Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 132 of 310
Found at i:42671820 original size:25 final size:26
Alignment explanation
Indices: 42671792--42671842 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
42671782 CTTATTTCAT
*
42671792 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
42671817 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
42671843 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:42671834 original size:26 final size:24
Alignment explanation
Indices: 42671804--42671852 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
42671794 AATAAAAAAT
*
42671804 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
42671830 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
42671853 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:42682428 original size:40 final size:40
Alignment explanation
Indices: 42682373--42682553 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
42682363 TATTCGGATG
* * *
42682373 ATATCCAGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
42682413 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
42682453 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
42682493 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
42682533 ATATCC-GGCTAAATCCCGAAG
1 ATATCCAGGCTAAGTCCCGAAG
42682554 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.88
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:42692273 original size:40 final size:40
Alignment explanation
Indices: 42692179--42692323 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
42692169 TACTCGAATG
*
42692179 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
42692220 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* **
42692260 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
42692299 CATATCCGGGTTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGTCCCGAAGGC
42692324 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 2 0.02
40 60 0.66
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:42700297 original size:40 final size:40
Alignment explanation
Indices: 42700203--42700354 Score: 184
Period size: 40 Copynumber: 3.8 Consensus size: 40
42700193 TACTCGAATG
*
42700203 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTCAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
42700244 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* *
42700284 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
42700323 CATATCCGGGTTAAGACCCGAAGG-ACTTGTGC
1 -ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
42700355 GAGTGGTTAT
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 8 0.08
40 60 0.62
41 28 0.29
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:42701791 original size:40 final size:40
Alignment explanation
Indices: 42701733--42701879 Score: 188
Period size: 40 Copynumber: 3.7 Consensus size: 40
42701723 GGTACGGGGT
* **
42701733 GTTACAATATCCAAGCTAAGTCCCGAAGGCATTTGTGCAA
1 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
** *
42701773 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTA
1 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
* * *
42701813 GTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA
1 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
* *
42701853 GTTGCTATATCC-GGCTAAATCCCGAAG
1 GTTACTATATCCGGGCTAAGTCCCGAAG
42701880 ATACTTGGGT
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 13 0.14
40 79 0.86
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
Found at i:42704130 original size:46 final size:46
Alignment explanation
Indices: 42704080--42704235 Score: 176
Period size: 46 Copynumber: 3.4 Consensus size: 46
42704070 TGGTTGAGCA
*
42704080 TCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42704126 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
*
42704170 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
42704219 CCCGAGCTCGTTGAGTT
1 TCCGAACTCGTTGAGTT
42704236 ATCCATGTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 43 0.47
47 29 0.32
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42711628 original size:46 final size:46
Alignment explanation
Indices: 42711578--42711706 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
42711568 TGGTTGAGCA
*
42711578 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
42711624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
42711670 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42711707 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:42714119 original size:29 final size:29
Alignment explanation
Indices: 42714077--42714134 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42714067 CCATGAAAAC
42714077 TTAGTTTCTTTTGAGATTAGACATGCATG
1 TTAGTTTCTTTTGAGATTAGACATGCATG
42714106 TTAGTTTCTTTTGAGATTAGACATGCATG
1 TTAGTTTCTTTTGAGATTAGACATGCATG
42714135 AAGGTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (29 bp):
TTAGTTTCTTTTGAGATTAGACATGCATG
Found at i:42723398 original size:45 final size:45
Alignment explanation
Indices: 42723334--42723478 Score: 263
Period size: 45 Copynumber: 3.2 Consensus size: 45
42723324 ATTATCGTAC
*
42723334 GACACTATTCGGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
42723379 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
42723424 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATTCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
42723469 GATACTATTC
1 GACACTATTC
42723479 AAGNACTATT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:42724203 original size:45 final size:45
Alignment explanation
Indices: 42724139--42724310 Score: 283
Period size: 45 Copynumber: 3.8 Consensus size: 45
42724129 ATTATCGTAC
*
42724139 GACACTATTCAGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGA
1 GACACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
42724184 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
42724229 GACACTATTCAGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGA
1 GACACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
42724274 GATACTATTC-GGGCTTTCGAGCCTAGCAGGCTATAAT
1 GACACTATTCAGGCCTTT-GAGCCTAGCAGGCTATAAT
42724311 ATCAGTGAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 6 0.05
45 113 0.95
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (45 bp):
GACACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:42724229 original size:805 final size:804
Alignment explanation
Indices: 42722677--42724283 Score: 3160
Period size: 805 Copynumber: 2.0 Consensus size: 804
42722667 ATAATTTAGT
42722677 GACTATTGCTCAGGAAGACAGCTTATAGTGAATTTGTGATTATGTGGTAAACATTAATAAAAATT
1 GACTATTGCTCAGGAAGACAGCTTATAGTGAATTTGTGATTATGTGGTAAACATTAATAAAAATT
42722742 TGTTAATGAGTTGCTTATTGATTTCTTATAAACATACTATGATCTGTACGTGTGAAAGTCGAATA
66 TGTTAATGAGTTGCTTATTGATTTCTTATAAACATACTATGATCTGTACGTGTGAAAGTCGAATA
42722807 TATATATTATATTTTGAAATTAATGCTTGAATAGTTGAATAATGACTAGTTTAAAATTGTTGAAT
131 TATATATTATATTTTGAAATTAATGCTTGAATAGTTGAATAATGACTAGTTTAAAATTGTTGAAT
42722872 TTAAGTTCAAGAGCATAGAGGGACAAATTTGGATAAGGGAAAAGAGAAAGTAGTTGAATTGAATA
196 TTAAGTTCAAGAGCATAGAGGGACAAATTTGGATAAGGGAAAAGAGAAAGTAGTTGAATTGAATA
42722937 GCCGATTAGAGACAGTTGGAAAATATTCGAGGTAAGTTTTAAGTAATCCAACGTAAATAACAATA
261 GCCGATTAGAGACAGTTGGAAAATATTCGAGGTAAGTTTTAAGTAATCCAACGTAAATAACAATA
42723002 GATTATAATCTAATATATTATGTGAATTAGGCATTCCTTGTAAGGTAGGGATTTAGCCGAATGTT
326 GATTATAATCTAATATATTATGTGAATTAGGCATTCCTTGTAAGGTAGGGATTTAGCCGAATGTT
42723067 AAAGATGAAATGATGGTGTGTTGTATCATGCTTATATGGCCTAACGACAAGTATAACATGTTGGT
391 AAAGATGAAATGATGGTGTGTTGTATCATGCTTATATGGCCTAACGACAAGTATAACATGTTGGT
42723132 AAATATGCAATGTTCTTTTATAATCGAATGATAAGTTAGAAATGAATGTGAATGAAATGTTATGC
456 AAATATGCAATGTTCTTTTATAATCGAATGATAAGTTAGAAATGAATGTGAATGAAATGTTATGC
42723197 ATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTACAATTATA
521 ATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTACAATTATA
