGTGTGACCAGAGG
64 -GCGTGACCCGAGG
* * *
44755260 CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAAAGACAGAAATTAAAAATACCTCAG
1 CTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTAAAAAAAGACAGAAATTAAAAATACCTCAG
44755325 CGTGACCCGAGG
65 CGTGACCCGAGG
*
44755337 CTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTTTAAAAAAAAGACAGAAATTAAAAATACT
1 CTCAACTCACCTCTCGTATTATGAGTTGA----TTTTT-AAAAAAAGACAGAAATTAAAAATACC
44755402 TCAGCGTGACCCGAGG
61 TCAGCGTGACCCGAGG
* *
44755418 CTCAACTCACCTCTCGTATTATGAGTTGA--TTTAAAAAAGGACAAAAATTAAAAATACCTCAGC
1 CTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAATTAAAAATACCTCAGC
44755481 GTGACCCGAGG
66 GTGACCCGAGG
* *
44755492 CTCAACTCACCTCTCGTATTATGAGTTGA-CTTTAAAAAAA-ACATAAATTAAAAATACCTCAGC
1 CTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAATTAAAAATACCTCAGC
44755555 GTGACCCGAGG
66 GTGACCCGAGG
* *
44755566 CTCAACTCACCTCTTGTATTATGAGTTGATTTTT-GAAAAA-ACAGAAATTAAAAAATACCTCAG
1 CTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAATT-AAAAATACCTCAG
44755629 CGTGACCCGAGG
65 CGTGACCCGAGG
* * *
44755641 CTTAACTCACCTTTCGTATTATGAGTTGATTTTTGAAAAA
1 CTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAA
44755681 CAAAAATTGA
Statistics
Matches: 382, Mismatches: 27, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
74 142 0.37
75 71 0.19
76 29 0.08
77 41 0.11
78 1 0.00
79 14 0.04
80 14 0.04
81 70 0.18
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (76 bp):
CTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAATTAAAAATACCTCAGC
GTGACCCGAGG
Found at i:44756548 original size:10 final size:10
Alignment explanation
Indices: 44756533--44756566 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
44756523 TTCATATTGA
*
44756533 TTTTTTTCTT
1 TTTTTTTGTT
44756543 TTTTTTTGTT
1 TTTTTTTGTT
44756553 TTTTTTTGTT
1 TTTTTTTGTT
44756563 TTTT
1 TTTT
44756567 AGGCATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:44767551 original size:34 final size:34
Alignment explanation
Indices: 44767513--44767577 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
44767503 AAATACGATA
** * *
44767513 ATTTTTTTTAAACACGAAGATTTTTGAAACAATT
1 ATTTTTTGAAAACACGAAAATTTTTAAAACAATT
44767547 ATTTTTTGAAAACACGAAAATTTTTAAAACA
1 ATTTTTTGAAAACACGAAAATTTTTAAAACA
44767578 CAAGAAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (34 bp):
ATTTTTTGAAAACACGAAAATTTTTAAAACAATT
Found at i:44767703 original size:18 final size:17
Alignment explanation
Indices: 44767516--44767954 Score: 177
Period size: 18 Copynumber: 26.1 Consensus size: 17
44767506 TACGATAATT
* *
44767516 TTTTTTAAACACGAAGA
1 TTTTTGAAACACGAAAA
* *
44767533 TTTTTGAAACA--ATTAT
1 TTTTTGAAACACGA-AAA
44767549 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
44767567 TTTTTAAAACAC-AAGAA
1 TTTTTGAAACACGAA-AA
* *
44767584 GTTTAGAAACAC-AAAA
1 TTTTTGAAACACGAAAA
* *
44767600 TTTTTTAAA-ATGAAAA
1 TTTTTGAAACACGAAAA
*
44767616 -TTTTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
* **
44767632 TCTTTGGAAACACGAATTT
1 T-TTTTGAAACACGAA-AA
44767651 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
44767668 TTTATGATGCACCG-AAA
1 TTTTTGAAACA-CGAAAA
44767685 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* *****
44767702 ATTTT--AA-A-TTTTT
1 TTTTTGAAACACGAAAA
* *
44767715 TTTTTGAAACACTAGAA
1 TTTTTGAAACACGAAAA
** **
44767732 TTGCTGAAAACACGAGGA
1 TTTTTG-AAACACGAAAA
44767750 TTTTTGAAACACGAAAAA
1 TTTTTGAAACACG-AAAA
** * * *
44767768 TTTTAAAAACAAGGAAG
1 TTTTTGAAACACGAAAA
* * **
44767785 CTTTTGAGACACAGGGAA
1 TTTTTGAAACAC-GAAAA
*
44767803 TTTTTGAAAATACGAAAA
1 TTTTTG-AAACACGAAAA
*
44767821 TTTTTGAAAAAGCGAAAA
1 TTTTTGAAACA-CGAAAA
*
44767839 TTTTT-AAACACGATAATTT
1 TTTTTGAAACACGA-AA--A
* *
44767858 TTTTTGAAAAGAAGAAAA
1 TTTTTG-AAACACGAAAA
44767876 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
44767894 --TTT-------GAAAA
1 TTTTTGAAACACGAAAA
44767902 TTTTTGAAACACGAGAAA
1 TTTTTGAAACACGA-AAA
44767920 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
44767938 --TTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
44767953 TT
1 TT
44767955 GTTTTTTTAA
Statistics
Matches: 309, Mismatches: 74, Indels: 78
0.67 0.16 0.17
Matches are distributed among these distances:
8 5 0.02
10 3 0.01
13 4 0.01
14 1 0.00
15 24 0.08
16 38 0.12
17 93 0.30
18 114 0.37
19 19 0.06
20 2 0.01
21 6 0.02
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:44767723 original size:64 final size:65
Alignment explanation
Indices: 44767648--44767774 Score: 168
Period size: 65 Copynumber: 2.0 Consensus size: 65
44767638 GAAACACGAA
* **
44767648 TTTTTTTTGAAACACGAAAATTTATG-ATGCACCGA-AATTTTTGAAACACGAAAAATTTTAAAT
1 TTTTTTTTGAAACACGAAAATTGATGAAAACA-CGAGAATTTTTGAAACACGAAAAATTTTAAAT
44767711 T
65 T
* * * *
44767712 TTTTTTTTGAAACACTAGAATTGCTGAAAACACGAGGATTTTTGAAACACGAAAAATTTTAAA
1 TTTTTTTTGAAACACGAAAATTGATGAAAACACGAGAATTTTTGAAACACGAAAAATTTTAAA
44767775 AACAAGGAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 25 0.46
65 29 0.54
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (65 bp):
TTTTTTTTGAAACACGAAAATTGATGAAAACACGAGAATTTTTGAAACACGAAAAATTTTAAATT
Found at i:44767875 original size:37 final size:38
Alignment explanation
Indices: 44767801--44767940 Score: 112
Period size: 44 Copynumber: 3.6 Consensus size: 38
44767791 AGACACAGGG
* *
44767801 AATTTTTGAAAATACGAAAA---TTTTTGAAAAAGCGAA
1 AATTTTT-AAAACACGAAAATTTTTTTTGAAAAAGAGAA
*
44767837 AATTTTT-AAACACGATAATTTTTTTTG-AAAAGAAGAA
1 AATTTTTAAAACACGAAAATTTTTTTTGAAAAAG-AGAA
*
44767874 AATTTTTGAAAACACGAAAATTTGAAAATTTTTGAAACACGAG-A
1 AATTTTT-AAAACACGAAAATTT-----TTTTTGAAA-AAGAGAA
44767918 AATTTTTGAAAACACGAAAATTT
1 AATTTTT-AAAACACGAAAATTT
44767941 GAAACACGAA
Statistics
Matches: 86, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
34 9 0.10
36 12 0.14
37 16 0.19
39 13 0.15
44 30 0.35
45 4 0.05
46 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (38 bp):
AATTTTTAAAACACGAAAATTTTTTTTGAAAAAGAGAA
Found at i:44767893 original size:26 final size:25
Alignment explanation
Indices: 44767863--44767915 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
44767853 AATTTTTTTT
44767863 GAAAAGAAGAAAATTTTTGAAAACAC
1 GAAAAGAAGAAAATTTTTG-AAACAC
***
44767889 GAAAATTTGAAAATTTTTGAAACAC
1 GAAAAGAAGAAAATTTTTGAAACAC
44767914 GA
1 GA
44767916 GAAATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.25
Consensus pattern (25 bp):
GAAAAGAAGAAAATTTTTGAAACAC
Found at i:44767920 original size:26 final size:26
Alignment explanation
Indices: 44767871--44767922 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
44767861 TTGAAAAGAA
44767871 GAAAATTTTTGAAAACACGAAAATTT
1 GAAAATTTTTGAAAACACGAAAATTT
44767897 GAAAATTTTTG-AAACACGAGAAATTT
1 GAAAATTTTTGAAAACACGA-AAATTT
44767923 TTGAAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (26 bp):
