Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 65
Found at i:9693727 original size:22 final size:23
Alignment explanation
Indices: 9693684--9693733 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
9693674 AGACATCGAA
*
9693684 TTTAAAATTTACCTTCT-TTTTAT
1 TTTAAAATTTA-CTTCTATTTAAT
9693707 TTTAAAATTTA-TTCCTATTTAAT
1 TTTAAAATTTACTT-CTATTTAAT
9693730 TTTA
1 TTTA
9693734 GATATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 20 0.83
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTAAAATTTACTTCTATTTAAT
Found at i:9695125 original size:31 final size:31
Alignment explanation
Indices: 9695054--9695131 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
9695044 CTTTTAAAAC
*
9695054 TTGCAATATAATCCCCCAACATTTAGTCTGT
1 TTGCAATATGATCCCCCAACATTTAGTCTGT
* *
9695085 TTGCAATATGTTCCCTCAACATTTAGT-TCGT
1 TTGCAATATGATCCCCCAACATTTAGTCT-GT
*
9695116 TTGCAATATGGTCCCC
1 TTGCAATATGATCCCC
9695132 GACGTAACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (31 bp):
TTGCAATATGATCCCCCAACATTTAGTCTGT
Found at i:9695569 original size:28 final size:28
Alignment explanation
Indices: 9695535--9695604 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
9695525 AAAAGCCGAA
9695535 AGCAAACGAGAAACTTCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCTGAAAGC
9695563 AGCAAACGAGAAACTTCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCTGAAAGC
9695591 AGCAAACGAGAAAC
1 AGCAAACGAGAAAC
9695605 ATGAGTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.43, C:0.30, G:0.19, T:0.09
Consensus pattern (28 bp):
AGCAAACGAGAAACTTCCCCCTGAAAGC
Found at i:9696542 original size:31 final size:31
Alignment explanation
Indices: 9696471--9696548 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9696461 CTTTTAAAAC
** *
9696471 TTGCAATATAATCCCCCAACATTTAGTTCGT
1 TTGCAATATGGTCCCTCAACATTTAGTTCGT
9696502 TTGCAATATGGTCCCTCAACATTTAG-TCAGT
1 TTGCAATATGGTCCCTCAACATTTAGTTC-GT
9696533 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
9696549 GACTAACTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTTCGT
Found at i:9696591 original size:31 final size:31
Alignment explanation
Indices: 9696549--9696607 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
9696539 TATGGTCCCT
*
9696549 GACTAACTGTTGGGGGACTATATTGCAAATA
1 GACTAAATGTTGGGGGACTATATTGCAAATA
*
9696580 GACTAAATGTTGGGGGACTGTATTGCAA
1 GACTAAATGTTGGGGGACTATATTGCAA
9696608 GTTTTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (31 bp):
GACTAAATGTTGGGGGACTATATTGCAAATA
Found at i:9697651 original size:14 final size:14
Alignment explanation
Indices: 9697632--9697659 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9697622 TCCGCAGTAT
9697632 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9697646 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9697660 GATGCCGCAA
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:0.29, C:0.50, G:0.21, T:0.00
Consensus pattern (14 bp):
CCGCAACCGCGACA
Found at i:9698406 original size:31 final size:30
Alignment explanation
Indices: 9698368--9698435 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 30
9698358 CAATATAATC
9698368 CCCCAACATTTAGTCCATTTGCAATATGGT
1 CCCCAACATTTAGTCCATTTGCAATATGGT
*
9698398 CCCTCAACATTTAGTCCGTTTGCAATATGGT
1 CCC-CAACATTTAGTCCATTTGCAATATGGT
9698429 CCCCAAC
1 CCCCAAC
9698436 GTAACTGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (30 bp):
CCCCAACATTTAGTCCATTTGCAATATGGT
Found at i:9698871 original size:28 final size:28
Alignment explanation
Indices: 9698837--9698906 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
9698827 AAAAGCCGAA
9698837 AGCAAACGAGAAACTTCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCTGAAAGC
9698865 AGCAAACGAGAAACTTCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCTGAAAGC
9698893 AGCAAACGAGAAAC
1 AGCAAACGAGAAAC
9698907 ATGAGTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.43, C:0.30, G:0.19, T:0.09
Consensus pattern (28 bp):
AGCAAACGAGAAACTTCCCCCTGAAAGC
Found at i:9699843 original size:31 final size:31
Alignment explanation
Indices: 9699772--9699849 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9699762 CTTTTAAAAC
** *
9699772 TTGCAATATAATCCCCCAACATTTAGTTCGT
1 TTGCAATATGGTCCCTCAACATTTAGTTCGT
9699803 TTGCAATATGGTCCCTCAACATTTAG-TCAGT
1 TTGCAATATGGTCCCTCAACATTTAGTTC-GT
9699834 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
9699850 GACTAACTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTTCGT
Found at i:9701728 original size:31 final size:31
Alignment explanation
Indices: 9701657--9701734 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9701647 CTTTTAAAAC
**
9701657 TTGCAATATAATCCCCCAACATTTAGTCTGT
1 TTGCAATATGGTCCCCCAACATTTAGTCTGT
*
9701688 TTGCAATATGGTCCCTCAACATTTAGT-TCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCT-GT
9701719 TTGCAATATGGTCCCC
1 TTGCAATATGGTCCCC
9701735 GACGTAACTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCTGT
Found at i:9702173 original size:28 final size:28
Alignment explanation
Indices: 9702139--9702208 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
9702129 AAAAGCCGAA
9702139 AGCAAACGAGAAACTTCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCTGAAAGC
9702167 AGCAAACGAGAAACTTCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCTGAAAGC
9702195 AGCAAACGAGAAAC
1 AGCAAACGAGAAAC
9702209 ATGAGTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.43, C:0.30, G:0.19, T:0.09
Consensus pattern (28 bp):
AGCAAACGAGAAACTTCCCCCTGAAAGC
Found at i:9703147 original size:31 final size:31
Alignment explanation
Indices: 9703076--9703153 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9703066 CTTTTAAAAC
** *
9703076 TTGCAATATAATCCCCCAACATTTAGTTCGT
1 TTGCAATATGGTCCCTCAACATTTAGTTCGT
9703107 TTGCAATATGGTCCCTCAACATTTAG-TCAGT
1 TTGCAATATGGTCCCTCAACATTTAGTTC-GT
9703138 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
9703154 GACTAACTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTTCGT
Found at i:9703196 original size:31 final size:31
Alignment explanation
Indices: 9703154--9703212 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
9703144 TATGGTCCCT
*
9703154 GACTAACTGTTGGGGGACTATATTGCAAACA
1 GACTAAATGTTGGGGGACTATATTGCAAACA
*
9703185 GACTAAATGTTGGGGGACTGTATTGCAA
1 GACTAAATGTTGGGGGACTATATTGCAA
9703213 GTTTTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (31 bp):
GACTAAATGTTGGGGGACTATATTGCAAACA
Found at i:9705011 original size:31 final size:31
Alignment explanation
Indices: 9704967--9705033 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
9704957 TGCAATATAA
9704967 TCCCCCAACATTTAGTCCGTTTACAATATGG
1 TCCCCCAACATTTAGTCCGTTTACAATATGG
* * *
9704998 TCCCTCAATATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCGTTTACAATATGG
9705029 TCCCC
1 TCCCC
9705034 GACGTAACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCGTTTACAATATGG
Found at i:9708249 original size:41 final size:40
Alignment explanation
Indices: 9708169--9708247 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 40
9708159 CTAATCTGGG
9708169 AAATAATGTTGGAGATGGATTACTTTGGTAAATGTTTTTTT
1 AAATAATGTTGGAGATGGATTACTTT-GTAAATGTTTTTTT
*
9708210 AAATAATGTTGGAGGTGGATTAC-TT-TAAATGTTTTTTT
1 AAATAATGTTGGAGATGGATTACTTTGTAAATGTTTTTTT
9708248 TTCAAAGGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
38 13 0.35
40 2 0.05
41 22 0.59
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.47
Consensus pattern (40 bp):
AAATAATGTTGGAGATGGATTACTTTGTAAATGTTTTTTT
Found at i:9709259 original size:23 final size:23
Alignment explanation
Indices: 9709231--9709279 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
9709221 AGGTTTGAAC
9709231 TTATTATAT-ATAT-TAATCATATA
1 TTATTATATAAT-TGTAA-CATATA
9709254 TTATTATATAATTGTAACATATA
1 TTATTATATAATTGTAACATATA
9709277 TTA
1 TTA
9709280 ATCATACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTATTATATAATTGTAACATATA
Found at i:9711841 original size:28 final size:28
Alignment explanation
Indices: 9711810--9711866 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9711800 ATTGGTCTTA
*
9711810 ATTTAAAGTAAT-TTAATAAATTATTAAT
1 ATTTAAA-TAATATTAATAAATTAATAAT
* *
9711838 ATTTAAATATTATTATTAAATTAATAAT
1 ATTTAAATAATATTAATAAATTAATAAT
9711866 A
1 A
9711867 AATTGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTAAATAATATTAATAAATTAATAAT
Found at i:9712418 original size:39 final size:38
Alignment explanation
Indices: 9712345--9712445 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 38
9712335 ATTTATATTA
* * *
9712345 ATTTTTAAGCAAAAAATAGAAAACAAATAGAATTATCTT
1 ATTTTTAAGC-ACAAATAGAAAACAAATAAAATTATCCT
*
9712384 ATTTTTAAAGCACATAATAGAAAA-GAATAAAATTATCCT
1 ATTTTT-AAGCACA-AATAGAAAACAAATAAAATTATCCT
*
9712423 ATTTTTTAAGAACAAATAGAAAA
1 A-TTTTTAAGCACAAATAGAAAA
9712446 TAAAAATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 9 0.17
39 27 0.50
40 18 0.33
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (38 bp):
ATTTTTAAGCACAAATAGAAAACAAATAAAATTATCCT
Found at i:9712834 original size:34 final size:34
Alignment explanation
Indices: 9712791--9712894 Score: 208
Period size: 34 Copynumber: 3.1 Consensus size: 34
9712781 TTTAATAGAC
9712791 TTAAAAGTTTGATTCTAAGAGACAATGAAAATGT
1 TTAAAAGTTTGATTCTAAGAGACAATGAAAATGT
9712825 TTAAAAGTTTGATTCTAAGAGACAATGAAAATGT
1 TTAAAAGTTTGATTCTAAGAGACAATGAAAATGT
9712859 TTAAAAGTTTGATTCTAAGAGACAATGAAAATGT
1 TTAAAAGTTTGATTCTAAGAGACAATGAAAATGT
9712893 TT
1 TT
9712895 TTTATGTTCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 70 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (34 bp):
TTAAAAGTTTGATTCTAAGAGACAATGAAAATGT
Found at i:9714516 original size:21 final size:21
Alignment explanation
Indices: 9714482--9714528 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
9714472 TTATTTCAAA
* *
9714482 TATTTTAATTAA-TTAAAATT
1 TATTTTAATAAATTTAAAAAT
9714502 TATTATTAATAAATTTAAAAAT
1 TATT-TTAATAAATTTAAAAAT
9714524 TATTT
1 TATTT
9714529 CTTAGATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 8 0.35
22 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTAATAAATTTAAAAAT
Found at i:9715847 original size:2 final size:2
Alignment explanation
Indices: 9715842--9715919 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
9715832 TCATGCACTC
9715842 AT AT AT AT AT 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 AT AT AT AT AT
9715884 AT AT 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 AT AT
9715920 GCTTAGAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9720926 original size:2 final size:2
Alignment explanation
Indices: 9720919--9720943 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9720909 CTCATGACTG