42723262 TATGTTCGAATGATGCTAGTACATAATTGATATGATTATGTTATAAGGAACTTATTGATTTGATT
586 TATGTTCGAATGATGCTAGTACATAATTGATATGATTATGTTATAAGGAACTTATTGATTTGATT
*
42723327 ATCGTACGACACTATTCGGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGAGACACTATTCGGG
651 ATCGTACGACACTATTCAGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGAGACACTATTCGGG
*
42723392 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCCTTTGAGCCTAGCAGGCTA
716 CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCAGGCCTTTGAGCCTAGCAGGCTA
* *
42723457 TAATTCCGGTGAGATACTATTCAA
781 CAATGCCGGTGAGATACTATTCAA
42723481 GNACTATTGCTCAGGAAGACAGCTTATAGTGAATTTGTGATTATGTGGTAAACATTAATAAAAAT
1 G-ACTATTGCTCAGGAAGACAGCTTATAGTGAATTTGTGATTATGTGGTAAACATTAATAAAAAT
42723546 TTGTTAATGAGTTGCTTATTGATTTCTTATAAACATACTATGATCTGTACGTGTGAAAGTCGAAT
65 TTGTTAATGAGTTGCTTATTGATTTCTTATAAACATACTATGATCTGTACGTGTGAAAGTCGAAT
42723611 ATATATATTATATTTTGAAATTAATGCTTGAATAGTTGAATAATGACTAGTTTAAAATTGTTGAA
130 ATATATATTATATTTTGAAATTAATGCTTGAATAGTTGAATAATGACTAGTTTAAAATTGTTGAA
42723676 TTTAAGTTCAAGAGCATAGAGGGACAAATTTGGATAAGGGAAAAGAGAAAGTAGTTGAATTGAAT
195 TTTAAGTTCAAGAGCATAGAGGGACAAATTTGGATAAGGGAAAAGAGAAAGTAGTTGAATTGAAT
42723741 AGCCGATTAGAGACAGTTGGAAAATATTCGAGGTAAGTTTTAAGTAATCCAACGTAAATAACAAT
260 AGCCGATTAGAGACAGTTGGAAAATATTCGAGGTAAGTTTTAAGTAATCCAACGTAAATAACAAT
42723806 AGATTATAATCTAATATATTATGTGAATTAGGCATTCCTTGTAAGGTAGGGATTTAGCCGAATGT
325 AGATTATAATCTAATATATTATGTGAATTAGGCATTCCTTGTAAGGTAGGGATTTAGCCGAATGT
42723871 TAAAGATGAAATGATGGTGTGTTGTATCATGCTTATATGGCCTAACGACAAGTATAACATGTTGG
390 TAAAGATGAAATGATGGTGTGTTGTATCATGCTTATATGGCCTAACGACAAGTATAACATGTTGG
*
42723936 TAAATATGCAATGTTCTTTTATAATCGAATGATAAGTTAGAAATGAATGTGAGTGAAATGTTATG
455 TAAATATGCAATGTTCTTTTATAATCGAATGATAAGTTAGAAATGAATGTGAATGAAATGTTATG
42724001 CATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTACAATTAT
520 CATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTACAATTAT
42724066 ATATGTTCGAATGATGCTAGTACATAATTGATATGATTATGTTATAAGGAACTTATTGATTTGAT
585 ATATGTTCGAATGATGCTAGTACATAATTGATATGATTATGTTATAAGGAACTTATTGATTTGAT
42724131 TATCGTACGACACTATTCAGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGAGACACTATTCGG
650 TATCGTACGACACTATTCAGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGAGACACTATTCGG
42724196 GCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCAGGCCTTTGAGCCTAGCAGGCT
715 GCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCAGGCCTTTGAGCCTAGCAGGCT
42724261 ACAATGCCGGTGAGATACTATTC
780 ACAATGCCGGTGAGATACTATTC
42724284 GGGCTTTCGA
Statistics
Matches: 797, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
804 1 0.00
805 796 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (804 bp):
GACTATTGCTCAGGAAGACAGCTTATAGTGAATTTGTGATTATGTGGTAAACATTAATAAAAATT
TGTTAATGAGTTGCTTATTGATTTCTTATAAACATACTATGATCTGTACGTGTGAAAGTCGAATA
TATATATTATATTTTGAAATTAATGCTTGAATAGTTGAATAATGACTAGTTTAAAATTGTTGAAT
TTAAGTTCAAGAGCATAGAGGGACAAATTTGGATAAGGGAAAAGAGAAAGTAGTTGAATTGAATA
GCCGATTAGAGACAGTTGGAAAATATTCGAGGTAAGTTTTAAGTAATCCAACGTAAATAACAATA
GATTATAATCTAATATATTATGTGAATTAGGCATTCCTTGTAAGGTAGGGATTTAGCCGAATGTT
AAAGATGAAATGATGGTGTGTTGTATCATGCTTATATGGCCTAACGACAAGTATAACATGTTGGT
AAATATGCAATGTTCTTTTATAATCGAATGATAAGTTAGAAATGAATGTGAATGAAATGTTATGC
ATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTGTTTGAGATGTACAATTATA
TATGTTCGAATGATGCTAGTACATAATTGATATGATTATGTTATAAGGAACTTATTGATTTGATT
ATCGTACGACACTATTCAGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGAGACACTATTCGGG
CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCAGGCCTTTGAGCCTAGCAGGCTA
CAATGCCGGTGAGATACTATTCAA
Found at i:42734224 original size:80 final size:79
Alignment explanation
Indices: 42734140--42734311 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
42734130 GGACTAAGAT
*
42734140 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
42734204 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
42734220 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
42734285 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
42734299 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42734312 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:42734291 original size:39 final size:39
Alignment explanation
Indices: 42734087--42734309 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
42734077 TTGAATGCTG
* * * * *
42734087 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
42734127 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
42734166 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
42734207 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
42734247 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
42734286 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42734310 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:42734329 original size:79 final size:80
Alignment explanation
Indices: 42734167--42734344 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
42734157 AGATACAAAT
* * * *
42734167 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
42734232 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
42734247 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42734311 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
42734326 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42734345 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:42742097 original size:40 final size:40
Alignment explanation
Indices: 42742066--42742355 Score: 422
Period size: 40 Copynumber: 7.3 Consensus size: 40
42742056 GGACTAAGAT
* * * *
42742066 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
42742106 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
42742146 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
42742186 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
42742226 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
42742266 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
42742306 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
42742345 CCGAAGGCATT
1 CCGAAGGCATT
42742356 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.14
40 198 0.84
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:42742150 original size:80 final size:80
Alignment explanation
Indices: 42742013--42742355 Score: 424
Period size: 80 Copynumber: 4.3 Consensus size: 80
42742003 TTGAATGCTG
* * * * * * **
42742013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
42742076 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
42742092 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
42742157 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
42742173 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
42742238 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
42742253 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
42742317 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
42742332 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42742356 TGAACGAGGA
Statistics
Matches: 236, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.15
80 191 0.81
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:42742229 original size:120 final size:118
Alignment explanation
Indices: 42742013--42742357 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 118
42742003 TTGAATGCTG
* * * * * * **
42742013 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* * * *
42742076 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TTGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
42742133 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* * *
42742198 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
42742253 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
42742318 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
66 TGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
42742358 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.19