GAAAATTTTTGAAAACACGAAAATTT
Found at i:44767947 original size:15 final size:15
Alignment explanation
Indices: 44767904--44767954 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 15
44767894 TTTGAAAATT
44767904 TTTGAAACACGAGAAA
1 TTTGAAACACGA-AAA
44767920 TTTTTGAAAACACGAAAA
1 --TTTG-AAACACGAAAA
44767938 TTTGAAACACGAAAA
1 TTTGAAACACGAAAA
44767953 TT
1 TT
44767955 GTTTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.41
16 4 0.12
18 7 0.22
19 8 0.25
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (15 bp):
TTTGAAACACGAAAA
Found at i:44768036 original size:18 final size:20
Alignment explanation
Indices: 44768013--44768062 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 20
44768003 TTTATTATTT
44768013 TTTTGAAACACGA-GAAAA-
1 TTTTGAAACACGATGAAAAC
44768031 TTTTGAAA-AC-ATGAAAAC
1 TTTTGAAACACGATGAAAAC
44768049 TTTTGAAACACGAT
1 TTTTGAAACACGAT
44768063 TGTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 7 0.25
18 16 0.57
19 2 0.07
20 2 0.07
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (20 bp):
TTTTGAAACACGATGAAAAC
Found at i:44768523 original size:13 final size:12
Alignment explanation
Indices: 44768505--44768543 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
44768495 AGTTGTGGGC
44768505 CCTTTTCTTTTTT
1 CCTTTT-TTTTTT
44768518 CCTTTTTTTCTTT
1 CCTTTTTTT-TTT
44768531 CTCTTTTTTTTTT
1 C-CTTTTTTTTTT
44768544 GCTGGGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.12
13 13 0.54
14 8 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
CCTTTTTTTTTT
Found at i:44768906 original size:25 final size:25
Alignment explanation
Indices: 44768872--44768958 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 25
44768862 TGTAAGATAT
*
44768872 TTTTTTCTTTCTTTTTTCCTTTTTC
1 TTTTTTCTTTCTTTTTTCCTTTCTC
44768897 TTTTTTCTTTCTCTTTTT-CTTCTCTC
1 TTTTTTCTTTCT-TTTTTCCTT-TCTC
44768923 TTTTTTCTTCTCTTTTTTTCCTTTCT-
1 TTTTTTCTT-TC-TTTTTTCCTTTCTC
44768949 TTTTCTTCTT
1 TTTT-TTCTT
44768959 CTTCTTCGGG
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
25 15 0.27
26 21 0.38
27 15 0.27
28 4 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTTTCTTTCTTTTTTCCTTTCTC
Found at i:44768949 original size:13 final size:12
Alignment explanation
Indices: 44768871--44768958 Score: 95
Period size: 13 Copynumber: 6.8 Consensus size: 12
44768861 GTGTAAGATA
44768871 TTTTTTTCTTTC
1 TTTTTTTCTTTC
* *
44768883 TTTTTTCCTTTT
1 TTTTTTTCTTTC
44768895 TCTTTTTTCTTTC
1 T-TTTTTTCTTTC
*
44768908 TCTTTTTCTTCTC
1 TTTTTTTCTT-TC
44768921 TCTTTTTTCTTCTC
1 T-TTTTTTCTT-TC
44768935 TTTTTTTCCTTTC
1 TTTTTTT-CTTTC
44768948 TTTTTCTTCTT
1 TTTTT-TTCTT
44768959 CTTCTTCGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
12 19 0.29
13 29 0.45
14 17 0.26
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:44768960 original size:12 final size:12
Alignment explanation
Indices: 44768873--44768961 Score: 69
Period size: 12 Copynumber: 7.2 Consensus size: 12
44768863 GTAAGATATT
44768873 TTTTTCTTTCTT-
1 TTTTTC-TTCTTC
* *
44768885 TTTTCCTTTTTC
1 TTTTTCTTCTTC
44768897 TTTTTTCTT-TCTC
1 -TTTTTCTTCT-TC
44768910 TTTTTCTTCTCTC
1 TTTTTCTTCT-TC
44768923 TTTTTTCTTC-TC
1 -TTTTTCTTCTTC
44768935 TTTTT-TTCCTTTC
1 TTTTTCTT-C-TTC
44768948 TTTTTCTTCTTC
1 TTTTTCTTCTTC
44768960 TT
1 TT
44768962 CTTCGGGGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
10 2 0.03
11 10 0.15
12 21 0.32
13 21 0.32
14 11 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTCTTC
Found at i:44768961 original size:25 final size:26
Alignment explanation
Indices: 44768871--44768961 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 26
44768861 GTGTAAGATA
44768871 TTTTT-TTCTT-TCTTTTTTCCTTTTTCT
1 TTTTTCTTCTTCT-TTTTTTCC--TTTCT
*
44768898 TTTTTCTT-TCTCTTTTTCTT-CTCTCT
1 TTTTTCTTCT-TCTTTTT-TTCCTTTCT
44768924 TTTTTCTTC-TCTTTTTTTCCTTTC-
1 TTTTTCTTCTTCTTTTTTTCCTTTCT
44768948 TTTTTCTTCTTCTT
1 TTTTTCTTCTTCTT
44768962 CTTCGGGGCC
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
24 11 0.20
25 15 0.27
26 12 0.22
27 6 0.11
28 8 0.15
29 3 0.05
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTTCTTCTTCTTTTTTTCCTTTCT
Found at i:44769082 original size:16 final size:15
Alignment explanation
Indices: 44769055--44769085 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
44769045 TCTTCCTCTC
44769055 TCTCTTTTTCTTTCT
1 TCTCTTTTTCTTTCT
44769070 TCTCTTCTTTCTTTCT
1 TCTCTT-TTTCTTTCT
44769086 AGCTGCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTCTTTTTCTTTCT
Found at i:44769591 original size:30 final size:31
Alignment explanation
Indices: 44769544--44769614 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 31
44769534 TTTAGGGCCC
*
44769544 AAATGT-AA-TTTACAAAATACTAGGGGTTA
1 AAATGTAAATTTTACAAAATACTAGGGGTCA
* * **
44769573 AGATG-AAATTTTAGAAAATGTTAGGGGTCA
1 AAATGTAAATTTTACAAAATACTAGGGGTCA
44769603 AAATGTAAATTT
1 AAATGTAAATTT
44769615 GAAAAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 6 0.18
30 21 0.64
31 6 0.18
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (31 bp):
AAATGTAAATTTTACAAAATACTAGGGGTCA
Found at i:44769723 original size:6 final size:6
Alignment explanation
Indices: 44769714--44769754 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
44769704 TTGAAAACAA
44769714 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
44769755 GGGCTAAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:44769728 original size:12 final size:12
Alignment explanation
Indices: 44769713--44769753 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
44769703 TTTGAAAACA
44769713 AAAAAATAAAAT
1 AAAAAATAAAAT
44769725 -AAAAATAAAA-
1 AAAAAATAAAAT
44769735 ATAAAAATAAAAAT
1 A-AAAAAT-AAAAT
44769749 AAAAA
1 AAAAA
44769754 TGGGCTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 10 0.40
12 6 0.24
13 8 0.32
14 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:44769728 original size:18 final size:18
Alignment explanation
Indices: 44769707--44769753 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
44769697 AACTATTTTG
*
44769707 AAAACAAAAAAATAAAATA
1 AAAATAAAAAAA-AAAATA
*
44769726 AAAATAAAAATAAAAATA
1 AAAATAAAAAAAAAAATA
44769744 AAAATAAAAA
1 AAAATAAAAA
44769754 TGGGCTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAAAAAAATA
Found at i:44769899 original size:13 final size:14
Alignment explanation
Indices: 44769876--44769905 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
44769866 AAATATATAT
44769876 ATAAAATAAATAAA
1 ATAAAATAAATAAA
44769890 ATAAAA-AAATAAA
1 ATAAAATAAATAAA
44769903 ATA
1 ATA
44769906 CGAAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
ATAAAATAAATAAA
Found at i:44771832 original size:10 final size:9
Alignment explanation
Indices: 44771807--44771918 Score: 62
