Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 440 of 444
Found at i:127591078 original size:23 final size:23
Alignment explanation
Indices: 127591052--127591095 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
127591042 TAAAATTTAA
127591052 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
127591075 ATTATTTAGTGATAATATTTA
1 ATTATTTAGTGATAATATTTA
127591096 AAAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:127591650 original size:16 final size:16
Alignment explanation
Indices: 127591629--127591661 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
127591619 GTAGATTCGA
127591629 TCCTACTGTTTTATAT
1 TCCTACTGTTTTATAT
127591645 TCCTACTGTTTTATAT
1 TCCTACTGTTTTATAT
127591661 T
1 T
127591662 ACTAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (16 bp):
TCCTACTGTTTTATAT
Found at i:127599473 original size:16 final size:15
Alignment explanation
Indices: 127599438--127599476 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
127599428 ACAAAATATG
127599438 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
* *
127599453 TATTTGAATTTAAAAT
1 AATTTAAATTT-AAAT
127599469 AATTTAAA
1 AATTTAAA
127599477 CTCGAAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
AATTTAAATTTAAAT
Found at i:127599484 original size:16 final size:16
Alignment explanation
Indices: 127599465--127599499 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
127599455 TTTGAATTTA
* *
127599465 AAATAATTTAAACTCG
1 AAATAATCTAAACTAG
127599481 AAATAATCTAAACTAG
1 AAATAATCTAAACTAG
127599497 AAA
1 AAA
127599500 AACATGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (16 bp):
AAATAATCTAAACTAG
Found at i:127612097 original size:17 final size:18
Alignment explanation
Indices: 127612077--127612119 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
127612067 TCGAATGATA
*
127612077 TTTAAAATTGA-TTCAAT
1 TTTAAAATTGAGTTAAAT
127612094 TTTAAAA-TGAGTTAAAT
1 TTTAAAATTGAGTTAAAT
*
127612111 TTAAAAATT
1 TTTAAAATT
127612120 TATCTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 18 0.82
18 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (18 bp):
TTTAAAATTGAGTTAAAT
Found at i:127612113 original size:16 final size:17
Alignment explanation
Indices: 127612076--127612116 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
127612066 TTCGAATGAT
127612076 ATTTAAAATTGATTCAA
1 ATTTAAAATTGATTCAA
*
127612093 TTTTAAAA-TGAGTT-AA
1 ATTTAAAATTGA-TTCAA
127612109 ATTTAAAA
1 ATTTAAAA
127612117 ATTTATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (17 bp):
ATTTAAAATTGATTCAA
Found at i:127613481 original size:13 final size:14
Alignment explanation
Indices: 127613463--127613491 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
127613453 TGTCTTCAGT
127613463 TTTATTTTTT-TTG
1 TTTATTTTTTATTG
127613476 TTTATTTTTTATTG
1 TTTATTTTTTATTG
127613490 TT
1 TT
127613492 CAACAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTATTTTTTATTG
Found at i:127613957 original size:18 final size:18
Alignment explanation
Indices: 127613917--127613958 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
127613907 ACTAATAAAT
127613917 TTAT-TTAAATATAATTA
1 TTATATTAAATATAATTA
** *
127613934 AAATATTAATTATAATTA
1 TTATATTAAATATAATTA
127613952 TTATATT
1 TTATATT
127613959 TTCTTCTTAA
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATATTAAATATAATTA
Found at i:127615665 original size:59 final size:59
Alignment explanation
Indices: 127615558--127615672 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 59
127615548 TAACTGGGAC
* * * * *
127615558 AAAAAAAAAACTTAGAGACTAAAGTAAACATTGAAATCAAATTTAAATACCCAAATTGA
1 AAAAAAAAAACTTAAAGACTAAAGTAAACATTAAAATCAAACTCAAATACCAAAATTGA
* * * *
127615617 AAAAAAAAAACTTAAATATTAAATTATACATTAAAA-CTAAACTCAAATACCAAAAT
1 AAAAAAAAAACTTAAAGACTAAAGTAAACATTAAAATC-AAACTCAAATACCAAAAT
127615673 AATATATTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
58 1 0.02
59 45 0.98
ACGTcount: A:0.60, C:0.12, G:0.04, T:0.23
Consensus pattern (59 bp):
AAAAAAAAAACTTAAAGACTAAAGTAAACATTAAAATCAAACTCAAATACCAAAATTGA
Found at i:127617714 original size:16 final size:16
Alignment explanation
Indices: 127617687--127617730 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
127617677 ATCGGCAGCC
127617687 AAATAATCAAAACTTG
1 AAATAATCAAAACTTG
* * *
127617703 AAGTAATTAAAATTTG
1 AAATAATCAAAACTTG
127617719 AAATAATCAAAA
1 AAATAATCAAAA
127617731 ATCATAACAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (16 bp):
AAATAATCAAAACTTG
Found at i:127618968 original size:2 final size:2
Alignment explanation
Indices: 127618961--127618987 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
127618951 CAAATTAACA
127618961 AT 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 AT A
127618988 AAGTTATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127621636 original size:48 final size:48
Alignment explanation
Indices: 127621575--127621695 Score: 190
Period size: 48 Copynumber: 2.5 Consensus size: 48
127621565 GCAGTAGTAT
127621575 TAACAT-CTCGCTTTATGGATTCAGCCTTCGAGACTGATGGAGTATTAG
1 TAACATCCT-GCTTTATGGATTCAGCCTTCGAGACTGATGGAGTATTAG
*
127621623 TAACATCCTGCTTTATGAATTCAGCCTTCGAGACTGATGGAGTATTAG
1 TAACATCCTGCTTTATGGATTCAGCCTTCGAGACTGATGGAGTATTAG
* * *
127621671 TAACCTCCTGCTTTACGGGTTCAGC
1 TAACATCCTGCTTTATGGATTCAGC
127621696 TGTTACGGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
48 65 0.97
49 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (48 bp):
TAACATCCTGCTTTATGGATTCAGCCTTCGAGACTGATGGAGTATTAG
Found at i:127624511 original size:31 final size:30
Alignment explanation
Indices: 127624468--127624538 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
127624458 TACAAAATGA
*
127624468 TCACTGAACTATTCAAAAATTTTCATTTAAG
1 TCACTGAGCTATT-AAAAATTTTCATTTAAG
* * **
127624499 TCATTGAGCTATTAAAAGTTTTTGTTTAAG
1 TCACTGAGCTATTAAAAATTTTCATTTAAG
127624529 TCACTGAGCT
1 TCACTGAGCT
127624539 GCTAAGTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 23 0.68
31 11 0.32
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (30 bp):
TCACTGAGCTATTAAAAATTTTCATTTAAG
Found at i:127637188 original size:30 final size:30
Alignment explanation
Indices: 127637152--127637213 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
127637142 TCAGCTGACG
127637152 ACTCGGTAGATATTAGAGGTGAAAATTGGC
1 ACTCGGTAGATATTAGAGGTGAAAATTGGC
127637182 ACTCGGTAGATATTAGAGGTGAAAATTGGC
1 ACTCGGTAGATATTAGAGGTGAAAATTGGC
127637212 AC
1 AC
127637214 ATACTGCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (30 bp):
ACTCGGTAGATATTAGAGGTGAAAATTGGC
Found at i:127640751 original size:27 final size:27
Alignment explanation
Indices: 127640721--127640775 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
127640711 AAATATTACA
127640721 TACAAGAAACTTACGTACACTAGTCAT
1 TACAAGAAACTTACGTACACTAGTCAT
*
127640748 TACAAGAAACTTAGGTACACTAGTCAT
1 TACAAGAAACTTACGTACACTAGTCAT
127640775 T
1 T
127640776 CATCCCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (27 bp):
TACAAGAAACTTACGTACACTAGTCAT
Found at i:127644913 original size:38 final size:38
Alignment explanation
Indices: 127644862--127644940 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
127644852 AGCCCTACCT
*
127644862 ACTCACCATGACGTTAGGCATGTTTTGGTCCTTCTTCA
1 ACTCACCATGACGTTAGGCATGTTTTGGTCATTCTTCA
*
127644900 ACTCATCATGACGTTAGGCATGTTTTGGTCATTCTTCA
1 ACTCACCATGACGTTAGGCATGTTTTGGTCATTCTTCA
127644938 ACT
1 ACT
127644941 ATTCATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (38 bp):
ACTCACCATGACGTTAGGCATGTTTTGGTCATTCTTCA
Found at i:127644977 original size:23 final size:23
Alignment explanation
Indices: 127644951--127644997 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
127644941 ATTCATTTAT
127644951 TATTGTCTTAAATGCTTATAAAC
1 TATTGTCTTAAATGCTTATAAAC
127644974 TATTGTCTTAAATGCTTATAAAC
1 TATTGTCTTAAATGCTTATAAAC
127644997 T
1 T
127644998 TTTCGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (23 bp):
TATTGTCTTAAATGCTTATAAAC
Found at i:127649894 original size:2 final size:2
Alignment explanation
Indices: 127649887--127649918 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
127649877 CATAAGAGAA
127649887 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
127649919 TCAAGGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127654145 original size:32 final size:32
Alignment explanation
Indices: 127654026--127654148 Score: 156
Period size: 32 Copynumber: 3.7 Consensus size: 32
127654016 TTCTATGCAG
*
127654026 TGCACAGGGTATCGAACTACTTTATAATATAACCAAA
1 TGCACAGGGTATCAAACTA--TTAT-ATAT--CCAAA
* *
127654063 TTGCACAAGGTATCAAACCATTATATATCCAAA
1 -TGCACAGGGTATCAAACTATTATATATCCAAA
*
127654096 TGCACAGGGTATCAAACTATTATATATCCCAA
1 TGCACAGGGTATCAAACTATTATATATCCAAA
127654128 TGCACAGGGTATCAAACTATT
1 TGCACAGGGTATCAAACTATT
127654149 TTTTATATAG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
32 50 0.63
33 5 0.06
35 4 0.05
36 4 0.05
38 16 0.20
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (32 bp):
TGCACAGGGTATCAAACTATTATATATCCAAA
Found at i:127659427 original size:505 final size:505
Alignment explanation