120 151 0.76
121 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:42751715 original size:18 final size:18
Alignment explanation
Indices: 42751692--42751733 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
42751682 TGGCCCAATA
42751692 CAGTAACAA-TAAACAGTG
1 CAGTAA-AAGTAAACAGTG
* *
42751710 CAGTAAAAGTAATCTGTG
1 CAGTAAAAGTAAACAGTG
42751728 CAGTAA
1 CAGTAA
42751734 TAGTTTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.21
Consensus pattern (18 bp):
CAGTAAAAGTAAACAGTG
Found at i:42752097 original size:27 final size:27
Alignment explanation
Indices: 42752060--42752229 Score: 166
Period size: 27 Copynumber: 6.4 Consensus size: 27
42752050 ATATATACAT
* *
42752060 CACAT-AGGGAAAAATAGTCATTTTTC
1 CACATAAGGGAAAAACAGTCATTTTAC
*
42752086 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * *
42752113 CACATAAAGGAAAAACAATCATCTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * * *
42752140 TACAAAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGAAAAACAGTCATTTTAC
* * * *
42752167 TACATAAAGGAAAAATAGTCATTTTAT
1 CACATAAGGGAAAAACAGTCATTTTAC
* * *
42752194 CAC-TAGGGGCAAAACAGTCATTTTAT
1 CACATAAGGGAAAAACAGTCATTTTAC
42752220 CACAT-AGGGA
1 CACATAAGGGA
42752230 TCCAGGCACA
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
26 30 0.25
27 89 0.75
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGAAAAACAGTCATTTTAC
Found at i:42752126 original size:54 final size:54
Alignment explanation
Indices: 42752067--42752225 Score: 187
Period size: 54 Copynumber: 3.0 Consensus size: 54
42752057 CATCACATAG
* *
42752067 GGAAAAATAGTCATTTTTCCACATAAGGGAAAAATAGTCATTTTACCACATAAA
1 GGAAAAATAGTCATTTTTCCACATAAGGGCAAAACAGTCATTTTACCACATAAA
* * * * * * * *
42752121 GGAAAAACAATCATCTTACTACAAAAGGGCAAAACAATCATTTTACTACATAAA
1 GGAAAAATAGTCATTTTTCCACATAAGGGCAAAACAGTCATTTTACCACATAAA
* *
42752175 GGAAAAATAGTCATTTTAT-CAC-TAGGGGCAAAACAGTCATTTTATCACATA
1 GGAAAAATAGTCATTTT-TCCACATAAGGGCAAAACAGTCATTTTACCACATA
42752226 GGGATCCAGG
Statistics
Matches: 84, Mismatches: 20, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
53 24 0.29
54 60 0.71
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (54 bp):
GGAAAAATAGTCATTTTTCCACATAAGGGCAAAACAGTCATTTTACCACATAAA
Found at i:42759649 original size:27 final size:27
Alignment explanation
Indices: 42759619--42759879 Score: 414
Period size: 27 Copynumber: 9.6 Consensus size: 27
42759609 TAAATTGTGC
* *
42759619 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42759646 AGCACTAAGTGTGCAAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42759673 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
42759701 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42759728 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
42759756 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
42759783 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42759810 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
42759838 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42759865 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42759880 GACTTAATAN
Statistics
Matches: 220, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
27 142 0.65
28 78 0.35
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:42759711 original size:55 final size:54
Alignment explanation
Indices: 42759619--42759879 Score: 432
Period size: 55 Copynumber: 4.8 Consensus size: 54
42759609 TAAATTGTGC
* * *
42759619 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCAAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
42759673 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
42759728 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* *
42759783 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGT-TGACTATGT
* *
42759838 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCG
42759880 GACTTAATAN
Statistics
Matches: 197, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
54 43 0.22
55 154 0.78
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:42759715 original size:82 final size:82
Alignment explanation
Indices: 42759619--42759879 Score: 443
Period size: 82 Copynumber: 3.2 Consensus size: 82
42759609 TAAATTGTGC
* * * *
42759619 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCAAGT-TGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
42759683 GTGCGAGTATGATTATGT
66 GTGCGAGT-TGATTATGT
42759701 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
*
42759766 GTGCGAGTTGACTATGT
66 GTGCGAGTTGATTATGT
42759783 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
*
42759848 GTGCGAGTTGATTATAT
66 GTGCGAGTTGATTATGT
*
42759865 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42759880 GACTTAATAN
Statistics
Matches: 170, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
82 144 0.85
83 26 0.15
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
GTGCGAGTTGATTATGT
Found at i:42775149 original size:41 final size:41
Alignment explanation
Indices: 42775092--42775172 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
42775082 ATAGTCGATA
42775092 GTGTGAAGTGATCTCTAACGACCTCCAACCTGAGCTTGCTG
1 GTGTGAAGTGATCTCTAACGACCTCCAACCTGAGCTTGCTG
*
42775133 GTGTGAAGTGATCTCTAACGTCCTCCAACCTGAGCTTGCT
1 GTGTGAAGTGATCTCTAACGACCTCCAACCTGAGCTTGCT
42775173 TTTAAGTACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGTGAAGTGATCTCTAACGACCTCCAACCTGAGCTTGCTG
Found at i:42776695 original size:31 final size:30
Alignment explanation
Indices: 42776660--42776717 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
42776650 CTAACGCAAA
*
42776660 CTTTGGAAAAATTACAATTTTGCCCCTAAAC
1 CTTT-GAAAAATTACAATTTTACCCCTAAAC
* * *
42776691 CTTTGCAGAATTACGATTTTACCCCTA
1 CTTTGAAAAATTACAATTTTACCCCTA
42776718 GGCTCAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTACCCCTAAAC
Found at i:42786135 original size:10 final size:9
Alignment explanation
Indices: 42786106--42786135 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
42786096 TTTTGTAAAG
42786106 TGATTTTGA
1 TGATTTTGA
42786115 TGATTTTGA
1 TGATTTTGA
42786124 TGATTCTTGA
1 TGATT-TTGA
42786134 TG
1 TG
42786136 TCTATTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.70
10 6 0.30
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.53
Consensus pattern (9 bp):
TGATTTTGA
Found at i:42791486 original size:40 final size:40
Alignment explanation
Indices: 42791421--42791557 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 40
42791411 CAATTATTTG
* * *
42791421 TGGCACTTAGTGTGTGATACAACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
42791461 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * * * * * *
42791501 TGACACTTAGTGTGTGATTTGAGATAACTTCGACTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
42791541 CGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
42791558 GATATCGAGT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:42793062 original size:27 final size:26
Alignment explanation
Indices: 42792987--42793077 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
42792977 AATATTGCTG
* *
42792987 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGT-AATGTGGCATAGCCA
* *
42793014 CCA-TATCAGTAATCCTGGCATAGCCA
1 CCAGTAACAGTAAT-GTGGCATAGCCA
* *
42793040 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGT-AATGTGGCATAGCCA
42793067 CCAGT-ACAGTA
1 CCAGTAACAGTA
42793078 CTTCCTCCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
25 4 0.08
26 23 0.43
27 23 0.43
28 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
CCAGTAACAGTAATGTGGCATAGCCA
Found at i:42816434 original size:39 final size:39
Alignment explanation
Indices: 42816270--42816452 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
42816260 TTGAATGCTG
* * * * * * *
42816270 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
42816310 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
42816350 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
