Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 74 of 128
Found at i:24048493 original size:61 final size:61
Alignment explanation
Indices: 24048306--24048501 Score: 268
Period size: 61 Copynumber: 3.2 Consensus size: 61
24048296 AACTTTGGAT
* * * * * *
24048306 AGGAAAGCCTTTGTGGAAAAACTCTAGACAGGAAAGACTTTATGGTGAGTATTAGATGTAA
1 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
* * * * *
24048367 AGGACAACTTTTGTGGCACAACTCTGGAAAGGAAAACCTTTATGGTGAGTATTGGATGTAA
1 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
* *
24048428 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTGTGGCGAGTATTGGATGTAA
1 AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
24048489 AGGAT-GCCTTTGT
1 AGGATAGCCTTTGT
24048502 TATAACCTCT
Statistics
Matches: 118, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
60 8 0.07
61 110 0.93
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (61 bp):
AGGATAGCCTTTGTGGCACAACTCTGGACAGGAAAGCCTTTATGGTGAGTATTGGATGTAA
Found at i:24052179 original size:20 final size:20
Alignment explanation
Indices: 24052154--24052191 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24052144 TGGATCTATC
24052154 AATTAAATATATTTTTTAAA
1 AATTAAATATATTTTTTAAA
*
24052174 AATTAAATTTATTTTTTA
1 AATTAAATATATTTTTTA
24052192 TTAAAGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTAAATATATTTTTTAAA
Found at i:24061982 original size:221 final size:221
Alignment explanation
Indices: 24061599--24062047 Score: 880
Period size: 221 Copynumber: 2.0 Consensus size: 221
24061589 TTTATTTTAT
*
24061599 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAATTTTATCG
1 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
24061664 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
66 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
24061729 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
131 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
24061794 GAAGATAGTGGATGTGCATGGCTTGG
196 GAAGATAGTGGATGTGCATGGCTTGG
24061820 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
1 TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
24061885 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
66 TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
24061950 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
131 TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
*
24062015 GAAGTTAGTGGATGTGCATGGCTTGG
196 GAAGATAGTGGATGTGCATGGCTTGG
24062041 TATTATT
1 TATTATT
24062048 GAAATTTGGA
Statistics
Matches: 226, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 226 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (221 bp):
TATTATTTTATTGTCTACAGCATGATAGTAGTACCGTACCAAACATTTGTTAAAAAAATTTATCG
TTTTCATGCTTAATTTAATAAAACCGACTAAATTGCATAAAGTGCAAAAGAAGTGTTCTAGTAGC
TAAAGGTATTAAATAGCTATAGAACCTTAAAGTATGAGTCCTTATGTGGTAATTAGACCTTCAAT
GAAGATAGTGGATGTGCATGGCTTGG
Found at i:24064031 original size:21 final size:21
Alignment explanation
Indices: 24063998--24064051 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
24063988 GTGGGGGTCT
* * *
24063998 ACACACCTATGTGGAGGCCAC
1 ACACACCCATGTGAAAGCCAC
*
24064019 ACACACCCGTGTGAAAGCCAC
1 ACACACCCATGTGAAAGCCAC
**
24064040 ACATGCCCATGT
1 ACACACCCATGT
24064052 TAAGGGGACA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.35, G:0.20, T:0.15
Consensus pattern (21 bp):
ACACACCCATGTGAAAGCCAC
Found at i:24090885 original size:125 final size:125
Alignment explanation
Indices: 24090663--24090950 Score: 504
Period size: 125 Copynumber: 2.3 Consensus size: 125
24090653 TTTTTTTAAG
* *
24090663 GAAATCGCTCCAACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAATTAATTTCGAGTAGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
24090728 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
* * *
24090788 GAAATCACTCCCACATGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
24090853 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACT
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
*
24090913 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
24090951 TACATGTTTG
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 153 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACT
Found at i:24092288 original size:70 final size:71
Alignment explanation
Indices: 24092213--24092345 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 71
24092203 GAAGAATTTC
*
24092213 TATTTTATTACATCAAATAATATCAAAATATTCAAATTGTCTAT-CAAA-ATATTCAAAATAAAC
1 TATTTTATTACATCAAATAATATCAAAATATTCAAAATGTCTATACAAATATATT-AAAATAAAC
24092276 TATTTTG
65 TATTTTG
* *
24092283 TATTTTATTACATCAAATAATATCAAAATATTCAAAATGTTTGTACAAATATATTAAAATAAA
1 TATTTTATTACATCAAATAATATCAAAATATTCAAAATGTCTATACAAATATATTAAAATAAA
24092346 AATCAATCTC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
70 41 0.71
71 12 0.21
72 5 0.09
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (71 bp):
TATTTTATTACATCAAATAATATCAAAATATTCAAAATGTCTATACAAATATATTAAAATAAACT
ATTTTG
Found at i:24092890 original size:30 final size:30
Alignment explanation
Indices: 24092839--24092906 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
24092829 TTGCTATTGC
*
24092839 TGGGCCTA-GTGATTGTATGGGCGCT-GATGA
1 TGGGCC-AGGTGAATGTATGGGC-CTCGATGA
* *
24092869 TGGGCCAGGTGAATGTTTGGGCCTCGTTGA
1 TGGGCCAGGTGAATGTATGGGCCTCGATGA
24092899 TGGGCCAG
1 TGGGCCAG
24092907 TGTCGTCGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.15, C:0.16, G:0.41, T:0.28
Consensus pattern (30 bp):
TGGGCCAGGTGAATGTATGGGCCTCGATGA
Found at i:24094585 original size:28 final size:27
Alignment explanation
Indices: 24094546--24094603 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
24094536 TAAAAAATTC
*
24094546 AAAAAAAT-AAAATTTAAAACTTTTTT
1 AAAAAAATAAAAAATTAAAACTTTTTT
*
24094572 AAAAATAATTAAAAAATTAAAGCTTTTTT
1 AAAAA-AA-TAAAAAATTAAAACTTTTTT
24094601 AAA
1 AAA
24094604 TAGGAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
27 2 0.07
28 1 0.04
29 19 0.70
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (27 bp):
AAAAAAATAAAAAATTAAAACTTTTTT
Found at i:24094619 original size:11 final size:11
Alignment explanation
Indices: 24094605--24094638 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
24094595 TTTTTTAAAT
24094605 AGGAATTTGAG
1 AGGAATTTGAG
24094616 AGGAATTTGAG
1 AGGAATTTGAG
*
24094627 A-GAAATTGAG
1 AGGAATTTGAG
24094637 AG
1 AG
24094639 AAAGAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:24097150 original size:13 final size:13
Alignment explanation
Indices: 24097134--24097164 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24097124 ATGGAAGGAA
24097134 GAAATTTTATTAG
1 GAAATTTTATTAG
24097147 GAAATTTTATTAG
1 GAAATTTTATTAG
*
24097160 AAAAT
1 GAAAT
24097165 AATTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
GAAATTTTATTAG
Found at i:24097190 original size:12 final size:12
Alignment explanation
Indices: 24097173--24097198 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24097163 ATAATTAAAA
24097173 TATTTTGTTTGT
1 TATTTTGTTTGT
24097185 TATTTTGTTTGT
1 TATTTTGTTTGT
24097197 TA
1 TA
24097199 AGGCAGAAAG
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:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (12 bp):
TATTTTGTTTGT
Found at i:24097346 original size:20 final size:18
Alignment explanation
Indices: 24097318--24097362 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24097308 ATTTTTAAGA
24097318 GAGAAAAGAGCAGAGAAAGG
1 GAGAAAAGAG-A-AGAAAGG
* *
24097338 GAGAGAAGAGAAGATAGG
1 GAGAAAAGAGAAGAAAGG
24097356 GAGAAAA
1 GAGAAAA
24097363 TCTGTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 12 0.55
19 1 0.05
20 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.40, T:0.02
Consensus pattern (18 bp):
GAGAAAAGAGAAGAAAGG
Found at i:24103415 original size:1 final size:1
Alignment explanation
Indices: 24103409--24103444 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
24103399 TGTTGTAGTG
24103409 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24103445 GTGTTGTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24104184 original size:24 final size:24
Alignment explanation
Indices: 24104113--24104184 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
24104103 ATACTCTCTC
*
24104113 TTTTTTTTATAATTT-A-ATTTCA
1 TTTTTTTTATAATTTGATATTTAA
* * *
24104135 TTTAATTTTTTTAATTTGGTACTTAA
1 TTT--TTTTTATAATTTGATATTTAA
*
24104161 TTTTTTTTCTAATTTGATATTTAA
1 TTTTTTTTATAATTTGATATTTAA
24104185 ATTTATCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 3 0.08
24 29 0.74
26 7 0.18
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTTTTTATAATTTGATATTTAA
Found at i:24104804 original size:35 final size:35
Alignment explanation
Indices: 24104765--24104834 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
24104755 TAAATGAATA
24104765 AAATTTAATGATTATCATAACTTACATAAACATTT
1 AAATTTAATGATTATCATAACTTACATAAACATTT
*
24104800 AAATTTAATGATTATCATAATTTACATAAACATTT
1 AAATTTAATGATTATCATAACTTACATAAACATTT
24104835 GAAGAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (35 bp):
AAATTTAATGATTATCATAACTTACATAAACATTT
Found at i:24118100 original size:415 final size:418
Alignment explanation
Indices: 24117327--24118151 Score: 1476
Period size: 415 Copynumber: 2.0 Consensus size: 418
24117317 ACAGTTAAGC
* *
24117327 AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGTAGAGGCTCAATGAAAATATGAAGAA
1 AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAA
*
24117392 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAGGAAACAAAAGCAACAAGAAAATATTATGAC
66 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAACAAAAGCAACAAGAAAATATTATGAC
*
24117457 GAACTCCAGCTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
131 GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
24117522 GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
196 GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
24117587 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
261 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
24117652 TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
326 TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
*
24117717 GATTGGTAAAATATGCTAAAATTAAAGT
391 AATTGGTAAAATATGCTAAAATTAAAGT
* * * * *
24117745 AAATTGCTCAACTTAAAGTGGAGATAACATCAAGAGAAGCAGAGGTTTAAAGAAAATATGAAGAA
1 AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAA
*
24117810 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAGCAAAAGCAACAAG-AAA-A-TATGAC
66 CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAACAAAAGCAACAAGAAAATATTATGAC
*
24117872 GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCGCCATCTTA
131 GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
*
24117937 GTCTTTTGTTTTCTTATTGTGAGAATATCTTTACAATACAACTTTTGAATGTAATATATTTTGTT
196 GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
*
24118002 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATTATTTAGATTTGAAGT
261 ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
* * *
24118067 TTTTGGTTGGATTTGATGTTGCAGGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
326 TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
24118132 AATTGGTAAAATATGCTAAA
391 AATTGGTAAAATATGCTAAA
24118152 TTTCCCAAAA
Statistics
Matches: 390, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
415 278 0.71
416 1 0.00
417 3 0.01
418 108 0.28