Indices: 127658477--127659489 Score: 2026
Period size: 505 Copynumber: 2.0 Consensus size: 505
127658467 TAAAATAATG
127658477 ATTAAATTAAGGTGTAAGATAAATTATTGATGTCATGCCTGAAATTTTTTAAAAAAAAATCACGT
1 ATTAAATTAAGGTGTAAGATAAATTATTGATGTCATGCCTGAAATTTTTTAAAAAAAAATCACGT
127658542 GATTAATTGAACCCAGACCCTGAAGTCATCGATGGCTTTTCCGCTTTCCAGTCCCTCTCTCCACC
66 GATTAATTGAACCCAGACCCTGAAGTCATCGATGGCTTTTCCGCTTTCCAGTCCCTCTCTCCACC
127658607 TTATTTGAAGAATCTGGTCCAAATCTGCAACAGACCGGATTAGATCTTGTAGCCACACTGACACT
131 TTATTTGAAGAATCTGGTCCAAATCTGCAACAGACCGGATTAGATCTTGTAGCCACACTGACACT
127658672 GTCATTGGATCAGATCTAATAAAACTTCAAAATCGATATTCGATGCTCATTAATATTATATTTCC
196 GTCATTGGATCAGATCTAATAAAACTTCAAAATCGATATTCGATGCTCATTAATATTATATTTCC
127658737 TATCGATTTCAGTTATATCGGTTAATACATATTATTTCAATATTTTTTATTCTATCAATAATTTC
261 TATCGATTTCAGTTATATCGGTTAATACATATTATTTCAATATTTTTTATTCTATCAATAATTTC
127658802 GACTTGTACAGACTATATGAATTAGTTTCATCCAATTTCATTTTTATTAACGAAAATAATGTGTA
326 GACTTGTACAGACTATATGAATTAGTTTCATCCAATTTCATTTTTATTAACGAAAATAATGTGTA
127658867 CCAACTAGTGTATGATAAAGTTAAAATTTTATATTTTACATATGCGACATAATATTATTGTATGG
391 CCAACTAGTGTATGATAAAGTTAAAATTTTATATTTTACATATGCGACATAATATTATTGTATGG
127658932 AATGTGTTATTTTCCTAGCTTATTTTGTATTTGTTGAATGATAGACTTTT
456 AATGTGTTATTTTCCTAGCTTATTTTGTATTTGTTGAATGATAGACTTTT
127658982 ATTAAATTAAGGTGTAAGATAAATTATTGATGTCATGCCTGAAATTTTTTAAAAAAAAATCACGT
1 ATTAAATTAAGGTGTAAGATAAATTATTGATGTCATGCCTGAAATTTTTTAAAAAAAAATCACGT
127659047 GATTAATTGAACCCAGACCCTGAAGTCATCGATGGCTTTTCCGCTTTCCAGTCCCTCTCTCCACC
66 GATTAATTGAACCCAGACCCTGAAGTCATCGATGGCTTTTCCGCTTTCCAGTCCCTCTCTCCACC
127659112 TTATTTGAAGAATCTGGTCCAAATCTGCAACAGACCGGATTAGATCTTGTAGCCACACTGACACT
131 TTATTTGAAGAATCTGGTCCAAATCTGCAACAGACCGGATTAGATCTTGTAGCCACACTGACACT
127659177 GTCATTGGATCAGATCTAATAAAACTTCAAAATCGATATTCGATGCTCATTAATATTATATTTCC
196 GTCATTGGATCAGATCTAATAAAACTTCAAAATCGATATTCGATGCTCATTAATATTATATTTCC
127659242 TATCGATTTCAGTTATATCGGTTAATACATATTATTTCAATATTTTTTATTCTATCAATAATTTC
261 TATCGATTTCAGTTATATCGGTTAATACATATTATTTCAATATTTTTTATTCTATCAATAATTTC
127659307 GACTTGTACAGACTATATGAATTAGTTTCATCCAATTTCATTTTTATTAACGAAAATAATGTGTA
326 GACTTGTACAGACTATATGAATTAGTTTCATCCAATTTCATTTTTATTAACGAAAATAATGTGTA
127659372 CCAACTAGTGTATGATAAAGTTAAAATTTTATATTTTACATATGCGACATAATATTATTGTATGG
391 CCAACTAGTGTATGATAAAGTTAAAATTTTATATTTTACATATGCGACATAATATTATTGTATGG
127659437 AATGTGTTATTTTCCTAGCTTATTTTGTATTTGTTGAATGATAGACTTTT
456 AATGTGTTATTTTCCTAGCTTATTTTGTATTTGTTGAATGATAGACTTTT
127659487 ATT
1 ATT
127659490 TATAAAATTA
Statistics
Matches: 508, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
505 508 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (505 bp):
ATTAAATTAAGGTGTAAGATAAATTATTGATGTCATGCCTGAAATTTTTTAAAAAAAAATCACGT
GATTAATTGAACCCAGACCCTGAAGTCATCGATGGCTTTTCCGCTTTCCAGTCCCTCTCTCCACC
TTATTTGAAGAATCTGGTCCAAATCTGCAACAGACCGGATTAGATCTTGTAGCCACACTGACACT
GTCATTGGATCAGATCTAATAAAACTTCAAAATCGATATTCGATGCTCATTAATATTATATTTCC
TATCGATTTCAGTTATATCGGTTAATACATATTATTTCAATATTTTTTATTCTATCAATAATTTC
GACTTGTACAGACTATATGAATTAGTTTCATCCAATTTCATTTTTATTAACGAAAATAATGTGTA
CCAACTAGTGTATGATAAAGTTAAAATTTTATATTTTACATATGCGACATAATATTATTGTATGG
AATGTGTTATTTTCCTAGCTTATTTTGTATTTGTTGAATGATAGACTTTT
Found at i:127662022 original size:50 final size:50
Alignment explanation
Indices: 127661947--127662095 Score: 237
Period size: 50 Copynumber: 3.0 Consensus size: 50
127661937 CCATGGAAAC
127661947 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
127661997 AAGTGATAAGTAATAACTTCGGCTACATTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
127662047 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATG
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATG
127662096 GCAAATGACA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 86 0.98
51 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:127662316 original size:31 final size:31
Alignment explanation
Indices: 127662108--127662309 Score: 314
Period size: 31 Copynumber: 6.5 Consensus size: 31
127662098 AAATGACAAC
127662108 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
127662139 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
127662170 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
127662201 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
127662232 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
127662263 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
127662294 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
127662310 TGGCTACAAG
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:127662427 original size:47 final size:49
Alignment explanation
Indices: 127662340--127662463 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 49
127662330 CAAGTGATTT
* *
127662340 CTGTATAAGACCATATCTGGGATAT-AGCATCGTTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGAGCATCGGTGAGATATATGACTA
* *
127662387 CTGTATAAGACCATATCTGGGATATGA-CAT-GAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGAGCATCG-GTGAGATATATGACTA
* * *
127662435 C-GTGTAAGACCATAGCTGGGCTATG-GCAT
1 CTGTATAAGACCATATCTGGGATATGAGCAT
127662464 TATTATGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 1 0.02
47 61 0.92
48 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (49 bp):
CTGTATAAGACCATATCTGGGATATGAGCATCGGTGAGATATATGACTA
Found at i:127663424 original size:16 final size:18
Alignment explanation
Indices: 127663390--127663436 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
127663380 CAAAATAAAA
*
127663390 AATTAATTAATTT-TTTTT
1 AATTAATT-TTTTATTTTT
127663408 AA-T-ATTTTTTATTTTT
1 AATTAATTTTTTATTTTT
127663424 AATTAATTTTTTA
1 AATTAATTTTTTA
127663437 ATGATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 2 0.08
18 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTAATTTTTTATTTTT
Found at i:127664472 original size:25 final size:28
Alignment explanation
Indices: 127664417--127664469 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
127664407 ATCTACAACT
*
127664417 TTATAATATATTATAATATTTTTATTAA
1 TTATAATATATTATAATATTTTAATTAA
127664445 TTATAATA-ATTAATAA-A-TTTAATTA
1 TTATAATATATT-ATAATATTTTAATTA
127664470 TTACTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.30
27 4 0.17
28 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATAATATATTATAATATTTTAATTAA
Found at i:127665126 original size:19 final size:19
Alignment explanation
Indices: 127665098--127665139 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
127665088 ATTAAATCAT
127665098 AATT-TTATCATTTTTAAA
1 AATTATTATCATTTTTAAA
127665116 AATTATTATCATTTTTAAA
1 AATTATTATCATTTTTAAA
127665135 AATTA
1 AATTA
127665140 AAATATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTATTATCATTTTTAAA
Found at i:127666482 original size:64 final size:64
Alignment explanation
Indices: 127666381--127666509 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
127666371 ACATGTTTAT
*
127666381 CGCGTGAAACTTTTTTTATTAATCTTATCAAAATAGATGTCAAGCCTTTCTTATATTTAAATAA
1 CGCGTGAAACTTTTTTTATTAATCTTATCAAAATAGATGTCAAACCTTTCTTATATTTAAATAA
*
127666445 CGCGTGAAA-TTTCTTTTATTAATCTTATTAAAATAGATGTCAAACCTTTCTTATATTTAAATAA
1 CGCGTGAAACTTT-TTTTATTAATCTTATCAAAATAGATGTCAAACCTTTCTTATATTTAAATAA
127666509 C
1 C
127666510 ATGAGATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 3 0.05
64 59 0.95
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (64 bp):
CGCGTGAAACTTTTTTTATTAATCTTATCAAAATAGATGTCAAACCTTTCTTATATTTAAATAA
Found at i:127668423 original size:2 final size:2
Alignment explanation
Indices: 127668416--127668440 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
127668406 AGGGTCAAAT
127668416 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
127668441 TGCTTTGCCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:127672012 original size:39 final size:39
Alignment explanation
Indices: 127671958--127672036 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
127671948 TGAATTTTAT
127671958 AAGATATGGAACTTTAAGGTCTTGTTTTTGAACTTAAAA
1 AAGATATGGAACTTTAAGGTCTTGTTTTTGAACTTAAAA
127671997 AAGATATGGAACTTTAAGGTCTTGTTTTTGAACTTAAAA
1 AAGATATGGAACTTTAAGGTCTTGTTTTTGAACTTAAAA
127672036 A
1 A
127672037 CTTCATCTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.38
Consensus pattern (39 bp):
AAGATATGGAACTTTAAGGTCTTGTTTTTGAACTTAAAA
Found at i:127677126 original size:16 final size:17
Alignment explanation
Indices: 127677105--127677153 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
127677095 ATAATTTTAT
*
127677105 TATTATTAATT-TAAAA
1 TATTATAAATTATAAAA
127677121 TATTATAAATTATAAAA
1 TATTATAAATTATAAAA
*
127677138 AATT-TAAATTA-AAAA
1 TATTATAAATTATAAAA
127677153 T
1 T
127677154 TTACTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.14
16 17 0.59
17 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTATAAATTATAAAA
Found at i:127682689 original size:21 final size:21
Alignment explanation
Indices: 127682665--127682705 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
127682655 ATCTGCTCAA
* *
127682665 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
127682686 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