Period size: 10 Copynumber: 11.7 Consensus size: 9
44771797 AATGATAAAA
*
44771807 ATAAAAATAA
1 ATAAAAAT-T
*
44771817 ATAAAAGTT
1 ATAAAAATT
44771826 ATAAAAATT
1 ATAAAAATT
**
44771835 ATTAAATTTT
1 A-TAAAAATT
*
44771845 AATAAAAAAT
1 -ATAAAAATT
44771855 ATAAGAAATAT
1 ATAA-AAAT-T
* ***
44771866 TTAATTTTT
1 ATAAAAATT
44771875 ATTAAAAATT
1 A-TAAAAATT
*
44771885 AGAAAAAATT
1 A-TAAAAATT
*
44771895 ATAAAAATC
1 ATAAAAATT
44771904 ATAAAAATT
1 ATAAAAATT
44771913 ATAAAA
1 ATAAAA
44771919 TGTATAGAAA
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
9 34 0.45
10 36 0.48
11 5 0.07
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:44771848 original size:29 final size:29
Alignment explanation
Indices: 44771816--44771918 Score: 86
Period size: 30 Copynumber: 3.6 Consensus size: 29
44771806 AATAAAAATA
*
44771816 AATAAAAGTTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAATTATTAAATTTT
* *
44771845 AATAAAAAATATAAGAAA-TATTTAATTTTT
1 AATAAAAATTATAA-AAATTA-TTAAATTTT
* * **
44771875 ATTAAAAATTAGAAAAAATTA-TAAA-AAT
1 AATAAAAATTA-TAAAAATTATTAAATTTT
*
44771903 CATAAAAATTATAAAA
1 AATAAAAATTATAAAA
44771919 TGTATAGAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
27 4 0.07
28 10 0.17
29 17 0.29
30 23 0.40
31 4 0.07
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (29 bp):
AATAAAAATTATAAAAATTATTAAATTTT
Found at i:44772288 original size:29 final size:28
Alignment explanation
Indices: 44772213--44772289 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
44772203 TGCATTTTAT
* **
44772213 ATTTTTCTAATTTTTGGTAAAATTTAAA
1 ATTTTTATAATTTTTATTAAAATTTAAA
* *
44772241 TTTTTTATATATATTTTATTAAAGTTTAATA
1 ATTTTTATA-AT-TTTTATTAAAATTTAA-A
44772272 ATTTTTATAATTTTTATT
1 ATTTTTATAATTTTTATT
44772290 GGTTTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.17
29 9 0.22
30 15 0.38
31 9 0.22
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (28 bp):
ATTTTTATAATTTTTATTAAAATTTAAA
Found at i:44774026 original size:18 final size:18
Alignment explanation
Indices: 44774005--44774071 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
44773995 AAATTTTCAA
*
44774005 AAATTCAAAATAAATTTT
1 AAATTCAAAATAATTTTT
44774023 AAATTCAAAATAATTTTT
1 AAATTCAAAATAATTTTT
*
44774041 AAATTTAAAATAATTTTT
1 AAATTCAAAATAATTTTT
*
44774059 AAAATTAAAAATA
1 -AAATTCAAAATA
44774072 TTTATAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
18 34 0.76
19 11 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTCAAAATAATTTTT
Found at i:44774074 original size:18 final size:19
Alignment explanation
Indices: 44773985--44774080 Score: 94
Period size: 18 Copynumber: 5.3 Consensus size: 19
44773975 AAAATTACAA
44773985 TAAAA-TAAAAA-AATTTT
1 TAAAATTAAAAATAATTTT
* * *
44774002 CAAAAATTCAAAATAAATTT
1 -TAAAATTAAAAATAATTTT
*
44774022 T-AAATTCAAAATAATTTT
1 TAAAATTAAAAATAATTTT
*
44774040 T-AAATTTAAAATAATTTT
1 TAAAATTAAAAATAATTTT
*
44774058 TAAAATTAAAAAT-ATTTA
1 TAAAATTAAAAATAATTTT
44774076 TAAAA
1 TAAAA
44774081 ATTCCAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
18 47 0.70
19 15 0.22
20 5 0.07
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTAAAAATAATTTT
Found at i:44774121 original size:26 final size:27
Alignment explanation
Indices: 44774072--44774122 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
44774062 ATTAAAAATA
**
44774072 TTTATAAAAATTCCAAAATTTATATTT
1 TTTATAAAAATTCCAAAAAATATATTT
*
44774099 TTTA-AAAAATTCTAAAAAATATAT
1 TTTATAAAAATTCCAAAAAATATAT
44774123 AAAGAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (27 bp):
TTTATAAAAATTCCAAAAAATATATTT
Found at i:44775734 original size:3 final size:3
Alignment explanation
Indices: 44775726--44775754 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44775716 GTGGCTAAGC
44775726 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44775755 CAAAAGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44780026 original size:38 final size:38
Alignment explanation
Indices: 44779972--44780088 Score: 171
Period size: 38 Copynumber: 3.1 Consensus size: 38
44779962 TGAGTTACAC
* *
44779972 TGTTATTTAGGTTTTGTGCCTAGCAGGCTTAGTGTCGG
1 TGTTATTTAGGCTTTGTGCCTAGCAGGCTTAGTGCCGG
*
44780010 TGTTATTTAGGCTTTGTGCCTAGCAGGCTTAGTGCCGA
1 TGTTATTTAGGCTTTGTGCCTAGCAGGCTTAGTGCCGG
* * * *
44780048 TGTTATTCAGGCTTAGTGCCTAGTAGGCTTATTGCCGG
1 TGTTATTTAGGCTTTGTGCCTAGCAGGCTTAGTGCCGG
44780086 TGT
1 TGT
44780089 AATTAAAGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.15, C:0.16, G:0.30, T:0.39
Consensus pattern (38 bp):
TGTTATTTAGGCTTTGTGCCTAGCAGGCTTAGTGCCGG
Found at i:44787182 original size:114 final size:114
Alignment explanation
Indices: 44786975--44787190 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
44786965 TATACCCTTA
* * *
44786975 TTTAGGCTTTGTGCCTAGCAGGCACAGTGCCGGTGTAGTTTAGGCTTTGTGCCTAGTAGGCATAG
1 TTTAGGCTTTGTGCCTAGCAGGCACAGTGCCGGTGTAGTTCAGACTTTGTCCCTAGTAGGCATAG
* * *
44787040 TGCCGATGTTGTTCAGGCTTTGTTCCTAGCAGGCTTAGTGTCGGTGTTG
66 TGCCGATGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTG
** * *
44787089 TTTAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTGTTA-TTCAGACTTTGTCCCTAGTAGGCTTA
1 TTTAGGCTTTGTGCCTAGCAGGCACAGTGCCGGTG-TAGTTCAGACTTTGTCCCTAGTAGGCATA
** * *
44787153 GTGTTGGTGTTATTCAGGCTTAGTGCCTAGTAGGCTTA
65 GTGCCGATGTTATTCAGGCTTAGTGCCTAGCAGGCTTA
44787191 TTGCCAGTGT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
114 85 0.98
115 2 0.02
ACGTcount: A:0.15, C:0.18, G:0.31, T:0.37
Consensus pattern (114 bp):
TTTAGGCTTTGTGCCTAGCAGGCACAGTGCCGGTGTAGTTCAGACTTTGTCCCTAGTAGGCATAG
TGCCGATGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCGGTGTTG
Found at i:44787188 original size:38 final size:38
Alignment explanation
Indices: 44786972--44787190 Score: 251
Period size: 38 Copynumber: 5.8 Consensus size: 38
44786962 AGTTATACCC
* ** *
44786972 TTATTTAGGCTTTGTGCCTAGCAGGCACAGTGCCGGTG
1 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
* * * * *
44787010 -TAGTTTAGGCTTTGTGCCTAGTAGGCATAGTGCCGATG
1 TTA-TTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
* *
44787048 TTGTTCAGGCTTTGTTCCTAGCAGGCTTAGTGTCGGTG
1 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
* *
44787086 TTGTTTAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
1 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
* * * *
44787124 TTATTCAGACTTTGTCCCTAGTAGGCTTAGTGTTGGTG
1 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
* *
44787162 TTATTCAGGCTTAGTGCCTAGTAGGCTTA
1 TTATTCAGGCTTTGTGCCTAGCAGGCTTA
44787191 TTGCCAGTGT
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
37 2 0.01
38 155 0.98
39 1 0.01
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.37
Consensus pattern (38 bp):
TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGTCGGTG
Found at i:44805866 original size:138 final size:136