9720919 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9720944 ATTTCTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9724290 original size:14 final size:14
Alignment explanation
Indices: 9724271--9724308 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9724261 TTTTGCGAAT
*
9724271 GCGGTTGTGGTGTC
1 GCGGTTGCGGTGTC
9724285 GCGGTTGCGGTGTC
1 GCGGTTGCGGTGTC
*
9724299 GCAGTTGCGG
1 GCGGTTGCGG
9724309 ATGTTGCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.03, C:0.18, G:0.50, T:0.29
Consensus pattern (14 bp):
GCGGTTGCGGTGTC
Found at i:9724989 original size:25 final size:25
Alignment explanation
Indices: 9724961--9725047 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
9724951 GTAGCTGAAT
9724961 TTTATTTTATTTATAATATTATTTA
1 TTTATTTTATTTATAATATTATTTA
* ** * * *
9724986 TTTATTTTGTCAAGGAATATATTCTTTTTT
1 TTTATTTTATTTA--TA-ATA-T-TATTTA
*
9725016 TTTATTTTATTTATGATATTATTTA
1 TTTATTTTATTTATAATATTATTTA
9725041 TTTATTT
1 TTTATTT
9725048 ATTCTTTATA
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 21 0.48
26 1 0.02
27 4 0.09
28 3 0.07
29 1 0.02
30 14 0.32
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (25 bp):
TTTATTTTATTTATAATATTATTTA
Found at i:9727578 original size:64 final size:64
Alignment explanation
Indices: 9727518--9727638 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
9727508 TAAAATCAGG
*
9727518 TACAAGTCA-ATTCAGGTTTATTTGACACCAGATCCAAATCGGGTTCAGGTCAGGTCAAATCAA
1 TACAAGTCATATTCAGGTTGATTTGACACCAGATCCAAATCGGGTTCAGGTCAGGTCAAATCAA
* * * * * *
9727581 TTCGAGTTATTTTCAGGTTGATTTGACACCATATCCATATCGGGTTCAGGTCAGGTCA
1 TACAAGTCATATTCAGGTTGATTTGACACCAGATCCAAATCGGGTTCAGGTCAGGTCA
9727639 TTTTCAGTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 6 0.12
64 44 0.88
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (64 bp):
TACAAGTCATATTCAGGTTGATTTGACACCAGATCCAAATCGGGTTCAGGTCAGGTCAAATCAA
Found at i:9728318 original size:13 final size:12
Alignment explanation
Indices: 9728302--9728366 Score: 62
Period size: 13 Copynumber: 5.4 Consensus size: 12
9728292 ATTGAAAAAA
9728302 ATAT-AATATAT
1 ATATAAATATAT
*
9728313 ATATATATATA-
1 ATATAAATATAT
* *
9728324 ATATAAGTGTAT
1 ATATAAATATAT
9728336 ATATAAACTATAT
1 ATATAAA-TATAT
9728349 ATATAAACTATAT
1 ATATAAA-TATAT
*
9728362 TTATA
1 ATATA
9728367 TTATAAACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 12 0.27
12 11 0.25
13 21 0.48
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:9728324 original size:17 final size:17
Alignment explanation
Indices: 9728302--9728353 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
9728292 ATTGAAAAAA
9728302 ATATAATATATATATAT
1 ATATAATATATATATAT
*
9728319 ATATAATATA-AGTGTAT
1 ATATAATATATA-TATAT
9728336 ATATAA-ACTATATATAT
1 ATATAATA-TATATATAT
9728353 A
1 A
9728354 AACTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 2 0.07
17 27 0.90
18 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (17 bp):
ATATAATATATATATAT
Found at i:9728327 original size:15 final size:15
Alignment explanation
Indices: 9728309--9728372 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
9728299 AAAATATAAT
9728309 ATATATATATATATA
1 ATATATATATATATA
*
9728324 ATATAAGTGTATATATA
1 ATAT-A-TATATATATA
9728341 A-ACTATATATATA-A
1 ATA-TATATATATATA
*
9728355 ACTATATTTATATTATA
1 A-TATATATATA-TATA
9728372 A
1 A
9728373 ACTATATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 2 0.05
15 18 0.46
16 6 0.15
17 13 0.33
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:9728373 original size:18 final size:19
Alignment explanation
Indices: 9728344--9728379 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9728334 ATATATAAAC
9728344 TATATATATAAACTATATT
1 TATATATATAAACTATATT
9728363 TATAT-TATAAACTATAT
1 TATATATATAAACTATAT
9728380 AATTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATATAAACTATATT
Found at i:9728386 original size:18 final size:18
Alignment explanation
Indices: 9728344--9728390 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9728334 ATATATAAAC
9728344 TATATA-TATAAACTATA
1 TATATATTATAAACTATA
*
9728361 TTTATATTATAAACTATA
1 TATATATTATAAACTATA
9728379 TA-ATTATTATAA
1 TATA-TATTATAA
9728391 GTTATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATATATTATAAACTATA
Found at i:9728439 original size:15 final size:15
Alignment explanation
Indices: 9728333--9728465 Score: 75
Period size: 13 Copynumber: 9.0 Consensus size: 15
9728323 AATATAAGTG
9728333 TATATATAAAC--TA
1 TATATATAAACTATA
9728346 TATATATAAACTATA
1 TATATATAAACTATA
9728361 TTTATATTATAAACTATA
1 --TATA-TATAAACTATA
*
9728379 TA-ATTATTATAAGT-TA
1 TATA-TA-TA-AACTATA
* * *
9728395 TATACATAAATTATG
1 TATATATAAACTATA
* **
9728410 TTTATATGCAC--TA
1 TATATATAAACTATA
9728423 TATATATAAAC--TA
1 TATATATAAACTATA
*
9728436 TATATGTAAACTATA
1 TATATATAAACTATA
*
9728451 TATGTATAAACTATA
1 TATATATAAACTATA
9728466 AAAAATATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
13 32 0.34
14 3 0.03
15 30 0.32
16 9 0.10
17 8 0.09
18 11 0.12
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (15 bp):
TATATATAAACTATA
Found at i:9728520 original size:90 final size:89
Alignment explanation
Indices: 9728333--9728504 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 89
9728323 AATATAAGTG
* * * *
9728333 TATATATAAACTATATATATAAACTATATTTATATTATAAACTATATAATTATTATAAGTTATAT
1 TATATATAAACTATATATATAAACTATA-TTATAGTATAAACTATAAAAATATTATAAGTTATAA
* *
9728398 ACATAAATTATGTTTATATGCACTA
65 ACATAAATTATATTAATATGCACTA
*
9728423 TATATATAAACTATATATGTAAACTATA-TAT-GTATAAACTATAAAAA-A-TATATAGTTTATA
1 TATATATAAACTATATATATAAACTATATTATAGTATAAACTATAAAAATATTATA-AG-TTATA
*
9728484 AACTATAATTTATATTAATAT
64 AAC-ATAAATTATATTAATAT
9728505 AGTATGTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
85 4 0.06
86 3 0.04
87 20 0.28
88 17 0.24
90 27 0.38
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (89 bp):
TATATATAAACTATATATATAAACTATATTATAGTATAAACTATAAAAATATTATAAGTTATAAA
CATAAATTATATTAATATGCACTA
Found at i:9728669 original size:20 final size:19
Alignment explanation
Indices: 9728622--9728705 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
9728612 TTTAGAAATT
*
9728622 TTGAGAATATAGA--GAAA
1 TTGAGAATTTAGAGGGAAA
9728639 TTGAGAATTTAGAGGGAAA
1 TTGAGAATTTAGAGGGAAA
*
9728658 TTGGGAAATTTAGAGGG-AA
1 TTGAG-AATTTAGAGGGAAA
* * *
9728677 TAGAAAATTTTGGAGGGAAA
1 TTGAGAA-TTTAGAGGGAAA
9728697 TTGAGAATT
1 TTGAGAATT
9728706 GAGATTTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
17 12 0.22
18 2 0.04
19 22 0.41
20 18 0.33
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (19 bp):
TTGAGAATTTAGAGGGAAA
Found at i:9729117 original size:7 final size:7
Alignment explanation
Indices: 9729107--9729162 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
9729097 TAGTTTATAA
9729107 AAACCCT
1 AAACCCT
*
9729114 AAACCTT
1 AAACCCT
*
9729121 ACACCCT
1 AAACCCT
*
9729128 AAACCTT
1 AAACCCT
*
9729135 CAACCCT
1 AAACCCT
*
9729142 TAACCCT
1 AAACCCT
9729149 AAACCCT
1 AAACCCT
*
9729156 AACCCCT
1 AAACCCT
9729163 GAACTATATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:9729162 original size:21 final size:21
Alignment explanation
Indices: 9729107--9729160 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
9729097 TAGTTTATAA
*
9729107 AAACCCTAAACCTTACACCCT
1 AAACCCTAACCCTTACACCCT
*
9729128 AAACCTTCAACCCTTA-ACCCT
1 AAACCCT-AACCCTTACACCCT
9729149 AAACCCTAACCC
1 AAACCCTAACCC
9729161 CTGAACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.17
21 17 0.59
22 7 0.24
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCCTAACCCTTACACCCT
Found at i:9729238 original size:26 final size:26
Alignment explanation
Indices: 9729183--9729238 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
9729173 TGTAACTTAT
* * *
9729183 AGTACATATATGTATAAACCATGTAT
1 AGTACATATATATATAAACCATATAA
* *
9729209 AGTATATATATATATAAACTATATAA
1 AGTACATATATATATAAACCATATAA
9729235 AGTA
1 AGTA
9729239 AATTACTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (26 bp):
AGTACATATATATATAAACCATATAA
Found at i:9729324 original size:7 final size:7
Alignment explanation
Indices: 9729312--9729386 Score: 87
Period size: 7 Copynumber: 10.7 Consensus size: 7
9729302 TTTATAGAAA
9729312 CCTAAAC
1 CCTAAAC
*
9729319 CCTAAAT
1 CCTAAAC
*
9729326 CATAAAC
1 CCTAAAC
9729333 CCTAAAC
1 CCTAAAC
9729340 CCTAAAC
1 CCTAAAC
**
9729347 TTTAAAC
1 CCTAAAC
*
9729354 CATAAAC
1 CCTAAAC
*
9729361 ACTAAAC
1 CCTAAAC
9729368 CCTAAAC
1 CCTAAAC
*
9729375 CATAAAC
1 CCTAAAC
9729382 CCTAA
1 CCTAA
9729387 TATAAATGGA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:9729744 original size:20 final size:20
Alignment explanation
Indices: 9729712--9729777 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
9729702 ATTTTATATA
*
9729712 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACCAT
* *
9729731 GTATAGTATATATAAACTAT
1 ATATAGTATATATAAACCAT
*
9729751 ATATA-TATATATAAACTAT
1 ATATAGTATATATAAACCAT
*
9729770 ATAAAGTA
1 ATATAGTA
9729778 AATTACTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
19 21 0.52
20 19 0.47
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (20 bp):
ATATAGTATATATAAACCAT
Found at i:9729761 original size:19 final size:20
Alignment explanation
Indices: 9729706--9729777 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
9729696 TAAATAATTT
*
9729706 TATATAATATGTATGTATAAAC
1 TATAT-ATA-GTATATATAAAC
* *
9729728 CATGTATAGTATATATAAAC
1 TATATATAGTATATATAAAC
9729748 TATATATA-TATATATAAAC
1 TATATATAGTATATATAAAC
*
9729767 TATATAAAGTA
1 TATATATAGTA
9729778 AATTACTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 18 0.42
20 19 0.44
21 3 0.07
22 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.39
Consensus pattern (20 bp):
TATATATAGTATATATAAAC
Found at i:9729857 original size:7 final size:7
Alignment explanation
Indices: 9729847--9729877 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9729837 TAGTTTATAG
9729847 AAATCCT
1 AAATCCT
9729854 AAATCCT
1 AAATCCT
9729861 AAATCCT
1 AAATCCT
*
9729868 AAACCCT
1 AAATCCT
9729875 AAA
1 AAA
9729878 CTTTAAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATCCT
Found at i:9729878 original size:7 final size:7
Alignment explanation
Indices: 9729851--9729904 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
9729841 TTATAGAAAT
*
9729851 CCTAAAT
1 CCTAAAC
*
9729858 CCTAAAT
1 CCTAAAC
9729865 CCTAAAC
1 CCTAAAC
9729872 CCTAAAC
1 CCTAAAC
**
9729879 TTTAAAC
1 CCTAAAC
*
9729886 CATAAAC
1 CCTAAAC
*
9729893 CATAAAC
1 CCTAAAC
9729900 CCTAA
1 CCTAA
9729905 TATAAATGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (7 bp):
CCTAAAC
Found at i:9730921 original size:17 final size:17
Alignment explanation
Indices: 9730899--9730939 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
9730889 ATGGTCGACT
9730899 GTTGACCGTTGACCT-GC