127682706 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:127686148 original size:15 final size:15
Alignment explanation
Indices: 127686128--127686159 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
127686118 AGCAAAACCC
127686128 ATCATTACTATTAAA
1 ATCATTACTATTAAA
127686143 ATCATTACTATTAAA
1 ATCATTACTATTAAA
127686158 AT
1 AT
127686160 TTTCGTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
ATCATTACTATTAAA
Found at i:127692918 original size:22 final size:22
Alignment explanation
Indices: 127692893--127692935 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
127692883 TGTTTTTATA
127692893 TTTTTATTTTTAAGAATTTAATT
1 TTTTTATTTTTAA-AATTTAATT
*
127692916 TTTTTATTTTTTAAATTTAA
1 TTTTTATTTTTAAAATTTAA
127692936 AAATTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTATTTTTAAAATTTAATT
Found at i:127692927 original size:30 final size:31
Alignment explanation
Indices: 127692885--127692948 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
127692875 ATCATTTTTG
** * *
127692885 TTTTTATATTTTTATTTTTAAGAATTTAATT
1 TTTTTATATTTTTAAATTTAAAAATTTAAGT
127692916 TTTTTAT-TTTTTAAATTTAAAAATTTAAGT
1 TTTTTATATTTTTAAATTTAAAAATTTAAGT
127692946 TTT
1 TTT
127692949 ATTGTTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTATATTTTTAAATTTAAAAATTTAAGT
Found at i:127696325 original size:37 final size:37
Alignment explanation
Indices: 127696284--127696361 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
127696274 AGATTTTTTA
127696284 ACATCACATTCTTATATAAGAATGACCAAATGGATCG
1 ACATCACATTCTTATATAAGAATGACCAAATGGATCG
127696321 ACATCACATTCTTATATAAGAATGACCAAATGGATCG
1 ACATCACATTCTTATATAAGAATGACCAAATGGATCG
127696358 ACAT
1 ACAT
127696362 GTTCAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (37 bp):
ACATCACATTCTTATATAAGAATGACCAAATGGATCG
Found at i:127698347 original size:18 final size:18
Alignment explanation
Indices: 127698324--127698359 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
127698314 TGTTGTATAA
127698324 GTTTTAAAATTAAAAACT
1 GTTTTAAAATTAAAAACT
127698342 GTTTTAAAATTAAAAACT
1 GTTTTAAAATTAAAAACT
127698360 AAAAATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
GTTTTAAAATTAAAAACT
Found at i:127706995 original size:46 final size:46
Alignment explanation
Indices: 127706943--127707193 Score: 360
Period size: 46 Copynumber: 5.5 Consensus size: 46
127706933 ACTTGTGTGT
*
127706943 ATGGTTGAAAGATACCATGGCAACCGGATATGAAATGTGTAAGACC
1 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
127706989 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
*
127707035 ATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACC
1 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
* * ****
127707081 ATGGTTGAAAGATACCATGGCAACGTGACATGAAAAAAATAAGACC
1 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
* * ** *
127707127 ATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAGTAAGACC
1 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
* *
127707173 ATAGTTGAAAGACA-CATGGCA
1 ATGGTTGAAAGATACCATGGCA
127707194 TCACGTCAAA
Statistics
Matches: 188, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
45 7 0.04
46 181 0.96
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
Found at i:127707499 original size:23 final size:25
Alignment explanation
Indices: 127707454--127707500 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
127707444 AATAAATATA
*
127707454 CATAAAATATATAGAAATGATGAAG
1 CATAAAATATATAGAAATAATGAAG
*
127707479 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATAGAAATAATGAA
127707501 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (25 bp):
CATAAAATATATAGAAATAATGAAG
Found at i:127712383 original size:26 final size:26
Alignment explanation
Indices: 127712350--127712424 Score: 132
Period size: 26 Copynumber: 2.9 Consensus size: 26
127712340 CCCATTATGG
127712350 AACATTTACCTAACCCATTATCATGA
1 AACATTTACCTAACCCATTATCATGA
*
127712376 AACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGA
*
127712402 AACATTTACCTAATCCATTATCA
1 AACATTTACCTAACCCATTATCA
127712425 ATTTGTATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (26 bp):
AACATTTACCTAACCCATTATCATGA
Found at i:127726432 original size:20 final size:21
Alignment explanation
Indices: 127726399--127726437 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
127726389 AATAGAGTTC
127726399 AAGAACACAAATAA-AAAGAT
1 AAGAACACAAATAACAAAGAT
127726419 AAGAA-ACAAGATAACAAAG
1 AAGAACACAA-ATAACAAAG
127726438 TTTATTGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.69, C:0.10, G:0.13, T:0.08
Consensus pattern (21 bp):
AAGAACACAAATAACAAAGAT
Found at i:127733982 original size:26 final size:26
Alignment explanation
Indices: 127733951--127734058 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
127733941 TGAAATGCCC
*
127733951 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
127733977 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
127734003 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
127734029 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
127734055 ATCA
1 ATCA
127734059 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:127746717 original size:28 final size:28
Alignment explanation
Indices: 127746685--127746745 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
127746675 TAAAACCGAA
*
127746685 AAAAGAGAAAGTAAACAATAATTTCTCT
1 AAAAGAGAAACTAAACAATAATTTCTCT
** *
127746713 AAAAGCTAGACTAAACAATAATTTCTCT
1 AAAAGAGAAACTAAACAATAATTTCTCT
127746741 AAAAG
1 AAAAG
127746746 CTAGACTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (28 bp):
AAAAGAGAAACTAAACAATAATTTCTCT
Found at i:127746746 original size:28 final size:28
Alignment explanation
Indices: 127746696--127746754 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
127746686 AAAGAGAAAG
127746696 TAAACAATAATTTCTCTAAAAGCTAGAC
1 TAAACAATAATTTCTCTAAAAGCTAGAC
127746724 TAAACAATAATTTCTCTAAAAGCTAGAC
1 TAAACAATAATTTCTCTAAAAGCTAGAC
127746752 TAA
1 TAA
127746755 TAAGGTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAACAATAATTTCTCTAAAAGCTAGAC
Found at i:127751909 original size:32 final size:32
Alignment explanation
Indices: 127751868--127751932 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
127751858 AGAAACAAGG
127751868 TAACAAAGTTTATTGTGCATAATTCCAATCTT
1 TAACAAAGTTTATTGTGCATAATTCCAATCTT
127751900 TAACAAAGTTTATTGTGCATAATTCCAATCTT
1 TAACAAAGTTTATTGTGCATAATTCCAATCTT
127751932 T
1 T
127751933 TTTATTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (32 bp):
TAACAAAGTTTATTGTGCATAATTCCAATCTT
Found at i:127755334 original size:5 final size:5
Alignment explanation
Indices: 127755324--127755369 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
127755314 TTTTTATCTG
*
127755324 TATTT TATTT TATTT TATTG TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
127755370 TACAAATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:127755345 original size:20 final size:20
Alignment explanation
Indices: 127755315--127755369 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
127755305 ATTCTTTATT
127755315 TTTTATCTGTATTTTATTTTA
1 TTTTAT-TGTATTTTATTTTA
127755336 TTTTATTGTATTTTATTTTA
1 TTTTATTGTATTTTATTTTA
*
127755356 TTTTATTTTATTTT
1 TTTTATTGTATTTT
127755370 TACAAATTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTATTGTATTTTATTTTA
Found at i:127758779 original size:26 final size:26
Alignment explanation
Indices: 127758750--127758827 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
127758740 TGGTACAAAT
127758750 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127758776 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127758802 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127758828 CGATGGGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:127760346 original size:25 final size:27
Alignment explanation
Indices: 127760309--127760359 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
127760299 TACAGTTTTA
127760309 CCTAGGAGATAAATT-ACCGAAATACC
1 CCTAGGAGATAAATTGACCGAAATACC
* *
127760335 CCTAGG-GTTAAATTGACCTAAATAC
1 CCTAGGAGATAAATTGACCGAAATAC
127760360 ATGTTTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.24
Consensus pattern (27 bp):
CCTAGGAGATAAATTGACCGAAATACC
Found at i:127765814 original size:26 final size:26
Alignment explanation
Indices: 127765785--127765866 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
127765775 TGGTACAAAT
127765785 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127765811 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127765837 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127765863 TGAT
1 TGAT
127765867 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:127767371 original size:26 final size:26
Alignment explanation
Indices: 127767342--127767391 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
127767332 TACAGTTTTA
127767342 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
127767368 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