42816390 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
42816429 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
42816453 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42816472 original size:79 final size:80
Alignment explanation
Indices: 42816306--42816487 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
42816296 GCTAAGTGAA
* * * *
42816306 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
42816370 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
42816386 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
42816450 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
42816465 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
42816488 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:42820443 original size:42 final size:42
Alignment explanation
Indices: 42820384--42820467 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
42820374 GCAAATTTTG
42820384 CGGGAAAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTC
1 CGGGAAAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTC
*
42820426 CGGGATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTC
1 CGGGAAAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTC
42820468 TGGTTAAGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.30
Consensus pattern (42 bp):
CGGGAAAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTC
Found at i:42827907 original size:15 final size:15
Alignment explanation
Indices: 42827882--42827939 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
42827872 GAGACGACAT
*
42827882 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
42827897 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
*
42827912 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
*
42827927 AAAATCCAAGATA
1 GAAATCCAAGATA
42827940 CAATATCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:42831602 original size:26 final size:26
Alignment explanation
Indices: 42831573--42831680 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
42831563 TGGTACAAAT
*
42831573 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
42831599 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42831625 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
42831651 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42831677 TGAT
1 TGAT
42831681 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:42835744 original size:47 final size:47
Alignment explanation
Indices: 42835675--42835770 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
42835665 GTAACGGAGT
42835675 TTGTAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAA
1 TTGTAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAA
* * *
42835722 TTGTAGGGAAATGTCTGACATGCCAGCAAGTGAAAGTTGAGCATCAA
1 TTGTAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAA
42835769 TT
1 TT
42835771 ACCTTCTGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (47 bp):
TTGTAGGAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAA
Found at i:42835756 original size:24 final size:24
Alignment explanation
Indices: 42835683--42835756 Score: 57
Period size: 24 Copynumber: 3.1 Consensus size: 24
42835673 GTTTGTAGGA
*
42835683 AAATGTCTGACATGCCAACAAGTG
1 AAATGTCTGACATGCCAGCAAGTG
* * *
42835707 AAA-G-CTGAGCAT-CAATTG-TAGGG
1 AAATGTCTGA-CATGCCA--GCAAGTG
42835730 AAATGTCTGACATGCCAGCAAGTG
1 AAATGTCTGACATGCCAGCAAGTG
42835754 AAA
1 AAA
42835757 GTTGAGCATC
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 11 0.31
24 13 0.36
25 6 0.17
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
AAATGTCTGACATGCCAGCAAGTG
Found at i:42837246 original size:26 final size:25
Alignment explanation
Indices: 42837217--42837324 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 25
42837207 TGGTACAAAT
*
42837217 TGATAATGAGTTTGGTAAATGTTCCA
1 TGATAATG-GTTAGGTAAATGTTCCA
*
42837243 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
42837269 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
42837295 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
42837321 TGAT
1 TGAT
42837325 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.04
26 71 0.93
27 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:42837286 original size:52 final size:52
Alignment explanation
Indices: 42837217--42837324 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
42837207 TGGTACAAAT
*
42837217 TGATAATGAGTTTGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
42837269 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
42837321 TGAT
1 TGAT
42837325 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:42840698 original size:22 final size:22
Alignment explanation
Indices: 42840670--42840716 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
42840660 CCAAGTTCCT
42840670 ACACTTATTCATCACAAAACTC
1 ACACTTATTCATCACAAAACTC
42840692 ACACTTATTCATCACAAAACTC
1 ACACTTATTCATCACAAAACTC
42840714 ACA
1 ACA
42840717 AAGCAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.26
Consensus pattern (22 bp):
ACACTTATTCATCACAAAACTC
Found at i:42841759 original size:30 final size:30
Alignment explanation
Indices: 42841725--42841785 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42841715 TCCTTAACTC
42841725 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42841755 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42841785 A
1 A
42841786 TGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42844296 original size:14 final size:16
Alignment explanation
Indices: 42844264--42844302 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
42844254 ATTTGCATAA
*
42844264 CATATATCACATATTT
1 CATATATCACATATGT
42844280 CATATATCAC-T-TGT
1 CATATATCACATATGT
42844294 CATATATCA
1 CATATATCA
42844303 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:42845049 original size:12 final size:12
Alignment explanation
Indices: 42845032--42845056 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42845022 AGAGATTGAT
42845032 AGTGAAAAAGAA
1 AGTGAAAAAGAA
42845044 AGTGAAAAAGAA
1 AGTGAAAAAGAA
42845056 A
1 A
42845057 AAAAAAGAGT
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGAAAAAGAA
Found at i:42846651 original size:21 final size:21
Alignment explanation
Indices: 42846627--42846666 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
42846617 TCAACCCATC
*
42846627 TTTAATTTGCTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
42846648 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
42846667 ATTAAATAAT
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:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:42846769 original size:19 final size:19
Alignment explanation
Indices: 42846745--42846783 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
42846735 AATAAATTAC
*
42846745 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
42846764 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
42846783 T
1 T
42846784 GCTAGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:42846779 original size:54 final size:54
Alignment explanation
Indices: 42846719--42846847 Score: 161
Period size: 54 Copynumber: 2.4 Consensus size: 54
42846709 TTTAGTTTAA
* * *
42846719 TTAATTAATTTTCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCAGCTTAG
* * * * *
42846773 TTAATTAAGTTGCTAGAATAAATCACTCGTCTTAGTTCATTAAGTTCAGCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCAGCTTAG
*
42846827 TTAATTTATTTGT-TGGAATAA
1 TTAATTAATTT-TCTGGAATAA
42846848 TTTATTGTTC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (54 bp):
TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCAGCTTAG
Found at i:42846924 original size:19 final size:19
Alignment explanation
Indices: 42846900--42846944 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
42846890 TAAGTCTAAT
*
42846900 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