1 GTTGACCGTTGA-CTGGC
9730916 GTTGACCGTTGACTGGC
1 GTTGACCGTTGACTGGC
9730933 GTTGACC
1 GTTGACC
9730940 ACAGATGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (17 bp):
GTTGACCGTTGACTGGC
Found at i:9734533 original size:12 final size:12
Alignment explanation
Indices: 9734518--9734546 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9734508 TTATTTATTT
9734518 TATTATTATTAA
1 TATTATTATTAA
9734530 TATTATTATTAA
1 TATTATTATTAA
9734542 TATTA
1 TATTA
9734547 GTATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:9734636 original size:11 final size:11
Alignment explanation
Indices: 9734616--9734674 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
9734606 TTTTTTGTTT
9734616 TATTTATATTA
1 TATTTATATTA
*
9734627 TATTTTTATTA
1 TATTTATATTA
*
9734638 TATATATA-TA
1 TATTTATATTA
9734648 TATTATATCATTA
1 TATT-TAT-ATTA
*
9734661 TTTGTTATA-TA
1 TAT-TTATATTA
9734672 TAT
1 TAT
9734675 AGGTATAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.13
11 23 0.61
12 2 0.05
13 7 0.18
14 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (11 bp):
TATTTATATTA
Found at i:9734651 original size:15 final size:15
Alignment explanation
Indices: 9734614--9734675 Score: 63
Period size: 15 Copynumber: 4.0 Consensus size: 15
9734604 TGTTTTTTGT
*
9734614 TTTATTTATATTATATT
1 TTTA-TTATA-TATATA
9734631 TTTATTATATATATA
1 TTTATTATATATATA
*
9734646 TATATTATATCAT-TA
1 TTTATTATAT-ATATA
*
9734661 TTTGTTATATATATA
1 TTTATTATATATATA
9734676 GGTATAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 2 0.05
15 26 0.67
16 7 0.18
17 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTATTATATATATA
Found at i:9734660 original size:8 final size:7
Alignment explanation
Indices: 9734616--9734672 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
9734606 TTTTTTGTTT
9734616 TATT-TA
1 TATTATA
9734622 TATTATA
1 TATTATA
9734629 T-TT-T-
1 TATTATA
9734633 TATTATA
1 TATTATA
9734640 TATATATA
1 TAT-TATA
9734648 TATTATA
1 TATTATA
*
9734655 TCATTATT
1 T-ATTATA
*
9734663 TGTTATA
1 TATTATA
9734670 TAT
1 TAT
9734673 ATAGGTATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
4 1 0.02
5 3 0.07
6 7 0.17
7 17 0.41
8 13 0.32
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (7 bp):
TATTATA
Found at i:9734661 original size:26 final size:26
Alignment explanation
Indices: 9734620--9734675 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
9734610 TTGTTTTATT
**
9734620 TATATTATATTTTTATTAT-ATATATA
1 TATATTATATCATTATT-TGATATATA
*
9734646 TATATTATATCATTATTTGTTATATA
1 TATATTATATCATTATTTGATATATA
9734672 TATA
1 TATA
9734676 GGTATAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TATATTATATCATTATTTGATATATA
Found at i:9734924 original size:21 final size:20
Alignment explanation
Indices: 9734900--9734938 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9734890 CTTTACCTTG
9734900 TTTCAT-TTTCGATTATTTTTA
1 TTTCATCTTTC-A-TATTTTTA
9734921 TTTCATCTTTCATATTTT
1 TTTCATCTTTCATATTTT
9734939 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTCATCTTTCATATTTTTA
Found at i:9736711 original size:15 final size:15
Alignment explanation
Indices: 9736686--9736722 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
9736676 ATAAACCATG
9736686 TATAGTATATACAAAC
1 TATA-TATATACAAAC
*
9736702 TATATATATATAAAC
1 TATATATATACAAAC
9736717 TATATA
1 TATATA
9736723 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (15 bp):
TATATATATACAAAC
Found at i:9737149 original size:23 final size:25
Alignment explanation
Indices: 9737091--9737149 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
9737081 ATTAATCATG
9737091 TTTTATATAATTTACATTTAAATAA
1 TTTTATATAATTTACATTTAAATAA
* * *
9737116 TTTTTTTTAATTT-TA-TTAAATAA
1 TTTTATATAATTTACATTTAAATAA
9737139 TTTTATATAAT
1 TTTTATATAAT
9737150 ATGTATGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 17 0.59
24 1 0.03
25 11 0.38
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTATATAATTTACATTTAAATAA
Found at i:9737193 original size:15 final size:17
Alignment explanation
Indices: 9737188--9737225 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
9737178 ATAAACCATA
9737188 TATATATATATATAACC
1 TATATATATATATAACC
9737205 TATATATATATA-AA-C
1 TATATATATATATAACC
9737220 TATATA
1 TATATA
9737226 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 12 0.57
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATATATATATAACC
Found at i:9737310 original size:7 final size:7
Alignment explanation
Indices: 9737300--9737364 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
9737290 TAGTTTATAG
9737300 AAACCCT
1 AAACCCT
9737307 AAACCCT
1 AAACCCT
9737314 AATA-CCT
1 AA-ACCCT
**
9737321 AAACTTT
1 AAACCCT
*
9737328 AAACCAT
1 AAACCCT
*
9737335 AAACACT
1 AAACCCT
9737342 AAACCCT
1 AAACCCT
*
9737349 AAACCAT
1 AAACCCT
9737356 AAACCCT
1 AAACCCT
9737363 AA
1 AA
9737365 TGTAAATAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 1 0.02
7 45 0.96
8 1 0.02
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:9737749 original size:19 final size:19
Alignment explanation
Indices: 9737727--9737766 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9737717 ATATATAAAC
*
9737727 TATATATATATAACCTATA
1 TATATATATATAAACTATA
9737746 TATATATATATAAACTATA
1 TATATATATATAAACTATA
9737765 TA
1 TA
9737767 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATATATATAAACTATA
Found at i:9737766 original size:15 final size:15
Alignment explanation
Indices: 9737715--9737753 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
9737705 ACCATGTATA
9737715 ATATATATAAACTAT
1 ATATATATAAACTAT
*
9737730 ATATATATAACCTAT
1 ATATATATAAACTAT
9737745 ATATATATA
1 ATATATATA
9737754 TATAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATATATAAACTAT
Found at i:9737857 original size:49 final size:49
Alignment explanation
Indices: 9737755--9737848 Score: 154
Period size: 48 Copynumber: 1.9 Consensus size: 49
9737745 ATATATATAT
* **
9737755 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTATGC
9737804 ATAAACTATATAAAGT-AATAAAGTATATAGTTTATAGAAACACTA
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTA
9737849 AATCATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 26 0.62
49 16 0.38
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTATGC
Found at i:9737870 original size:21 final size:20
Alignment explanation
Indices: 9737841--9737933 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 20
9737831 TAGTTTATAG
* *
9737841 AAACACTAAATCATAAATCAT
1 AAACCCTAAA-CATAAACCAT
*
9737862 AAACCCTAAACTTTAAACCAT
1 AAACCCTAAAC-ATAAACCAT
* *
9737883 ATACCCTAAACTTTAAACCAT
1 AAACCCTAAAC-ATAAACCAT
* *
9737904 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAA-CATAAACCAT
9737925 AAACCCTAA
1 AAACCCTAA
9737934 TATAAATGGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
20 1 0.02
21 61 0.97
22 1 0.02
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (20 bp):
AAACCCTAAACATAAACCAT
Found at i:9737871 original size:7 final size:7
Alignment explanation
Indices: 9737861--9737933 Score: 83
Period size: 7 Copynumber: 10.4 Consensus size: 7
9737851 TCATAAATCA
9737861 TAAACCC
1 TAAACCC
**
9737868 TAAACTT
1 TAAACCC
*
9737875 TAAACCA
1 TAAACCC
*
9737882 TATACCC
1 TAAACCC
**
9737889 TAAACTT
1 TAAACCC
*
9737896 TAAACCA
1 TAAACCC
9737903 TAAACCC
1 TAAACCC
9737910 TAAACCC
1 TAAACCC
9737917 TAAACCC
1 TAAACCC
9737924 TAAACCC
1 TAAACCC
9737931 TAA
1 TAA
9737934 TATAAATGGA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:9738115 original size:571 final size:575
Alignment explanation
Indices: 9736801--9739076 Score: 2940
Period size: 566 Copynumber: 3.9 Consensus size: 575
9736791 TTTATATATA
*
9736801 TAAATGGACTAGCACTAATGC--ATATATATTTGTAATAAAATAGTGGGCTTATGTATTGGGCCT
1 TAAATGGACTAGCACTAATGCATATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCT
* * * *
9736864 ATGTAAACTAAAGTAAATGGACTAGCACTAATGCAAATAGACTTATTTTTGGGTTTTATTATTAC
66 ATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTAC
*
9736929 TTATTCATAACAACAAAATAAATGGACTATTAATGTGAATTAACCTAACATGCAACTAAAATACT
131 TTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACT
* *
9736994 AATTATACAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGA
196 AATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGA
*
9737059 CATACTAATTATCTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTTTTT
261 CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTAC-----------------T
*
9737124 AATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACCATAT
309 -A--TTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATAT
9737189 ATATATATA--TATAACCTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAG
371 ATATATA-ACCTAT-A--TATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAG
* *
9737252 AAACACTATGCATAAACAATATAAAGTAATAAATTATATAGTTTATAG--A-A--A-C-----C-
432 AAACACTATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACACTATCATAAACT
9737305 -C-TAAA-CC----C---T--A--AT--A-CCTAAACTTTAAACCATAAACACTAAACCCTAAAC
497 ACATAAACCCTAAACTATTAAACCATAAACCCTAAACTTTAAACCATAAACACTAAACCCTAAAC
9737353 CATAAACCCTAATG
562 CATAAACCCTAATG
* *
9737367 TAAATAGACTAGCACTAATGC--ATATATATTTGTAATAAAAGAGCGGGCTTATGTATTGGGCCT
1 TAAATGGACTAGCACTAATGCATATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCT
*
9737430 ATATAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTAC
66 ATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTAC
* *
9737495 TTATTCATAACAACAAAATAAATGAGCTATTAATGTGAATTAACCTAACATGCAATTAAAATACT
131 TTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACT
* *
9737560 AATTATGTAAATGAAATTAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGA
196 AATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGA
9737625 CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTAC-A-T-TTAAATAATTTTA
261 CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACTATTATTAAATAATTTTA
*
9737687 TATAATATGTATGTATAAACCATGTATAATATATATAAACTATATATATATAACCTATATATATA
326 TATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAACCTATATATATA
9737752 TATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAA
391 TATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAA
9737817 AGTAATAAAGTATATAGTTTATAGAAACACTAAATCATAAA-T-CATAAACCCTAAACT-TTAAA
456 AGTAATAAAGTATATAGTTTATAGAAACACT--ATCATAAACTACATAAACCCTAAACTATTAAA
* * * *
9737879 CCATATACCCTAAACTTTAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAATA
519 CCATAAACCCTAAACTTTAAACCATAAACACTAAACCCTAAACCATAAACCCTAATG
* * *
9737936 TAAATGGACTAGCACTAATACATATATATATTTGTAATAAATGAGTGTGCTTATGTATTGGGCCT
1 TAAATGGACTAGCACTAATGCATATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCT
* * * *
9738001 ATGTAAACTAATGTCAATGGACTAACACTATTGCAAATGGACTTATTTTTTAGTTTTATTATAAC