127767392 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:127769879 original size:5 final size:5
Alignment explanation
Indices: 127769863--127769895 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
127769853 TTCTTTATTG
127769863 TTTAT CTTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TT
127769896 ACACATAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:127772374 original size:26 final size:26
Alignment explanation
Indices: 127772335--127772442 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
127772325 TGGTACAAAT
127772335 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
* *
127772361 TGGTAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
127772387 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
127772413 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
127772439 TGAT
1 TGAT
127772443 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
26 73 0.97
27 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:127773910 original size:28 final size:26
Alignment explanation
Indices: 127773868--127773942 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
127773858 CCTAAAAGCT
* * *
127773868 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
127773896 AAATTACTGTTATACTCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
127773922 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
127773943 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:127774076 original size:26 final size:26
Alignment explanation
Indices: 127774047--127774190 Score: 179
Period size: 26 Copynumber: 5.6 Consensus size: 26
127774037 AGGAAGCGTC
* * *
127774047 CTGGTGGCTATGCCACAATTTCTGAT
1 CTGGTGGCTCTGCCACAATATCTGTT
127774073 CTGGTGGCT-TGCCAC-ATATCTGTT
1 CTGGTGGCTCTGCCACAATATCTGTT
* * *
127774097 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-AATATCTGTT
127774124 CTGG-GGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGTT
127774150 CTGGTGGCTCTG-CACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGTT
127774176 CTGGTGGCTCTGCCA
1 CTGGTGGCTCTGCCA
127774191 TATCTGTATC
Statistics
Matches: 105, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
24 16 0.15
25 13 0.12
26 56 0.53
27 20 0.19
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:127774185 original size:53 final size:52
Alignment explanation
Indices: 127774047--127774204 Score: 204
Period size: 53 Copynumber: 3.1 Consensus size: 52
127774037 AGGAAGCGTC
*
127774047 CTGGTGGCTATGCCACA-ATTTCTGATCTGGTGGCT-TGCCACATATCTGTT
1 CTGGTGGCTATGCCACATATATCTGATCTGGTGGCTCTGCCACATATCTGTT
127774097 CTGGTGGCTATGCCACGAT-TATCTGATCTGG-GGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATATATCTGATCTGGTGGCTCTGCCAC--ATATCTGTT
* *
127774150 CTGGTGGCTCTG-CACATATATCTGTTCTGGTGGCTCTG-C-CATATCTGTAT
1 CTGGTGGCTATGCCACATATATCTGATCTGGTGGCTCTGCCACATATCTGT-T
127774200 CTGGT
1 CTGGT
127774205 AACTTCGTCA
Statistics
Matches: 97, Mismatches: 3, Indels: 16
0.84 0.03 0.14
Matches are distributed among these distances:
49 8 0.08
50 26 0.27
51 21 0.22
52 15 0.15
53 27 0.28
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (52 bp):
CTGGTGGCTATGCCACATATATCTGATCTGGTGGCTCTGCCACATATCTGTT
Found at i:127782228 original size:30 final size:30
Alignment explanation
Indices: 127782192--127782322 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
127782182 GACAAGATTG
* * * * *
127782192 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
127782222 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
127782250 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
127782280 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
127782309 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
127782323 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:127782283 original size:58 final size:58
Alignment explanation
Indices: 127782192--127782322 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
127782182 GACAAGATTG
* * * * * *
127782192 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
127782250 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
127782309 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
127782323 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:127790163 original size:30 final size:30
Alignment explanation
Indices: 127790127--127790257 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
127790117 GACAAGATTG
* * * * *
127790127 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
127790157 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
127790185 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
127790215 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
127790244 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
127790258 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:127790218 original size:58 final size:58
Alignment explanation
Indices: 127790127--127790257 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
127790117 GACAAGATTG
* * * * * *
127790127 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
127790185 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
127790244 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
127790258 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:127793492 original size:2 final size:2
Alignment explanation
Indices: 127793485--127793518 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
127793475 TTATTAACTA
127793485 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
127793519 GAGAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127794734 original size:44 final size:44
Alignment explanation
Indices: 127794685--127794776 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
127794675 TGTTCAGAGA
* **
127794685 TACTTCGACCTT-GAGTCAATGAGGCAGTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGT
* **
127794729 TACTTCGACTTCAAGTCGATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGT
127794773 TACT
1 TACT
127794777 ATTACATCGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.07
44 38 0.93
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (44 bp):
TACTTCGACTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGT
Found at i:127797640 original size:26 final size:26
Alignment explanation
Indices: 127797611--127797720 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
127797601 TGATACAAAT
127797611 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
127797637 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127797663 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127797689 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127797715 TGATAA
1 TGATAA
127797721 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:127799751 original size:136 final size:137
Alignment explanation
Indices: 127799506--127799791 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
127799496 GAGTAGTCTC
127799506 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
127799571 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
127799636 ACTGTTA
131 ACTGTTA
*
127799643 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
127799707 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
127799772 ACTGTTA
131 ACTGTTA
**
127799779 CCTGAATGGGCTT
1 CCCAAATGGGCTT
127799792 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:127803452 original size:21 final size:21
Alignment explanation
Indices: 127803428--127803493 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
127803418 AATCTAACTG
127803428 AAGCCCATAAGTGCTAAACGA
1 AAGCCCATAAGTGCTAAACGA
*
127803449 AAG-CC-TGAAG-GCT-AACTA
1 AAGCCCAT-AAGTGCTAAACGA
* *
127803467 AAGCACATAAGTGCTAAACGG
1 AAGCCCATAAGTGCTAAACGA
127803488 AAGCCC
1 AAGCCC
127803494 GAAGGCTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 9 0.26
21 11 0.31
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.14
Consensus pattern (21 bp):
AAGCCCATAAGTGCTAAACGA
Found at i:127803476 original size:39 final size:39
Alignment explanation
Indices: 127803421--127803509 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
127803411 AACCCGAAAT
* *
127803421 CTAACTGAAGCCCATAAGTGCTAAACGAAAGCCTGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGAAAGCCCGAAGG
* *
127803460 CTAACTAAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGAAAGCCCGAAGG
127803499 CTAACTGAAGC
1 CTAACTGAAGC
127803510 TCATCAGAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACGAAAGCCCGAAGG
Found at i:127808686 original size:30 final size:30
Alignment explanation
Indices: 127808650--127808707 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
127808640 AGGCATTACC
127808650 GTTATGGAAACCGTTAATTTAACTAATACT
1 GTTATGGAAACCGTTAATTTAACTAATACT
127808680 GTTATGGAAACCGTTAATTTAACTAATA
1 GTTATGGAAACCGTTAATTTAACTAATA
127808708 AATGGCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (30 bp):
GTTATGGAAACCGTTAATTTAACTAATACT
Found at i:127810885 original size:138 final size:137
Alignment explanation
Indices: 127810625--127810894 Score: 441
Period size: 138 Copynumber: 2.0 Consensus size: 137
127810615 ATCTATCAAC
* *