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (418 bp):
AAATTGCTCAACTTAAAGCGAAGACAACATCAAGAGAAGCAGAGGCTCAAAGAAAATATGAAGAA
CTCCAGCTATAACCTAAAGCGGAGGCAGCAGCGAAGAAACAAAAGCAACAAGAAAATATTATGAC
GAACTCCAACTACAGCTTCAGAATATGATGAAAATGTTTCAGCAGTCGCAGAATCCACCATCTTA
GTCTTTTGTTTTCTTATTGTGAGAATATCTTAACAATACAACTTTTGAATGTAATATATTTTGTT
ATTTCATTTATTAATTTAGATCATATACATATTTCATTCATGATAGTATCATTTAGATTTGAAGT
TTTTGATTGGATTTGATGTTACAAGAAATTATGTTGAAAATTTGGGTTCTATATGAATTAAAATG
AATTGGTAAAATATGCTAAAATTAAAGT
Found at i:24118776 original size:14 final size:15
Alignment explanation
Indices: 24118747--24118794 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
24118737 ATTTTTATTT
24118747 TATTTAATATTAATA
1 TATTTAATATTAATA
*
24118762 TATTT-ATATTTATATT
1 TATTTAATA-TTA-ATA
24118778 TATTTAATATTAATA
1 TATTTAATATTAATA
24118793 TA
1 TA
24118795 AAATGTGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 12 0.43
16 10 0.36
17 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTAATATTAATA
Found at i:24118784 original size:25 final size:26
Alignment explanation
Indices: 24118737--24118787 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24118727 AGGGTGGTGG
*
24118737 ATTTTTATTTTATTTAATATTAATAT
1 ATTTATATTTTATTTAATATTAATAT
24118763 ATTTATATTTATATTT-AT-TTAATAT
1 ATTTATATTT-TATTTAATATTAATAT
24118788 TAATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTATATTTTATTTAATATTAATAT
Found at i:24119791 original size:138 final size:138
Alignment explanation
Indices: 24119543--24119817 Score: 514
Period size: 138 Copynumber: 2.0 Consensus size: 138
24119533 CTTTTGTTGA
24119543 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
1 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
*
24119608 AAAGAATGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
66 AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
24119673 ACAAAAAG
131 ACAAAAAG
**
24119681 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTATTTGT
1 AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
24119746 AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
66 AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
*
24119811 GCAAAAA
131 ACAAAAA
24119818 AGTAGACATG
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (138 bp):
AAAAAACTATCTGAGACAAACCTTTCGAATGCCGAGTCCGTGCCATAACCTTGTGGGTTACCTGT
AAAGAAGGAAACTAAGGGGATGAGCTTAAGAATCTCAATGTGGGTCTAAACACAAGAAAATCAAT
ACAAAAAG
Found at i:24122938 original size:14 final size:14
Alignment explanation
Indices: 24122919--24122948 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24122909 ACAACAAAAC
24122919 ATGAGTGCATATCT
1 ATGAGTGCATATCT
24122933 ATGAGTGCATATCT
1 ATGAGTGCATATCT
24122947 AT
1 AT
24122949 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (14 bp):
ATGAGTGCATATCT
Found at i:24124076 original size:38 final size:38
Alignment explanation
Indices: 24124034--24124128 Score: 129
Period size: 38 Copynumber: 2.5 Consensus size: 38
24124024 TTATTGATTG
*
24124034 CATGTTCAA-CATGCCTACTATTACTATTAAACTGAATA
1 CATGTT-AAGCATGCCTACTACTACTATTAAACTGAATA
* *
24124072 CATGTTAAGCATGTCTACTGCTACTATTAAACTGAATA
1 CATGTTAAGCATGCCTACTACTACTATTAAACTGAATA
* *
24124110 CATGTTAAGTATGTCTACT
1 CATGTTAAGCATGCCTACT
24124129 GTTTTTACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 2 0.04
38 50 0.96
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (38 bp):
CATGTTAAGCATGCCTACTACTACTATTAAACTGAATA
Found at i:24124129 original size:38 final size:38
Alignment explanation
Indices: 24124055--24124129 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
24124045 TGCCTACTAT
24124055 TACTATTAAACTGAATACATGTTAAGCATGTCTACTGC
1 TACTATTAAACTGAATACATGTTAAGCATGTCTACTGC
*
24124093 TACTATTAAACTGAATACATGTTAAGTATGTCTACTG
1 TACTATTAAACTGAATACATGTTAAGCATGTCTACTG
24124130 TTTTTACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (38 bp):
TACTATTAAACTGAATACATGTTAAGCATGTCTACTGC
Found at i:24125915 original size:269 final size:269
Alignment explanation
Indices: 24125429--24125966 Score: 736
Period size: 269 Copynumber: 2.0 Consensus size: 269
24125419 ACTTGAACTT
* * *
24125429 TTTTGTTTGAAAACTGTAGATATACTTCAAAATTTAAACTTTCGAGAATACAATATGAACACTCA
1 TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATAAACACTCA
* * *
24125494 AGGTAGACGTGGTAGGGGTAGGCCGCGTAGGGCTGCACCCGCTGAGCCACCCATTGTTCAGAGGG
66 AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
* * **
24125559 GAAACCAAATCCTTAAAAAGGAGTACGTGGAGAATTCTACCGCCAATGGTGACAAAGGTTACGAG
131 AAAACCAAATCCCTAAAAAGGAGTACGTGGAGAATTCTACCAACAATGGTGACAAAGGTTACGAG
* * * * * *
24125624 AATAGAGATGATGCATTGTCGCAAACAATGCTGAGGG-TTCTGCAAAGGGTTACTGGAGCCCAAG
196 AACAGAGACGATGCAGTGTCGCAAACAATGCTG-GGGATTCTACAAAGGGTTACTAGAGCCCAAA
24125688 CTAGATCGGG
260 CTAGATCGGG
* * * **
24125698 TTTTGTTTGAAAACTATAGATATACTTTAGAACTTAAATTTTTTAGAATACAATATAAACACTCA
1 TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATAAACACTCA
* * * *
24125763 AGGTAGACGTGGTAGGGGTAGGCTGCATAGGGTTGCACCCATTGAGCCACCCATTGTTTAGAAGG
66 AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
* ** ** *
24125828 AAAACCCAATCCCTAAGGAGGAGTACGTGGAGAATTCTACCAACAATGGTGGTAGAGGTTACGAG
131 AAAACCAAATCCCTAAAAAGGAGTACGTGGAGAATTCTACCAACAATGGTGACAAAGGTTACGAG
* * * * *
24125893 AACGGAGACGATGCAGTGTCGCAAGCAATGTTGGGGATTTTACAAAGGGTTGCTAGAGCCCAAAC
196 AACAGAGACGATGCAGTGTCGCAAACAATGCTGGGGATTCTACAAAGGGTTACTAGAGCCCAAAC
24125958 TAGATCGGG
261 TAGATCGGG
24125967 GAGCCATGGA
Statistics
Matches: 232, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
268 3 0.01
269 229 0.99
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (269 bp):
TTTTGTTTGAAAACTATAGATATACTTCAAAACTTAAACTTTCGAGAATACAATATAAACACTCA
AGGTAGACGTGGTAGGGGTAGGCCGCATAGGGCTGCACCCACTGAGCCACCCATTGTTCAGAAGG
AAAACCAAATCCCTAAAAAGGAGTACGTGGAGAATTCTACCAACAATGGTGACAAAGGTTACGAG
AACAGAGACGATGCAGTGTCGCAAACAATGCTGGGGATTCTACAAAGGGTTACTAGAGCCCAAAC
TAGATCGGG
Found at i:24126638 original size:26 final size:27
Alignment explanation
Indices: 24126599--24126661 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
24126589 AGTACATGTA
* *
24126599 AATTTTGTTATTATTTAA-AGAA-ATAT
1 AATTTTATTATTATATAATA-AATATAT
*
24126625 AATTTTATTTTTATATAATAAATATAT
1 AATTTTATTATTATATAATAAATATAT
*
24126652 AAATTTATTA
1 AATTTTATTA
24126662 CCATAAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
AATTTTATTATTATATAATAAATATAT
Found at i:24126724 original size:15 final size:15
Alignment explanation
Indices: 24126706--24126736 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24126696 TTGGTTTTAA
*
24126706 ATAATAAATTATTAT
1 ATAATAAATTAATAT
24126721 ATAATAAATTAATAT
1 ATAATAAATTAATAT
24126736 A
1 A
24126737 CCCAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAAATTAATAT
Found at i:24128271 original size:29 final size:30
Alignment explanation
Indices: 24128203--24128273 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
24128193 AAAAATTTTA
* *
24128203 ATAAATTTAGGCTTCAATTTTTACAAAATTT
1 ATAAATTTA-GCTTCAATTTCTACAAAATTC
* *
24128234 ATCATTTTAGC-TCAATTTCTA-AAAATTC
1 ATAAATTTAGCTTCAATTTCTACAAAATTC
24128262 AGTAAATTTAGC
1 A-TAAATTTAGC
24128274 CCTCAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 7 0.21
29 17 0.52
30 2 0.06
31 7 0.21
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (30 bp):
ATAAATTTAGCTTCAATTTCTACAAAATTC
Found at i:24128709 original size:61 final size:62
Alignment explanation
Indices: 24128644--24128770 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 62
24128634 TTTTTCTTTT
* * ** * * *
24128644 TTGAAACTTTT-AGAATTATAACCAACTTTATAAATTTTGTAAATGTTGAGGGTTAAATTTA
1 TTGAAACTTTTAAGAACTAGAACCAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTA
* * * *
24128705 TTG-AATTTTTAAGAACTAGAACTAAAATGATAAATTTTGTAAATATTGATGGCTAAATTTG
1 TTGAAACTTTTAAGAACTAGAACCAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTA
24128766 TTGAA
1 TTGAA
24128771 TTTTTTAACT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
60 6 0.11
61 46 0.87
62 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (62 bp):
TTGAAACTTTTAAGAACTAGAACCAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTA
Found at i:24135675 original size:57 final size:57
Alignment explanation
Indices: 24135581--24135688 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
24135571 TTGTTCCAAC
* *
24135581 GAACATGACTATCTCTTGCTATCTCATGGACAGTTTGAGTTAATGTTAAAAGCTGAG
1 GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAAGCTGAG
* *
24135638 GAACATGACTATCTCTTGCTATTTCATGGATAATTTGAATTAATGTTAAAA
1 GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAA
24135689 TAGTGTATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (57 bp):
GAACATGACTATCTCTTGCTATCTCATGGACAATTTGAATTAATGTTAAAAGCTGAG
Found at i:24136449 original size:22 final size:20
Alignment explanation
Indices: 24136406--24136464 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
24136396 CTAAAGAGAG
*
24136406 AAAAATAAGTTTTTAATCTTTT
1 AAAAATAA-TTTTT-ATATTTT
*
24136428 AAATATTATATTTTTATATTTT
1 AAA-AATA-ATTTTTATATTTT
24136450 AAAAATAATTTTTAT
1 AAAAATAATTTTTAT
24136465 TGTAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.25
21 3 0.09
22 12 0.38
23 8 0.25
24 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AAAAATAATTTTTATATTTT
Found at i:24137428 original size:15 final size:15
Alignment explanation
Indices: 24137410--24137444 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24137400 TTTCGAGAAT
24137410 TTTTAAATTTATATA
1 TTTTAAATTTATATA
* *
24137425 TTTTAAATTTTTATT
1 TTTTAAATTTATATA
24137440 TTTTA
1 TTTTA
24137445 GAATCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTAAATTTATATA
Found at i:24147447 original size:101 final size:101
Alignment explanation
Indices: 24147317--24147556 Score: 374
Period size: 101 Copynumber: 2.4 Consensus size: 101
24147307 TGAACTGACG
24147317 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCA-TGACAATATT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATTG-CAATATT
24147381 TATATGTAAAACCATAGCTAGGATATGACATTCTGAT
65 TATATGTAAAACCATAGCTAGGATATGACATTCTGAT
* * * *
24147418 GATAAGACCATAACTGGGTTATGACACTATGAACGTAATACCATGGTTGGACCATTGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATTGCAATATTT
* * * *
24147483 ATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
66 ATATGTAAAACCATAGCTAGGATATGACATTCTGAT
* *
24147519 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
24147557 AGGATGAATT
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
101 125 0.98
102 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATTGCAATATTT
ATATGTAAAACCATAGCTAGGATATGACATTCTGAT
Found at i:24150233 original size:21 final size:21
Alignment explanation
Indices: 24150209--24150258 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
24150199 ATGATAACGT
*
24150209 AAAATGAAATCAAA-ATTAAA
1 AAAAAGAAATCAAACATTAAA
* *
24150229 AAAAAGATATGAAACATTAAA
1 AAAAAGAAATCAAACATTAAA
*
24150250 TAAAAGAAA
1 AAAAAGAAA
24150259 CTTCCTGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAAAGAAATCAAACATTAAA
Found at i:24150747 original size:21 final size:20
Alignment explanation
Indices: 24150723--24150769 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
24150713 TATAGGTATT
24150723 AATTTATTAATTATAAA-TAAA
1 AATTTATTAA--ATAAATTAAA
*
24150744 AATTAATTAAATAAATTAAA
1 AATTTATTAAATAAATTAAA
*
24150764 CATTTA
1 AATTTA
24150770 ATGTATCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTATTAAATAAATTAAA
Found at i:24155262 original size:22 final size:22
Alignment explanation
Indices: 24155234--24155276 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24155224 AGTTCTTTAC
* * *
24155234 CTTTGTTTCTTTTCCTCTGGTT
1 CTTTGTTCCTCTTCCGCTGGTT
24155256 CTTTGTTCCTCTTCCGCTGGT
1 CTTTGTTCCTCTTCCGCTGGT
24155277 GAGTTTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (22 bp):
CTTTGTTCCTCTTCCGCTGGTT
Found at i:24156956 original size:21 final size:19
Alignment explanation
Indices: 24156910--24156965 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
24156900 AATCTTCGAA
24156910 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24156929 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24156948 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
24156966 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24156987 original size:23 final size:24
Alignment explanation
Indices: 24156911--24156988 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 24
24156901 ATCTTCGAAG
24156911 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
24156930 ATATGCAATCTTAG---ATATGAT
1 ATATGCAATCTTAGAAGATATGAT
24156951 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
24156975 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
24156989 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.34
21 14 0.28
23 12 0.24
24 7 0.14
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:24157635 original size:23 final size:21
Alignment explanation
Indices: 24157593--24157658 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
24157583 AATTATTTCT
*
24157593 TTTATTTTTTTAATTAGTTTTTA
1 TTTATTTATTT-ATT-GTTTTTA
*
24157616 TTTATATATATTTGTTGTTTTTA
1 TTTAT-T-TATTTATTGTTTTTA
24157639 TTTATTTATTTATT-TTTTTA
1 TTTATTTATTTATTGTTTTTA
24157659 AAACAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 6 0.16
21 7 0.18
22 1 0.03
23 17 0.45
24 3 0.08
25 4 0.11
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTATTTATTTATTGTTTTTA
Found at i:24164057 original size:44 final size:43
Alignment explanation
Indices: 24163869--24164323 Score: 191
Period size: 44 Copynumber: 10.4 Consensus size: 43
24163859 GAGCAACAAC
* * * *
24163869 GGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAATAGT
1 GGAGTAGATTGAAGA-CGCAGATCTTATCTCCCTAAGCAGTAGT
* * * *
24163913 GGAGTAGATCGAGGACGGCAAATCTTATCTTTCC-AAG-A-TAGT
1 GGAGTAGATTGAAGAC-GCAGATCTTATC-TCCCTAAGCAGTAGT
* * * * *
24163955 GGGAAGTAGATTTAAGCCAC-CA-AGCCTTGTCTCCCTGAGCAGTAGC
1 -GG-AGTAGATTGAAG--ACGCAGA-TCTTATCTCCCTAAGCAGTAGT
* * *
24164001 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGTAGATTGAAGA-CGCAGATCTTATCTCCCTAAGCAGTAGT
* * *
24164045 GGAGAAGATTGAAGACGACAAATCTTATCTTTCC-AAG-A-TAGT
1 GGAGTAGATTGAAGACG-CAGATCTTATC-TCCCTAAGCAGTAGT
* ** * * * * *
24164087 GGGAAGTAGATTTAAGCCAC-CAGGCCTTGTCTCTCTGAGCAGCAGC
1 -GG-AGTAGATTGAAG--ACGCAGATCTTATCTCCCTAAGCAGTAGT
* * *
24164133 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGTAGATTGAAGA-CGCAGATCTTATCTCCCTAAGCAGTAGT
* * * *
24164177 GAAGAAGATTGAAGACGACAAATCTTATCTTTCC-AAG-A-TAGT
1 GGAGTAGATTGAAGACG-CAGATCTTATC-TCCCTAAGCAGTAGT
** * * * * * * *
24164219 GGGAAACAGATTTAACAC-CA-AGCCTTGTCTCCCTGAGCAGCAGC
1 -GG-AGTAGATTGAAGACGCAGA-TCTTATCTCCCTAAGCAGTAGT
* * *
24164263 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGTAGATTGAAGA-CGCAGATCTTATCTCCCTAAGCAGTAGT
*
24164307 GGAGCAGATTGAAGACG
1 GGAGTAGATTGAAGACG
24164324 GAAAATCATA
Statistics
Matches: 294, Mismatches: 82, Indels: 71
0.66 0.18 0.16
Matches are distributed among these distances:
41 4 0.01
42 31 0.11
43 21 0.07
44 212 0.72
45 17 0.06
46 9 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
GGAGTAGATTGAAGACGCAGATCTTATCTCCCTAAGCAGTAGT
Found at i:24164072 original size:132 final size:132
Alignment explanation
Indices: 24163844--24164386 Score: 867
Period size: 132 Copynumber: 4.1 Consensus size: 132
24163834 GTGAAACACT
* * * * * *
24163844 AAGCCTTGTCTCCTTGAGCAACAACGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * *
24163909 TAGTGGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
66 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
24163974 CC
131 CC
*
24163976 AAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
*
24164041 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
66 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
24164106 CC
131 CC
* *
24164108 AGGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
24164173 TAGTGAAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA--CA
66 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
24164236 CC
131 CC
24164238 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * *
24164303 TAGTGGAGCAGATTGAAGACGGA-AAATCATATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCT
66 TAGTGGAGAAGATTGAAGAC-GACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
24164367 ACC
130 ACC
24164370 AAGCCTTGTCTCCCTGA
1 AAGCCTTGTCTCCCTGA
24164387 AGTTGTAGTG
Statistics
Matches: 383, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
130 120 0.31
131 2 0.01
132 261 0.68
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:24164318 original size:262 final size:262
Alignment explanation
Indices: 24163844--24164382 Score: 857
Period size: 262 Copynumber: 2.0 Consensus size: 262
24163834 GTGAAACACT
*
24163844 AAGCCTTGTCTCCTTGAGCAACAACGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAA
1 AAGCCTTGTCTCC-TGAGCAACAACGGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAA
* * * * **
24163909 TAGTGGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCA
65 TAGTGAAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA-CCA
*
24163974 CCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
129 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* *
24164039 AGTAGTGGAGAAGATTGAAGAC-GACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAG
194 AGTAGTGGAGAAGATTGAAGACGGA-AAATCATATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
24164103 CCACC
258 CCACC
* * * * *
24164108 AGGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTC-CTGAGCAACAACGGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAA
*
24164173 TAGTGAAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA-CAC
65 TAGTGAAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAACCAC
24164237 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
130 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* * *
24164302 GTAGTGGAGCAGATTGAAGACGGAAAATCATATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCT
195 GTAGTGGAGAAGATTGAAGACGGAAAATCATATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
24164367 ACC
260 ACC
24164370 AAGCCTTGTCTCC
1 AAGCCTTGTCTCC
24164383 CTGAAGTTGT
Statistics
Matches: 253, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
261 1 0.00
262 138 0.55
263 2 0.01
264 111 0.44
265 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (262 bp):
AAGCCTTGTCTCCTGAGCAACAACGGAGTAGGTTGAAGATCGTAGATCTTATCTCCCTAAGCAAT
AGTGAAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAACCACC
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATTGAAGACGGAAAATCATATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:24164565 original size:45 final size:44
Alignment explanation
Indices: 24164457--24165396 Score: 293
Period size: 44 Copynumber: 21.6 Consensus size: 44
24164447 TCGCATCTAG
*
24164457 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* *
24164501 TCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGCA-TATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGTA-AGCAAA
* *
24164546 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-TTA--AAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AA
* * ** * * **
24164590 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA--AACCTTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * ** * *
24164634 TCTTATCTCTCTGAAGTTACAG-AGAGCAGATCGCATTTAG----
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAA
* * *
24164674 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
24164718 TCTTATC-CTCCTGAAATTGCAGT-GAGGCGGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * * * *
24164763 TCTTATCTCTCTAAAGTTGTAGTGGAGCAG-GTTA--AAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AA
* * ** * * **
24164807 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA--AACCTTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * * * * *
24164851 TCTTATCTCTCTGAAGTTGCAG-AGAGCATA-T-CG-CATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
*
24164891 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * * *
24164936 TCTTATCTCCCTGAAGTTGTAGTGAAGCAG-GTTA--AAGCTGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--A-AA
* * ** * * *
24164980 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA--AACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--AAA
* * * * *
24165024 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T---TACATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA-AGCAAA
* * *
24165064 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* *
24165108 TCTTATC-CTCCT-AATGTTGCAGT-GAGGCAGACTGAAG-ATGGCGAA
1 TCTTATCTC-CCTGAA-GTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
* * * * *
24165153 TCTTATCTCCCTGAAGGTGCAGTGGGGCATACTAAATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * * ** * *
24165197 TCATGTCTCCCTGATGTTGCAGTGGAGTGGATTAA--AACCACATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-A-A
** * * * * * * *
24165241 TCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-TCA--CATCGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * * *
24165282 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTCATGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAA
* * * * * *
24165327 TCTTATCCCCCTGAAATTGCAGTGGGGCATACTAAATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
24165371 TCCTGTCTCCCT-AAGTTGTAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
24165397 TGGATTAGAG
Statistics
Matches: 659, Mismatches: 171, Indels: 133
0.68 0.18 0.14
Matches are distributed among these distances:
39 1 0.00
40 64 0.10
41 51 0.08
42 19 0.03
43 48 0.07
44 301 0.46
45 161 0.24
46 14 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:24164638 original size:217 final size:216
Alignment explanation
Indices: 24164382--24164960 Score: 885
Period size: 217 Copynumber: 2.7 Consensus size: 216
24164372 GCCTTGTCTC
* * *
24164382 CCTGAAGTTGTAGTGAAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
1 CCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
24164447 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
66 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCCTCC
* * * *
24164512 TGAAGTTGCAGTGAGACAGACTGCATATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
130 TGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
24164577 TTAAAGCCGATAATCCTATCTT
195 TTAAAGCCGATAATCCTATCTT
24164599 CCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
1 CCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
* *
24164664 TCGCATTTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCC
66 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCCTCC
* * * * * *
24164729 TGAAATTGCAGTGAGGCGGACTGAAGATGGCAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGG
130 TGAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
24164794 TTAAAGCCGATAATCCTATCTT
195 TTAAAGCCGATAATCCTATCTT
* *
24164816 CCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCATA
1 CCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
* * *
24164881 TCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTAT-C
66 TCGCATCTAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCTTATCC
*
24164943 TCCCTGAAGTTGTAGTGA
127 T-CCTGAAGTTGCAGTGA
24164961 AGCAGGTTAA
Statistics
Matches: 332, Mismatches: 25, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
216 3 0.01
217 302 0.91
218 27 0.08
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (216 bp):
CCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCCTCCT
GAAGTTGCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
TAAAGCCGATAATCCTATCTT
Found at i:24165028 original size:390 final size:391
Alignment explanation
Indices: 24164457--24165350 Score: 1179
Period size: 390 Copynumber: 2.3 Consensus size: 391
24164447 TCGCATCTAG
* * * * *
24164457 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCA--CATCAAGTCTTATCCTCCTGAAGTTGCA
* * * * *
24164522 GTGAGACAGACTGCATATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGA
63 GTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGA
*
24164587 TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
128 TAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
* *
24164652 ACAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAA
193 ACAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAA
* * *
24164717 GTCTTATCCTCCTGAA-ATTGCAGTGAGGCGGACTGAAGATGGCAAATCTTATCTCTCTAAAGTT
258 GTCTTATCCTCCT-AATATTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGGT
* ** * ** * *
24164781 GTAGTGGAGCA-GGTTAA-AGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
322 GCAGTGGAGCATACTAAATAAAC-A-AATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
***
24164844 CCTTGGA
385 CCACAGA
* *
24164851 TCTTATCTCTCTGAAGTTGCAG-AGAGCATATCGCATCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCCTCCTGAAGTTGCAGTG
* * *
24164915 AGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGGTTAAAGCTGATAA
66 AGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAA
*
24164980 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCA
131 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACA
* * * * *
24165045 GAGAGCAGATTACATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAATCAAGTC
196 GAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTC
* * *
24165110 TTATCCTCCTAATGTTGCAGTGAGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGGTGCAG
261 TTATCCTCCTAATATTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGGTGCAG
* * * *
24165175 TGGGGCATACTAAATAAACAAATCATGTCTCCCTGATGTTGCAGTGGAGTGGATTAAAACCACAT
326 TGGAGCATACTAAATAAACAAATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAG
24165240 A
391 A
* * *
24165241 TCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCACATCGAGTCTTAT-CTCCTTGAAGTTGCAGT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCCTCC-TGAAGTTGCAGT
* * ** * * *
24165305 G-GAGCAGACTCATGAAAGCAAGTCTTATCCCCCTGAAATTGCAGTG
65 GAG-GCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTG
24165351 GGGCATACTA
Statistics
Matches: 436, Mismatches: 58, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
389 2 0.00
390 332 0.76
391 72 0.17
392 3 0.01
393 6 0.01
394 21 0.05
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (391 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCCTCCTGAAGTTGCAGTG
AGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAA
TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACA
GAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTC
TTATCCTCCTAATATTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGGTGCAG
TGGAGCATACTAAATAAACAAATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAG
A
Found at i:24165040 original size:217 final size:217
Alignment explanation
Indices: 24164378--24165268 Score: 845
Period size: 217 Copynumber: 4.1 Consensus size: 217
24164368 CCAAGCCTTG
* * * *
24164378 TCTCCCTGAAGTTGTAGTGAAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
1 TCTCTCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
* *
24164443 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAGTCTTAT
66 CAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAT-AGCAAATCTTAT
** * *
24164507 CCTCCTGAAGTTGCAGTG-AGACAGACTGCATATGGCAAATCTTATCTCCCTGAGGTTGCAGTGG
130 CCTCCTGAAGTTGCAGTGAAG-CAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
** *
24164571 AGCAGATTAAAGCCGATAATCCTA
194 AGTGGATTAAAACCGATAATCCTA
24164595 TCT-TCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGA
1 TCTCT-CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGA
** * *
24164659 GCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCA-AGCAAGTCTTA
65 GCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-ATAGCAAATCTTA
* * * * * * *
24164723 TCCTCCTGAAATTGCAGTGAGGCGGACTGAAGATGGCAAATCTTATCTCTCTAAAGTTGTAGTGG
129 TCCTCCTGAAGTTGCAGTGAAGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
24164788 AGCAGG-TTAAAGCCGATAATCCTA
194 AG-TGGATTAAAACCGATAATCCTA
*
24164812 TCT-TCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
1 TCTCT-CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGA
* *
24164876 GCATATCGCATCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCT
65 GCAGATCGCATCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGATAGCAAATCT
* ** * * *
24164939 TAT-CTCCCTGAAGTTGTAGTGAAGCAGGTTAAAGCT-G-ATAATCCTATCTTCCTGAAGTTGCA
127 TATCCT-CCTGAAGTTGCAGTGAAGCAGACTAAAGATGGCA-AATCTTATCTCCCTGAAGTTGCA
* *
24165001 GTGGAGTGGATTAAAACC-TTAGATCTTA
190 GTGGAGTGGATTAAAACCGATA-ATCCTA
* ** * * * * ** *
24165029 TCTCTCTGAAGTTGCAG-AGAGCAGATT-ACATC-TAG-TCTTATCTCCCTGAAGTTGTAGTGGA
1 TCTCTCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAG-AGA
* * * *
24165090 GCAGACTAAGTAATCAAGTCTTATC-CTCCT-AATGTTGCAGT-GAGGCAGACTGAAGATGGCGA
65 GCAGA-T-CG-CATCAAGTCTTATCTC-CCTGAA-GTTGCAGTGGA-GCAGACT-AAGATAGCAA
* ** * * ** * * *
24165152 ATCTTAT-CTCCCTGAAGGTGCAGTGGGGCATACTAAATA-AACAAATCATGTCTCCCTGATGTT
123 ATCTTATCCT-CCTGAAGTTGCAGTGAAGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTT
* *
24165215 GCAGTGGAGTGGATTAAAACC-ACATATCTTA
187 GCAGTGGAGTGGATTAAAACCGATA-ATCCTA
* *
24165246 TCTCTTTGAAGTTGCAGTAGAGT
1 TCTCTCTGAAGTTGCAGTGGAGT
24165269 AGATCACATC
Statistics
Matches: 579, Mismatches: 73, Indels: 43
0.83 0.11 0.06
Matches are distributed among these distances:
213 20 0.03
214 8 0.01
215 4 0.01
216 18 0.03
217 486 0.84
218 43 0.07
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (217 bp):
TCTCTCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
CAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATAGCAAATCTTATC
CTCCTGAAGTTGCAGTGAAGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
TGGATTAAAACCGATAATCCTA
Found at i:24165088 original size:84 final size:84
Alignment explanation
Indices: 24164378--24165090 Score: 277
Period size: 84 Copynumber: 8.3 Consensus size: 84
24164368 CCAAGCCTTG
* * * * *
24164378 TCTCCCTGAAGTTGTAGTGAAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAG
**
24164443 CAGATCGCATCTAGTCTTA
66 CAGATTACATCTAGTCTTA
** * * * *
24164462 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCTTATC-CTCCTGAAGTTGCAGT
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAA--AACCTTAGATCTTATCTCT-CTGAAGTTGCAGA
* * * *
24164524 GAGACAGACTGCATATGGCAAATCTTA
63 GAG-CAGA-T-TACAT--CTAGTCTTA
* ** * * * *
24164551 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGATA-ATCCTATCT-TCCTGAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACC-TTAGATCTTATCTCT-CTGAAGTTGCAG-A
** * * *
24164614 GAGTGGATTAAAACCTTGGATCTTA
63 GAGCAGATT-ACATC-TAG-TCTTA
* * * ** *** * *
24164639 TCTCTCTGAAGTTACAG-AGAGCAGA-TCGCA-TTTAG-TCTTATCTCCCTGAAGTTGCA-ATGG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGA--G
* * *
24164699 AGCAGACTAAGCAAGCAAGTCTTA
64 AGCAGA-TTA-C-ATCTAGTCTTA
* * * * **** * * *
24164723 TC-CTCCTGAAATTGCAGT-GAGGCGGACTGAAGATGGCAAATCTTATCTCTCTAAAGTTGTAGT
1 TCTC-CCTGAAGTTGCAGTGGA-GTGGA-TTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAG-
* * * * * *
24164786 GGAGCAGGTTAAAGCCGATAATCCTA
62 AGAGCAGATTACA-TC--TAGTCTTA
* *
24164812 TCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAG
* ** *
24164877 CATATCGCATCAAGTCTTA
66 CAGATTACATCTAGTCTTA
* * **** * * *
24164896 TC-CTCCTGAAGTTGCAGT-GAG-GCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAG
1 TCTC-CCTGAAGTTGCAGTGGAGTG--GA-TTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAG
* * * * * *
24164958 TGAAGCAGGTTAAAGCTGATAATCCTA
62 AG-AGCAGATTACA--T-CTAGTCTTA
*
24164985 TCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAG
24165050 CAGATTACATCTAGTCTTA
66 CAGATTACATCTAGTCTTA
*
24165069 TCTCCCTGAAGTTGTAGTGGAG
1 TCTCCCTGAAGTTGCAGTGGAG
24165091 CAGACTAAGT
Statistics
Matches: 447, Mismatches: 134, Indels: 96
0.66 0.20 0.14
Matches are distributed among these distances:
82 1 0.00
83 6 0.01
84 140 0.31
85 38 0.09
86 16 0.04
87 30 0.07
88 78 0.17
89 129 0.29
90 8 0.02
91 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (84 bp):
TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAG
CAGATTACATCTAGTCTTA
Found at i:24165168 original size:173 final size:172
Alignment explanation
Indices: 24164670--24165177 Score: 546
Period size: 173 Copynumber: 2.9 Consensus size: 172
24164660 CAGATCGCAT
* * *
24164670 TTAG-TCTTATCTCCCTGAAGTTGCA-ATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAA
1 TTAGATCTTATCTCTCTGAAGTTGCAGA--GAGCAGA-TCA-C-ATCAAGTCTTATCCTCCTGAA
* * * * * * **
24164733 ATTGCAGTGAGGCGGACTGAAGATGGCAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGGTTAA
61 GTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAA
** *
24164798 AGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACC
125 AGATGAGAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACC
* * *
24164846 TTGGATCTTATCTCTCTGAAGTTGCAGAGAGCATATCGCATCAAGTCTTATCCTCCTGAAGTTGC
1 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCAAGTCTTATCCTCCTGAAGTTGC
* ** *
24164911 AGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGGTTAAAGCTG
66 AGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATG
*
24164976 ATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACC
130 AGAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACC
* *
24165019 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTACATCTAGTCTTAT-CTCCCTGAAGTTG
1 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCAAGTCTTATCCT-CCTGAAGTTG
* * * *
24165083 TAGTG-GAGCAGACT-AAGTAAT-CAAGTCTTATC-CTCCT-AATGTTGCAGTGAGGCAGACTGA
65 CAGTGAG-GCAGACTGAAG--ATGCAAATCTTATCTC-CCTGAA-GTTGCAGTGAAGCAGACTAA
* * * *
24165143 AGATGGCGAATCTTATCTCCCTGAAGGTGCAGTGG
125 AGAT-GAGAATCCTATCTTCCTGAAGTTGCAGTGG
24165178 GGCATACTAA
Statistics
Matches: 293, Mismatches: 30, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
171 3 0.01
172 37 0.13
173 219 0.75
174 3 0.01
175 1 0.00
176 9 0.03
177 20 0.07
178 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (172 bp):
TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCAAGTCTTATCCTCCTGAAGTTGC
AGTGAGGCAGACTGAAGATGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGATGA
GAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACC
Found at i:24165732 original size:21 final size:21
Alignment explanation
Indices: 24165707--24165750 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
24165697 ATCTTCGAGG
24165707 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24165728 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24165749 AT
1 AT
24165751 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:24165756 original size:19 final size:19
Alignment explanation
Indices: 24165706--24165761 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
24165696 AATCTTCGAG
24165706 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24165725 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
24165746 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
24165762 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24165787 original size:22 final size:22
Alignment explanation
Indices: 24165740--24165784 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
24165730 ATGCAATCTT
*
24165740 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTGAGA
*
24165762 AGATATGATTTTGTAATCTGAGA
1 AGATATGA-TATGTAATCTGAGA
24165785 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATCTGAGA
Found at i:24165794 original size:22 final size:23
Alignment explanation
Indices: 24165750--24165794 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24165740 AGATATGATA
* *
24165750 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTGAGAAGATATAATTT
*
24165773 TGTAATCTGAG-AGATTTAATTT
1 TGTAATCTGAGAAGATATAATTT
24165795 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
TGTAATCTGAGAAGATATAATTT
Found at i:24168550 original size:64 final size:64
Alignment explanation
Indices: 24168445--24168572 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
24168435 GACCCGTTAT
*
24168445 TTAAATGATTGGAATTGAAGAATTCATCCTAACAATCTTCTTTCCATGAAATATTCTTTTTTGC
1 TTAAATGATTGGAATTGAAGAATTCATCCTAACAATCTTCTTTCCAGGAAATATTCTTTTTTGC
*
24168509 TTAAATGATTGGAATTGAAGAATTCATCCTAACAATTTTCTTTCCAGGAAATATTCTTTTTTGC
1 TTAAATGATTGGAATTGAAGAATTCATCCTAACAATCTTCTTTCCAGGAAATATTCTTTTTTGC
24168573 GTTCTTTATC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (64 bp):
TTAAATGATTGGAATTGAAGAATTCATCCTAACAATCTTCTTTCCAGGAAATATTCTTTTTTGC
Found at i:24169182 original size:13 final size:13
Alignment explanation
Indices: 24169160--24169255 Score: 129
Period size: 13 Copynumber: 7.4 Consensus size: 13
24169150 GAAATTTTTA
*
24169160 AAAAGCACTTCTC
1 AAAAGTACTTCTC
* *
24169173 AAAAATACTTCTG
1 AAAAGTACTTCTC
*
24169186 AAAAGTATTTCTC
1 AAAAGTACTTCTC
* *
24169199 AAAAATACTTCTG
1 AAAAGTACTTCTC
24169212 AAAAGTACTTCTC
1 AAAAGTACTTCTC
24169225 AAAAGTACTTCTC
1 AAAAGTACTTCTC
*
24169238 AAAAGTACTTTTC
1 AAAAGTACTTCTC
24169251 AAAAG
1 AAAAG
24169256 CAACAAAGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 71 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (13 bp):
AAAAGTACTTCTC
Found at i:24169255 original size:26 final size:26
Alignment explanation
Indices: 24169160--24169254 Score: 145
Period size: 26 Copynumber: 3.7 Consensus size: 26
24169150 GAAATTTTTA
*
24169160 AAAAGCACTTCTCAAAAATACTTCTG
1 AAAAGTACTTCTCAAAAATACTTCTG
*
24169186 AAAAGTATTTCTCAAAAATACTTCTG
1 AAAAGTACTTCTCAAAAATACTTCTG
* *
24169212 AAAAGTACTTCTCAAAAGTACTTCTC
1 AAAAGTACTTCTCAAAAATACTTCTG
*
24169238 AAAAGTACTTTTCAAAA
1 AAAAGTACTTCTCAAAA
24169255 GCAACAAAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAAGTACTTCTCAAAAATACTTCTG
Found at i:24175898 original size:21 final size:21
Alignment explanation
Indices: 24175872--24175920 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
24175862 ATGTACACGA
24175872 CCGTGTGA-CTGAGGCACATGC
1 CCGTGTGAGCT-AGGCACATGC
* *
24175893 CCGTGTGAGCTAGGGACATGG
1 CCGTGTGAGCTAGGCACATGC
24175914 CCGTGTG
1 CCGTGTG
24175921 CATAGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.16, C:0.24, G:0.39, T:0.20
Consensus pattern (21 bp):
CCGTGTGAGCTAGGCACATGC
Found at i:24177336 original size:81 final size:81
Alignment explanation
Indices: 24177201--24177364 Score: 328
Period size: 81 Copynumber: 2.0 Consensus size: 81
24177191 CAAGTTATTA
24177201 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
1 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
24177266 TGAATCTCCAATACAT
66 TGAATCTCCAATACAT
24177282 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
1 TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
24177347 TGAATCTCCAATACAT
66 TGAATCTCCAATACAT
24177363 TT
1 TT
24177365 AAAACATATA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (81 bp):
TTTCTCTCACTCTAATGTCGAGTAAACTATCAAATGAAAATTGTAATCACAAATCATGTCATAAT
TGAATCTCCAATACAT
Found at i:24180257 original size:547 final size:546
Alignment explanation
Indices: 24179125--24180628 Score: 2341
Period size: 545 Copynumber: 2.7 Consensus size: 546
24179115 TTGCCTTTAT
* * *
24179125 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAGGCAATGATGGAGATAGGGCACT
1 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
24179190 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTTAAAGAACTTTGTTTGGGTTATGGGA
66 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGA-TTTTTTTTAAAGAACTTTGTTTGGGTTATGGGA
* *
24179255 AATAGTTTAAGCAGAATAATATTTAAAAGAGAATAGTGCTAATAACGTGTTATAAAATAAAAGAA
130 AATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAA
* * **
24179320 TAGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAAGAGAGAGCATATTTTATTGATCAATAAAA
195 CAGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAA-AGAGAGCGTATTTTATTGATCAATGGAA
*
24179385 GTAAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACATAACT
259 GTAAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACT
* * * * * * *
24179450 TTACTTCTAATGACTATTAG-ATTTAAATTTCATCAAAACTTCTCTTGATTTTGATGGTCATCCA
324 CTATTTTTAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCA
* *
24179514 CTTAATAAAATATTCATAACACTCCCCCTTGAATGTCCATTGGTAGATAATGTACCTCGTTAAAA
389 CTTAATAAAATATTCATAACACTCCCCCTTGAACGTCCATTGATAGATAATGTACCTCGTTAAAA
* * *
24179579 CCTTACTAAGATAAAAATCCCATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACATATATCTA
454 CCTTACTAAAATAAAAAACCCATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACACATATCTA
*
24179644 TAATACGCATAATATGTTACCTCATTAC
519 TAATACGCATAATATGCTACCTCATTAC
24179672 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
1 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
*
24179737 GGTTCAAGCCTTGATTTTGGTTCTGAAGGGA-TTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
66 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
* * *
24179801 ATAGTTTAAGTAGAATACTATTTAAAAGAGAATTGTGCTGATATCGTGTTATAAAATAAAAGAAC
131 ATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAAC
* *
24179866 AGAGAGCAAAGAACAAAGAAAATAGGAAAATAAAATAGAGAGCGTATTTTATTGATCAATGGAAG
196 AGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAA-AGAGAGCGTATTTTATTGATCAATGGAAG
* *
24179931 TAAGTTACAATGCTTCTCCAATATCTATATTTATAGACATAGAAAGTATAAATGAAACAGAACTC
260 TAAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACTC
*
24179996 TATTTTTAATGACTACTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCAC
325 TATTTTTAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCAC
* *
24180061 TTAATAAAATATTCATAACACTCCCCCTTGGACGTCCATTGATAGATAATGTACCTTGTTAAAAC
390 TTAATAAAATATTCATAACACTCCCCCTTGAACGTCCATTGATAGATAATGTACCTCGTTAAAAC
* * * *
24180126 CTTATTAAAATAAAAAACCTCGTGGGAAAAAATTCTTATTGAAGGAAAAAGAGTACACATATCTA
455 CTTACTAAAATAAAAAACC-CATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACACATATCTA
*
24180191 TAATACGCATAATATGCTGCCTCATTAC
519 TAATACGCATAATATGCTACCTCATTAC
* **
24180219 AGGTTTCTTTGTGCACAAACGCAAAAAGCTAAAGAACTTGGAAGCAATGACAGGGATAGGGCGCT
1 AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
*
24180284 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGAGAA
66 GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
* * * * *
24180349 ATAGTTTAAGTAGAATAATATTTAAAAGAGACTCGTACTGATAACATGTCATAAAATAAAAGAAC
131 ATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAAC
* * * * *
24180414 ATAGAGTAAAGAACAAATAAAATAGGTGAAT--AAAGAGAGCGTAGTTTATTGATCAATGGAAGT
196 AGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAAAGAGAGCGTATTTTATTGATCAATGGAAGT
* * * *
24180477 AATTTACAATGGTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAATAGAATTCT
261 AAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACTCT
* * * *
24180542 ACTTCTAATCTAATGACTATTAGAATTTAAAGTTCATCAAAACTTATCCTAATCTTAATTGACAT
326 A-TT-T--T-TAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACAT
*
24180607 CTACTTAATAAAATATTCATAA
386 CCACTTAATAAAATATTCATAA
24180629 TAAACTAAAA
Statistics
Matches: 879, Mismatches: 70, Indels: 13
0.91 0.07 0.01
Matches are distributed among these distances:
545 317 0.36
546 122 0.14
547 252 0.29
548 116 0.13
549 1 0.00
550 71 0.08
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (546 bp):
AGGTTTCTTTGTGCACAAACACAAAAAGCTAAAGAACTTGGAAGCAATGATGGGGATAGGGCGCT
GGTTCAAGCCTTGATTTTGGTTTTGAAGGGATTTTTTTTAAAGAACTTTGTTTGGGTTATGGGAA
ATAGTTTAAGTAGAATAATATTTAAAAGAGAATAGTGCTGATAACGTGTTATAAAATAAAAGAAC
AGAGAGAAAAGAACAAAGAAAATAGGAGAATAAAAAGAGAGCGTATTTTATTGATCAATGGAAGT
AAGTTACAATGCTTCTCCAAAATCTATATTTATAGACATAAAAAGTATAAATGAAACAGAACTCT
ATTTTTAATGACTATTAGAATTTAAATTTCATCAAAACTTATCCTGATCTTGATGGACATCCACT
TAATAAAATATTCATAACACTCCCCCTTGAACGTCCATTGATAGATAATGTACCTCGTTAAAACC
TTACTAAAATAAAAAACCCATGGGAAAAAATTCCTATTGAAGGAAAAAAAGTACACATATCTATA
ATACGCATAATATGCTACCTCATTAC
Found at i:24181236 original size:14 final size:14
Alignment explanation
Indices: 24181219--24181246 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24181209 CTCACATTTC
24181219 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
24181233 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
24181247 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:24181237 original size:19 final size:18
Alignment explanation
Indices: 24181199--24181243 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
24181189 TACGGTACGC
24181199 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
24181216 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
24181235 TTCTTTTCT
1 TTCTTTTCT
24181244 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:24181321 original size:6 final size:6
Alignment explanation
Indices: 24181312--24181353 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
24181302 GTAAAATAGA
* *
24181312 TTTTGA TTTTG- TTTTGC TTTTGC TTTTGC TTTTGC TTGTGC T
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC T
24181354 CAAATTTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.02, C:0.12, G:0.19, T:0.67
Consensus pattern (6 bp):
TTTTGC
Found at i:24186889 original size:45 final size:44
Alignment explanation
Indices: 24186804--24186894 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
24186794 ACCTCTATTC
*
24186804 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** * *
24186848 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTCTTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
24186893 CA
1 CA
24186895 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:24186894 original size:16 final size:16
Alignment explanation
Indices: 24186873--24186926 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
24186863 TTGATTTGCT
*
24186873 ATTACACCTCTCTTCC
1 ATTACACCTCTATTCC