Alignment explanation
Indices: 44805578--44805996 Score: 626
Period size: 138 Copynumber: 3.1 Consensus size: 136
44805568 TTAATCGTAG
*
44805578 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAA-TGTATATATTTTAC-CAATTTATT
*
44805643 AATAT-AACAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
64 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
44805707 TAGAAAGA
129 TGGAAAGA
** *
44805715 ATATAATTAATATATGAATTTGATTCATTTAAAATATTAATGGTAAATATTTTACCAACTTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAAT-GTATATATTTTACCAA-TTTATT
* * * * *
44805780 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAATACGTGAAAATTAATTTTCTTT
64 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
44805845 TGGAAATA
129 TGGAAAGA
* * *
44805853 ATATAATTAATATACGAATTTGATTCATACAAAATATTAAT-TATATATATTACCAAATTTTTTA
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATGTATATATTTTACC-AATTTATTA
* *
44805917 ATATAAATAGTTATATTAATTAATTTCGATCAAAATATAAAAGATATGGAAATTAATATTCTTTT
65 ATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTT
44805982 GGAAAGA
130 GGAAAGA
44805989 ATATAATT
1 ATATAATT
44805997 CCTTTTTCTT
Statistics
Matches: 252, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
136 92 0.37
137 63 0.25
138 97 0.38
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.41
Consensus pattern (136 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATGTATATATTTTACCAATTTATTAA
TATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
GAAAGA
Found at i:44805979 original size:136 final size:136
Alignment explanation
Indices: 44805578--44805996 Score: 626
Period size: 136 Copynumber: 3.1 Consensus size: 136
44805568 TTAATCGTAG
**
44805578 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAA-TGTATATATTTTACCAAATTTATT
44805643 AATATAACAA-TTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
65 AATATAA-AAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
44805707 TAGAAAGA
129 TGGAAAGA
** * *
44805715 ATATAATTAATATATGAATTTGATTCATTTAAAATATTAATGGTAAATATTTTACCAACTTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAAT-GTATATATTTTACCAAATTTATT
* * * * *
44805780 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAATACGTGAAAATTAATTTTCTTT
65 AATATAAA-AGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
44805845 TGGAAATA
129 TGGAAAGA
* * *
44805853 ATATAATTAATATACGAATTTGATTCATACAAAATATTAAT-TATATATATTACCAAATTTTTTA
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATGTATATATTTTACCAAATTTATTA
*
44805917 ATATAAATAGTTATATTAATTAATTTCGATCAAAATATAAAAGATATGGAAATTAATATTCTTTT
66 ATATAAA-AGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTT
44805982 GGAAAGA
130 GGAAAGA
44805989 ATATAATT
1 ATATAATT
44805997 CCTTTTTCTT
Statistics
Matches: 251, Mismatches: 28, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
136 93 0.37
137 65 0.26
138 93 0.37
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.41
Consensus pattern (136 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATGTATATATTTTACCAAATTTATTA
ATATAAAAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
GAAAGA
Found at i:44812787 original size:11 final size:11
Alignment explanation
Indices: 44812773--44812798 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44812763 CTTTTTCTTC
44812773 TTTCTCCCCTG
1 TTTCTCCCCTG
44812784 TTTCTCCCCTG
1 TTTCTCCCCTG
44812795 TTTC
1 TTTC
44812799 GTCTCTTCTA
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:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:44813180 original size:21 final size:21
Alignment explanation
Indices: 44813156--44813198 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
44813146 AATAATAACT
44813156 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
44813177 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
44813198 A
1 A
44813199 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:44816540 original size:33 final size:34
Alignment explanation
Indices: 44816498--44816625 Score: 93
Period size: 33 Copynumber: 3.6 Consensus size: 34
44816488 ATCTGAAAGG
44816498 GGTTGCTAAGTGCTGATTCCCCGAATT-ATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATTAATTGGT
* *
44816531 GGTTGCTAAGTTG-TGA-TCCCATCGTATTTTAAATCTGAAAGG
1 GGTTGCTAAG-TGCTGATTCCC--CG-A-ATT-AAT-TG---GT
* * *
44816573 GGTTGCTAAGTGTTGATTCCCCG-ATTCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATTAATTGGT
44816606 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
44816626 ACCGTATTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 26
0.69 0.06 0.24
Matches are distributed among these distances:
32 4 0.05
33 33 0.44
34 4 0.05
35 1 0.01
36 4 0.05
37 1 0.01
38 4 0.05
39 2 0.03
41 4 0.05
42 14 0.19
43 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCCCGAATTAATTGGT
Found at i:44816542 original size:75 final size:75
Alignment explanation
Indices: 44816419--44816691 Score: 406
Period size: 75 Copynumber: 3.6 Consensus size: 75
44816409 TGATTCCCCC
* *
44816419 AAGGGGTTGCTAAGTGTTGATTCCTCGAATCATTGGTGGTTGCTAAGTTGTGATCCCATCGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTTGTGATCCCATCGTATT
44816484 TTAAATCTGA
66 TTAAATCTGA
* * *
44816494 AAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGGTGGTTGCTAAGTTGTGATCCCATCGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTTGTGATCCCATCGTATT
44816559 TTAAATCTGA
66 TTAAATCTGA
* * *
44816569 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCACTGGTGGTTGCTAAG-TGCTGATTCCACCGTAT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTTG-TGATCCCATCGTA-
* *
44816633 TTTTGAATGTGA
64 TTTTAAATCTGA
* *
44816645 AAGGGGTTGCTAAGTGATGATTCCCCGAATCACTGG-GGTTACTAAGT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGT
44816692 GCTAAATCCA
Statistics
Matches: 181, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
74 2 0.01
75 135 0.75
76 44 0.24
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTTGTGATCCCATCGTATT
TTAAATCTGA
Found at i:44830661 original size:50 final size:50
Alignment explanation
Indices: 44830597--44830930 Score: 269
Period size: 51 Copynumber: 6.6 Consensus size: 50
44830587 TCGATACACA
*
44830597 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTTACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACG
*
44830647 TAGTAGTCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACG
* * * * * *
44830697 TCGTAGCCTTCACATAGTACTACACACGTAACCAAAGGTTTT-TGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATC-AA-GTTTTACGGTTCACG
* * * * * **** *
44830748 TAGTAGCCATCACTTGGTACTACACATGTGACCCTCATTTATCGATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACG
* * * * * * *
44830799 TAGTAGCCTTCTCACAGTACTACACATGTGACCAAGGCTTCT-CGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAA-G-TTTTACGGTTCACG
* * * * * * *