127810625 AATAATGGTCAGTTCGATCTCGAACTTGACTTGAAATTCAAGACTCAATACTCAGCTCGACATCA
1 AATAATGATCAGTTCGAGCTCGAACTTGACTTGAAATTCAAGACTCAATACTCAGCTCGACATCA
127810690 ATTTTTAAGTTTGAGCTTGGATCGAGACATAATAATCAAGTTATTTGACCTTAATTAATCTAGTT
66 ATTTTTAAGTTTGAGCTTGGATCGAGACATAATAATCAAGTTATTTGACCTTAATTAATCTAGTT
127810755 AAGCTTG
131 AAGCTTG
* **
127810762 AATAATGATCAGTTTGAGCTCGAACTTGACTTGAAATTCGGGACTCAATACTCAGCTCGAGCATC
1 AATAATGATCAGTTCGAGCTCGAACTTGACTTGAAATTCAAGACTCAATACTCAGCTCGA-CATC
* * * * *
127810827 AGTTTTTAAGTTTGGGCTTGGATCGAGACATACTAATCAAGTTATTTGAGCTTGATTAATCTAGT
65 AATTTTTAAGTTTGAGCTTGGATCGAGACATAATAATCAAGTTATTTGACCTTAATTAATCTAGT
127810892 TAA
130 TAA
127810895 TTAAATTTCA
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
137 55 0.45
138 67 0.55
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (137 bp):
AATAATGATCAGTTCGAGCTCGAACTTGACTTGAAATTCAAGACTCAATACTCAGCTCGACATCA
ATTTTTAAGTTTGAGCTTGGATCGAGACATAATAATCAAGTTATTTGACCTTAATTAATCTAGTT
AAGCTTG
Found at i:127813540 original size:47 final size:47
Alignment explanation
Indices: 127813471--127813566 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
127813461 GGAGGTGGCG
127813471 TTAATAGCTAGCAAGGAGGTCCAAGGTTCGAATCCTAGCTTAGTGTT
1 TTAATAGCTAGCAAGGAGGTCCAAGGTTCGAATCCTAGCTTAGTGTT
127813518 TTAATAGCTAGCAAGGAGGTCCAAGGTTCGAATCCTAGCTTAGTGTT
1 TTAATAGCTAGCAAGGAGGTCCAAGGTTCGAATCCTAGCTTAGTGTT
127813565 TT
1 TT
127813567 TAGAAGTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (47 bp):
TTAATAGCTAGCAAGGAGGTCCAAGGTTCGAATCCTAGCTTAGTGTT
Found at i:127815566 original size:46 final size:46
Alignment explanation
Indices: 127815516--127815691 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
127815506 TGGTTGAGCA
127815516 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
127815562 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
* * **
127815606 ACATCCGAACTCGTTGAGTTAAGTTCGAGTTCACTTATGGATGCGAACA
1 ---TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * **
127815655 CCCGAGCTCATTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
127815692 GCAGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:127815673 original size:93 final size:93
Alignment explanation
Indices: 127815514--127815682 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
127815504 GATGGTTGAG
* *** *
127815514 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGTT
127815579 GAGTCCGAGTTCGTGAGATGTAACTAGA
66 GAGTCCGAGTTCGTGAGATGTAACTAGA
* *
127815607 CATCCGAACTCGTTGAGTTAAGTTCGAGTTCACTTATGGATGCGAACACCCGAGCTCATTGAGTT
1 CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGTT
127815672 GAGTCCGAGTT
66 GAGTCCGAGTT
127815683 TGCTTATGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGA
Found at i:127817304 original size:24 final size:24
Alignment explanation
Indices: 127817277--127817335 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
127817267 ATAAATCAGC
*
127817277 AAAAGCCAAAATGCCGAAATACTG
1 AAAAGCCAAAATGCCGAAATACCG
**
127817301 AAAAGCTGAAATGCCGAAATACCG
1 AAAAGCCAAAATGCCGAAATACCG
127817325 AAATA-CCAAAA
1 AAA-AGCCAAAA
127817336 GTTGGGCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (24 bp):
AAAAGCCAAAATGCCGAAATACCG
Found at i:127817576 original size:29 final size:29
Alignment explanation
Indices: 127817531--127817642 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
127817521 ATAATATGAT
* *
127817531 TTGGGCCTAATGTGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
127817560 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
127817589 CTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
*
127817617 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
127817643 ATGTAGGGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
28 23 0.33
29 47 0.67
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:127841185 original size:22 final size:22
Alignment explanation
Indices: 127841160--127841201 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
127841150 CAAGTTCTGT
127841160 CACTACTTTCAACTGAAAATGC
1 CACTACTTTCAACTGAAAATGC
**
127841182 CACTTTTTTCAACTGAAAAT
1 CACTACTTTCAACTGAAAAT
127841202 TTATAAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (22 bp):
CACTACTTTCAACTGAAAATGC
Found at i:127842638 original size:31 final size:31
Alignment explanation
Indices: 127842600--127842662 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
127842590 CTATGTAAAT
127842600 TTATTTGGTCAAATTTTGACTTTAGCCCCTC
1 TTATTTGGTCAAATTTTGACTTTAGCCCCTC
127842631 TTATTTGGTCAAATTTTGACTTTAGCCCCTC
1 TTATTTGGTCAAATTTTGACTTTAGCCCCTC
127842662 T
1 T
127842663 ACTACCATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (31 bp):
TTATTTGGTCAAATTTTGACTTTAGCCCCTC
Found at i:127842676 original size:31 final size:31
Alignment explanation
Indices: 127842610--127842677 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
127842600 TTATTTGGTC
**** *
127842610 AAATTTTGACTTTAGCCCCTCTTATTTGGTC
1 AAATTTTGACTTTAGCCCCTCTTATACCATA
127842641 AAATTTTGACTTTAGCCCCTC-TACTACCATA
1 AAATTTTGACTTTAGCCCCTCTTA-TACCATA
127842672 AAATTT
1 AAATTT
127842678 AAGATTTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (31 bp):
AAATTTTGACTTTAGCCCCTCTTATACCATA
Found at i:127853814 original size:17 final size:19
Alignment explanation
Indices: 127853779--127853816 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
127853769 GAACTAAAGT
127853779 AATATATAAAAGTATCAAA
1 AATATATAAAAGTATCAAA
*
127853798 AATATA-AAAATTA-CAAA
1 AATATATAAAAGTATCAAA
127853815 AA
1 AA
127853817 GAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
AATATATAAAAGTATCAAA
Found at i:127859490 original size:1 final size:1
Alignment explanation
Indices: 127859453--127859483 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
127859443 TGTAGTGAGC
127859453 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
127859484 CCAAAAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:127864518 original size:2 final size:2
Alignment explanation
Indices: 127864506--127864539 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
127864496 ATTTTATAAT
*
127864506 TA TA AA TA TA 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 TA TA TA TA TA
127864540 GTTCTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:127864997 original size:2 final size:2
Alignment explanation
Indices: 127864990--127865039 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
127864980 CTTACTCTTT
**
127864990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA GG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127865031 TA TA TA TA T
1 TA TA TA TA T
127865040 TAGGTAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127866039 original size:15 final size:15
Alignment explanation
Indices: 127866012--127866061 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
127866002 TTTTGATAAT
127866012 AATTTGATTAATTTA
1 AATTTGATTAATTTA
127866027 AATTT-ATTCAATTTA
1 AATTTGATT-AATTTA
* * *
127866042 AATTTTATTGATTCA
1 AATTTGATTAATTTA
127866057 AATTT
1 AATTT
127866062 AAAACGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 3 0.10
15 25 0.81
16 3 0.10
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (15 bp):
AATTTGATTAATTTA
Found at i:127866045 original size:21 final size:21
Alignment explanation
Indices: 127866021--127866064 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
127866011 TAATTTGATT
*
127866021 AATTTAAATTTATTC-AATTTA
1 AATTT-AATTGATTCAAATTTA
*
127866042 AATTTTATTGATTCAAATTTA
1 AATTTAATTGATTCAAATTTA
127866063 AA
1 AA
127866065 ACGAACCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTTAATTGATTCAAATTTA
Found at i:127867611 original size:19 final size:19
Alignment explanation
Indices: 127867589--127867630 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
127867579 GCAGTTCTGG
* *
127867589 TCTTGCTCTGTTTTTCTTT
1 TCTTGCACTGTTTTTCTCT
*
127867608 TCTTGCACTTTTTTTCTCT
1 TCTTGCACTGTTTTTCTCT
127867627 TCTT
1 TCTT
127867631 CATCTACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.02, C:0.24, G:0.07, T:0.67
Consensus pattern (19 bp):
TCTTGCACTGTTTTTCTCT
Found at i:127868623 original size:18 final size:19
Alignment explanation
Indices: 127868578--127868625 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
127868568 ATACATTTTT
127868578 TTCAATTTGATAGTTCAATA
1 TTCAATTTGATAG-TCAATA
** *
127868598 TTTGATTTGATA-TCAATG
1 TTCAATTTGATAGTCAATA
127868616 TTCAATTTGA
1 TTCAATTTGA
127868626 CTAGAACACG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 13 0.57
20 10 0.43
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (19 bp):
TTCAATTTGATAGTCAATA
Found at i:127873367 original size:74 final size:75
Alignment explanation
Indices: 127873219--127873384 Score: 204
Period size: 74 Copynumber: 2.3 Consensus size: 75
127873209 GCAAAGTGTG
** *
127873219 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
* **
127873279 CTGAGCTGTG
66 CCGAGCTGAA
127873289 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAATGTAGGTATGGCATT-TCCCAT
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTAT-CCAT
*
127873352 ACCGAGTTGAA
65 ACCGAGCTGAA