66 ATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTAC
* *
9738066 TTATTCATGACAACAAAATAAATGGGCTATCAATGTGAATTAACCTAACATGCAACTAAAATACT
131 TTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACT
9738131 AATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGA
196 AATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGA
9738196 CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTA
261 CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTAC-------T-A--TTATTA
9738261 AATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATAT-A--
316 AATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAACC
**
9738323 TA-ACCTATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATA
381 TATATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATA
*
9738387 AACTATATAAAGTAATAAAGTATATAGTTTATAGAAAC-C---C-TAAAC--CCTAAACCCTAAA
446 AACTATATAAAGTAATAAAGTATATAGTTTATAGAAACACTATCATAAACTACATAAACCCTAAA
* * * *
9738445 -TCA-TAAACCCTAAACCCTAAACCTTAAACCATAAATACTAAACCCTAAACCATAAATCCTAAT
511 CT-ATTAAACCATAAACCCTAAACTTTAAACCATAAACACTAAACCCTAAACCATAAACCCTAAT
*
9738508 A
575 G
* * *
9738509 TAAATGGACTAGCAGTAATGCATATATATATTAGTAATAAAAGAGTGGACTTATGTATTGGGCCT
1 TAAATGGACTAGCACTAATGCATATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCT
*
9738574 ATGTAAACTAATGTAAATGGACTAGCACTATTACAAATGGACTTATTTTTTGGTTTTATTATTAC
66 ATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTAC
* * *
9738639 TTATTCATAACAA-AAAATAAATGGGCTATTAATTTTAATTAACCTAACATGAAACTAAAATACT
131 TTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACT
*
9738703 AATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAATCATATAATATGCAATGTGA
196 AATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGA
9738768 CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTA
261 CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTAC----------------T-
* *
9738833 ATTTTATTAAATAATTTTATATAATATGTATCTATAAGCCATGTATAGTATATATAAACTATATA
309 A--TTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTATATATAAAC----TA
9738898 TATATATATAACCTATATATATATATATATATATATATATATATAAACTATATAAAGTAAATTAC
368 TATATATATAACC----------------TATATATATATATATAAACTATATAAAGTAAATTAC
9738963 TTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAA
417 TTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAA
* * ** *
9739028 ACCCTAAATCATAAAC--CCTAAACCCTAAAC-CCTAAACCCTAAACCCTAA
482 ACACT--ATCATAAACTACATAAACCCTAAACTATTAAACCATAAACCCTAA
9739077 TGTAAATGGA
Statistics
Matches: 1547, Mismatches: 72, Indels: 136
0.88 0.04 0.08
Matches are distributed among these distances:
541 93 0.06
542 1 0.00
543 65 0.04
544 5 0.00
547 1 0.00
548 1 0.00
549 1 0.00
554 1 0.00
555 4 0.00
556 2 0.00
560 1 0.00
562 1 0.00
564 1 0.00
566 293 0.19
568 1 0.00
569 65 0.04
571 270 0.17
572 159 0.10
573 201 0.13
574 1 0.00
579 1 0.00
580 99 0.06
581 66 0.04
583 2 0.00
584 63 0.04
585 11 0.01
586 1 0.00
604 2 0.00
605 98 0.06
606 1 0.00
611 1 0.00
612 35 0.02
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (575 bp):
TAAATGGACTAGCACTAATGCATATATATATTTGTAATAAAAGAGTGGGCTTATGTATTGGGCCT
ATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTAC
TTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACT
AATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGA
CATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACTATTATTAAATAATTTTA
TATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATAACCTATATATATA
TATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAA
AGTAATAAAGTATATAGTTTATAGAAACACTATCATAAACTACATAAACCCTAAACTATTAAACC
ATAAACCCTAAACTTTAAACCATAAACACTAAACCCTAAACCATAAACCCTAATG
Found at i:9738277 original size:13 final size:13
Alignment explanation
Indices: 9738245--9738271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9738235 TAATTTACAT
9738245 TTAAATAATTTTA
1 TTAAATAATTTTA
9738258 TTAAATAATTTTA
1 TTAAATAATTTTA
9738271 T
1 T
9738272 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:9738307 original size:20 final size:20
Alignment explanation
Indices: 9738275--9738335 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
9738265 ATTTTATATA
*
9738275 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACCAT
*
9738294 GTATAGTATATATAAA-C-T
1 ATATAGTATATATAAACCAT
9738312 ATATA-TATATAT-AACCTAT
1 ATATAGTATATATAAACC-AT
9738331 ATATA
1 ATATA
9738336 TAAACTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.06
17 8 0.23
18 5 0.14
19 10 0.29
20 10 0.29
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATATAAACCAT
Found at i:9738318 original size:13 final size:13
Alignment explanation
Indices: 9738300--9738346 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 13
9738290 CCATGTATAG
9738300 TATATATAAACTATA
1 TATATATAAAC--TA
9738315 TATATATATAACCTA
1 TATATATA-AA-CTA
9738330 TATATATAAACTA
1 TATATATAAACTA
9738343 TATA
1 TATA
9738347 AAGTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.23
14 2 0.07
15 18 0.60
16 2 0.07
17 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:9738322 original size:17 final size:17
Alignment explanation
Indices: 9738295--9738337 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
9738285 ATAAACCATG
9738295 TATAGTATATATAAACTA
1 TATA-TATATATAAACTA
*
9738313 TATATATATATAACCTA
1 TATATATATATAAACTA
9738330 TATATATA
1 TATATATA
9738338 AACTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (17 bp):
TATATATATATAAACTA
Found at i:9738431 original size:7 final size:7
Alignment explanation
Indices: 9738421--9738506 Score: 100
Period size: 7 Copynumber: 12.3 Consensus size: 7
9738411 TAGTTTATAG
9738421 AAACCCT
1 AAACCCT
9738428 AAACCCT
1 AAACCCT
9738435 AAACCCT
1 AAACCCT
* *
9738442 AAATCAT
1 AAACCCT
9738449 AAACCCT
1 AAACCCT
9738456 AAACCCT
1 AAACCCT
*
9738463 AAACCTT
1 AAACCCT
*
9738470 AAACCAT
1 AAACCCT
**
9738477 AAATACT
1 AAACCCT
9738484 AAACCCT
1 AAACCCT
*
9738491 AAACCAT
1 AAACCCT
*
9738498 AAATCCT
1 AAACCCT
9738505 AA
1 AA
9738507 TATAAATGGA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:9738438 original size:49 final size:49
Alignment explanation
Indices: 9738335--9738438 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
9738325 ACCTATATAT
* ** **
9738335 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTAACC
*
9738384 ATAAACTATATAAAGT-AATAAAGTATATAGTTTATAGAAACCCTAAACC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACT-AACC
*
9738433 CTAAAC
1 ATAAAC
9738439 CCTAAATCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 24 0.51
49 23 0.49
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTAACC
Found at i:9738453 original size:28 final size:28
Alignment explanation
Indices: 9738421--9738502 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
9738411 TAGTTTATAG
*
9738421 AAACCCTAAACCCTAAACCCTAAATCAT
1 AAACCCTAAACCCTAAACCATAAATCAT
* *
9738449 AAACCCTAAACCCTAAACCTTAAACCAT
1 AAACCCTAAACCCTAAACCATAAATCAT
**
9738477 AAATACTAAACCCTAAACCATAAATC
1 AAACCCTAAACCCTAAACCATAAATC
9738503 CTAATATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (28 bp):
AAACCCTAAACCCTAAACCATAAATCAT
Found at i:9738938 original size:35 final size:36
Alignment explanation
Indices: 9738850--9738951 Score: 118
Period size: 35 Copynumber: 2.8 Consensus size: 36
9738840 TAAATAATTT
* * *
9738850 TATATA-ATATGTATCTATAAGCCATGTATAGTATATA
1 TATATATATATATATATATAA-CC-TATATAGTATATA
*
9738887 TAAACTATATATATATATATAACCTATATA-TATATA
1 TATA-TATATATATATATATAACCTATATAGTATATA
*
9738923 TATATATATATATATATATAAACTATATA
1 TATATATATATATATATATAACCTATATA
9738952 AAGTAAATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
35 24 0.42
36 9 0.16
37 8 0.14
38 4 0.07
39 12 0.21
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (36 bp):
TATATATATATATATATATAACCTATATAGTATATA
Found at i:9738951 original size:2 final size:2
Alignment explanation
Indices: 9738876--9738942 Score: 82
Period size: 2 Copynumber: 33.0 Consensus size: 2
9738866 ATAAGCCATG
* **
9738876 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA -A CC TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9738919 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
9738943 AACTATATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
1 1 0.02
2 53 0.93
3 3 0.05
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:9738969 original size:35 final size:35
Alignment explanation
Indices: 9738892--9738959 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
9738882 ATATATAAAC
* * *
9738892 TATATATATATATATAACCTATATATATATATATA
1 TATATATATATATATAAACTATATAAATAAATATA
9738927 TATATATATATATATAAACTATATAAAGTAAAT
1 TATATATATATATATAAACTATATAAA-TAAAT
9738960 TACTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (35 bp):
TATATATATATATATAAACTATATAAATAAATATA
Found at i:9739049 original size:7 final size:7
Alignment explanation
Indices: 9739026--9739076 Score: 84
Period size: 7 Copynumber: 7.3 Consensus size: 7
9739016 TAGTTTATAG
9739026 AAACCCT
1 AAACCCT
* *
9739033 AAATCAT
1 AAACCCT
9739040 AAACCCT
1 AAACCCT
9739047 AAACCCT
1 AAACCCT
9739054 AAACCCT
1 AAACCCT
9739061 AAACCCT
1 AAACCCT
9739068 AAACCCT
1 AAACCCT
9739075 AA
1 AA
9739077 TGTAAATGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:9739369 original size:569 final size:563
Alignment explanation
Indices: 9737152--9739615 Score: 2853
Period size: 569 Copynumber: 4.3 Consensus size: 563
9737142 TATATAATAT
* *
9737152 GTATGTATAAACCATGTATAGTATATATAAACCATATATATATATATATAACCTATATATATATA
1 GTATATATAAA-CATATATA-TATATAT-AACC-TATATAT-T-TATATAA--TATATATATATA
*
9737217 AACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACAATATAAAGTAAT
58 AACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAAT
* *
9737282 AAATTATATAGTTTATAGAAACCCTAAACCCTAATACCTAAACTTTAAACCATAAACACTAAACC
123 AAAGTATATAGTTTATAG-------AAACCCTAA-ACC---A---TAAACCATAAACCCTAAACC
* * * *
9737347 CTAAACCATAAACCCTAATGTAAATAGACTAGCACTAATGCATATATATTTGTAATAAAAGAGCG
174 CTAAACCCTAAACCCTAATATAAATGGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTG
** *
9737412 GGCTTATGTATTGGGCCTATATAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATT
239 AACTTATGTATTGGGCCTATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATT
*
9737477 TTTTGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCTATTAATGTGAATTAACCTA
304 TTTTGGTTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTA
* * *
9737542 ACATGCAATTAAAATACTAATTATGTAAATGAAATTAATATGGCATGTACTACTATTTATGAACC
369 ACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACC
9737607 ATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTAC
434 ATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTAC
* * * *
9737672 ATTTAAATAATTTTATATAATATGTATGTATAA-ACCATGTATAATATATATAAACTATATATAT