42846919 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
42846938 ATGTGTT
1 ATGTGTT
42846945 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:42846939 original size:10 final size:10
Alignment explanation
Indices: 42846909--42846945 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
42846899 TATGTGTTCA
42846909 AATGT-TTTT
1 AATGTGTTTT
42846918 AATGTG-TTT
1 AATGTGTTTT
*
42846927 AATGAGTTTT
1 AATGTGTTTT
42846937 AATGTGTTT
1 AATGTGTTT
42846946 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:42847085 original size:45 final size:45
Alignment explanation
Indices: 42847004--42847091 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
42846994 TTATAAAGTG
* *
42847004 TTAATGCGGCTGTTACATTACTTAAAGAAGAACATTATTTATCAC
1 TTAATGCGGCTGTTACATCACTTAAAGAAGAACATTATATATCAC
* *
42847049 TTAATG-GAGCTGTTACATCATTTTAAA-AAGAGCATTATATATC
1 TTAATGCG-GCTGTTACATCA-CTTAAAGAAGAACATTATATATC
42847092 TTTTAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 1 0.03
45 31 0.84
46 5 0.14
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (45 bp):
TTAATGCGGCTGTTACATCACTTAAAGAAGAACATTATATATCAC
Found at i:42847622 original size:48 final size:48
Alignment explanation
Indices: 42847564--42847656 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
42847554 TCGAGTGTGG
**
42847564 CGTTCATATACCTTTGATTCCTATCATTTTTTATAGTGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAGGTT
* *
42847612 CGTTCTTATACCTTTGGTTCCTATCATTTTTTATAACGGGTCAAG
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAG
42847657 CTCCTTTGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAGGTT
Found at i:42849301 original size:39 final size:38
Alignment explanation
Indices: 42849252--42849351 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 38
42849242 CAAATTTAAT
* *
42849252 AATTATAATTACCATAATTATAATAATGTTTAA-CCAAAA
1 AATTATAATTACCATAATTATAATAATATTCAATCC--AA
* *
42849291 AATTACAATTA-CAGTAATTATAATAATATTCAATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTCAATCCAA
*
42849329 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
42849352 CAAGAATTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
38 22 0.42
39 28 0.54
40 2 0.04
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTCAATCCAA
Found at i:42852160 original size:40 final size:40
Alignment explanation
Indices: 42852105--42853000 Score: 1715
Period size: 40 Copynumber: 22.4 Consensus size: 40
42852095 GATGATAACT
*
42852105 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852145 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852185 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852225 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852265 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852305 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852345 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852385 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852425 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852465 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852505 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852545 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852585 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852625 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852665 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852705 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852745 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852785 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852825 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852865 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
42852905 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
42852945 GGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* * *
42852984 TGGCTAAATCCTGAAGG
1 GGGCTAAGTCCCGAAGG
42853001 TACCTTGTTT
Statistics
Matches: 849, Mismatches: 6, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
39 17 0.02
40 832 0.98
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:42859667 original size:35 final size:35
Alignment explanation
Indices: 42859626--42859784 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
42859616 GTATGTACAT
42859626 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
42859661 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
42859696 ATGTGATGTTTTATTGAGCTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
42859731 ATATGATGATATATTGTACTTGTATGTTTGGCGAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
42859766 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
42859785 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:42860725 original size:15 final size:15
Alignment explanation
Indices: 42860705--42860734 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42860695 AGCAATTACC
42860705 CACATTTTTTTTAAA
1 CACATTTTTTTTAAA
42860720 CACATTTTTTTTAAA
1 CACATTTTTTTTAAA
42860735 GTAAAACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
CACATTTTTTTTAAA
Found at i:42869675 original size:40 final size:39
Alignment explanation
Indices: 42869585--42869769 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
42869575 TTGAATGATG
* * * *
42869585 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
42869625 TCCGCACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
42869665 TCCGGGCTAAGCCCGAGGGAATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
42869704 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
42869745 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
42869770 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 32 0.27
40 75 0.64
41 10 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42876544 original size:12 final size:12
Alignment explanation
Indices: 42876527--42876551 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42876517 CTGGCCACCA
42876527 TTTCCAAAACTC
1 TTTCCAAAACTC
42876539 TTTCCAAAACTC
1 TTTCCAAAACTC
42876551 T
1 T
42876552 CAACATATCC
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTCCAAAACTC
Found at i:42888514 original size:14 final size:14
Alignment explanation
Indices: 42888495--42888522 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42888485 ATATGTTAGA
42888495 GTAGATGATACAGT
1 GTAGATGATACAGT
42888509 GTAGATGATACAGT
1 GTAGATGATACAGT
42888523 TTTTGGGGCA
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:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
GTAGATGATACAGT
Found at i:42891461 original size:28 final size:28
Alignment explanation
Indices: 42891421--42891533 Score: 120
Period size: 29 Copynumber: 4.0 Consensus size: 28
42891411 CCTGTATCTA
* *
42891421 GCCCATTAAGCCCAATCATATTCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
*
42891449 GCCCATTAGGCCCAAATCACCTGT-ATATG
1 GCCCATTAGGCCC-AATCACAT-TCATATG
* *
42891478 GCCCATTAGGCCTAAATCACATTTATATG
1 GCCCATTAGGCC-CAATCACATTCATATG
* * *
42891507 GCTCGTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
42891534 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 25 0.35
29 45 0.63
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:42891516 original size:58 final size:57
Alignment explanation
Indices: 42891410--42891520 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
42891400 AATTTCACAT
* * *
42891410 ACCTGTATCTAGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATAGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * * *
42891467 ACCTGTATATGGCCCATTAGGCCTAAATCACATTTATATGGCTCGTTAGGCCCA
1 ACCTGTATATAGCCCATTAAGCC-AAATCACATTCATATGGCCCATTAGGCCCA
42891521 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (57 bp):
ACCTGTATATAGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:42891787 original size:16 final size:16
Alignment explanation
Indices: 42891744--42891789 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
42891734 GTAGCCAAAC
*
42891744 TTTTGGCTTTTCGGCC