127873363 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
127873385 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
70 14 0.17
73 9 0.11
74 46 0.55
75 14 0.17
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:127873382 original size:35 final size:35
Alignment explanation
Indices: 127873219--127873382 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
127873209 GCAAAGTGTG
* **
127873219 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
* **
127873254 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATT-TCCCATACTGAGTTGAA
127873289 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTTGAA
* *
127873328 AAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
127873363 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
127873383 AATGAGGAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
34 11 0.10
35 73 0.64
38 2 0.02
39 17 0.15
40 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.34
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:127880854 original size:74 final size:75
Alignment explanation
Indices: 127880706--127880871 Score: 204
Period size: 74 Copynumber: 2.3 Consensus size: 75
127880696 GCAAAGTGTG
** *
127880706 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
* **
127880766 CTGAGCTGTG
66 CCGAGCTGAA
127880776 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAATGTAGGTATGGCATT-TCCCAT
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTAT-CCAT
*
127880839 ACCGAGTTGAA
65 ACCGAGCTGAA
127880850 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
127880872 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
70 14 0.17
73 9 0.11
74 46 0.55
75 14 0.17
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:127880869 original size:35 final size:35
Alignment explanation
Indices: 127880706--127880869 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
127880696 GCAAAGTGTG
* **
127880706 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
* **
127880741 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATT-TCCCATACTGAGTTGAA
127880776 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTTGAA
* *
127880815 AAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
127880850 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
127880870 AATGAGGAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
34 11 0.10
35 73 0.64
38 2 0.02
39 17 0.15
40 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.34
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:127890374 original size:17 final size:17
Alignment explanation
Indices: 127890352--127890409 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
127890342 AAACCGAAAC
127890352 GACTACATTAGTAAAAT
1 GACTACATTAGTAAAAT
** *** *
127890369 GACTACCAAAAACGAAAC
1 GACTA-CATTAGTAAAAT
127890387 GACTACATTAGTAAAAT
1 GACTACATTAGTAAAAT
127890404 GACTAC
1 GACTAC
127890410 CAAAAAATTA
Statistics
Matches: 28, Mismatches: 12, Indels: 2
0.67 0.29 0.05
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (17 bp):
GACTACATTAGTAAAAT
Found at i:127890392 original size:35 final size:35
Alignment explanation
Indices: 127890346--127890415 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
127890336 TTGAGTAAAC
127890346 CGAAACGACTACATTAGTAAAATGACTACCAAAAA
1 CGAAACGACTACATTAGTAAAATGACTACCAAAAA
127890381 CGAAACGACTACATTAGTAAAATGACTACCAAAAA
1 CGAAACGACTACATTAGTAAAATGACTACCAAAAA
127890416 ATTAAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.17
Consensus pattern (35 bp):
CGAAACGACTACATTAGTAAAATGACTACCAAAAA
Found at i:127893824 original size:11 final size:11
Alignment explanation
Indices: 127893810--127893852 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
127893800 AGCAAAATAG
*
127893810 CACCCAAACAA
1 CACCAAAACAA
*
127893821 CACCAAAACAG
1 CACCAAAACAA
*
127893832 CACCCAAACAA
1 CACCAAAACAA
127893843 CACCAAAACA
1 CACCAAAACA
127893853 GCAGTGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.56, C:0.42, G:0.02, T:0.00
Consensus pattern (11 bp):
CACCAAAACAA
Found at i:127893827 original size:22 final size:22
Alignment explanation
Indices: 127893802--127893855 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
127893792 AAAATAGCAG
*
127893802 CAAAATAGCACCCAAACAACAC
1 CAAAACAGCACCCAAACAACAC
127893824 CAAAACAGCACCCAAACAACAC
1 CAAAACAGCACCCAAACAACAC
127893846 CAAAACAGCA
1 CAAAACAGCA
127893856 GTGAGCTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.56, C:0.37, G:0.06, T:0.02
Consensus pattern (22 bp):
CAAAACAGCACCCAAACAACAC
Found at i:127902624 original size:16 final size:16
Alignment explanation
Indices: 127902586--127902633 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
127902576 TATTGTTCAA
*
127902586 AATTTCAATTATA-ATT
1 AATTT-AATTAAACATT
*
127902602 AAATTAATTAAACATT
1 AATTTAATTAAACATT
127902618 AATTTAATT-AACATT
1 AATTTAATTAAACATT
127902633 A
1 A
127902634 TTATTGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTAATTAAACATT
Found at i:127906293 original size:12 final size:12
Alignment explanation
Indices: 127906276--127906300 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127906266 TAAAAATTTT
127906276 ATAATTTTTTAG
1 ATAATTTTTTAG
127906288 ATAATTTTTTAG
1 ATAATTTTTTAG
127906300 A
1 A
127906301 ATCAGGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
ATAATTTTTTAG
Found at i:127911715 original size:130 final size:129
Alignment explanation
Indices: 127911509--127911831 Score: 351
Period size: 129 Copynumber: 2.5 Consensus size: 129
127911499 AAACAATCGG
* * * * **
127911509 GAAATTGCTACCCAATACGTTAGGGCACGA-TCCTGCGAATTGCCAAATATCACATATCGCCTTC
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCC-GCGAATTGCCAAACATCAAATATCATCTTC
* * * * * * *
127911573 GTTTTAGAGATTTTAAAAGACACGAGCAAAATTTTAAAATGATATTCGATTATTTTGAACAAATG
65 ATTTAAGAGATTTTAAAA-ACACGAACAAAATTTCAAAAGGAAATTCGATTATTTTGAACAAATA
127911638 C
129 C
* * * *
127911639 GAGATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTTCCAAACATCAAATCTCATCTTCA
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCATCTTCA
* * * ** * * *
127911704 TTTAAGGGATTTTAAAAATATGAATGAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATAC
66 TTTAAGAGATTTTAAAAACACGAACAAAATTTCAAAAGGAAATTCGATTATTTTGAACAAATAC
* * * * *
127911768 GAAATTGCAACCCAACACGTTAGGGCACGATTTCACGAATCGCCGAACATCAAATTTCATCTTC
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCATCTTC
127911832 GTTTTGAAGA
Statistics
Matches: 159, Mismatches: 33, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
129 91 0.57
130 65 0.41
131 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (129 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATATCATCTTCA
TTTAAGAGATTTTAAAAACACGAACAAAATTTCAAAAGGAAATTCGATTATTTTGAACAAATAC
Found at i:127912327 original size:27 final size:27
Alignment explanation
Indices: 127912297--127912350 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
127912287 ACAAACTTGT
*
127912297 ATAGAAAATA-AGAATATAATTATTAAA
1 ATAGAAAATATAGAATACAATT-TTAAA
* *
127912324 ATAGATATTATAGAATACAATTTTAAA
1 ATAGAAAATATAGAATACAATTTTAAA
127912351 TTAAATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (27 bp):
ATAGAAAATATAGAATACAATTTTAAA
Found at i:127914668 original size:44 final size:44
Alignment explanation
Indices: 127914618--127915153 Score: 785
Period size: 44 Copynumber: 12.2 Consensus size: 44
127914608 CGGGAACACC
* *
127914618 AATCTG-TCATCTTTGATCTGCTC-CCTGCCAATACAGAAATGCCA
1 AATCTGCT-ATCTTCGATCTGCTCTCC-GCCAATACAGAGATGCCA
* *
127914662 AATCTG-TCATCTTCGATCTGCTCTCTGTC-ATCACAGAGATGCCA
1 AATCTGCT-ATCTTCGATCTGCTCTCCGCCAAT-ACAGAGATGCCA
* *
127914706 AATCTGCTACCTTCGATCTGCTCTCCGCTAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
* *
127914750 AATCTGCTACCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
127914794 AATCTG-TAATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
1 AATCTGCT-ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
*
127914838 AATCTGCGATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
*
127914882 AATCTGCTATCTTCGATCTGTTCTCCGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
* * * * *
127914926 AATCTACTATCTTTGATCTGCTCTCCGCCAATATAAAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
* *
127914970 AATCTGCTATCTTCAATCTGCTCTCCGCTAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
* *
127915014 AATCTGCGATCTTCGATCTTCTCTCCGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
* *
127915058 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAAAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
* *
127915102 AATCTGCGATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
127915146 AATCTGCT
1 AATCTGCT
127915154 GGATTTACCA
Statistics
Matches: 447, Mismatches: 39, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
43 3 0.01
44 440 0.98
45 4 0.01
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCA
Found at i:127915979 original size:12 final size:11
Alignment explanation
Indices: 127915953--127915997 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
127915943 TGGCCTCTCC
127915953 TTCTTCTCTTTT