24186889 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
24186905 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
24186921 AATACA
1 ATTACA
24186927 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:24187640 original size:19 final size:17
Alignment explanation
Indices: 24187602--24187635 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24187592 GTTATTATAC
24187602 TTTATATATAAACATCA
1 TTTATATATAAACATCA
24187619 TTTATATATAAACATCA
1 TTTATATATAAACATCA
24187636 AATTTTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTATATATAAACATCA
Found at i:24188325 original size:25 final size:25
Alignment explanation
Indices: 24188293--24188348 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
24188283 AAATACTAAT
*
24188293 TTTTAACGGTATAGATTTACAAAAA
1 TTTTAACGGTATAAATTTACAAAAA
* *
24188318 TTTTAACGGTATAAATTTATAAAAT
1 TTTTAACGGTATAAATTTACAAAAA
24188343 TTTTAA
1 TTTTAA
24188349 TAGAAAGACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (25 bp):
TTTTAACGGTATAAATTTACAAAAA
Found at i:24189972 original size:34 final size:34
Alignment explanation
Indices: 24189909--24189973 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
24189899 ATAACATACA
**
24189909 AAAAATATACATGCATGTTTAAATCATGAAATAT
1 AAAAATATACATGCATGTGAAAATCATGAAATAT
* * *
24189943 AAAAATATATATGTATGTGAAAATTATGAAA
1 AAAAATATACATGCATGTGAAAATCATGAAA
24189974 ACAAGATAAT
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:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (34 bp):
AAAAATATACATGCATGTGAAAATCATGAAATAT
Found at i:24190084 original size:3 final size:3
Alignment explanation
Indices: 24190076--24190127 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
24190066 ATATGTAGAT
* * *
24190076 ATA ATA ATA ATA TATA AT- ATA ACA ATA ACA ATA ATA ATA AAA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24190121 ATA ATA A
1 ATA ATA A
24190128 CAATGTTAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:24190108 original size:24 final size:24
Alignment explanation
Indices: 24190078--24190131 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 24
24190068 ATGTAGATAT
24190078 AATAATAATATATAATATAACAATAAC
1 AATAATAATA-A-AA-ATAACAATAAC
*
24190105 AATAATAATAAAAATAATAATAAC
1 AATAATAATAAAAATAACAATAAC
24190129 AAT
1 AAT
24190132 GTTAACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 13 0.50
25 2 0.08
26 1 0.04
27 10 0.38
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (24 bp):
AATAATAATAAAAATAACAATAAC
Found at i:24208632 original size:34 final size:33
Alignment explanation
Indices: 24208591--24208659 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
24208581 ATAAACATAA
**
24208591 AAAAATATACATGCATGTTTAAATCATGAAATAT
1 AAAAATATACATGCATGTGAAAATCATGAAA-AT
* * *
24208625 AAAAATATATATGTATGTGAAAATTATGAAAAT
1 AAAAATATACATGCATGTGAAAATCATGAAAAT
24208658 AA
1 AA
24208660 GATAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (33 bp):
AAAAATATACATGCATGTGAAAATCATGAAAAT
Found at i:24208760 original size:3 final size:3
Alignment explanation
Indices: 24208752--24208817 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
24208742 ATATGTAGAT
* * * *
24208752 ATA ATA ATA ATA TATA AT- ATA ACA ATA ACA ATA ATC ATA AAA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
24208797 ATA ATA ACA ATCA ATA TTA AT
1 ATA ATA ATA AT-A ATA ATA AT
24208818 TAAACTAAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:24208773 original size:18 final size:17
Alignment explanation
Indices: 24208750--24208803 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
24208740 ATATATGTAG
*
24208750 ATATAATAATAATATATA
1 ATATAAAAATAATA-ATA
* *
24208768 ATATAACAATAACAATA
1 ATATAAAAATAATAATA
24208785 ATCATAAAAATAATAATA
1 AT-ATAAAAATAATAATA
24208803 A
1 A
24208804 CAATCAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATAAAAATAATAATA
Found at i:24208784 original size:24 final size:24
Alignment explanation
Indices: 24208752--24208817 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
24208742 ATATGTAGAT
*
24208752 ATAATAATAATATATAATATAACA
1 ATAACAATAATATATAATATAACA
* *
24208776 ATAACAATAATCATA-AAAATAATA
1 ATAACAATAAT-ATATAATATAACA
24208800 ATAACAATCAATAT-TAAT
1 ATAACAAT-AATATATAAT
24208818 TAAACTAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 29 0.83
25 6 0.17
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (24 bp):
ATAACAATAATATATAATATAACA
Found at i:24218912 original size:7 final size:7
Alignment explanation
Indices: 24218895--24218933 Score: 51
Period size: 8 Copynumber: 5.1 Consensus size: 7
24218885 CCTACTCTAT
24218895 AAAGAAGA
1 AAAG-AGA
24218903 AAAGAGA
1 AAAGAGA
24218910 AAAGAGAA
1 AAAGAG-A
24218918 AAAGAGAA
1 AAAGAG-A
24218926 AAAGAGA
1 AAAGAGA
24218933 A
1 A
24218934 TCTGAGGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:24218920 original size:8 final size:8
Alignment explanation
Indices: 24218902--24218933 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
24218892 TATAAAGAAG
24218902 AAAAGAG-
1 AAAAGAGA
24218909 AAAAGAGA
1 AAAAGAGA
24218917 AAAAGAGA
1 AAAAGAGA
24218925 AAAAGAGA
1 AAAAGAGA
24218933 A
1 A
24218934 TCTGAGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAGAGA
Found at i:24227058 original size:3 final size:3
Alignment explanation
Indices: 24227050--24227080 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
24227040 GTTGGAGCCA
24227050 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
24227081 GCAAAGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:24229587 original size:20 final size:21
Alignment explanation
Indices: 24229550--24229588 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
24229540 GGTTTATTCA
*
24229550 AGAAAAGAAAATAGATGACGT
1 AGAAAAGAAAATACATGACGT
*
24229571 AGAAAAG-AAATTCATGAC
1 AGAAAAGAAAATACATGAC
24229589 TGCTTCTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (21 bp):
AGAAAAGAAAATACATGACGT
Found at i:24238953 original size:17 final size:17
Alignment explanation
Indices: 24238931--24238964 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24238921 ATTCTTTAAG
24238931 AATTGCCAC-AACATTTT
1 AATTGCC-CTAACATTTT
24238948 AATTGCCCTAACATTTT
1 AATTGCCCTAACATTTT
24238965 TCATTCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
AATTGCCCTAACATTTT
Found at i:24244536 original size:15 final size:16
Alignment explanation
Indices: 24244507--24244536 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24244497 CAAACATGCT
24244507 TTAACACATTATCAAA
1 TTAACACATTATCAAA
24244523 TTAACACA-TATCAA
1 TTAACACATTATCAA
24244537 CAAGCCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:24245653 original size:25 final size:25
Alignment explanation
Indices: 24245616--24245684 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
24245606 TCTTGTACAT
* *
24245616 TGCTCACATGAGCTGTGAATCAGAA
1 TGCTCACACGAGCTATGAATCAGAA
*
24245641 TGCTCACACGAGCTATGAATTAGAA
1 TGCTCACACGAGCTATGAATCAGAA
24245666 TGCTCACACGAGCTATGAA
1 TGCTCACACGAGCTATGAA
24245685 AATGGGCCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
TGCTCACACGAGCTATGAATCAGAA
Found at i:24248933 original size:50 final size:50
Alignment explanation
Indices: 24248874--24248978 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 50
24248864 ATGAAAGTTT
* * * *
24248874 TCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTC
1 TCATATCGGTACCAACGCCATGTCACAGACATGGTCTTATGGGGGACCTC
* * *
24248924 TCATCTCGGTACCAACGCCATGTCACAGACATTGTCTTATGTGGGACCTC
1 TCATATCGGTACCAACGCCATGTCACAGACATGGTCTTATGGGGGACCTC
24248974 TCATA
1 TCATA
24248979 ACCTCAATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.28
Consensus pattern (50 bp):
TCATATCGGTACCAACGCCATGTCACAGACATGGTCTTATGGGGGACCTC
Found at i:24266329 original size:29 final size:29
Alignment explanation
Indices: 24266246--24266339 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
24266236 TCATTAGGGT
* *
24266246 TTATC-AGACACTATGTGCCAGTGATTACAA
1 TTATCAAG-CACTTTGTGCCGGTG-TTACAA
* * * * *
24266276 TTATCATGTACTTTGTACTGATGTTACAA
1 TTATCAAGCACTTTGTGCCGGTGTTACAA
* *
24266305 TTATCAAGCACTTTGTGCCGGTGTTATAT
1 TTATCAAGCACTTTGTGCCGGTGTTACAA
24266334 TTATCA
1 TTATCA
24266340 GGTACCATTT
Statistics
Matches: 49, Mismatches: 14, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
29 34 0.69
30 14 0.29
31 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (29 bp):
TTATCAAGCACTTTGTGCCGGTGTTACAA
Found at i:24272118 original size:21 final size:22
Alignment explanation
Indices: 24272061--24272119 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
24272051 GCTTGGAGCT
*
24272061 ATTCTAACTTGTTTGAAAAACA
1 ATTCTAACTTGATTGAAAAACA
*
24272083 GTT-TAAC-TGATTGAAAAA-A
1 ATTCTAACTTGATTGAAAAACA
*
24272102 ATTCTAACTTGACTGAAA
1 ATTCTAACTTGATTGAAA
24272120 TCATTTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 3 0.10
20 14 0.45
21 12 0.39
22 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
ATTCTAACTTGATTGAAAAACA
Found at i:24283105 original size:20 final size:20
Alignment explanation
Indices: 24283078--24283131 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
24283068 AAAAATAGTT
24283078 TAAC-TGATTGAAAAAATTC
1 TAACTTGATTGAAAAAATTC
* *
24283097 TAACTTGATTGAAATAATTT
1 TAACTTGATTGAAAAAATTC
*
24283117 TAACTTGATTTAAAA
1 TAACTTGATTGAAAA
24283132 GTTTATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (20 bp):
TAACTTGATTGAAAAAATTC
Found at i:24285408 original size:12 final size:12
Alignment explanation
Indices: 24285391--24285428 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
24285381 GGTACAAGCA
24285391 ATCATGGAGGAT
1 ATCATGGAGGAT
24285403 ATCATGGAGGAT
1 ATCATGGAGGAT
*
24285415 ATCGTGGAGGAT
1 ATCATGGAGGAT
24285427 AT
1 AT
24285429 AGAGGCAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.34, T:0.26
Consensus pattern (12 bp):
ATCATGGAGGAT
Found at i:24288636 original size:217 final size:217
Alignment explanation
Indices: 24288261--24288813 Score: 1070
Period size: 217 Copynumber: 2.5 Consensus size: 217
24288251 AAAACAATAC
* *
24288261 CACTTAATTGCAACAAAGAGAATTTTCAGATACATCAAACGTACGATGAACCATGGTTTAGTTCA
1 CACTTAATTGCAACAAAGAGAATTTTGAGATACATCAAACGTACGATGGACCATGGTTTAGTTCA
24288326 TACACACTCACAAAGTTCAAAATTGGTTGGTTATTCAGATAGTGATTATGGAGGATATTTTTTCC
66 TACACACTCACAAAGTTCAAAATTGGTTGGTTATTCAGATAGTGATTATGGAGGATATTTTTTCC
24288391 ATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAACCCTCTCAACATGT
131 ATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAACCCTCTCAACATGT
24288456 GAAGTAGAATACATGGCGGGTG
196 GAAGTAGAATACATGGCGGGTG
24288478 CACTTAATTGCAACAAAGAGAATTTTGAGATACATCAAACGTACGATGGACCATGGTTTAGTTCA
1 CACTTAATTGCAACAAAGAGAATTTTGAGATACATCAAACGTACGATGGACCATGGTTTAGTTCA
24288543 TACACACTCACAAAGTTCAAAATTGGTTGGTTATTCAGATAGTGATTATGGAGGATATTTTTTCC
66 TACACACTCACAAAGTTCAAAATTGGTTGGTTATTCAGATAGTGATTATGGAGGATATTTTTTCC
24288608 ATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAACCCTCTCAACATGT
131 ATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAACCCTCTCAACATGT
*
24288673 GAAGTAGAATACATGGCGGTTG
196 GAAGTAGAATACATGGCGGGTG
*
24288695 CACTTAATTGCAACAAAGAGAATTTTGAGATACATCAAACGTACGATGGACTATGGTTTAGTTCA
1 CACTTAATTGCAACAAAGAGAATTTTGAGATACATCAAACGTACGATGGACCATGGTTTAGTTCA
24288760 TACACACTCACAAAGTTCAAAATTGGTTGGTTATTCAGATAGTGATTATGGAGG
66 TACACACTCACAAAGTTCAAAATTGGTTGGTTATTCAGATAGTGATTATGGAGG
24288814 TGACTTGGAT
Statistics