44830850 TTGTAGCCTTCACTTAGTAATACACACGTGA-CCATTATTTATCGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTTCACG
* * *
44830901 TAGTAGCCTTCACACAATACTACACGCGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
44830931 TTCATCGATA
Statistics
Matches: 222, Mismatches: 53, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
48 1 0.00
49 5 0.02
50 79 0.36
51 130 0.59
52 5 0.02
53 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACG
Found at i:44830819 original size:102 final size:102
Alignment explanation
Indices: 44830587--44830925 Score: 326
Period size: 102 Copynumber: 3.3 Consensus size: 102
44830577 CTTTTATCAT
* * * * * * ** *
44830587 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATCAA-G-TTTTACGGTTTACGTAG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTAACCAAGGCTTCT-CGGTACACATAG
* * * * * ***
44830650 TAGTCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 TAGCCATCACTTAGTAATACACACGTGACCATCATTTA
* * * * *
44830688 -CGGTTCACGTCGTAGCCTTCACATAGTACTACACACGTAACCAAAGG-TTTTTGGTACACATAG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTAACC-AAGGCTTCTCGGTACACATAG
* * * *
44830751 TAGCCATCACTTGGTACTACACATGTGACCCTCATTTA
65 TAGCCATCACTTAGTAATACACACGTGACCATCATTTA
* * * *
44830789 TCGATTCACGTAGTAGCCTTCTCACAGTACTACACATGTGACCAAGGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTAACCAAGGCTTCTCGGTACACATAGT
* *
44830854 AGCCTTCACTTAGTAATACACACGTGACCATTATTTA
66 AGCCATCACTTAGTAATACACACGTGACCATCATTTA
* *
44830891 TCGATACACGTAGTAGCCTTCACACAATACTACAC
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACAC
44830926 GCGTGTTCAT
Statistics
Matches: 196, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
100 36 0.18
101 42 0.21
102 118 0.60
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTAACCAAGGCTTCTCGGTACACATAGT
AGCCATCACTTAGTAATACACACGTGACCATCATTTA
Found at i:44836446 original size:25 final size:25
Alignment explanation
Indices: 44836418--44836466 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
44836408 CTGTGTTTGA
* *
44836418 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
44836443 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
44836467 ATAGACTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:44838984 original size:18 final size:17
Alignment explanation
Indices: 44838951--44838984 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44838941 ATTTGGGTCA
*
44838951 TGTGGGCCACACGGGCT
1 TGTGGGCCACAAGGGCT
44838968 TGTGGGCCCACAAGGGC
1 TGTGGG-CCACAAGGGC
44838985 AAACATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.29, G:0.41, T:0.15
Consensus pattern (17 bp):
TGTGGGCCACAAGGGCT
Found at i:44839343 original size:115 final size:115
Alignment explanation
Indices: 44839208--44839437 Score: 460
Period size: 115 Copynumber: 2.0 Consensus size: 115
44839198 ATGTCATATC
44839208 ATTATATTGCATTACATTGGGTTGGGGGATTATAATGTTTGGAGGAAGTGTACTGAAAAACCTCG
1 ATTATATTGCATTACATTGGGTTGGGGGATTATAATGTTTGGAGGAAGTGTACTGAAAAACCTCG
44839273 AGCCTAATTTACTGGTAGCTTAGCTGCAAACTACTGTCTAGTGCCGCATT
66 AGCCTAATTTACTGGTAGCTTAGCTGCAAACTACTGTCTAGTGCCGCATT
44839323 ATTATATTGCATTACATTGGGTTGGGGGATTATAATGTTTGGAGGAAGTGTACTGAAAAACCTCG
1 ATTATATTGCATTACATTGGGTTGGGGGATTATAATGTTTGGAGGAAGTGTACTGAAAAACCTCG
44839388 AGCCTAATTTACTGGTAGCTTAGCTGCAAACTACTGTCTAGTGCCGCATT
66 AGCCTAATTTACTGGTAGCTTAGCTGCAAACTACTGTCTAGTGCCGCATT
44839438 CGGTACTACT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (115 bp):
ATTATATTGCATTACATTGGGTTGGGGGATTATAATGTTTGGAGGAAGTGTACTGAAAAACCTCG
AGCCTAATTTACTGGTAGCTTAGCTGCAAACTACTGTCTAGTGCCGCATT
Found at i:44842560 original size:41 final size:41
Alignment explanation
Indices: 44842501--44842581 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
44842491 CAAGCTAGAA
* *
44842501 CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAC
1 CTGAATCAAGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAC
44842542 CTGAATCAAGCT-TCAAGCCTAGCAGGCTAAGTGCCAGTGA
1 CTGAATCAAGCTAT-AAGCCTAGCAGGCTAAGTGCCAGTGA
44842582 ATCTGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (41 bp):
CTGAATCAAGCTATAAGCCTAGCAGGCTAAGTGCCAGTGAC
Found at i:44844112 original size:5 final size:5
Alignment explanation
Indices: 44844097--44844214 Score: 220
Period size: 5 Copynumber: 23.8 Consensus size: 5
44844087 TTTGCTTCTA
*
44844097 ATATG -TATG ATATG ATATG ATAAG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
44844146 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
44844196 ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATAT
44844215 TTTGTGATGA
Statistics
Matches: 110, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
4 4 0.04
5 106 0.96
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:44846655 original size:16 final size:16
Alignment explanation
Indices: 44846626--44846660 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
44846616 GTTTGTATAA
44846626 AAAACTTATGTTTTGAT
1 AAAACTTATGTTTTG-T
44846643 AAAACTT-TGTTTTGT
1 AAAACTTATGTTTTGT
44846658 AAA
1 AAA
44846661 GCTCCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 7 0.39
17 7 0.39
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (16 bp):
AAAACTTATGTTTTGT
Found at i:44848340 original size:18 final size:18
Alignment explanation
Indices: 44848313--44848347 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44848303 TAAATTGAAT
* *
44848313 AAAATGAAAAATATGAGA
1 AAAATAAAAAAAATGAGA
44848331 AAAATAAAAAAAATGAG
1 AAAATAAAAAAAATGAG
44848348 TTTATATAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAATAAAAAAAATGAGA
Found at i:44850511 original size:158 final size:157
Alignment explanation
Indices: 44850259--44850570 Score: 444
Period size: 158 Copynumber: 2.0 Consensus size: 157
44850249 TATACCCTCC
* ** *
44850259 TTTTTTGGCTTCTAGTTCTTGTACTTGTACCAAACAGACAAAAAAATCACAACCCCAAATTAAAT
1 TTTTTTGGCTTCTAGTTCTTATACTCATACCAAACAGACAAAAAAATCAAAACCCCAAATTAAAT
* * * *
44850324 TTAAATATTTTGGAACTTGAGAATAAAAAAGTGTTTATGATATACCTGTGATCTAGTTGTGTTAG
66 TTAAATATGTTGGAACTTGACAATAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAG
* *
44850389 GTTGATTGCATGATATTTTGTTGTTCT
131 GTTGAATGCATGATATTCTGTTGTTCT
* * ** * *
44850416 TTTTTTGGCTTCTAGTTCTTATACTCATATCAGATTGAGAAAAAAATACAAAACCCCAAATTATA
1 TTTTTTGGCTTCTAGTTCTTATACTCATACCAAACAGACAAAAAAAT-CAAAACCCCAAATTAAA
* *
44850481 TTTAAATATGTTGGAACTTGACAATGAAAAAGTGTTTACGATATACTTGTGATCCAGTTGTGTTA
65 TTTAAATATGTTGGAACTTGACAATAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTA
*
44850546 GGTTGAATGCATGATCTTCTGTTGT
130 GGTTGAATGCATGATATTCTGTTGT
44850571 GACCCTCACC
Statistics
Matches: 135, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
157 39 0.29
158 96 0.71
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (157 bp):
TTTTTTGGCTTCTAGTTCTTATACTCATACCAAACAGACAAAAAAATCAAAACCCCAAATTAAAT
TTAAATATGTTGGAACTTGACAATAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAG
GTTGAATGCATGATATTCTGTTGTTCT
Found at i:44852992 original size:24 final size:24
Alignment explanation
Indices: 44852889--44852992 Score: 68
Period size: 24 Copynumber: 4.2 Consensus size: 24
44852879 CCCCATTTAA
*
44852889 ACCTTCAACACCCTCAACCTCACC
1 ACCTTCACCACCCTCAACCTCACC
* * *
44852913 ACCTTCACCACCCT-TACCACACTG
1 ACCTTCACCACCCTCAACCTCAC-C
* * * * *
44852937 A-CTGACAGCAACCTTAATACCCTTACC
1 ACCT-TCA-CCACCCTCA-A-CCTCACC
44852964 ACCTTCACCACCCTCAACCTCACC
1 ACCTTCACCACCCTCAACCTCACC
44852988 ACCTT
1 ACCTT
44852993 AACTGCCAAC
Statistics
Matches: 57, Mismatches: 16, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
23 8 0.14
24 27 0.47
25 6 0.11
26 6 0.11
27 4 0.07
28 6 0.11
ACGTcount: A:0.28, C:0.49, G:0.03, T:0.20
Consensus pattern (24 bp):
ACCTTCACCACCCTCAACCTCACC
Found at i:44853105 original size:81 final size:81
Alignment explanation
Indices: 44852961--44853110 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
44852951 TAATACCCTT
* *
44852961 ACCACCTTCACCACCCTCAACCTCACCACCTTAACTGCCAACAACCTCCATACCCTACCTATTTA
1 ACCACCTTCACCACCCTCAACCTCACCACCTTAACTGCCAACAACCTCAACACCCTACCTATTTA
44853026 AACCTTCAACACTCTC
66 AACCTTCAACACTCTC
* * * *
44853042 ACCATCTTCACCACCCTCAACCTCACCACTTTTATTGCCAACAACCTCAACACCCT-CCTTATTT
1 ACCACCTTCACCACCCTCAACCTCACCACCTTAACTGCCAACAACCTCAACACCCTACC-TATTT
44853106 AAACC
65 AAACC
44853111 CTCATCACCT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 2 0.03
81 60 0.97
ACGTcount: A:0.29, C:0.45, G:0.01, T:0.24
Consensus pattern (81 bp):
ACCACCTTCACCACCCTCAACCTCACCACCTTAACTGCCAACAACCTCAACACCCTACCTATTTA
AACCTTCAACACTCTC
Found at i:44853131 original size:48 final size:48
Alignment explanation
Indices: 44853079--44853177 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
44853069 ACTTTTATTG
** * *
44853079 CCAACAACCTCAACACCCTCCTTATTTAAACCCTCATCACCTTTACTA
1 CCAACAACCTCAACACCCTCCCCATTTAAACCCTCAACACATTTACTA
* *
44853127 CCAACAACCTTAACACCCTCCCCATTTAAACCCTCAACACATTTATTA
1 CCAACAACCTCAACACCCTCCCCATTTAAACCCTCAACACATTTACTA
44853175 CCA
1 CCA
44853178 CCACAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.25
Consensus pattern (48 bp):
CCAACAACCTCAACACCCTCCCCATTTAAACCCTCAACACATTTACTA
Found at i:44853647 original size:14 final size:15
Alignment explanation
Indices: 44853620--44853662 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
44853610 TTCCATAATA
*
44853620 ATAGACAAACAAAGT
1 ATAGACAAAAAAAGT
*
44853635 GTAG-CAAAAAAAGT
1 ATAGACAAAAAAAGT
44853649 ATAGACAAACAAAA
1 ATAGACAAA-AAAA
44853663 TATTAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.52
15 7 0.30
16 4 0.17
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.12
Consensus pattern (15 bp):
ATAGACAAAAAAAGT
Found at i:44854127 original size:30 final size:29
Alignment explanation
Indices: 44854094--44854225 Score: 142
Period size: 29 Copynumber: 4.5 Consensus size: 29
44854084 TCGAAAACAA
44854094 AAAAATCCCAAAATTTAAAAACCCTAAAC
1 AAAAATCCCAAAATTTAAAAACCCTAAAC
* *
44854123 AAAAATCCCTAATATTAAAAAACCCTAAAC
1 AAAAATCCC-AAAATTTAAAAACCCTAAAC
*
44854153 AAAAATCCCCAAAA-TT-AAAACCGCTAACC
1 AAAAAT-CCCAAAATTTAAAAACC-CTAAAC
* * * *
44854182 AAAAATCCCCAAATTCAACAACCATAAAC
1 AAAAATCCCAAAATTTAAAAACCCTAAAC
* *
44854211 CAAAATCCCCAAATT
1 AAAAATCCCAAAATT
44854226 CAACAACTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
28 12 0.14
29 40 0.46
30 32 0.37
31 3 0.03
ACGTcount: A:0.55, C:0.28, G:0.01, T:0.17
Consensus pattern (29 bp):
AAAAATCCCAAAATTTAAAAACCCTAAAC
Found at i:44854132 original size:14 final size:14
Alignment explanation
Indices: 44854110--44854161 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
44854100 CCCAAAATTT
44854110 AAAAA-CCCTAAAC
1 AAAAATCCCTAAAC
*
44854123 AAAAATCCCTAATATT
1 AAAAATCCCTAA-A-C
*
44854139 AAAAAACCCTAAAC
1 AAAAATCCCTAAAC
44854153 AAAAATCCC
1 AAAAATCCC
44854162 CAAAATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 5 0.16
14 14 0.44
15 2 0.06
16 11 0.34
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATCCCTAAAC
Found at i:44854161 original size:59 final size:58
Alignment explanation
Indices: 44854094--44854225 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 58
44854084 TCGAAAACAA
* *
44854094 AAAAATCCCAAAATTTAAAAACC-CTAAACAAAAATCCCTAATATTAAAAAACCCTAAAC
1 AAAAATCCCAAAATTT-AAAACCGCTAAACAAAAATCCCCAA-ATTAAAAAACCATAAAC
* * *
44854153 AAAAATCCCCAAAA-TTAAAACCGCTAACCAAAAATCCCCAAATTCAACAACCATAAAC
1 AAAAAT-CCCAAAATTTAAAACCGCTAAACAAAAATCCCCAAATTAAAAAACCATAAAC
* *
44854211 CAAAATCCCCAAATT
1 AAAAATCCCAAAATT
44854226 CAACAACTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
57 6 0.10
58 26 0.41
59 24 0.38
60 7 0.11
ACGTcount: A:0.55, C:0.28, G:0.01, T:0.17
Consensus pattern (58 bp):
AAAAATCCCAAAATTTAAAACCGCTAAACAAAAATCCCCAAATTAAAAAACCATAAAC
Found at i:44854224 original size:29 final size:29
Alignment explanation
Indices: 44854095--44854269 Score: 160
Period size: 30 Copynumber: 6.0 Consensus size: 29
44854085 CGAAAACAAA
* * *
44854095 AAAATCCCAAAATTTAAAAACCCTAAACA
1 AAAATCCCCAAATTCAAAAACCCTAAACC
* * *
44854124 AAAATCCCTAATATTAAAAAACCCTAAACA
1 AAAATCCCCAA-ATTCAAAAACCCTAAACC
44854154 AAAATCCCCAAAATT--AAAACCGCT-AACC
1 AAAATCCCC-AAATTCAAAAACC-CTAAACC
* *
44854182 AAAAATCCCCAAATTCAACAACCATAAACC
1 -AAAATCCCCAAATTCAAAAACCCTAAACC
* *
44854212 AAAATCCCCAAATTCAACAA-CTTAAAACCC
1 AAAATCCCCAAATTCAAAAACCCT-AAA-CC
* *
44854242 TAAATCCCCAAACTCAAAAACCCTAAAC
1 AAAATCCCCAAATTCAAAAACCCTAAAC
44854270 ATAAATCAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
28 16 0.13
29 46 0.37
30 59 0.47
31 4 0.03
ACGTcount: A:0.53, C:0.30, G:0.01, T:0.16
Consensus pattern (29 bp):
AAAATCCCCAAATTCAAAAACCCTAAACC
Found at i:44854276 original size:59 final size:57
Alignment explanation
Indices: 44854095--44854276 Score: 145
Period size: 59 Copynumber: 3.1 Consensus size: 57
44854085 CGAAAACAAA
** * * *
44854095 AAAAT-CCCAAAATTTAAAAACCCTAAA-CAAAAATCCCTAATATTAAAAAACCCTAAAC
1 AAAATCCCCAAAA-TT-AAAACCGAAAACCAAAAATCCCCAA-ACTCAAAAACCCTAAAC
** * * *
44854153 AAAAATCCCCAAAATTAAAACCGCTAACCAAAAATCCCCAAATTCAACAACCATAAACC
1 -AAAATCCCCAAAATTAAAACCGAAAACCAAAAATCCCCAAACTCAAAAACCCTAAA-C
** **
44854212 AAAATCCCC-AAATTCAACAACTTAAAACCCTAAATCCCCAAACTCAAAAACCCTAAAC
1 AAAATCCCCAAAATT-AA-AACCGAAAACCAAAAATCCCCAAACTCAAAAACCCTAAAC
44854270 ATAAATC
1 A-AAATC
44854277 AAAATAACAA
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
57 5 0.05
58 34 0.34
59 55 0.54
60 7 0.07
ACGTcount: A:0.53, C:0.30, G:0.01, T:0.16
Consensus pattern (57 bp):
AAAATCCCCAAAATTAAAACCGAAAACCAAAAATCCCCAAACTCAAAAACCCTAAAC
Found at i:44857009 original size:24 final size:24
Alignment explanation