1 TTTTGGCTTTTCGGCA
* *
42891760 TTTCGACTTTTCGGCA
1 TTTTGGCTTTTCGGCA
*
42891776 TTTTGGCATTTCGG
1 TTTTGGCTTTTCGG
42891790 TTTTTGCCGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.22, G:0.24, T:0.48
Consensus pattern (16 bp):
TTTTGGCTTTTCGGCA
Found at i:42898285 original size:46 final size:46
Alignment explanation
Indices: 42898183--42898350 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
42898173 TATCTGTGCT
* * * *
42898183 GATGCCATGTCCCAGACATGGTCTTATACTA--ACACATGTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTC-AAGGCC
* * * *
42898229 GATGCATGTCCCAAACATGTCTTACACTGGC-TTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACT-CATCTCAAGGCC
* *
42898275 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAGGCC
*
42898321 GATGCCATGTCCCAGACATGTCCTACACTA
1 GATG-CATGTCCCAGACATGTCTTACACTA
42898351 CCTCACACAA
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
44 9 0.09
45 14 0.14
46 54 0.53
47 25 0.25
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAGGCC
Found at i:42904053 original size:13 final size:13
Alignment explanation
Indices: 42904035--42904060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42904025 ATTTTTATTT
42904035 TTAACATAAAATA
1 TTAACATAAAATA
42904048 TTAACATAAAATA
1 TTAACATAAAATA
42904061 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:42905633 original size:29 final size:29
Alignment explanation
Indices: 42905601--42905702 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
42905591 GATTAAAGAA
42905601 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* * * **
42905630 CTCGCCCACACAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* * **
42905658 CTCGTACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
42905687 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
42905703 TCGGTTGAAG
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:42905648 original size:57 final size:57
Alignment explanation
Indices: 42905574--42905734 Score: 214
Period size: 57 Copynumber: 2.8 Consensus size: 57
42905564 CTGACTGATT
* * *
42905574 TCGCCCACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * **
42905631 TCGCCCACACAGTGCTCGATTGAAGAACTCGTACACATAGTGCCTCAACTACTGATC
1 TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * *
42905688 TGGCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
42905735 TGATTCCGGC
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 90 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (57 bp):
TCGCCCACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:42905672 original size:28 final size:27
Alignment explanation
Indices: 42905574--42905730 Score: 107
Period size: 28 Copynumber: 5.6 Consensus size: 27
42905564 CTGACTGATT
* *
42905574 TCGCCCACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* **
42905602 TCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCGATTAAGAA-C
* *
42905631 TCGCCCACACAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* * * * *
42905659 TCGTACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTA-AGAAC
* *
42905688 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATT-AAGAAC
* *
42905716 TTGCACACACAGTGC
1 TCGCACACATAGTGC
42905731 CTCATGATTC
Statistics
Matches: 97, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
28 54 0.56
29 43 0.44
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCGATTAAGAAC
Found at i:42905809 original size:40 final size:40
Alignment explanation
Indices: 42905762--42906215 Score: 693
Period size: 40 Copynumber: 11.3 Consensus size: 40
42905752 CCATCGAGGT
42905762 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
42905802 TTAGCCCGGATATATCACTAGCACGAATGCT-TTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTT-GGGAC
* *
42905842 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
*
42905882 TTAGCCCGGATATATCACCAGCACGAATGCT-TTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTT-GGGAC
* *
42905922 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
*
42905962 TTAGCCCGGATATATCACCAGCACGAATGCT-TTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTT-GGGAC
* *
42906002 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
*
42906042 TTAGCCCGGATATATCACCAGCACGAATGCT-TTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTT-GGGAC
* *
42906082 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
*
42906122 TTAGCCCGGATATATCACCAGCACGAATGCT-TTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTT-GGGAC
* *
42906162 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
*
42906202 TTAGTCCGGATATA
1 TTAGCCCGGATATA
42906216 ACATACTAAA
Statistics
Matches: 376, Mismatches: 28, Indels: 20
0.89 0.07 0.05
Matches are distributed among these distances:
39 11 0.03
40 355 0.94
41 10 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
Found at i:42905895 original size:80 final size:80
Alignment explanation
Indices: 42905762--42906215 Score: 872
Period size: 80 Copynumber: 5.7 Consensus size: 80
42905752 CCATCGAGGT
* * *
42905762 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATATATCACTAGCACG
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
42905827 AATGCTTTTCGGGAC
66 AATGCTTTTCGGGAC
42905842 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
42905907 AATGCTTTTCGGGAC
66 AATGCTTTTCGGGAC
42905922 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
42905987 AATGCTTTTCGGGAC
66 AATGCTTTTCGGGAC
42906002 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
42906067 AATGCTTTTCGGGAC
66 AATGCTTTTCGGGAC
42906082 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
42906147 AATGCTTTTCGGGAC
66 AATGCTTTTCGGGAC
*
42906162 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATATA
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
42906216 ACATACTAAA
Statistics
Matches: 370, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 370 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACG
AATGCTTTTCGGGAC
Found at i:42907711 original size:46 final size:46
Alignment explanation
Indices: 42907658--42907748 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
42907648 TATATATACA
* * *
42907658 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATT
* * *
42907704 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
42907749 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATT
Found at i:42907793 original size:47 final size:47
Alignment explanation
Indices: 42907742--42907913 Score: 229
Period size: 47 Copynumber: 3.7 Consensus size: 47
42907732 TCGGCTTTCC
* * **
42907742 CACATATATACACT-TCCACGTTCATCACATTGGCCATTTTGCCTTAT
1 CACATATATACA-TGTTCACATTCATCACATTGGCCATTCAGCCTTAT
* * *
42907789 CACATATATGCATGTTCACATTTATCACATTGGTCATTCAGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCAGCCTTAT
* * *
42907836 CACATATGTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCAGCCTTAT
*
42907883 CACATATGTACATGTTCACATTCATCACATT
1 CACATATATACATGTTCACATTCATCACATT
42907914 AAATCCTAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 111 0.99
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (47 bp):
CACATATATACATGTTCACATTCATCACATTGGCCATTCAGCCTTAT
Found at i:42907835 original size:22 final size:22
Alignment explanation
Indices: 42907810--42907887 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 22
42907800 ATGTTCACAT
42907810 TTATCACATTGGTCATTCAGCC
1 TTATCACATTGGTCATTCAGCC
*
42907832 TTATCACATAT-GTGCATGTTCA-CA
1 TTATCACAT-TGGT-CA--TTCAGCC
* *
42907856 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGTCATTCAGCC
42907879 TTATCACAT
1 TTATCACAT
42907888 ATGTACATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
22 21 0.47
23 6 0.13
24 6 0.13
25 12 0.27
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (22 bp):
TTATCACATTGGTCATTCAGCC
Found at i:42907862 original size:25 final size:24
Alignment explanation
Indices: 42907785--42907912 Score: 92
Period size: 25 Copynumber: 5.4 Consensus size: 24