1 TTCTT-TCTTTT
127915965 TTCTTTCTTTCT
1 TTCTTTCTTT-T
127915977 TTCTTT-TTTT
1 TTCTTTCTTTT
127915987 TT-TTT-TTTT
1 TTCTTTCTTTT
127915996 TT
1 TT
127915998 AGATTTCGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.28
10 3 0.09
11 8 0.25
12 12 0.38
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTCTTTCTTTT
Found at i:127920082 original size:3 final size:3
Alignment explanation
Indices: 127920074--127920108 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
127920064 TATTAATACC
*
127920074 TAA TAA TAA TAA T-A TAA TAA TAA TAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
127920109 AAAACATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:127928916 original size:59 final size:59
Alignment explanation
Indices: 127928832--127928950 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
127928822 AATCGAAAGA
127928832 TAGATGATTTTTAAAATAAATTTTTGATTTTTTGACAAAAGGACAGTAAATAATCGATT
1 TAGATGATTTTTAAAATAAATTTTTGATTTTTTGACAAAAGGACAGTAAATAATCGATT
127928891 TAGATGATTTTTAAAATAAATTTTTGATTTTTTGACAAAAGGACAGTAAATAATCGATT
1 TAGATGATTTTTAAAATAAATTTTTGATTTTTTGACAAAAGGACAGTAAATAATCGATT
127928950 T
1 T
127928951 TCATGGCTCG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.41
Consensus pattern (59 bp):
TAGATGATTTTTAAAATAAATTTTTGATTTTTTGACAAAAGGACAGTAAATAATCGATT
Found at i:127930087 original size:129 final size:129
Alignment explanation
Indices: 127929771--127930133 Score: 417
Period size: 129 Copynumber: 2.8 Consensus size: 129
127929761 AAGAGCTGAG
* * *
127929771 TGAAATTTTGAAGGGATATTTGATTATTTTAAAC-AATCGGGAAATTGCTACCCAACACGTTAGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAACAAATC--GAAATTGCAACCCAACACGTTAGG
* * * * *
127929835 GCACGA-TCCTGCGAATTGCCAAATATCACATATCGCCTTCGTTTTAGAGATTTTAAAAGACACG
64 GCACGATTCC-GCGAATTGCCAAACATCAAATATCGTCTTCATTTAAGAGATTTTAAAAGACACG
*
127929899 AG
128 AA
** * ** * *
127929901 CAAAATTTTAAAATGATATTCGATTATTTTGAACAAATGCGAGATTGCAACCCAACACGTTTGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAACAAAT-CGAAATTGCAACCCAACACGTTAGGG
* * * * * *
127929966 CACAATTCCGCGAATTGCCAAACATCAAATCTCATCTTCATTTAAGGGATTTTAAAA-ATATGAA
65 CACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCATTTAAGAGATTTTAAAAGACACGAA
* * *
127930030 TGAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAACAAAT-CGAAATTGCAACCCAACACGTTAGGG
* *
127930095 CACGATTCCGCGAATTGCCGAACATCAAATTTCGTCTTC
65 CACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTC
127930134 GTTTTGAAGA
Statistics
Matches: 193, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
129 93 0.48
130 93 0.48
131 6 0.03
132 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (129 bp):
TGAAATTTTGAAGGGATATTCGATTATTTTGAACAAATCGAAATTGCAACCCAACACGTTAGGGC
ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCATTTAAGAGATTTTAAAAGACACGAA
Found at i:127935393 original size:30 final size:30
Alignment explanation
Indices: 127935357--127935414 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
127935347 AATTACAAAT
127935357 CATTTCCAACC-TTTCAATATAAAGTTTCTA
1 CATTTCCAACCTTTTCAATATAAA-TTTCTA
127935387 CATTTCCAACCTTTTCAATATAAATTTC
1 CATTTCCAACCTTTTCAATATAAATTTC
127935415 CACAACTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (30 bp):
CATTTCCAACCTTTTCAATATAAATTTCTA
Found at i:127937097 original size:22 final size:24
Alignment explanation
Indices: 127937043--127937097 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
127937033 TATATAACTG
127937043 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
127937065 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
127937087 ATAATATATAT
1 ATAATATATAT
127937098 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:127937306 original size:3 final size:3
Alignment explanation
Indices: 127937287--127937348 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
127937277 ATAGTAACAT
* * *
127937287 TAA TGA TAA TAA AAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
127937335 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
127937349 TTGAAACACA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:127937462 original size:3 final size:3
Alignment explanation
Indices: 127937447--127937508 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
127937437 ACTAATGTAC
* * *
127937447 AAT AAT AAC AAT AAT AAT AAT AAT AAGA AAT AAT AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
*
127937493 AAT AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT A
127937509 TGAAAATAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
3 48 0.96
4 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:127938403 original size:35 final size:35
Alignment explanation
Indices: 127938357--127938423 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
127938347 GTGTGTGATA
127938357 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAGTG
1 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAGTG
127938392 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 GTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
127938424 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.12, G:0.51, T:0.16
Consensus pattern (35 bp):
GTGCTGGTGGCAGACAGCATGGGAGAGTGGGAGTG
Found at i:127939356 original size:2 final size:2
Alignment explanation
Indices: 127939349--127939378 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
127939339 TAATTGTTAT
127939349 TA TA TA 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 TA TA TA
127939379 ATAACGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127952721 original size:16 final size:16
Alignment explanation
Indices: 127952700--127952730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
127952690 TTTTGTATTG
*
127952700 TTTTAATATTAAATAT
1 TTTTAAGATTAAATAT
127952716 TTTTAAGATTAAATA
1 TTTTAAGATTAAATA
127952731 ACATTAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAAGATTAAATAT
Found at i:127954625 original size:13 final size:13
Alignment explanation
Indices: 127954607--127954631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127954597 ATGGTTGTCC
127954607 CTCAACACTTATA
1 CTCAACACTTATA
127954620 CTCAACACTTAT
1 CTCAACACTTAT
127954632 TAATCTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (13 bp):
CTCAACACTTATA
Found at i:127956315 original size:132 final size:132
Alignment explanation
Indices: 127956078--127956317 Score: 365
Period size: 132 Copynumber: 1.8 Consensus size: 132
127956068 TCTCGCTTTG
* * * * *
127956078 GAAAACGTGAATGAAATTTCAAAGGGATATTCGATTATTTTGCACAAACAAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTTCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * *
127956143 GCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAAAGGTTTT
66 ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGGTTTT
127956208 TA
131 TA
**
127956210 GAAAACATGAACGAAA-TTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCC
1 GAAAACATGAACGAAATTTC-AAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCC
*
127956274 AACACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
65 AACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
127956318 CGTCTCCGTT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.03
132 93 0.97
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (132 bp):
GAAAACATGAACGAAATTTCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGGTTTT
TA
Found at i:127956646 original size:3 final size:3
Alignment explanation
Indices: 127956621--127956674 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
127956611 ACAAACAATG
* * *
127956621 ATA AAA ATA AAA ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
127956669 ATA ATA
1 ATA ATA
127956675 TAGAAATACA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:127957006 original size:3 final size:3
Alignment explanation
Indices: 127956993--127957070 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
127956983 GAGGGCATAT
127956993 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
127957037 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
127957071 AAAATAAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
2 7 0.11
3 43 0.70
4 9 0.15
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:127957439 original size:26 final size:26
Alignment explanation
Indices: 127957395--127957486 Score: 129
Period size: 26 Copynumber: 3.7 Consensus size: 26
127957385 TAGCCTTTCC
*
127957395 AAAAC-AAAAAACAACCCTCCTCCAA
1 AAAACAAAAAAACAAACCTCCTCCAA
127957420 AAAACAAAAAAACAAACCTCCTCCAA
1 AAAACAAAAAAACAAACCTCCTCCAA
*
127957446 AAAACAAAAAAA-ACA-C-CCTCCAA
1 AAAACAAAAAAACAAACCTCCTCCAA
*
127957469 AAAACAAAAAAAAAAACC
1 AAAACAAAAAAACAAACC
127957487 CCAAAAACAA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.31
24 3 0.05
25 8 0.13
26 31 0.51
ACGTcount: A:0.65, C:0.29, G:0.00, T:0.05
Consensus pattern (26 bp):
AAAACAAAAAAACAAACCTCCTCCAA
Found at i:127957480 original size:23 final size:24
Alignment explanation
Indices: 127957395--127957483 Score: 117
Period size: 23 Copynumber: 3.6 Consensus size: 24
127957385 TAGCCTTTCC
**
127957395 AAAACAAAAAACAACCCTCCTCCAA