Matches: 332, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
217 332 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (217 bp):
CACTTAATTGCAACAAAGAGAATTTTGAGATACATCAAACGTACGATGGACCATGGTTTAGTTCA
TACACACTCACAAAGTTCAAAATTGGTTGGTTATTCAGATAGTGATTATGGAGGATATTTTTTCC
ATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAACCCTCTCAACATGT
GAAGTAGAATACATGGCGGGTG
Found at i:24289031 original size:247 final size:243
Alignment explanation
Indices: 24288595--24289186 Score: 1085
Period size: 247 Copynumber: 2.4 Consensus size: 243
24288585 TGATTATGGA
*
24288595 GGATATTTTTTCCATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAAC
1 GGATATTTATTCCATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAAC
24288660 CCTCTCAACATGTGAAGTAGAATACATGGCGGTTGCACTTAATTGCAACAAAGAGAATTTTGAGA
66 CCTCTCAACATGTGAAGTAGAATACATGGCGGTTGCACTTAATTGCAACAAAGAGAATTTTGAGA
* *
24288725 TACATCAAACGTACGATGGACTATGGTTTAGTTCATACACACTCACAAAGTTCAAAATTGGTTGG
131 TACATCAAACGTACGATAGACCATGGTTTAGTTCATACACACTCACAAAGTTCAAAATTGGTTGG
*
24288790 TTATTCAGATAGTGATTATGGAGGTGACTTGGATGATTGTAAAAGCACATCC
196 TTATTCAGATAGTGATTATGGAGGTAACTTGGATGATTGTAAAAG--CA--C
* *
24288842 GGATATTTATTCCATATCAGCTCCGTGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAAC
1 GGATATTTATTCCATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAAC
24288907 CCTCTCAACATGTGAAGTAGAATACATGGCGGTTGCACTTAATTGCAACAAAGAGAATTTTGAGA
66 CCTCTCAACATGTGAAGTAGAATACATGGCGGTTGCACTTAATTGCAACAAAGAGAATTTTGAGA
24288972 TACATCAAACGTACGATAGACCATGGTTTAGTTCATACACACTCACAAAGTTCAAAATTGGTTGG
131 TACATCAAACGTACGATAGACCATGGTTTAGTTCATACACACTCACAAAGTTCAAAATTGGTTGG
24289037 TTATTCAGATAGTGATTATGGAGGTAACTTGGATGATTGTAAAAGCAC
196 TTATTCAGATAGTGATTATGGAGGTAACTTGGATGATTGTAAAAGCAC
24289085 GGATATTTATTCCATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAAC
1 GGATATTTATTCCATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAAC
*
24289150 CCTCTCAACATGTGAAGTAGAATACATAGCGGTTGCA
66 CCTCTCAACATGTGAAGTAGAATACATGGCGGTTGCA
24289187 ACATGCACAT
Statistics
Matches: 336, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
243 100 0.30
245 2 0.01
247 234 0.70
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (243 bp):
GGATATTTATTCCATATCGGCTCCGCGACTTTTTCATGGTCATCGAAAGAGCAACAAACAGTAAC
CCTCTCAACATGTGAAGTAGAATACATGGCGGTTGCACTTAATTGCAACAAAGAGAATTTTGAGA
TACATCAAACGTACGATAGACCATGGTTTAGTTCATACACACTCACAAAGTTCAAAATTGGTTGG
TTATTCAGATAGTGATTATGGAGGTAACTTGGATGATTGTAAAAGCAC
Found at i:24292416 original size:140 final size:139
Alignment explanation
Indices: 24292184--24292440 Score: 354
Period size: 140 Copynumber: 1.8 Consensus size: 139
24292174 GTTAATTTTA
* * *
24292184 ATTTAGCAGTGTACAAGTCGAATGCTAGAAGTCTTCCAATTTCTAAGCACAAATTCGACTCAATT
1 ATTTAGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAACTTCTAAGCACAAATTCGACTCAATT
*
24292249 ACTTCCCCGCATAGTTCAAGATAGGCCCATAGCGGGACTTTGGCAAAGATGGCATTCAGACCTGG
66 ACTTCCCCGCATAGTTCAAGATAGGCCCATAGCAGG-CTTTGGCAAAGATGGCATTCAGACCTGG
24292314 GTTAGTATCG
130 GTTAGTATCG
* * * ** * *
24292324 ATTTGGCAGTGCATAAGTCGAAGGCTAGAAGTCTTCCAGCTTCTAAGCGTAGATTCGACTCAGTT
1 ATTTAGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAACTTCTAAGCACAAATTCGACTCAATT
* * * *
24292389 AAC-TCCCTGCATAGTTCAAGATAGGCCCGTGGCAGGTTTTGGCAAAGATGGC
66 -ACTTCCCCGCATAGTTCAAGATAGGCCCATAGCAGGCTTTGGCAAAGATGGC
24292441 GTTGAAAGAA
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
139 15 0.15
140 84 0.83
141 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (139 bp):
ATTTAGCAGTGCACAAGTCGAAGGCTAGAAGTCTTCCAACTTCTAAGCACAAATTCGACTCAATT
ACTTCCCCGCATAGTTCAAGATAGGCCCATAGCAGGCTTTGGCAAAGATGGCATTCAGACCTGGG
TTAGTATCG
Found at i:24300074 original size:3 final size:3
Alignment explanation
Indices: 24300068--24300116 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
24300058 ACTCCTATTC
* *
24300068 ATA ATA ATA TTG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24300116 A
1 A
24300117 CAGAAATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:24320089 original size:15 final size:15
Alignment explanation
Indices: 24320069--24320099 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24320059 GCAAGAATGG
24320069 ATCTATTCATGCACT
1 ATCTATTCATGCACT
24320084 ATCTATTCATGCACT
1 ATCTATTCATGCACT
24320099 A
1 A
24320100 ACAGTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (15 bp):
ATCTATTCATGCACT
Found at i:24322955 original size:13 final size:13
Alignment explanation
Indices: 24322937--24322967 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
24322927 CATTAACACC
24322937 CAATTACTTCAAG
1 CAATTACTTCAAG
24322950 CAATTACTTCAAG
1 CAATTACTTCAAG
24322963 CAATT
1 CAATT
24322968 CATCCTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (13 bp):
CAATTACTTCAAG
Found at i:24325211 original size:30 final size:31
Alignment explanation
Indices: 24325175--24325233 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
24325165 ACAGTACCGT
*
24325175 GTGGG-CCTAAGCCCAGTACAGTAA-CAGTGA
1 GTGGGCCCT-AGCCCAATACAGTAATCAGTGA
24325205 GTGGGCCCTAGCCCAATACAGTAATCAGT
1 GTGGGCCCTAGCCCAATACAGTAATCAGT
24325234 ACAATGTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (31 bp):
GTGGGCCCTAGCCCAATACAGTAATCAGTGA
Found at i:24325394 original size:26 final size:26
Alignment explanation
Indices: 24325365--24325415 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
24325355 GTAATAATGG
24325365 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * * *
24325391 CGCATCAAGGCTTCCAGTAATAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
24325416 TATGTGGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:24325763 original size:81 final size:81
Alignment explanation
Indices: 24325628--24325807 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
24325618 TAATTTTAGA
* * * ***
24325628 TATTTCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTAA
1 TATTTCGATAATTTTACCTTTCGAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCAGTAA
*
24325693 ATTTATCCATCGAGGG
66 ATTTACCCATCGAGGG
* * *
24325709 TATTTTGGTAATTTTACTCTTT-GAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCATTA
1 TATTTCGATAATTTTAC-CTTTCGAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCAGTA
*
24325773 ATTTTACCCATCGAGGG
65 AATTTACCCATCGAGGG
24325790 TATTTCGATAATTTTACC
1 TATTTCGATAATTTTACC
24325808 CATCGAGTCG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 80 0.94
82 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (81 bp):
TATTTCGATAATTTTACCTTTCGAGAGTATTTCAATAATTTTACCCTCCAAGGGTATTTCAGTAA
ATTTACCCATCGAGGG
Found at i:24325808 original size:27 final size:27
Alignment explanation
Indices: 24325628--24325814 Score: 191
Period size: 27 Copynumber: 6.9 Consensus size: 27
24325618 TAATTTTAGA
* **
24325628 TATTTCAATAATTTTACCTTTCGAGGG
1 TATTTCGATAATTTTACCCATCGAGGG
* *
24325655 TATTTCGATAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCATCGAGGG
* *
24325682 TATTTC-AGTAAATTTATCCATCGAGGG
1 TATTTCGA-TAATTTTACCCATCGAGGG
* * * * * *
24325709 TATTTTGGTAATTTTACTCTTTGAGAG
1 TATTTCGATAATTTTACCCATCGAGGG
* *
24325736 TATTTCAATAATTTTACCC-TCCAAGGG
1 TATTTCGATAATTTTACCCAT-CGAGGG
24325763 TATTTC-ATTAATTTTACCCATCGAGGG
1 TATTTCGA-TAATTTTACCCATCGAGGG
24325790 TATTTCGATAATTTTACCCATCGAG
1 TATTTCGATAATTTTACCCATCGAG
24325815 TCGCAAGTTG
Statistics
Matches: 131, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.02
27 126 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCATCGAGGG
Found at i:24333441 original size:35 final size:35
Alignment explanation
Indices: 24333395--24333464 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
24333385 ATCAAAGTAA
24333395 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
1 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
24333430 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
1 GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
24333465 CCAATAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (35 bp):
GGATCCACAATTATTGCAAATTCTCGGTTAAAATG
Found at i:24339756 original size:3 final size:3
Alignment explanation
Indices: 24339748--24339780 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
24339738 ACGCCACCAA
24339748 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
24339781 CAACAGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:24340196 original size:23 final size:24
Alignment explanation
Indices: 24340146--24340194 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
24340136 TACTTATCAA
*
24340146 TTTGTTTGGATTTAATTCATTACT
1 TTTGTTTGGATTGAATTCATTACT
*
24340170 TTTGTTT-GATTGAA-TCTTTACT
1 TTTGTTTGGATTGAATTCATTACT
24340192 TTT
1 TTT
24340195 TGAATGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 6 0.26
24 7 0.30
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.61
Consensus pattern (24 bp):
TTTGTTTGGATTGAATTCATTACT
Found at i:24342247 original size:17 final size:17
Alignment explanation
Indices: 24342225--24342262 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24342215 AATCTTCAAG
24342225 AATTCTAAAAAATTAAA
1 AATTCTAAAAAATTAAA
**
24342242 AATTCTTTAAAATTAAA
1 AATTCTAAAAAATTAAA
24342259 AATT
1 AATT
24342263 AGAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTCTAAAAAATTAAA
Found at i:24345589 original size:21 final size:22
Alignment explanation
Indices: 24345563--24345613 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
24345553 TATATTTGTG
24345563 TATATATAATGTACG-AATATA
1 TATATATAATGTACGTAATATA
* **
24345584 TATATAT-GTGTGTGTAATATA
1 TATATATAATGTACGTAATATA
24345605 TATATATAA
1 TATATATAA
24345614 ATTCTTGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (22 bp):
TATATATAATGTACGTAATATA
Found at i:24346465 original size:41 final size:41
Alignment explanation
Indices: 24346403--24346625 Score: 383
Period size: 41 Copynumber: 5.4 Consensus size: 41
24346393 AGCTTAGTGG
*
24346403 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
* *
24346444 CTAGCAGGCTAAGTGCTGGTGAACTGAATCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
* *
24346485 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGATTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
* *
24346526 CTAGTAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
24346567 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
24346608 CTAGCAGGCTAAGTGCCG
1 CTAGCAGGCTAAGTGCCG
24346626 ATGAATCTAT
Statistics
Matches: 169, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 169 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGC
Found at i:24348744 original size:43 final size:43
Alignment explanation
Indices: 24348658--24348776 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
24348648 CCGAGATTAT
* *
24348658 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTC
* *
24348700 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTC
* * *
24348743 GTGTAAGACTATGGCT-GGACTATTAGCATCGATA
1 GTGTAAGACCATGTCTGGGAC-ATTGGCATCGATA
24348777 CAAGATTACA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 24 0.35
43 44 0.65
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGACTTC
Found at i:24362062 original size:2 final size:2
Alignment explanation
Indices: 24362057--24362084 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24362047 ATGAGATGAA
24362057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24362085 TAATGAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24362449 original size:2 final size:2