499 ATTTAAATAATTTTAT-TAAT-TTTAT-TA-AATA--AT-T-T--TATATA-ATA-TGTATGTAT
*
9737736 ATAACCTATATATA
552 A-AACC-ATGTATA
* * * * * * **
9737750 -TATATATAAAC-TATATAAAGTAAATTACTTATATAGTTTATAGAA-ACACTATGCATAAACTA
1 GTATATATAAACATATATATA-TATATAACCTATATA-TTTATATAATATA-TATATATAAACTA
* ** * ***
9737812 TATAAAGT-AATAAAGTATATAGTTTATAGAAACACTAAAT-CATAAA-T-CATAAA-CCCTAAA
63 TATAAAGTAAATTACTTATATAGTTTATAGAAACACT--ATGCATAAACTATATAAAGTAATAAA
* **** * **
9737872 CT-T-TAAACCAT--ATACCCTAAACTTTAAACCATAAACCCTAAACCCTAAACCCTAAACCCTA
126 GTATATAGTTTATAGAAACCCTAAACCATAAACCATAAACCCTAAACCCTAAACCCTAAACCCTA
* * **
9737933 ATATAAATGGACTAGCACTAATACATATATATATTTGTAATAAATGAGTGTGCTTATGTATTGGG
191 ATATAAATGGACTAGCACTAATGC--ATATATATTTGTAATAAAAGAGTGAACTTATGTATTGGG
* * *
9737998 CCTATGTAAACTAATGTCAATGGACTAACACTATTGCAAATGGACTTATTTTTTAGTTTTATTAT
254 CCTATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTAT
* * *
9738063 AACTTATTCATGACAACAAAATAAATGGGCTATCAATGTGAATTAACCTAACATGCAACTAAAAT
319 TACTTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAAT
9738128 ACTAATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATG
384 ACTAATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATG
9738193 TGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACA-TT---TAA----A
449 TGACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTA
9738250 -TAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATA
514 TTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATA
9738299 GTATATATAAAC-TATATATATATATAACC-----------------TATATATATAAACTATAT
1 GTATATATAAACATATATATATATATAACCTATATATTTATATAATATATATATATAAACTATAT
9738346 AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
66 AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
* * * * * *
9738411 TAGTTTATAGAAACCCTAAACCCTAAACCCTAAATCATAAACCCTAAACCCTAAACCTTAAACCA
131 TAGTTTATAGAAACCCTAAACCATAAACCATAAACCCTAAACCCTAAACCCTAAACCCT-AA-TA
* * ** * * * ** * *
9738476 TAAAT--ACTAAACCCTAAACCATAAATCCTAATATAAATGGACTAGCAGTAATGCATATATATA
194 TAAATGGACT-AGCACTAATGCAT--A---T-ATAT--TTGTAATAAAAG-AGTG-A-A-CT-TA
* * ** * *
9738539 TTAGTAATAAAAGAGTGGACTTATGTATTGGGCCT-ATGTAAACTAATGTAAATGGACTAGCACT
245 -T-GT-AT-------TGGGCCTATGTA----AACTAATGT--A--AATG--GA-C---TAGCACT
*
9738603 ATTACAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCATAACAA-AAAATAAATGGGCTA
286 ATTGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTA
* * *
9738667 TTAATTTTAATTAACCTAACATGAAACTAAAATACTAATTATGCAAATGAAATTAATATGACATG
351 TTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACATG
*
9738732 TACTACTATTTATGAATCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATC
416 TACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATC
9738797 ATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGT
481 ATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGT
* *
9738862 ATCTATAAGCCATGTATA
546 ATGTATAAACCATGTATA
9738880 GTATATATAAACTATATATATATATATAACCTATATATATATATATATATATATATATATATAAA
1 GTATATATAAAC-ATATATATATATATAACC--TATATAT-T-TATATA-ATATATATATATAAA
9738945 CTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAA
60 CTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAA
* *
9739010 AGTATATAGTTTATAGAAACCCTAAATCATAAACCCTAAACCCTAAACCCTAAACCCTAAACCCT
125 AGTATATAGTTTATAGAAACCCTAAACCATAAACCATAAACCCTAAACCCTAAACCCTAAACCCT
*
9739075 AATGTAAATGGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGAACTTATGTATTGGGC
190 AATATAAATGGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGAACTTATGTATTGGGC
*
9739140 CTATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATT
255 CTATGTAAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATT
*
9739205 ACTTATCCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATA
320 ACTTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATA
*
9739270 ATAATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGT
385 CTAATTATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGT
*
9739335 GACATACTAATTATTTAACAACTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTAT
450 GACATACTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTAT
*
9739400 TAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCGTGTATA
515 TAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATA
*
9739449 GTATATATAAAC---TCTATATATATAACC--------TATAT-ATATATATATATAAACTATAT
1 GTATATATAAACATATATATATATATAACCTATATATTTATATAATATATATATATAAACTATAT
*
9739502 AAAGTAAATTACTTATATATTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
66 AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
* * * *
9739567 TAGTTTATAGAAACCCTAAACCCTAAACTAAAAACTCTAAACCCTAAAC
131 TAGTTTATAGAAACCCTAAACCATAAACCATAAACCCTAAACCCTAAAC
9739616 TAAAAACTCT
Statistics
Matches: 1617, Mismatches: 154, Indels: 237
0.81 0.08 0.12
Matches are distributed among these distances:
530 2 0.00
531 25 0.02
532 27 0.02
533 5 0.00
534 5 0.00
535 1 0.00
536 4 0.00
537 2 0.00
538 45 0.03
539 10 0.01
540 6 0.00
542 1 0.00
543 4 0.00
545 6 0.00
546 3 0.00
549 13 0.01
550 24 0.01
551 137 0.08
552 4 0.00
553 13 0.01
555 1 0.00
556 1 0.00
557 2 0.00
558 2 0.00
559 3 0.00
560 14 0.01
561 4 0.00
563 5 0.00
564 2 0.00
565 14 0.01
567 7 0.00
568 53 0.03
569 288 0.18
570 2 0.00
571 271 0.17
572 160 0.10
573 53 0.03
574 4 0.00
575 2 0.00
576 12 0.01
577 2 0.00
578 4 0.00
580 1 0.00
581 69 0.04
583 17 0.01
585 4 0.00
586 1 0.00
587 5 0.00
588 7 0.00
589 29 0.02
590 26 0.02
591 4 0.00
592 7 0.00
593 8 0.00
594 5 0.00
595 12 0.01
596 8 0.00
597 9 0.01
598 4 0.00
599 1 0.00
602 1 0.00
603 5 0.00
604 11 0.01
605 140 0.09
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (563 bp):
GTATATATAAACATATATATATATATAACCTATATATTTATATAATATATATATATAAACTATAT
AAAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATA
TAGTTTATAGAAACCCTAAACCATAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAATATA
AATGGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTGAACTTATGTATTGGGCCTATGT
AAACTAATGTAAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTACTTAT
TCATAACAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATT
ATGCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATA
CTAATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTT
TATTAAATAATTTTATATAATATGTATGTATAAACCATGTATA
Found at i:9739470 original size:15 final size:14
Alignment explanation
Indices: 9739450--9739485 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
9739440 CCGTGTATAG
9739450 TATATATAAACTCTA
1 TATATATAAAC-CTA
9739465 TATATAT-AACCTA
1 TATATATAAACCTA
9739478 TATATATA
1 TATATATA
9739486 TATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.50
14 3 0.15
15 7 0.35
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (14 bp):
TATATATAAACCTA
Found at i:9739489 original size:21 final size:21
Alignment explanation
Indices: 9739463--9739502 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9739453 ATATAAACTC
*
9739463 TATATATATAACCTATATATA
1 TATATATATAAACTATATATA
9739484 TATATATATAAACTATATA
1 TATATATATAAACTATATA
9739503 AAGTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATATATAAACTATATATA
Found at i:9739500 original size:13 final size:13
Alignment explanation
Indices: 9739450--9739502 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
9739440 CCGTGTATAG
*
9739450 TATATATAAACTC
1 TATATATAAACTA
*
9739463 TATATATATAAC-C
1 TATATATA-AACTA
9739476 TATATAT--A-TA
1 TATATATAAACTA
9739486 TATATATAAACTA
1 TATATATAAACTA
9739499 TATA
1 TATA
9739503 AAGTAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
10 8 0.24
12 1 0.03
13 22 0.65
14 3 0.09
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:9739502 original size:15 final size:15
Alignment explanation
Indices: 9739445--9739487 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
9739435 ATAAACCGTG
9739445 TATAGTATATATAAAC
1 TATA-TATATATAAAC
* *
9739461 TCTATATATATAACC
1 TATATATATATAAAC
9739476 TATATATATATA
1 TATATATATATA
9739488 TATATAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:9739587 original size:7 final size:7
Alignment explanation
Indices: 9739577--9739697 Score: 89
Period size: 7 Copynumber: 17.3 Consensus size: 7
9739567 TAGTTTATAG
9739577 AAACCCT
1 AAACCCT
9739584 AAACCCT
1 AAACCCT
***
9739591 AAACTAA
1 AAACCCT
*
9739598 AAACTCT
1 AAACCCT
9739605 AAACCCT
1 AAACCCT
***
9739612 AAACTAA
1 AAACCCT
*
9739619 AAACTCT
1 AAACCCT
9739626 AAACCCT
1 AAACCCT
**
9739633 AAACTTT
1 AAACCCT
9739640 AAACCCT
1 AAACCCT
9739647 AAACCCT
1 AAACCCT
**
9739654 AAACTTT
1 AAACCCT
*
9739661 AAACCAT
1 AAACCCT
**
9739668 AAACAAT
1 AAACCCT
*
9739675 AAACACT
1 AAACCCT
*
9739682 AAACCAT
1 AAACCCT
9739689 AAACCCT
1 AAACCCT
9739696 AA
1 AA
9739698 TGTAAATAGA
Statistics
Matches: 89, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 89 1.00
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:9739594 original size:49 final size:49
Alignment explanation
Indices: 9739491--9739596 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 49
9739481 ATATATATAT
* ** * **
9739491 ATAAACTATATAAAGTAAATTACTTATATATTTTATAGAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTAACC
*
9739540 ATAAACTATATAAAGT-AATAAAGTATATAGTTTATAGAAACCCTAAACC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACT-AACC
*
9739589 CTAAACTA
1 ATAAACTA
9739597 AAAACTCTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 23 0.48
49 25 0.52
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTAACC
Found at i:9739659 original size:21 final size:21
Alignment explanation
Indices: 9739577--9739697 Score: 136
Period size: 21 Copynumber: 5.8 Consensus size: 21
9739567 TAGTTTATAG
*
9739577 AAACCCTAAACCCTAAACTAA
1 AAACCCTAAACCCTAAACTAT
* *
9739598 AAACTCTAAACCCTAAACTAA
1 AAACCCTAAACCCTAAACTAT
* *
9739619 AAACTCTAAACCCTAAACTTT
1 AAACCCTAAACCCTAAACTAT
*
9739640 AAACCCTAAACCCTAAACTTT
1 AAACCCTAAACCCTAAACTAT
* **
9739661 AAACCATAAACAATAAAC-ACT
1 AAACCCTAAACCCTAAACTA-T
*
9739682 AAACCATAAACCCTAA
1 AAACCCTAAACCCTAA
9739698 TGTAAATAGA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 89 1.00
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCCTAAACCCTAAACTAT
Found at i:9739882 original size:14 final size:14
Alignment explanation
Indices: 9739863--9739932 Score: 61
Period size: 14 Copynumber: 5.7 Consensus size: 14
9739853 ATTTTTTCTT
9739863 TATATAAATTAAAC
1 TATATAAATTAAAC
9739877 TATAT-AATT----
1 TATATAAATTAAAC
9739886 TATATAAATTAAAC
1 TATATAAATTAAAC
9739900 TATAT-AATT----
1 TATATAAATTAAAC
9739909 TATATAAATTAAAC
1 TATATAAATTAAAC
*
9739923 TATATTAATT
1 TATATAAATT
9739933 TTCCTTTTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 20
0.68 0.02 0.30
Matches are distributed among these distances:
9 10 0.22
10 8 0.18
13 8 0.18
14 19 0.42