1 AAAACAAAAAA-AAAACTCCTCCAA
127957420 AAAACAAAAAAACAAACCTCCTCCAA
1 AAAACAAAAAAA-AAA-CTCCTCCAA
*
127957446 AAAACAAAAAAAACAC-CCTCCAA
1 AAAACAAAAAAAAAACTCCTCCAA
127957469 AAAACAAAAAAAAAA
1 AAAACAAAAAAAAAA
127957484 ACCCCAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
23 21 0.36
24 2 0.03
25 14 0.24
26 21 0.36
ACGTcount: A:0.66, C:0.28, G:0.00, T:0.06
Consensus pattern (24 bp):
AAAACAAAAAAAAAACTCCTCCAA
Found at i:127957493 original size:23 final size:24
Alignment explanation
Indices: 127957395--127957487 Score: 107
Period size: 25 Copynumber: 3.8 Consensus size: 24
127957385 TAGCCTTTCC
* **
127957395 AAAACAAAAAACAACCCTCCTCCAA
1 AAAACAAAAAAAAAAAC-CCTCCAA
*
127957420 AAAACAAAAAAACAAACCTCCTCCAA
1 AAAACAAAAAAA-AAAAC-CCTCCAA
*
127957446 AAAAC-AAAAAAAACACCCTCCAA
1 AAAACAAAAAAAAAAACCCTCCAA
127957469 AAAACAAAAAAAAAAACCC
1 AAAACAAAAAAAAAAACCC
127957488 CAAAAACAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.20
24 15 0.25
25 17 0.28
26 17 0.28
ACGTcount: A:0.65, C:0.30, G:0.00, T:0.05
Consensus pattern (24 bp):
AAAACAAAAAAAAAAACCCTCCAA
Found at i:127958027 original size:44 final size:44
Alignment explanation
Indices: 127957964--127959134 Score: 1598
Period size: 44 Copynumber: 27.2 Consensus size: 44
127957954 AGGAACAACG
* * *
127957964 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * *
127958008 ATCTGTTATCTTCGATCTGCTCTCCGCCACTACGGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958052 ATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
127958096 ATCTTGTTACCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958141 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAAACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * *
127958185 ATCTTGTTACCTTCGATCTACTCTCCGCTGCTACAGAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* **
127958230 ATCTGTTATCTTCAATCTGCTCTCTACCGCTACAGAGACT-CCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGA-TGCCAA
127958274 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958318 ATC----ATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958358 ATCTTGTTACCTTCGATCTGCTCTCCGCCGCTACAAAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
127958403 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * *
127958447 ATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
127958491 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
**
127958535 ATC----ATCTTCGATCTGCTCTCTACCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958575 ATC----ATCTTTGATCTTCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958615 ATC----ATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958655 ATCTTGTTACCTTCGATCTGCTCTCCGCCGCTACAAAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
127958700 ATCTGTTACCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127958744 ATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
**
127958788 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * *
127958832 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAAACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
** **
127958876 ATCTGTTATCTTCGATCTGCTCTTTGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
127958920 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
127958964 ATC----ATCTTCGATCTGCTCTCCGTCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
**
127959004 ATC----ATCTTCGATCTGCTCTCTTCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127959044 ATC----ATCTTCGATCTACTCTTCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
127959084 ATC----ATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
127959124 ATCTGTTATCT
1 ATCTGTTATCT
127959135 GTTTCAAGGA
Statistics
Matches: 1026, Mismatches: 83, Indels: 36
0.90 0.07 0.03
Matches are distributed among these distances:
40 297 0.29
43 1 0.00
44 575 0.56
45 153 0.15
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
Found at i:127958885 original size:429 final size:425
Alignment explanation
Indices: 127957964--127959131 Score: 1711
Period size: 429 Copynumber: 2.7 Consensus size: 425
127957954 AGGAACAACG
* *
127957964 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * * * *
127958029 CTCCGCCACTACGGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
*
127958094 AAATCTTGTTACCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCT
131 AAATC-----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATCTTCGATCT
* * * * *
127958159 GCTCTCCGCCGCTACAGAAACGCCAAATCTTGTTACCTTCGATCTACTCTCCGCTGCTACAGAGA
187 GCTCTCCGCCGCTACAGAGATGCCAAATC-----ATCTTCGATCTACTTTCCGCCGCTACAGAGA
* ** *
127958224 TGCCAAATCTGTTATCTTCAATCTGCTCTCTACCGCTACAGAGACT-CCAAATCTGTTATCTTCG
247 TGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGA-TGCCAAATCTGTTACCTTCG
*
127958288 ATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTTCGCCGCTACAGAGAC
311 ATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGAC
**
127958353 GCCAAATCTTGTTACCTTCGATCTGCTCTCCGCCGCTACAAAGATGCCAA
376 GCCAAATCTTGTTACCTTCGATCTGCTCTCCGCCGCTACAAAGACACCAA
* *
127958403 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTACT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
*
127958468 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
** * *
127958533 AAATCATCTTCGATCTGCTCTCTACCGCTACAGAGATGCCAAATCATCTTTGATCTTCTCTCCGC
131 AAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGC
* *
127958598 CGCTACAGAGATGCCAAATCATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAAATCTTGTT
196 CGCTACAGAGATGCCAAATCATCTTCGATCTACTTTCCGCCGCTACAGAGATGCCAAATC-TGTT
* *
127958663 ACCTTCGATCTGCTCTCCGCCGCTACAAAGATGCCAAATCTGTTACCTTCGATCTGCTCTCCGCC
260 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTACCTTCGATCTGCTCTCCGCC
*
127958728 GCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC-T
325 GCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTT
* *
127958792 GTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
386 GTTACCTTCGATCTGCTCTCCGCCGCTACAAAGACACCAA
* *
127958832 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAAACGCTAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* *
127958897 CTTTGCCGCTACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
66 CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
* **
127958962 AAATCATCTTCGATCTGCTCTCCGTCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCTTC
131 AAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGC
127959027 CGCTACAGAGATGCCAAATCATCTTCGATCTACTCTT-CGCCGCTACAGAGATGCCAAATC----
196 CGCTACAGAGATGCCAAATCATCTTCGATCTACT-TTCCGCCGCTACAGAGATGCCAAATCTGTT
* *
127959087 ATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAAATCTGTTA
260 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
127959132 TCTGTTTCAA
Statistics
Matches: 668, Mismatches: 54, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
424 41 0.06
425 36 0.05
426 80 0.12
429 273 0.41
430 76 0.11
434 37 0.06
439 125 0.19
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (425 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
CTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
AAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGC
CGCTACAGAGATGCCAAATCATCTTCGATCTACTTTCCGCCGCTACAGAGATGCCAAATCTGTTA
TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTACCTTCGATCTGCTCTCCGCCG
CTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTTGTTAC
CTTCGATCTGCTCTCCGCCGCTACAAAGACACCAA
Found at i:127960010 original size:12 final size:12
Alignment explanation
Indices: 127959993--127960017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127959983 CACCTTTGCC
127959993 TCTTTTTTTTTT
1 TCTTTTTTTTTT
127960005 TCTTTTTTTTTT
1 TCTTTTTTTTTT
127960017 T
1 T
127960018 GCGAATTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:127963194 original size:46 final size:44
Alignment explanation
Indices: 127963090--127963197 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
127963080 TGTCTTTGAC
** * * *
127963090 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
127963134 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
127963180 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
127963198 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:127970582 original size:46 final size:44
Alignment explanation
Indices: 127970478--127970585 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
127970468 TGTCTTTGAC
** * * *
127970478 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
127970522 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
127970568 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
127970586 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:127973127 original size:15 final size:15
Alignment explanation
Indices: 127973107--127973138 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
127973097 TTTTTATGGG
127973107 GAGTCGGTGCACCAC
1 GAGTCGGTGCACCAC
127973122 GAGTCGGTGCACCAC
1 GAGTCGGTGCACCAC
127973137 GA
1 GA
127973139 TGTCAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.34, T:0.12
Consensus pattern (15 bp):
GAGTCGGTGCACCAC
Done.