Indices: 44856981--44857028 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44856971 TAGTGAAATC
*
44856981 TATAAATTTCCATCTTCAATTAAT
1 TATAAACTTCCATCTTCAATTAAT
* *
44857005 TATAAACTTCTATCTTCCATTAAT
1 TATAAACTTCCATCTTCAATTAAT
44857029 ATTTAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (24 bp):
TATAAACTTCCATCTTCAATTAAT
Found at i:44858787 original size:2 final size:2
Alignment explanation
Indices: 44858780--44858812 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
44858770 AGAAACCATT
44858780 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
44858813 GAACTCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:44859274 original size:27 final size:28
Alignment explanation
Indices: 44859242--44859305 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
44859232 GAGGATAAAC
*
44859242 TGGTGGCTTGGGT-GGAGGGGCGTAAGT
1 TGGTGGCTTGGGTCGGAGGAGCGTAAGT
44859269 TGGTGGCTT-GGTCGGAGGAGCGTAAGT
1 TGGTGGCTTGGGTCGGAGGAGCGTAAGT
*
44859296 TGGCGGCTTG
1 TGGTGGCTTG
44859306 CTGGGTGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.09
27 30 0.91
ACGTcount: A:0.11, C:0.11, G:0.52, T:0.27
Consensus pattern (28 bp):
TGGTGGCTTGGGTCGGAGGAGCGTAAGT
Found at i:44859329 original size:39 final size:39
Alignment explanation
Indices: 44859282--44859400 Score: 229
Period size: 39 Copynumber: 3.1 Consensus size: 39
44859272 TGGCTTGGTC
44859282 GGAGGAGCGTAAGTTGGCGGCTTGCTGGGTGACTTGGGT
1 GGAGGAGCGTAAGTTGGCGGCTTGCTGGGTGACTTGGGT
44859321 GGAGGAGCGTAAGTTGGCGGCTTGCTGGGTGACTTGGGT
1 GGAGGAGCGTAAGTTGGCGGCTTGCTGGGTGACTTGGGT
*
44859360 GGAGGAGCGTAAGTTGGCGGCTTGCTTGGTGACTTGGGT
1 GGAGGAGCGTAAGTTGGCGGCTTGCTGGGTGACTTGGGT
44859399 GG
1 GG
44859401 TGGATAAACT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.13, C:0.13, G:0.49, T:0.26
Consensus pattern (39 bp):
GGAGGAGCGTAAGTTGGCGGCTTGCTGGGTGACTTGGGT
Found at i:44859528 original size:12 final size:12
Alignment explanation
Indices: 44859505--44859539 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
44859495 TGCGGATGGG
*
44859505 GATGGTGATGGT
1 GATGGTGGTGGT
44859517 GATGGTGGTGGT
1 GATGGTGGTGGT
*
44859529 GGTGGTGGTGG
1 GATGGTGGTGG
44859540 CTTGGTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.60, T:0.31
Consensus pattern (12 bp):
GATGGTGGTGGT
Found at i:44861904 original size:20 final size:21
Alignment explanation
Indices: 44861849--44861931 Score: 93
Period size: 20 Copynumber: 4.1 Consensus size: 21
44861839 AATTTTTAAA
*
44861849 AAAAATACATA-AAT-ATTTT
1 AAAAATATATATAATAATTTT
* *
44861868 AAAATTATATAATAATAAATTT
1 AAAAATATAT-ATAATAATTTT
*
44861890 AAAAATATATA-AATATTTTT
1 AAAAATATATATAATAATTTT
44861910 AAAAATATA-ATAATAATTTT
1 AAAAATATATATAATAATTTT
44861930 AA
1 AA
44861932 TTTATATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.17
20 27 0.51
21 4 0.08
22 13 0.25
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATATATATAATAATTTT
Found at i:44861932 original size:6 final size:6
Alignment explanation
Indices: 44861913--44861961 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
44861903 TATTTTTAAA
* *
44861913 AATA-T AATAAT AATTTT AAT-TT ATATATT AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT A-ATATT AATATT AATATT AATATT
44861960 AA
1 AA
44861962 ATTTAAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 7 0.18
6 29 0.74
7 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:44861940 original size:41 final size:41
Alignment explanation
Indices: 44861849--44861931 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 41
44861839 AATTTTTAAA
*
44861849 AAAAATACATAAATA-TTTTAAAATTATATAATAATAAATTT
1 AAAAATATATAAATATTTTTAAAA-TATATAATAATAAATTT
*
44861890 AAAAATATATAAATATTTTTAAAA-ATATAATAATAATTTT
1 AAAAATATATAAATATTTTTAAAATATATAATAATAAATTT
44861930 AA
1 AA
44861932 TTTATATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 17 0.44
41 14 0.36
42 8 0.21
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (41 bp):
AAAAATATATAAATATTTTTAAAATATATAATAATAAATTT
Found at i:44861967 original size:18 final size:18
Alignment explanation
Indices: 44861913--44861967 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
44861903 TATTTTTAAA
* *
44861913 AATA-TAATAATAATTTT
1 AATATTAATATTAAATTT
44861930 AAT-TTATATATT-AATATT
1 AATATTA-ATATTAAAT-TT
44861948 AATATTAATATTAAATTT
1 AATATTAATATTAAATTT
44861966 AA
1 AA
44861968 AAGAACCCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 7 0.23
18 18 0.58
19 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTAATATTAAATTT
Found at i:44862761 original size:230 final size:230
Alignment explanation
Indices: 44862358--44862818 Score: 922
Period size: 230 Copynumber: 2.0 Consensus size: 230
44862348 GTTAAATTCT
44862358 ATAATTGGTCACTATATTTTTCATTTTCAACAATTTAAAATTTTTCTTTTATGTTCTTCTAACTT
1 ATAATTGGTCACTATATTTTTCATTTTCAACAATTTAAAATTTTTCTTTTATGTTCTTCTAACTT
44862423 TTTTTTTCCTTTCTCTTATGTTTCTCTCTCTATTTTCCTCCCTTCTTCATTTCTTTTAACATAGC
66 TTTTTTTCCTTTCTCTTATGTTTCTCTCTCTATTTTCCTCCCTTCTTCATTTCTTTTAACATAGC
44862488 TTTTCTATGCTTTCCATTTGTAACTAGTCCACAAGCTCACCTCACTCGAAAAAATTAAATTGTTC
131 TTTTCTATGCTTTCCATTTGTAACTAGTCCACAAGCTCACCTCACTCGAAAAAATTAAATTGTTC
44862553 AAAAAAATAAAACATAGAAAAACTACATTGAAAGA
196 AAAAAAATAAAACATAGAAAAACTACATTGAAAGA
44862588 ATAATTGGTCACTATATTTTTCATTTTCAACAATTTAAAATTTTTCTTTTATGTTCTTCTAACTT
1 ATAATTGGTCACTATATTTTTCATTTTCAACAATTTAAAATTTTTCTTTTATGTTCTTCTAACTT
44862653 TTTTTTTCCTTTCTCTTATGTTTCTCTCTCTATTTTCCTCCCTTCTTCATTTCTTTTAACATAGC
66 TTTTTTTCCTTTCTCTTATGTTTCTCTCTCTATTTTCCTCCCTTCTTCATTTCTTTTAACATAGC
44862718 TTTTCTATGCTTTCCATTTGTAACTAGTCCACAAGCTCACCTCACTCGAAAAAATTAAATTGTTC
131 TTTTCTATGCTTTCCATTTGTAACTAGTCCACAAGCTCACCTCACTCGAAAAAATTAAATTGTTC
44862783 AAAAAAATAAAACATAGAAAAACTACATTGAAAGA
196 AAAAAAATAAAACATAGAAAAACTACATTGAAAGA
44862818 A
1 A
44862819 ACGGAGAAGG
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
230 231 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (230 bp):
ATAATTGGTCACTATATTTTTCATTTTCAACAATTTAAAATTTTTCTTTTATGTTCTTCTAACTT
TTTTTTTCCTTTCTCTTATGTTTCTCTCTCTATTTTCCTCCCTTCTTCATTTCTTTTAACATAGC
TTTTCTATGCTTTCCATTTGTAACTAGTCCACAAGCTCACCTCACTCGAAAAAATTAAATTGTTC
AAAAAAATAAAACATAGAAAAACTACATTGAAAGA
Found at i:44863064 original size:31 final size:29
Alignment explanation
Indices: 44863026--44863102 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
44863016 CTAACGGCTC
* *
44863026 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
44863057 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
44863086 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
44863103 TTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:44863460 original size:26 final size:23
Alignment explanation
Indices: 44863431--44863487 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 23
44863421 TTAGTTTTAC
*
44863431 TATATTTTTTTGAAATTATTTATTTT