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:9739888 original size:23 final size:23
Alignment explanation
Indices: 9739861--9739933 Score: 137
Period size: 23 Copynumber: 3.1 Consensus size: 23
9739851 TTATTTTTTC
9739861 TTTATATAAATTAAACTATATAA
1 TTTATATAAATTAAACTATATAA
9739884 TTTATATAAATTAAACTATATAA
1 TTTATATAAATTAAACTATATAA
9739907 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATA-TAA
9739931 TTT
1 TTT
9739934 TCCTTTTCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 43 0.88
24 6 0.12
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTATATAAATTAAACTATATAA
Found at i:9740222 original size:16 final size:16
Alignment explanation
Indices: 9740201--9740255 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
9740191 CGGATCATTT
* *
9740201 ACAGGTCATGTTAAAA
1 ACAGGTCAGGTTGAAA
9740217 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
*
9740233 ACAGATCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
9740249 ACAGGTC
1 ACAGGTC
9740256 GGGTAATACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:9743890 original size:31 final size:31
Alignment explanation
Indices: 9743855--9743916 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9743845 AAAAATTAAA
* *
9743855 TGTTTAGGTACTAAAATGGATCAAAACTTAT
1 TGTTTAGATACTAAAACGGATCAAAACTTAT
*
9743886 TGTTTAGATACTAAAACGGTTCAAAACTTAT
1 TGTTTAGATACTAAAACGGATCAAAACTTAT
9743917 AATTCAGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (31 bp):
TGTTTAGATACTAAAACGGATCAAAACTTAT
Found at i:9744980 original size:70 final size:70
Alignment explanation
Indices: 9744893--9745032 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
9744883 TCCATAACAA
9744893 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGAAGCTCCTAAATCATCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGAAGCTCCTAAATCATCCAAATAAT
9744958 ACACT
66 ACACT
* * *
9744963 TATAAAATAAAAGGTAATAAATTTGAGTTTACAATACAAGGGAGCTCCTAAATCATCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGAAGCTCCTAAATCATCCAAATAAT
*
9745028 GCACT
66 ACACT
9745033 GAGTTTAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (70 bp):
TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGAAGCTCCTAAATCATCCAAATAAT
ACACT
Found at i:9747032 original size:242 final size:242
Alignment explanation
Indices: 9746631--9747240 Score: 816
Period size: 242 Copynumber: 2.5 Consensus size: 242
9746621 TCTTTTCACT
* * * * *
9746631 TAACTTGCATATTTGACA-CTTTCCTATCAAATGCACAACTA-ATCCCTTATTCTTTTACTCAAC
1 TAACTGGCATAATTGACACCTTT-CTACCAATTGCACAA-TAGA-CCATTATTCTTTTACTCAAC
* * * * * *
9746694 AGTGTTTAACCGTACATCTAACTGACATAGTTAACACATTTCTGTCAATTGTACAGTTAGGCCAT
63 GGTATTTAACCGTTCATCTAACTGACATAATTGACACATTTCTGTCAATTGCACAGTTAGGCCAT
* *
9746759 TATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGAATAATTGACACCT-TTCTTCCAA
128 TATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGAATAATTGACA-CTATTATGCCAA
*
9746823 TTGCACAGTTAGGCCATTATTCTTTTACTCAACGGTATTCAACAATTCATC
192 TTGCACAGTTAGACCATTATTCTTTTACTCAACGGTATTCAACAATTCATC
9746874 TAACTGGCATAATTGACACCTTTCTACCAATTGCACAATTAGACCATTATTCTTTTACTCAACGG
1 TAACTGGCATAATTGACACCTTTCTACCAATTGCACAA-TAGACCATTATTCTTTTACTCAACGG
* * *
9746939 TATTTAA-CGTTCATCTAACTGGCATAATTGACACTTTTCT-TCCAATTGCATAGTTAGGCCATT
65 TATTTAACCGTTCATCTAACTGACATAATTGACACATTTCTGT-CAATTGCACAGTTAGGCCATT
** * * *
9747002 ATTCTTTTACTCAACGGTATTTAGCCGTTCATCTAACTGGCATAATTGGCACTATTATGCCAATT
129 ATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGAATAATTGACACTATTATGCCAATT
* *
9747067 GCACAGTTAGACCATTATTCTTTTACTCAACGGTATTTAACCATTCATC
194 GCACAGTTAGACCATTATTCTTTTACTCAACGGTATTCAACAATTCATC
* * * *
9747116 TAACTGACATAATTGACACCTTTCTGCCAATTGCACAGATAGGCCATTATTCTTTTACTCAATGG
1 TAACTGGCATAATTGACACCTTTCTACCAATTGCACA-ATAGACCATTATTCTTTTACTCAACGG
* * * * * *
9747181 TATTCAATCGTTCATCTAACTGTCGTAATTGACACCTTTCTGTCATTTGCACAGTTAGGC
65 TATTTAACCGTTCATCTAACTGACATAATTGACACATTTCTGTCAATTGCACAGTTAGGC
9747241 TTCAAAGGCA
Statistics
Matches: 325, Mismatches: 35, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
241 3 0.01
242 213 0.66
243 103 0.32
244 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (242 bp):
TAACTGGCATAATTGACACCTTTCTACCAATTGCACAATAGACCATTATTCTTTTACTCAACGGT
ATTTAACCGTTCATCTAACTGACATAATTGACACATTTCTGTCAATTGCACAGTTAGGCCATTAT
TCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGAATAATTGACACTATTATGCCAATTGC
ACAGTTAGACCATTATTCTTTTACTCAACGGTATTCAACAATTCATC
Found at i:9747240 original size:81 final size:81
Alignment explanation
Indices: 9746677--9747240 Score: 758
Period size: 81 Copynumber: 7.0 Consensus size: 81
9746667 AACTAATCCC
* * * * * * *
9746677 TTATTCTTTTACTCAACAGTGTTTAACCGTACATCTAACTGACATAGTTAACACATTTCTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
*
9746742 TTGTACAGTTAGGCCA
66 TTGCACAGTTAGGCCA
** *
9746758 TTATTCTTTTACTCAACAATATTTAACCGTTCATCTAACTGGAATAATTGACACCTTTCT-TCCA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGT-CA
9746822 ATTGCACAGTTAGGCCA
65 ATTGCACAGTTAGGCCA
* ** **
9746839 TTATTCTTTTACTCAACGGTATTCAACAATTCATCTAACTGGCATAATTGACACCTTTCTACCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
* *
9746904 TTGCACAATTAGACCA
66 TTGCACAGTTAGGCCA
*
9746920 TTATTCTTTTACTCAACGGTATTTAA-CGTTCATCTAACTGGCATAATTGACACTTTTCT-TCCA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGT-CA
*
9746983 ATTGCATAGTTAGGCCA
65 ATTGCACAGTTAGGCCA
* * * *
9747000 TTATTCTTTTACTCAACGGTATTTAGCCGTTCATCTAACTGGCATAATTGGCA-CTATTATGCCA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCT-TTCTGTCA
*
9747064 ATTGCACAGTTAGACCA
65 ATTGCACAGTTAGGCCA
* * *
9747081 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
*
9747146 TTGCACAGATAGGCCA
66 TTGCACAGTTAGGCCA
* * * * * *
9747162 TTATTCTTTTACTCAATGGTATTCAATCGTTCATCTAACTGTCGTAATTGACACCTTTCTGTCAT
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
9747227 TTGCACAGTTAGGC
66 TTGCACAGTTAGGC
9747241 TTCAAAGGCA
Statistics
Matches: 427, Mismatches: 49, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
80 73 0.17
81 352 0.82
82 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (81 bp):
TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
TTGCACAGTTAGGCCA
Found at i:9747300 original size:68 final size:68
Alignment explanation
Indices: 9747191--9747446 Score: 431
Period size: 68 Copynumber: 3.8 Consensus size: 68
9747181 TATTCAATCG
* * * * *
9747191 TTCATCTAACTGTCGTAATTGACACCTTTCTGTCATTTGCACAGTTAGGCTTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTTAG
9747256 CCT
66 CCT
*
9747259 TTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCCCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTTAG
9747324 CCT
66 CCT
*
9747327 TTCATCTAACTGGCATAAATGACATATTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTTAG
9747392 CCT
66 CCT
* *
9747395 TTCATCTAAGTGGCATAAATGACACATTTCTGTCATTTGCACAATTAGGCCT
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCT
9747447 ATAATCGTTT
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 177 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:9747740 original size:54 final size:55
Alignment explanation
Indices: 9747656--9747800 Score: 202
Period size: 55 Copynumber: 2.7 Consensus size: 55
9747646 ACATCTATTT
* * **
9747656 CCCATACGGAAATTCATACACTTAGCATGAATTTCTCA-GTTCGCACCCATGGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTCATGTTCGCACCCAAAGTG
* * * * *
9747710 CCCATACTGAAATTCCTACACTTAGTATGAATTTTTCATTTTTGCACCCAAAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTCATGTTCGCACCCAAAGTG
9747765 CCCATACAGAAATTCATACACTTAGTATGAATTTCT
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCT
9747801 TAAATTTTTG
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 34 0.43
55 45 0.57
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (55 bp):
CCCATACAGAAATTCATACACTTAGTATGAATTTCTCATGTTCGCACCCAAAGTG
Found at i:9748266 original size:20 final size:22
Alignment explanation
Indices: 9748241--9748292 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
9748231 ATGTTCCCTA
*
9748241 GTATCGATACT-GT-TACTATG
1 GTATCGATACTACTATACTATG
*
9748261 GTATCGATAATACTATACTATG
1 GTATCGATACTACTATACTATG
*
9748283 GTACCGATAC
1 GTATCGATAC
9748293 CCCCTTACGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 10 0.38
21 1 0.04
22 15 0.58
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (22 bp):
GTATCGATACTACTATACTATG
Found at i:9748345 original size:95 final size:95
Alignment explanation
Indices: 9748178--9748364 Score: 243
Period size: 95 Copynumber: 2.0 Consensus size: 95
9748168 ACCGATACTT
* * * *
9748178 CTATACTATGGTATCGATACCCCCTTCTGGTATCGATACTGATTTTAGGTTTGATGTTCCCTAGT
1 CTATACTATGGTACCGATACCCCCTTCTGGTATCGATACCGATTTTAGATTCGATGTTCCCTAGT
**
9748243 ATCGATACTGTTA-CTATGGTATCGATAATA
66 ATCGATACACTTATC-ATGGTATCGATAATA
* * * *
9748273 CTATACTATGGTACCGATACCCCCTTAC-GGTATCGATACCGATTTTTGATTCGATGTTGCTTGG
1 CTATACTATGGTACCGATACCCCCTT-CTGGTATCGATACCGATTTTAGATTCGATGTTCCCTAG
*
9748337 TATTGATACACTTATCATGGTATCGATA
65 TATCGATACACTTATCATGGTATCGATA
9748365 CTACCTCTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
95 77 0.97
96 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (95 bp):
CTATACTATGGTACCGATACCCCCTTCTGGTATCGATACCGATTTTAGATTCGATGTTCCCTAGT
ATCGATACACTTATCATGGTATCGATAATA
Found at i:9748657 original size:41 final size:41
Alignment explanation
Indices: 9748600--9748686 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 41
9748590 TAGCCTCTTA
* *
9748600 AAACCTCTAAAATCTTTCAAGAACATTCAATTCTAATAATC
1 AAACCTCTAAAATCTTTCAAGAAAATTCAATTCTAAGAATC
9748641 AAACCTCTAAAATCTTTCAAGAAAATTCAATTCTAAGAATC
1 AAACCTCTAAAATCTTTCAAGAAAATTCAATTCTAAGAATC
9748682 AAACC
1 AAACC
9748687 AATATACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (41 bp):
AAACCTCTAAAATCTTTCAAGAAAATTCAATTCTAAGAATC
Found at i:9759827 original size:26 final size:26
Alignment explanation
Indices: 9759788--9759846 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
9759778 ATCGAAGTGC
*
9759788 TAATACACATAAGGTTGTGCCCACCA
1 TAATACACACAAGGTTGTGCCCACCA
*
9759814 TAATACACACAAGGTTGTGCCTACCA
1 TAATACACACAAGGTTGTGCCCACCA
9759840 T-ATACAC
1 TAATACAC
9759847 CATGTTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (26 bp):
TAATACACACAAGGTTGTGCCCACCA
Found at i:9761176 original size:7 final size:7
Alignment explanation
Indices: 9761156--9761204 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
9761146 TACTCTCTAA
9761156 TTAAA-T
1 TTAAATT
*
9761162 TTATATT
1 TTAAATT
9761169 TTAAATT
1 TTAAATT
9761176 TTAAATT
1 TTAAATT
9761183 TATAAATT
1 T-TAAATT
9761191 ATTAAA-T
1 -TTAAATT
9761198 TTAAATT
1 TTAAATT
9761205 ACATAATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 9 0.24
7 17 0.46
8 10 0.27
9 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TTAAATT