Alignment explanation
Indices: 24362442--24362473 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24362432 CCAAATATTC
24362442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24362474 CCTCTCCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24363904 original size:20 final size:20
Alignment explanation
Indices: 24363879--24363998 Score: 141
Period size: 20 Copynumber: 6.0 Consensus size: 20
24363869 AATGGGATGT
24363879 AATTGATGCACTTTGGTGCG
1 AATTGATGCACTTTGGTGCG
* *
24363899 AATTGATGCTCTTTAGTGCG
1 AATTGATGCACTTTGGTGCG
* **
24363919 AATTAATGCACTTTGGTTTG
1 AATTGATGCACTTTGGTGCG
* * *
24363939 TAATTGATGCACTTCGATGCA
1 -AATTGATGCACTTTGGTGCG
24363960 AATTGATGCACTTTGGTGCG
1 AATTGATGCACTTTGGTGCG
* *
24363980 AATCGATGCACTTTAGTGC
1 AATTGATGCACTTTGGTGC
24363999 ATAACTAATA
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 67 0.83
21 14 0.17
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (20 bp):
AATTGATGCACTTTGGTGCG
Found at i:24363979 original size:61 final size:61
Alignment explanation
Indices: 24363876--24363993 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
24363866 ACTAATGGGA
* * * * *
24363876 TGTAATTGATGCACTTTGGTGCGAATTGATGCTCTTTAGTGCGAATTAATGCACTTTGGTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTAGTGCGAATCAATGCACTTTGGTT
* *
24363937 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCGAATCGATGCACTTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTAGTGCGAATCAATGCACTTT
24363994 AGTGCATAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (61 bp):
TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTAGTGCGAATCAATGCACTTTGGTT
Found at i:24364013 original size:41 final size:40
Alignment explanation
Indices: 24363879--24364019 Score: 149
Period size: 41 Copynumber: 3.5 Consensus size: 40
24363869 AATGGGATGT
* * *
24363879 AATTGATGCACTTTGGTGCGAATTGATGCTCTTTAGTGCG
1 AATTAATGCACTTTGGTGCGAATTGATGCACTTTAGTGCA
** *
24363919 AATTAATGCACTTTGGTTTGTAATTGATGCAC-TTCGATGCA
1 AATTAATGCACTTTGGTGCG-AATTGATGCACTTTAG-TGCA
* *
24363960 AATTGATGCACTTTGGTGCGAATCGATGCACTTTAGTGCA
1 AATTAATGCACTTTGGTGCGAATTGATGCACTTTAGTGCA
* * *
24364000 TAACTAATACACTTTAGTGC
1 -AATTAATGCACTTTGGTGC
24364020 ATAATGGAGC
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 34 0.41
41 48 0.59
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (40 bp):
AATTAATGCACTTTGGTGCGAATTGATGCACTTTAGTGCA
Found at i:24366554 original size:42 final size:42
Alignment explanation
Indices: 24366507--24366676 Score: 340
Period size: 42 Copynumber: 4.0 Consensus size: 42
24366497 CAAGAAACTA
24366507 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
1 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
24366549 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
1 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
24366591 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
1 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
24366633 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
1 GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
24366675 GA
1 GA
24366677 CTAAATTTCA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 128 1.00
ACGTcount: A:0.48, C:0.05, G:0.34, T:0.14
Consensus pattern (42 bp):
GAAAGAATGGACCAAATTGAATAAGAGAAGGAAATGTGAGGG
Found at i:24367591 original size:47 final size:47
Alignment explanation
Indices: 24367514--24367607 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
24367504 GTTAAGTGTT
*
24367514 AGTGAATTAATTACAAAGCGATGTTCAGGTGAAATTATAATAAATAA
1 AGTGAATTAATTACAAAGCGATGTTAAGGTGAAATTATAATAAATAA
* * *
24367561 AGTGAATTAATTACAAAGTGATTTTAAGGTGAAATTATAGTAAATAA
1 AGTGAATTAATTACAAAGCGATGTTAAGGTGAAATTATAATAAATAA
24367608 TGAATTTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (47 bp):
AGTGAATTAATTACAAAGCGATGTTAAGGTGAAATTATAATAAATAA
Found at i:24371227 original size:11 final size:11
Alignment explanation
Indices: 24371207--24371236 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24371197 ATGAAAAGGT
*
24371207 TGATGAATAAA
1 TGATGTATAAA
24371218 TGATGTATAAA
1 TGATGTATAAA
24371229 TGATGTAT
1 TGATGTAT
24371237 CTTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (11 bp):
TGATGTATAAA
Found at i:24371846 original size:2 final size:2
Alignment explanation
Indices: 24371839--24371871 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
24371829 TGATGTTTTG
24371839 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24371872 TGTGGTGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24372549 original size:40 final size:40
Alignment explanation
Indices: 24372487--24372568 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
24372477 ACGGTAGTGC
24372487 TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
1 TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
* * * *
24372527 TTTGTAACCCTAATTTGGCGACGGAGACGGGTTAGGGGTT
1 TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
24372567 TT
1 TT
24372569 ACATCTACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (40 bp):
TTTGTAACCCTAATTCGACGACGGAGACAGGTTAGAGGTT
Found at i:24381876 original size:17 final size:17
Alignment explanation
Indices: 24381841--24381876 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24381831 TGATATTTGG
* *
24381841 ATGATTAAATTTTTTTT
1 ATGATTAAATTATTGTT
24381858 ATGATTAAATTATTGTT
1 ATGATTAAATTATTGTT
24381875 AT
1 AT
24381877 TAAGTATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (17 bp):
ATGATTAAATTATTGTT
Found at i:24381884 original size:24 final size:24
Alignment explanation
Indices: 24381857--24381902 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24381847 AAATTTTTTT
24381857 TATGATT-AAATTATTGTTATTAAG
1 TATGATTGAAATTATTG-TATTAAG
*
24381881 TATGCTTGAAATTATTGTATTA
1 TATGATTGAAATTATTGTATTA
24381903 TATCTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (24 bp):
TATGATTGAAATTATTGTATTAAG
Found at i:24400013 original size:42 final size:42
Alignment explanation
Indices: 24399936--24400015 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
24399926 CCAAAAAGGA
*
24399936 CAGCTCAAATTTTGACCAGAATGGGATATGAGGTGATCAGAG
1 CAGCTCAAATTTTGACCAGAATGGGACATGAGGTGATCAGAG
* * * * *
24399978 CAGCTTAAATTTTGATCAGATTGGGGCATGTGGTGATC
1 CAGCTCAAATTTTGACCAGAATGGGACATGAGGTGATC
24400016 TTGTTATACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (42 bp):
CAGCTCAAATTTTGACCAGAATGGGACATGAGGTGATCAGAG
Found at i:24402894 original size:132 final size:132
Alignment explanation
Indices: 24402510--24402881 Score: 588
Period size: 132 Copynumber: 2.8 Consensus size: 132
24402500 NNNNNNNNNN
*
24402510 GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGA
1 GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGA
* *
24402575 TTTTACTTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGATAACAG
66 TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGATAACAG
24402640 TG
131 TG
* *
24402642 GAATAGATTGGAGATTTCAAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGA
1 GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGA
* * * *
24402707 TTTTACCTCTCTGTAGG-TACAATGGAGTAAATTGATGCCAGTAATTCTACTTCCCTAGGA-AAC
66 TTTTACCTCCCTGT-GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGATAAC
24402770 AGTG
129 AGTG
* * *
24402774 GAATAGATTGAAGATTTCAGGTCTTATCT-CCTAAAGCAGTAGCGGAGTAGATCGAAGATGGTGG
1 GAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAGCAGTAGTGGAGTAGATCGAAGATGGCGG
24402838 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
65 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
24402882 GTCTTATCTC
Statistics
Matches: 218, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
131 5 0.02
132 208 0.95
133 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGA
TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGATAACAG
TG
Found at i:24402985 original size:45 final size:44
Alignment explanation
Indices: 24402881--24403002 Score: 176
Period size: 45 Copynumber: 2.8 Consensus size: 44
24402871 TGAAGCCAGT
*
24402881 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
24402925 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCA
24402970 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
24403003 TTAAAGCCGA
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.46
45 36 0.51
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:24408407 original size:30 final size:30
Alignment explanation
Indices: 24408373--24408434 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
24408363 CTTAACAAGT
*
24408373 AAATGCCTCTAAAATAATAATAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
24408403 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
24408433 AA
1 AA
24408435 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:24413328 original size:63 final size:63
Alignment explanation
Indices: 24413224--24413395 Score: 209
Period size: 63 Copynumber: 2.7 Consensus size: 63
24413214 ATTTTTTTGT
* * * * * ****
24413224 CACAAGCATCACAACACGCACACTTATTCCCTGCATTAACACATTCAGCTTTGGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
24413287 CACAAGTACCACAACATACACAATCATTCCCTGCATCAACACACTCAGCACCAGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
24413350 CACAAGCACCACAGCACGCGCAATCATTCCCTGCATCAACACATTC
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTC
24413396 TTTAGTGATA
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.33, C:0.34, G:0.09, T:0.24
Consensus pattern (63 bp):
CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
Found at i:24416562 original size:6 final size:6
Alignment explanation
Indices: 24416551--24416575 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24416541 GCGTAATCGA
24416551 ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A
24416576 ATTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:24416915 original size:26 final size:26
Alignment explanation
Indices: 24416865--24416916 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24416855 GATGTTTAAT
*
24416865 TATTATTTGATATTCAATAGTTTTAC
1 TATTATTTGATATTCAATAATTTTAC
*
24416891 TATTATTTGAT-TTTAATAATATTTAC
1 TATTATTTGATATTCAATAAT-TTTAC
24416917 ATAATTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (26 bp):
TATTATTTGATATTCAATAATTTTAC
Found at i:24423766 original size:41 final size:39
Alignment explanation
Indices: 24423680--24423767 Score: 142
Period size: 39 Copynumber: 2.2 Consensus size: 39
24423670 ATTAAAATAT
24423680 ATATTTAATATATTCATTAAAAATATTTTTCAGAAAAAA
1 ATATTTAATATATTCATTAAAAATATTTTTCAGAAAAAA
24423719 ATATTTAATATATTCATTAAAAATATGTTTTTCA-AAAAAA
1 ATATTTAATATATTCATTAAAAATA--TTTTTCAGAAAAAA
24423759 ATGATTTAA
1 AT-ATTTAA
24423768 AAANNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
39 25 0.54
40 8 0.17
41 13 0.28
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (39 bp):
ATATTTAATATATTCATTAAAAATATTTTTCAGAAAAAA
Found at i:24424456 original size:31 final size:31
Alignment explanation
Indices: 24424418--24424482 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
24424408 TAATATATGC
24424418 AAAAAATGTAAAATATAAATTTATAAATATA
1 AAAAAATGTAAAATATAAATTTATAAATATA
*
24424449 AAAAAATGTAAAATATAAATTTATAGATATA
1 AAAAAATGTAAAATATAAATTTATAAATATA
24424480 AAA
1 AAA
24424483 TAAACTCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (31 bp):
AAAAAATGTAAAATATAAATTTATAAATATA
Done.