42907775 CCATTTTGCC
*
42907785 TTATCACATATATGCATGTTCACA
1 TTATCACATATGTGCATGTTCACA
*
42907809 TTTATCACAT-TG-GTCA--TTCAGCC
1 -TTATCACATATGTG-CATGTTCA-CA
42907832 TTATCACATATGTGCATGTTCACA
1 TTATCACATATGTGCATGTTCACA
* *
42907856 TTCATCACAT-TG-GCCA--TTCGGCC
1 TT-ATCACATATGTG-CATGTTC-ACA
*
42907879 TTATCACATATGTACATGTTCACA
1 TTATCACATATGTGCATGTTCACA
42907903 TTCATCACAT
1 TT-ATCACAT
42907913 TAAATCCTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
22 23 0.28
23 14 0.17
24 14 0.17
25 30 0.37
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (24 bp):
TTATCACATATGTGCATGTTCACA
Found at i:42911611 original size:40 final size:40
Alignment explanation
Indices: 42911563--42911768 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
42911553 AGACTAAGAT
*
42911563 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
* *
42911603 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAAC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
*
42911643 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAATC
* *
42911683 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAAC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
*
42911723 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAATTC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAATC
*
42911762 TCGAAGG
1 CCGAAGG
42911769 TACTTGGGTT
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 15 0.10
40 131 0.87
41 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
Found at i:42911696 original size:80 final size:80
Alignment explanation
Indices: 42911563--42911768 Score: 371
Period size: 80 Copynumber: 2.6 Consensus size: 80
42911553 AGACTAAGAT
42911563 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
42911627 ATATCCGGGCTAAAAC
65 ATATCCGGGCTAAAAC
42911643 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
42911708 TATCCGGGCTAAAAC
66 TATCCGGGCTAAAAC
* *
42911723 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAATTCTCGAAGG
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
42911769 TACTTGGGTT
Statistics
Matches: 123, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
79 14 0.11
80 107 0.87
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
TATCCGGGCTAAAAC
Found at i:42914347 original size:15 final size:15
Alignment explanation
Indices: 42914327--42914356 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42914317 CAACACGTGT
42914327 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
42914342 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
42914357 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:42920578 original size:79 final size:81
Alignment explanation
Indices: 42920442--42920624 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
42920432 TCGAATGATG
* *
42920442 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42920506 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
42920521 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
42920583 TTTGTGTGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
42920601 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42920625 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:42920640 original size:40 final size:41
Alignment explanation
Indices: 42920442--42920626 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
42920432 TCGAATGATG
* * *
42920442 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
42920482 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42920522 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
42920561 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42920602 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42920627 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:42920659 original size:79 final size:79
Alignment explanation
Indices: 42920481--42920651 Score: 179
Period size: 79 Copynumber: 2.2 Consensus size: 79
42920471 AAGTGACCAT
* *
42920481 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
**
42920545 GGTGCGAGTTACTAA
65 GGAACGAGTTACTAA
* * * * *
42920560 ATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
* *
42920624 TTGAACGAG-TAGCTAT
64 TGGAACGAGTTA-CTAA
42920640 ATCC-GATTAAAT
1 ATCCGGATTAAAT
42920652 TCTGAAGGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
78 3 0.04
79 48 0.64
80 24 0.32
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
ATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTG
GAACGAGTTACTAA
Found at i:42926282 original size:46 final size:46
Alignment explanation
Indices: 42926139--42926306 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 46
42926129 ATTGTGGGCT
* * * *
42926139 AGTGCAAGACATGTTTGGGACATGCATCGGCCA-C-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCGA-GACGAGAGCC
* *
42926185 AGTGTAAGACCATGTCTGGGACATGGC-TCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCC
* * * *
42926232 AGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AGAGCC
42926278 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
42926307 CCTGTGTCAG
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 63 0.62
47 34 0.33
48 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCC
Found at i:42931732 original size:10 final size:9
Alignment explanation
Indices: 42931709--42931734 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
42931699 TTTGGTGTTG
42931709 GTTTTTGAT
1 GTTTTTGAT
42931718 GTTTTTGAT
1 GTTTTTGAT
42931727 GTTTTTGA
1 GTTTTTGA
42931735 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:42932690 original size:47 final size:45
Alignment explanation
Indices: 42932629--42932755 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 45
42932619 TATGGGCTAG
* * * *
42932629 TGTAAGATATGTCTGGTACATGCATCGGCTACATTATAAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCTACA-GATAAGAGACAA
* ** * * *
42932675 TGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGATGAGAGATAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACAGATAAGAGACAA
42932723 TGTAAGACATGTCTGGGACATGCATCGGCTACA
1 TGTAAGACATGTCTGGGACATGCATCGGCTACA
42932756 AGATGTGTCA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
45 2 0.03
46 14 0.22
47 26 0.40
48 21 0.32
49 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACAGATAAGAGACAA
Found at i:42933755 original size:22 final size:22
Alignment explanation
Indices: 42933730--42933773 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
42933720 CACTTAGCGT
42933730 GTAGGGAGGTAGCGTTAGTGGA
1 GTAGGGAGGTAGCGTTAGTGGA
*
42933752 GTAGGGAGGTGGCGTTAGTGGA
1 GTAGGGAGGTAGCGTTAGTGGA
42933774 TAGCAAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.52, T:0.23
Consensus pattern (22 bp):
GTAGGGAGGTAGCGTTAGTGGA
Found at i:42935013 original size:29 final size:29
Alignment explanation
Indices: 42934971--42935089 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
42934961 GTGAGCATGA
*
42934971 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
42934999 ATATAAAGGTGATTTGGGCGTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* ** * * *
42935028 ATATGAATATGAATAGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* *
42935057 ATATAAATGAGA-TTGGGCC-AAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
42935085 ATATA
1 ATATA
42935090 CATGTATGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 1 0.01
28 21 0.28
29 53 0.71
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.25
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:42936193 original size:17 final size:18
Alignment explanation
Indices: 42936160--42936194 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42936150 TTTTAAGAAG
42936160 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
42936178 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
42936195 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:42939306 original size:20 final size:21
Alignment explanation