Found at i:9761197 original size:16 final size:15
Alignment explanation
Indices: 9761157--9761200 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
9761147 ACTCTCTAAT
*
9761157 TAAA-TTTATATTT-
1 TAAATTTTAAATTTA
9761170 TAAATTTTAAATTTA
1 TAAATTTTAAATTTA
9761185 TAAATTATTAAATTTA
1 TAAATT-TTAAATTTA
9761201 AATTACATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 8 0.30
15 6 0.22
16 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAAATTTTAAATTTA
Found at i:9761256 original size:20 final size:20
Alignment explanation
Indices: 9761227--9761265 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9761217 ACTAATTTTT
* *
9761227 AATTTTAAATAGTTTATTTA
1 AATTTAAAATACTTTATTTA
9761247 AATTTAAAATACTTTATTT
1 AATTTAAAATACTTTATTT
9761266 TCTGTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
AATTTAAAATACTTTATTTA
Found at i:9761485 original size:18 final size:17
Alignment explanation
Indices: 9761451--9761485 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9761441 TCAACTTTAT
9761451 AAATTCAAAATTAATTA
1 AAATTCAAAATTAATTA
*
9761468 AAATTTAAAATATAATTA
1 AAATTCAAAAT-TAATTA
9761486 GAAAGTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTCAAAATTAATTA
Found at i:9766689 original size:21 final size:21
Alignment explanation
Indices: 9766663--9766702 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9766653 AAGACTATAT
9766663 TTTCAAAATACAAAAATGATG
1 TTTCAAAATACAAAAATGATG
**
9766684 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
9766703 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATG
Found at i:9770520 original size:23 final size:23
Alignment explanation
Indices: 9770486--9770552 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
9770476 ATTCCCTCCT
*
9770486 TTTGAATAGGAACTGATTCCCAC
1 TTTGAATGGGAACTGATTCCCAC
*
9770509 TTTGAATGGGAA-TCGATTCCCTC
1 TTTGAATGGGAACT-GATTCCCAC
*
9770532 TTTGAATGGGAACCGATTCCC
1 TTTGAATGGGAACTGATTCCC
9770553 CCTTAGGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
22 1 0.03
23 38 0.97
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (23 bp):
TTTGAATGGGAACTGATTCCCAC
Found at i:9770551 original size:46 final size:45
Alignment explanation
Indices: 9770466--9770571 Score: 137
Period size: 46 Copynumber: 2.4 Consensus size: 45
9770456 GATACCCCCC
* *
9770466 ATGGGAATCGATTCCCTCCTTTTGAATAGGAACTGATTCCCACTTT
1 ATGGGAATCGATTCCCTCCTTTTGAATAGGAACCGATTCCC-CCTT
*
9770512 GAATGGGAATCGATTCCCT-C-TTTGAATGGGAACCGATTCCCCCTT
1 --ATGGGAATCGATTCCCTCCTTTTGAATAGGAACCGATTCCCCCTT
9770557 A-GGGAATCGATTCCC
1 ATGGGAATCGATTCCC
9770572 CCCACGGGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
42 14 0.25
43 1 0.02
45 3 0.05
46 19 0.35
47 1 0.02
48 17 0.31
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (45 bp):
ATGGGAATCGATTCCCTCCTTTTGAATAGGAACCGATTCCCCCTT
Found at i:9770567 original size:19 final size:21
Alignment explanation
Indices: 9770466--9770573 Score: 78
Period size: 23 Copynumber: 4.9 Consensus size: 21
9770456 GATACCCCCC
9770466 ATGGGAATCGATTCCCTCCTTTTGA
1 ATGGGAATCGATTCCC-CC--TT-A
* *
9770491 ATAGGAA-CTGATTCCCACTTTGA
1 ATGGGAATC-GATTCCC-CCTT-A
*
9770514 ATGGGAATCGATTCCCTCTTTGA
1 ATGGGAATCGATTCCC-CCTT-A
*
9770537 ATGGGAACCGATTCCCCCTT-
1 ATGGGAATCGATTCCCCCTTA
9770557 A-GGGAATCGATTCCCCC
1 ATGGGAATCGATTCCCCC
9770574 CACGGGTTCT
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
19 15 0.21
20 1 0.01
22 3 0.04
23 38 0.52
24 2 0.03
25 14 0.19
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (21 bp):
ATGGGAATCGATTCCCCCTTA
Found at i:9773197 original size:18 final size:18
Alignment explanation
Indices: 9773174--9773224 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
9773164 TTGTCCAGAA
9773174 GGAACCGATTCCCCCAGG
1 GGAACCGATTCCCCCAGG
9773192 GGAACCGATTCCCCCAGG
1 GGAACCGATTCCCCCAGG
9773210 GGAACCGATTCCCCC
1 GGAACCGATTCCCCC
9773225 TAAATGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.22, C:0.41, G:0.25, T:0.12
Consensus pattern (18 bp):
GGAACCGATTCCCCCAGG
Found at i:9775436 original size:23 final size:23
Alignment explanation
Indices: 9775399--9775464 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
9775389 CACCACAGCT
*
9775399 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
9775422 CGTAGAATTGTACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
9775445 CGTAGAAATGCACCGAAGTG
1 CGTAGAAATGCACCGAAGTG
9775465 TCATATAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:9778801 original size:2 final size:2
Alignment explanation
Indices: 9778794--9778819 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9778784 CAAACTATCC
9778794 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
9778820 TCTTTCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9780306 original size:23 final size:23
Alignment explanation
Indices: 9780261--9780307 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9780251 TATACTTTAT
* *
9780261 ATCTCTTATTTCTTATTCATATA
1 ATCTCTTAGTTCATATTCATATA
9780284 ATCTCTTACGTTCATATTCTATAT
1 ATCTCTTA-GTTCATATTC-ATAT
9780308 CTTATAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (23 bp):
ATCTCTTAGTTCATATTCATATA
Found at i:9780616 original size:23 final size:23
Alignment explanation
Indices: 9780579--9780642 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
9780569 CAGCTTGTAT
*
9780579 AAATGCACTGAAGTGCCACGAAG
1 AAATGCACCGAAGTGCCACGAAG
* * * *
9780602 AATTGCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGAAG
9780625 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
9780643 GATAAGGTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGAAG
Found at i:9781131 original size:24 final size:24
Alignment explanation
Indices: 9781104--9781171 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
9781094 TACGCGTAGA
9781104 ACATTGTCATATAAATCACATATC
1 ACATTGTCATATAAATCACATATC
9781128 ACATTGTCATATAAATCACATATC
1 ACATTGTCATATAAATCACATATC
*
9781152 ACATAT-ACATATAAA-CACAT
1 ACAT-TGTCATATAAATCACAT
9781172 GGTTCACTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 5 0.12
24 36 0.86
25 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (24 bp):
ACATTGTCATATAAATCACATATC
Found at i:9781303 original size:232 final size:232
Alignment explanation
Indices: 9780887--9781326 Score: 862
Period size: 232 Copynumber: 1.9 Consensus size: 232
9780877 TATAGTTCTT
*
9780887 TCACAAATCTCATTGTCATATAAATCACATATCACATATACATATAAACACATGGTTCACTTACG
1 TCACAAATCACATTGTCATATAAATCACATATCACATATACATATAAACACATGGTTCACTTACG
9780952 CGTAGAACATTTTCATATGATTCACATATCACAGAGTTTATCACATATAATTGTATTCTTTTTCA
66 CGTAGAACATTTTCATATGATTCACATATCACAGAGTTTATCACATATAATTGTATTCTTTTTCA
9781017 TATAGTCACATAGTCATATAATATTTCATATGACATATACTTTCTCTTTCATATATCTCATATCA
131 TATAGTCACATAGTCATATAATATTTCATATGACATATACTTTCTCTTTCATATATCTCATATCA
9781082 TGTATCATATCTTACGCGTAGAACATTGTCATATAAA
196 TGTATCATATCTTACGCGTAGAACATTGTCATATAAA
*
9781119 TCACATATCACATTGTCATATAAATCACATATCACATATACATATAAACACATGGTTCACTTACG
1 TCACAAATCACATTGTCATATAAATCACATATCACATATACATATAAACACATGGTTCACTTACG
9781184 CGTAGAACATTTTCATATGATTCACATATCACAGAGTTTATCACATATAATTGTATTCTTTTTCA
66 CGTAGAACATTTTCATATGATTCACATATCACAGAGTTTATCACATATAATTGTATTCTTTTTCA
9781249 TATAGTCACATAGTCATATAATATTTCATATGACATATACTTTCTCTTTCATATATCTCATATCA
131 TATAGTCACATAGTCATATAATATTTCATATGACATATACTTTCTCTTTCATATATCTCATATCA
9781314 TGTATCATATCTT
196 TGTATCATATCTT
9781327 GTGATCATGT
Statistics
Matches: 206, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
232 206 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (232 bp):
TCACAAATCACATTGTCATATAAATCACATATCACATATACATATAAACACATGGTTCACTTACG
CGTAGAACATTTTCATATGATTCACATATCACAGAGTTTATCACATATAATTGTATTCTTTTTCA
TATAGTCACATAGTCATATAATATTTCATATGACATATACTTTCTCTTTCATATATCTCATATCA
TGTATCATATCTTACGCGTAGAACATTGTCATATAAA
Found at i:9782040 original size:18 final size:19
Alignment explanation
Indices: 9782017--9782070 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
9782007 TTAGTCATGC
*
9782017 ATACATACAATTA-ATATA
1 ATACATACAATCACATATA
*
9782035 ATACATATAATCACATATA
1 ATACATACAATCACATATA
*
9782054 AT-CATAACAAACACATA
1 ATACAT-ACAATCACATA
9782071 ATCATGTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (19 bp):
ATACATACAATCACATATA
Found at i:9786224 original size:16 final size:17
Alignment explanation
Indices: 9786199--9786232 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9786189 ATTACCCTAA
*
9786199 GATGTTAGACTT-TGTT
1 GATGTGAGACTTATGTT
9786215 GATGTGAGACTTATGTT
1 GATGTGAGACTTATGTT
9786232 G
1 G
9786233 CCCATTGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.06, G:0.29, T:0.44
Consensus pattern (17 bp):
GATGTGAGACTTATGTT
Found at i:9787719 original size:3 final size:3
Alignment explanation
Indices: 9787713--9787737 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9787703 CATCACAAAA
9787713 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
9787738 GGGGAAGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9788219 original size:43 final size:43
Alignment explanation
Indices: 9788104--9788525 Score: 304
Period size: 43 Copynumber: 9.8 Consensus size: 43
9788094 GCCGCTAAAG
* * * ** *
9788104 TTAGCGGCGTTTTTTTAAAAAAACGCCGCAATAGGT-TACAACAT
1 TTAGCGGCG-TTTGTCATAAAAACGCCGCAATAGGTGT-TGATAT
* * * *
9788148 ATAGCGGCGTTTTGTTCA-ACAAACGCCGCAATAGGAGTTGTTAT
1 TTAGCGGCG-TTTG-TCATAAAAACGCCGCAATAGGTGTTGATAT
* *
9788192 TTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGT
1 TTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTGATAT
* * * * *
9788235 TTAGCGGCGTTTTTTATAAAAACGCCGCAGTAGGTTTTGAGAT
1 TTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTGATAT
* * * ** *
9788278 GTAGCGGTGTTT-TACTTAAAAACGCCGC--TAGGT-TACAACAT
1 TTAGCGGCGTTTGT-CATAAAAACGCCGCAATAGGTGT-TGATAT
* * * *
9788319 ATAGCGGCGTTTTGTTCA-ACAAA-GCCGCAATAGGAGTTGTTAT
1 TTAGCGGCG-TTTG-TCATAAAAACGCCGCAATAGGTGTTGATAT
* *
9788362 TTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGT
1 TTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTGATAT
* * * * *
9788405 TTAGCGGCGTTTTTTATAAAAACGCCGCAGTAGGTTTTGAGAT
1 TTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTGATAT
* * * *
9788448 GTAGCGGTGTTT-TACTTAAAAACGCCGCAATAGGTTTTGATAT
1 TTAGCGGCGTTTGT-CATAAAAACGCCGCAATAGGTGTTGATAT
* * * ** *
9788491 TTTGCGACGTTTTTCCCAAAAACGCCGCAGTAGGT
1 TTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGT
9788526 TATGTTTTTT
Statistics
Matches: 301, Mismatches: 62, Indels: 31
0.76 0.16 0.08
Matches are distributed among these distances:
40 1 0.00
41 23 0.08
42 20 0.07
43 213 0.71
44 41 0.14
45 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTGATAT
Found at i:9788367 original size:84 final size:86
Alignment explanation
Indices: 9788104--9788396 Score: 319