1 TATATTTTTTT-AAA-T-TTTATTAT
*
44863457 TATATATTTTTAAATTTTATTAT
1 TATATTTTTTTAAATTTTATTAT
44863480 T-TATTTTT
1 TATATTTTT
44863488 AAAAATAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 6 0.21
23 8 0.29
24 1 0.04
25 3 0.11
26 10 0.36
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TATATTTTTTTAAATTTTATTAT
Found at i:44863464 original size:10 final size:10
Alignment explanation
Indices: 44863446--44863515 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
44863436 TTTTTTGAAA
*
44863446 TTATTTATTT
1 TTATATATTT
44863456 TTATATATTT
1 TTATATATTT
*
44863466 TTAAAT-TTT
1 TTATATATTT
*
44863475 ATTATTTATTT
1 -TTATATATTT
* * **
44863486 TTAAAAATAG
1 TTATATATTT
*
44863496 TTACATATTT
1 TTATATATTT
44863506 TTATATATTT
1 TTATATATTT
44863516 CTTTGAATTT
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
9 3 0.07
10 38 0.86
11 3 0.07
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTATATATTT
Found at i:44865804 original size:30 final size:29
Alignment explanation
Indices: 44865737--44865796 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
44865727 TTTAGTCTAA
* *
44865737 TGTGCAATTTTATACATGAATTTTGATTT
1 TGTGCAATTTTATAAATGAATTTTGAGTT
44865766 TGTGCAATTTTATAAATGAAATTTTG-GTT
1 TGTGCAATTTTATAAATG-AATTTTGAGTT
44865795 TG
1 TG
44865797 ATTCAATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (29 bp):
TGTGCAATTTTATAAATGAATTTTGAGTT
Found at i:44869400 original size:27 final size:26
Alignment explanation
Indices: 44869360--44869447 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
44869350 TAGGTTAATT
* **
44869360 TTAAAATAAGTAATATATAAAATAAC
1 TTAAAATAAATAATATATAAAGCAAC
44869386 TTAAAATAAAATAATATATAAAGCAAC
1 TTAAAAT-AAATAATATATAAAGCAAC
** * *
44869413 TTAATGTAAATAATCTATAAAGCAAG
1 TTAAAATAAATAATATATAAAGCAAC
44869439 TTAAAATAA
1 TTAAAATAA
44869448 TCATATACAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAGCAAC
Found at i:44869445 original size:22 final size:22
Alignment explanation
Indices: 44869392--44869454 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 22
44869382 TAACTTAAAA
*
44869392 TAAAATAATATATAAAGCAACT
1 TAAAATAATCTATAAAGCAACT
*
44869414 TAATGTAAATAATCTATAAAGCAAGT
1 T-A---AAATAATCTATAAAGCAACT
44869440 TAAAATAATCATATA
1 TAAAATAATC-TATA
44869455 CAAGTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 9 0.26
23 5 0.15
25 1 0.03
26 19 0.56
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (22 bp):
TAAAATAATCTATAAAGCAACT
Found at i:44869460 original size:20 final size:22
Alignment explanation
Indices: 44869420--44869474 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
44869410 AACTTAATGT
*
44869420 AAATAATCTATAAAGCAAG-TTA
1 AAATAATC-ATATAGCAAGTTTA
44869442 AAATAATCATATA-CAAGTTTA
1 AAATAATCATATAGCAAGTTTA
*
44869463 ATATAAT-ATATA
1 AAATAATCATATA
44869475 TATAAGAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.30
21 13 0.43
22 8 0.27
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (22 bp):
AAATAATCATATAGCAAGTTTA
Found at i:44870475 original size:20 final size:19
Alignment explanation
Indices: 44870450--44870489 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44870440 ATAAACTACC
*
44870450 TTTGAATCTCTTTTTGTTTT
1 TTTGAAT-TCTTTTTATTTT
*
44870470 TTTGAATTTTTTTTATTTT
1 TTTGAATTCTTTTTATTTT
44870489 T
1 T
44870490 GTATTGAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.75
Consensus pattern (19 bp):
TTTGAATTCTTTTTATTTT
Found at i:44872548 original size:25 final size:25
Alignment explanation
Indices: 44872519--44872588 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
44872509 TGGTGGCAAA
44872519 CCTTTGTGGCGAATTATCTGAAAAG
1 CCTTTGTGGCGAATTATCTGAAAAG
* * *
44872544 CCTTTGTGGTGAGTTATCTGTAAAG
1 CCTTTGTGGCGAATTATCTGAAAAG
*
44872569 CCTTTATGGCGAATTATCTG
1 CCTTTGTGGCGAATTATCTG
44872589 GCGAATTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (25 bp):
CCTTTGTGGCGAATTATCTGAAAAG
Found at i:44872580 original size:50 final size:50
Alignment explanation
Indices: 44872519--44872666 Score: 161
Period size: 62 Copynumber: 2.7 Consensus size: 50
44872509 TGGTGGCAAA
*
44872519 CCTTTGTGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAG
1 CCTTTATGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAG
44872569 CCTTTATGGCGAATTATCTGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAG
1 CC----T------TTA--TGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAG
* *
44872631 CCTTTATGGCGAATTATCTAAAAAGTCTTTGTGGTG
1 CCTTTATGGCGAATTATCTGAAAAGCCTTTGTGGTG
44872667 TATTGTATGA
Statistics
Matches: 83, Mismatches: 3, Indels: 24
0.75 0.03 0.22
Matches are distributed among these distances:
50 30 0.36
52 3 0.04
54 1 0.01
58 1 0.01
60 2 0.02
62 46 0.55
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (50 bp):
CCTTTATGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAG
Found at i:44872592 original size:12 final size:12
Alignment explanation
Indices: 44872575--44872600 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44872565 AAAGCCTTTA
44872575 TGGCGAATTATC
1 TGGCGAATTATC
44872587 TGGCGAATTATC
1 TGGCGAATTATC
44872599 TG
1 TG
44872601 AAAAGCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (12 bp):
TGGCGAATTATC
Found at i:44872622 original size:62 final size:62
Alignment explanation
Indices: 44872525--44872649 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
44872515 CAAACCTTTG
44872525 TGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATC
1 TGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATC
44872587 TGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATC
1 TGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATC
44872649 T
1 T
44872650 AAAAAGTCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (62 bp):
TGGCGAATTATCTGAAAAGCCTTTGTGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATC
Found at i:44872630 original size:25 final size:25
Alignment explanation
Indices: 44872591--44872666 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
44872581 ATTATCTGGC
44872591 GAATTATCTGAAAAGCCTTTGTGGT
1 GAATTATCTGAAAAGCCTTTGTGGT
* * * *
44872616 GAGTTATCTGTAAAGCCTTTATGGC
1 GAATTATCTGAAAAGCCTTTGTGGT
* *
44872641 GAATTATCTAAAAAGTCTTTGTGGT
1 GAATTATCTGAAAAGCCTTTGTGGT
44872666 G
1 G
44872667 TATTGTATGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.37
Consensus pattern (25 bp):
GAATTATCTGAAAAGCCTTTGTGGT
Found at i:44875425 original size:9 final size:9
Alignment explanation
Indices: 44875408--44875444 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44875398 TGAGTTTTTG
44875408 AATTCGAAT
1 AATTCGAAT
*
44875417 AACTCGAAT
1 AATTCGAAT
44875426 AATTCGAAT
1 AATTCGAAT
44875435 AATTCGAAT
1 AATTCGAAT
44875444 A
1 A
44875445 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Done.