Period size: 84 Copynumber: 3.4 Consensus size: 86
9788094 GCCGCTAAAG
* * *
9788104 TTAGCGGCGTTTTTTTAAAAAAACGCCGCAATAGGTTACAACATATAGCGGCGTTTTGTTCAACA
1 TTAGCGGCG-TTTGTCAGAAAAACGCCGC-ATAGGTTACAACATATAGCGGCGTTTTGTTCAACA
9788169 AACGCCGCAATAGGAGTTGTTAT
64 AACGCCGCAATAGGAGTTGTTAT
** ** * *
9788192 TTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGT-TGATGTTTAGCGGCGTTTT-TT-ATAA
1 TTAGCGGCGTTTGTCAGAAAAACGCCGC-ATAGGT-TACAACATATAGCGGCGTTTTGTTCA-AC
* ** **
9788254 AAACGCCGCAGTAGGTTTTGAGAT
63 AAACGCCGCAATAGGAGTTGTTAT
* * **
9788278 GTAGCGGTGTTT-TACTTAAAAACGCCGC-TAGGTTACAACATATAGCGGCGTTTTGTTCAACAA
1 TTAGCGGCGTTTGT-CAGAAAAACGCCGCATAGGTTACAACATATAGCGGCGTTTTGTTCAACAA
9788341 A-GCCGCAATAGGAGTTGTTAT
65 ACGCCGCAATAGGAGTTGTTAT
9788362 TTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGT
1 TTAGCGGCGTTTGTCAGAAAAACGCCGC-ATAGGT
9788397 GTTGATGTTT
Statistics
Matches: 163, Mismatches: 33, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
83 1 0.01
84 56 0.34
85 9 0.06
86 50 0.31
87 37 0.23
88 10 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (86 bp):
TTAGCGGCGTTTGTCAGAAAAACGCCGCATAGGTTACAACATATAGCGGCGTTTTGTTCAACAAA
CGCCGCAATAGGAGTTGTTAT
Found at i:9788418 original size:170 final size:172
Alignment explanation
Indices: 9788122--9788483 Score: 692
Period size: 170 Copynumber: 2.1 Consensus size: 172
9788112 GTTTTTTTAA
9788122 AAAAACGCCGCAATAGGTTACAACATATAGCGGCGTTTTGTTCAACAAACGCCGCAATAGGAGTT
1 AAAAACGCCGC-ATAGGTTACAACATATAGCGGCGTTTTGTTCAACAAACGCCGCAATAGGAGTT
9788187 GTTATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTTTAT
65 GTTATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTTTAT
9788252 AAAAACGCCGCAGTAGGTTTTGAGATGTAGCGGTGTTTTACTT
130 AAAAACGCCGCAGTAGGTTTTGAGATGTAGCGGTGTTTTACTT
9788295 AAAAACGCCGC-TAGGTTACAACATATAGCGGCGTTTTGTTCAACAAA-GCCGCAATAGGAGTTG
1 AAAAACGCCGCATAGGTTACAACATATAGCGGCGTTTTGTTCAACAAACGCCGCAATAGGAGTTG
9788358 TTATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTTTATA
66 TTATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTTTATA
9788423 AAAACGCCGCAGTAGGTTTTGAGATGTAGCGGTGTTTTACTT
131 AAAACGCCGCAGTAGGTTTTGAGATGTAGCGGTGTTTTACTT
9788465 AAAAACGCCGCAATAGGTT
1 AAAAACGCCGC-ATAGGTT
9788484 TTGATATTTT
Statistics
Matches: 187, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
170 134 0.72
171 36 0.19
172 6 0.03
173 11 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (172 bp):
AAAAACGCCGCATAGGTTACAACATATAGCGGCGTTTTGTTCAACAAACGCCGCAATAGGAGTTG
TTATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTTTATA
AAAACGCCGCAGTAGGTTTTGAGATGTAGCGGTGTTTTACTT
Found at i:9788432 original size:86 final size:85
Alignment explanation
Indices: 9788104--9788546 Score: 353
Period size: 86 Copynumber: 5.2 Consensus size: 85
9788094 GCCGCTAAAG
** * ** * * *
9788104 TTAGCGGCGTTTTTTTAAAAAAACGCCGCAATAGGT-TACAACATATAGCGGCGTTTTGTTCAAC
1 TTAGCGGCG-TTTTACAGAAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTT-TT-AAA
* *
9788168 AAACGCCGCAATAGGAGTTGTTAT
62 AAACGCCGCAGTAGGATTTGTTAT
*
9788192 TTAGCGGCGTTTGT-CAGAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTTTATAAAA
1 TTAGCGGCGTTT-TACAGAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTA-AAAA
* **
9788256 ACGCCGCAGTAGGTTTTGAGAT
64 ACGCCGCAGTAGGATTTGTTAT
* * ** ** * * *
9788278 GTAGCGGTGTTTTACTTAAAAACGCCGC--TAGGT-TACAACATATAGCGGCGTTTTGTTCAACA
1 TTAGCGGCGTTTTACAGAAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTT-TT-AAAA
* *
9788340 AA-GCCGCAATAGGAGTTGTTAT
63 AACGCCGCAGTAGGATTTGTTAT
*
9788362 TTAGCGGCGTTTGT-CAGAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTTTTTATAAAA
1 TTAGCGGCGTTT-TACAGAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTA-AAAA
* **
9788426 ACGCCGCAGTAGGTTTTGAGAT
64 ACGCCGCAGTAGGATTTGTTAT
* * ** * * * **
9788448 GTAGCGGTGTTTTACTTAAAAACGCCGCAATAGGTTTTGATATTTTGCGACGTTTTTCCCAAAAA
1 TTAGCGGCGTTTTACAGAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTT-TAAAAAA
*
9788513 CGCCGCAGTAGG-TTATGTTTT
65 CGCCGCAGTAGGATT-TGTTAT
*
9788534 TTAGCGGCATTTT
1 TTAGCGGCGTTTT
9788547 CCCCACAAAT
Statistics
Matches: 280, Mismatches: 59, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
83 1 0.00
84 57 0.20
85 18 0.06
86 156 0.56
87 37 0.13
88 11 0.04
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (85 bp):
TTAGCGGCGTTTTACAGAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTAAAAAAC
GCCGCAGTAGGATTTGTTAT
Found at i:9788526 original size:43 final size:43
Alignment explanation
Indices: 9788104--9788590 Score: 273
Period size: 43 Copynumber: 11.3 Consensus size: 43
9788094 GCCGCTAAAG
*** * *** *
9788104 TTAGCGGCGTTTTTTTAAAAAAACGCCGCAATAGGTTACAACAT
1 TTAGCGGCG-TTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
* * * ** *
9788148 ATAGCGGCGTTTTGT-TCAACAAACGCCGCAATAGGAGTTGTTAT
1 TTAGCGGCGTTTT-TCCCAA-AAACGCCGCAGTAGGTTTTGATAT
* ** * * *
9788192 TTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
*** *
9788235 TTAGCGGCGTTTTTTATAAAAACGCCGCAGTAGGTTTTGAGAT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
* * * ** *** *
9788278 GTAGCGGTGTTTTACTTAAAAACGCCGC--TAGGTTACAACAT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
* * * ** *
9788319 ATAGCGGCGTTTTGT-TCAACAAA-GCCGCAATAGGAGTTGTTAT
1 TTAGCGGCGTTTT-TCCCAA-AAACGCCGCAGTAGGTTTTGATAT
* ** * * *
9788362 TTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGATGT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
*** *
9788405 TTAGCGGCGTTTTTTATAAAAACGCCGCAGTAGGTTTTGAGAT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
* * * ** *
9788448 GTAGCGGTGTTTTACTTAAAAACGCCGCAATAGGTTTTGATAT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
* * * * *
9788491 TTTGCGACGTTTTTCCCAAAAACGCCGCAGTAGGTTATGTTTT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
* * * * * * * *
9788534 TTAGCGGCATTTTCCCCACAAATGTCGTAGTAGGTTTTCAGAT
1 TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
*
9788577 TTAGCGACGTTTTT
1 TTAGCGGCGTTTTT
9788591 GTCGGAAACG
Statistics
Matches: 342, Mismatches: 92, Indels: 19
0.75 0.20 0.04
Matches are distributed among these distances:
41 28 0.08
42 7 0.02
43 268 0.78
44 39 0.11
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTTTTGATAT
Found at i:9788669 original size:44 final size:44
Alignment explanation
Indices: 9788621--9788743 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
9788611 GGTTGAGAAT
*
9788621 TTGCGGCGTTTCTAGTATAAAAACGCCCCTAAATGCGTGGTATA
1 TTGCGGCGTTTCTAGTATAAAAACGCCGCTAAATGCGTGGTATA
* * * * **
9788665 TTGCGGCATTTTTAGTATACAAACACCGCTAAATGTTTGGTATA
1 TTGCGGCGTTTCTAGTATAAAAACGCCGCTAAATGCGTGGTATA
* *
9788709 TTGCGGCGTTTGTA-AATTAAAAACGCCGCTAAATG
1 TTGCGGCGTTTCTAGTA-TAAAAACGCCGCTAAATG
9788744 TATGATATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 65 0.98
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (44 bp):
TTGCGGCGTTTCTAGTATAAAAACGCCGCTAAATGCGTGGTATA
Found at i:9788744 original size:44 final size:43
Alignment explanation
Indices: 9788621--9788784 Score: 143
Period size: 44 Copynumber: 3.8 Consensus size: 43
9788611 GGTTGAGAAT
* *
9788621 TTGCGGCGTTTCTAGTATAAAAACGCCCCTAAATGCGTGGTATA
1 TTGCGGCGTTT-TAGTATAAAAACGCCGCTAAATGTGTGGTATA
* * * *
9788665 TTGCGGCATTTTTAGTATACAAACACCGCTAAATGTTTGGTATA
1 TTGCGGC-GTTTTAGTATAAAAACGCCGCTAAATGTGTGGTATA
* * *
9788709 TTGCGGCGTTTGTA-AATTAAAAACGCCGCTAAATGTATGATATA
1 TTGCGGCGTTT-TAGTA-TAAAAACGCCGCTAAATGTGTGGTATA
* * * * * *
9788753 ATGCGACATTTT-TTTTACAAACGCCGCTAAAT
1 TTGCGGCGTTTTAGTATAAAAACGCCGCTAAAT
9788785 AACATAGGAT
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 16 0.16
43 5 0.05
44 74 0.76
45 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (43 bp):
TTGCGGCGTTTTAGTATAAAAACGCCGCTAAATGTGTGGTATA
Found at i:9789068 original size:23 final size:23
Alignment explanation
Indices: 9789042--9789099 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 23
9789032 GCTGATATGT
9789042 TGCTTCTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTCTGTGCTGCCGC
* *
9789065 TGCTTCT-T-TCTCTGCTTCCGC
1 TGCTTCTCTCTCTGTGCTGCCGC
*
9789086 TGCTGCTCTCTCTG
1 TGCTTCTCTCTCTG
9789100 CTTATCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 17 0.59
22 2 0.07
23 10 0.34
ACGTcount: A:0.00, C:0.38, G:0.19, T:0.43
Consensus pattern (23 bp):
TGCTTCTCTCTCTGTGCTGCCGC
Found at i:9794116 original size:30 final size:31
Alignment explanation
Indices: 9794049--9794116 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 31
9794039 GAAATTTTAT
* *
9794049 TTATGTACCCAACTAATGCAAATCTTTGTATAT
1 TTATGTACCCAACTAATGCAAA--TTTGTAAAG
**
9794082 TTATGTACCCAACTAATGGTAA-TTGTAAAG
1 TTATGTACCCAACTAATGCAAATTTGTAAAG
9794112 TTATG
1 TTATG
9794117 GTTGTAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 11 0.35
33 20 0.65
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (31 bp):
TTATGTACCCAACTAATGCAAATTTGTAAAG
Found at i:9795736 original size:21 final size:21
Alignment explanation
Indices: 9795710--9795749 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9795700 TGAAACATCA
9795710 TTCGTGTTCAGTAAAAAACAT
1 TTCGTGTTCAGTAAAAAACAT
9795731 TTCGTGTTCAGTAAAAAAC
1 TTCGTGTTCAGTAAAAAAC
9795750 TAATTGCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
TTCGTGTTCAGTAAAAAACAT
Found at i:9796456 original size:42 final size:41
Alignment explanation
Indices: 9796361--9796439 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
9796351 TTTTATATTA
* * *
9796361 AAAACGCCGCAAAGGAACTACTCTATTGCTGCGTTTTTTACG
1 AAAACGCCACTAAGGAACTACTCTATTGCAGCG-TTTTTACG
*
9796403 AAAACGCCACTAAGGAACTATTCTATTGCAGCGTTTT
1 AAAACGCCACTAAGGAACTACTCTATTGCAGCGTTTT
9796440 AGGAACAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (41 bp):
AAAACGCCACTAAGGAACTACTCTATTGCAGCGTTTTTACG
Found at i:9796514 original size:42 final size:41
Alignment explanation
Indices: 9796468--9796687 Score: 180
Period size: 42 Copynumber: 5.3 Consensus size: 41
9796458 ATGTGTAATA
* *
9796468 TATTGCGGCGTTTGTGGTCAAAACGCCGCCAATTTACCATTC
1 TATTGCGGCGTTTGTGGTCAAAACGCCGCAAATTTA-CACTC
* * *
9796510 TATTGCGGCGTTT-TGGCTC-AATCGCCGCAAAATTCATACTC
1 TATTGCGGCGTTTGTGG-TCAAAACGCCGC-AAATTTACACTC
* * * *
9796551 TATTGCGGCGTTTGTGGTAAAAACGCTGCCAGTTTACCACTC
1 TATTGCGGCGTTTGTGGTCAAAACGCCGCAAATTTA-CACTC
* * *
9796593 TATTGCGGCGTTT-TGG-CTAAATCGCCGCAAAATTTATAATC
1 TATTGCGGCGTTTGTGGTC-AAAACGCCGC-AAATTTACACTC
* * * * *
9796634 TATTGCAGCGTTTGTGAT-ATAAACGCCACTAATTTAGCACCC
1 TATTGCGGCGTTTGTGGTCA-AAACGCCGCAAATTTA-CACTC
9796676 TATTGCGGCGTT
1 TATTGCGGCGTT
9796688 GTTCTAAAAA
Statistics
Matches: 139, Mismatches: 28, Indels: 22
0.74 0.15 0.12
Matches are distributed among these distances:
41 65 0.47
42 74 0.53
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (41 bp):
TATTGCGGCGTTTGTGGTCAAAACGCCGCAAATTTACACTC
Done.