Indices: 42939281--42939320 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
42939271 TTAAAATTAA
42939281 TTTTTCAAAAATATT-TTTAT
1 TTTTTCAAAAATATTATTTAT
* *
42939301 TTTTTCCAAATTATTATTTA
1 TTTTTCAAAAATATTATTTA
42939321 ATCTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTCAAAAATATTATTTAT
Found at i:42952385 original size:27 final size:28
Alignment explanation
Indices: 42952343--42952455 Score: 144
Period size: 27 Copynumber: 4.2 Consensus size: 28
42952333 AGCATGGCTG
* *
42952343 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
42952369 CCAGATACAGAT-TTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
42952396 CTAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
42952424 CCAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
42952451 CCAGA
1 CCAGA
42952456 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.07
27 52 0.69
28 18 0.24
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:42952420 original size:55 final size:54
Alignment explanation
Indices: 42952343--42952456 Score: 169
Period size: 55 Copynumber: 2.1 Consensus size: 54
42952333 AGCATGGCTG
*
42952343 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGAT-TTTGTGGTAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGAT-CAGATATTTGTGGTAGAGCCA
* *
42952396 CTAGAAACAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
42952451 CCAGAA
1 CCAGAA
42952457 CGCTTCCTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 3 0.06
54 13 0.24
55 38 0.70
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (54 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
Found at i:42958368 original size:16 final size:15
Alignment explanation
Indices: 42958344--42958373 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42958334 AACTGTTTTA
42958344 TTACAAATTTCACTC
1 TTACAAATTTCACTC
42958359 TTACATAATTTCACT
1 TTACA-AATTTCACT
42958374 TACTCCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:42960474 original size:39 final size:39
Alignment explanation
Indices: 42960413--42960603 Score: 174
Period size: 39 Copynumber: 4.9 Consensus size: 39
42960403 ATATTTGATG
* * *
42960413 TGTATCTGGACTTATGGTCCGCAGGCTAT-GTGCTGGAAT
1 TGTATCCGGACTTAAGGTCCGCAGGCT-TCGTGCTGGAAA
* * *
42960452 TATATCCGGACTTAGGGTCCGCAGGCTTCATGCTGGAAA
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAA
* *
42960491 TGTATCCGGGC-TAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTGGAAA
* * * *
42960530 TGTATCCGGGC-CAAAGTCCCGCAGGCTTCGTGCTAGAAA
1 TGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTGGAAA
* * * *
42960569 TGTATCTGG-GTTAAAGTCCCGCAGGCTTTGTGCTG
1 TGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTG
42960604 ATAATATAAT
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
38 5 0.04
39 127 0.96
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (39 bp):
TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAA
Found at i:42963322 original size:4 final size:4
Alignment explanation
Indices: 42963313--42963345 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
42963303 CCTAGTAAAA
42963313 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
42963346 CGGAACTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:42966076 original size:40 final size:40
Alignment explanation
Indices: 42966014--42966218 Score: 263
Period size: 40 Copynumber: 5.2 Consensus size: 40
42966004 AAACCAAGTA
* * *
42966014 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
42966053 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
42966093 CCTTCGGGACTTAGCCTGAAGATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42966133 CCTTCGGGGCTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42966173 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42966213 CCTTCG
1 CCTTCG
42966219 TTATCATCCG
Statistics
Matches: 144, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 14 0.10
40 130 0.90
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42975980 original size:47 final size:47
Alignment explanation
Indices: 42975883--42975973 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
42975873 TATTACCCTG
* * * *
42975883 GGTTGCCTGGAATCGATGACTCAGTGTACATATAATCTACCATCTCA
1 GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATCTCA
42975930 GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATC
1 GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATC
42975974 CTAGGTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (47 bp):
GGTTGCCTAGAAACGATGACTCAATGTACATATAAGCTACCATCTCA
Found at i:42979331 original size:57 final size:56
Alignment explanation
Indices: 42979270--42979429 Score: 176
Period size: 57 Copynumber: 2.8 Consensus size: 56
42979260 TTTTTTTCAT
*
42979270 TTTTCATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCCATATCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCA-ATTCATTTCCAAATGATTCCATATCTCCA
* * * * * * *
42979327 TTTTCATTTCCATTTTTGAGAAAACCATAATAATTTCCAAATGTTTTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCA-ATTCATTTCCAAATGATTCCATATCTCCA
* * * * *
42979384 TTTTTATTTTCATTATGGTGAAAACCAGTATCACTTCCAAATGATT
1 TTTTCATTTTCATTTTGGAGAAAACCAAT-TCATTTCCAAATGATT
42979430 TCCAATTTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
57 83 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (56 bp):
TTTTCATTTTCATTTTGGAGAAAACCAATTCATTTCCAAATGATTCCATATCTCCA
Found at i:42980354 original size:38 final size:37
Alignment explanation
Indices: 42980303--42980378 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
42980293 CTGATTTGAC
* * *
42980303 TAAGGATACGATTAGTTTCATCCTATTAATATAAGTTG
1 TAAGGACACGATTAGTTTCAT-CTACTAATATAAATTG
* *
42980341 TAAGGACATGATTAGTTTCGTCTACTAATATAAATTG
1 TAAGGACACGATTAGTTTCATCTACTAATATAAATTG
42980378 T
1 T
42980379 CTTTCCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (37 bp):
TAAGGACACGATTAGTTTCATCTACTAATATAAATTG
Found at i:42982738 original size:19 final size:19
Alignment explanation
Indices: 42982714--42982806 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
42982704 AATAAATTAC
*
42982714 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
42982733 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * * * *
42982752 T-GT-TGGAATAAATT-A-C
1 TCATCT-TAGTTAATTAAGT
*
42982768 TCGTCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
42982787 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
42982806 T
1 T
42982807 GCTGGAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.02
17 10 0.18
18 9 0.16
19 37 0.65
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:42982751 original size:54 final size:54
Alignment explanation
Indices: 42982688--42982816 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
42982678 TTTAGTTTAA
* *
42982688 TTAATTAAGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
* *
42982742 TTAATTAAGTTGTTGGAATAAATTACTCGTCTTAGTTAATTAAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
*
42982796 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
42982817 TTTATTGTTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:42984193 original size:18 final size:17
Alignment explanation
Indices: 42984172--42984245 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 17
42984162 ATTTCAAATA
42984172 ACTTTCAATGTCAATTTC
1 ACTTTCAAT-TCAATTTC
*
42984190 ACTTTCAATTCAAATTC
1 ACTTTCAATTCAATTTC
*
42984207 ACAATTCAATTCAATTCTC
1 AC-TTTCAATTCAATT-TC
* *
42984226 A--TTCAAATCAAATTC
1 ACTTTCAATTCAATTTC
42984241 ACTTT
1 ACTTT
42984246 TCCACTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.06
16 10 0.21
17 11 0.23
18 20 0.43
19 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (17 bp):
ACTTTCAATTCAATTTC
Found at i:42984202 original size:17 final size:17
Alignment explanation
Indices: 42984172--42984245 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
42984162 ATTTCAAATA
*
42984172 ACTTTCAATGTCAATTTC
1 ACTTTCAAT-TCAAATTC
42984190 ACTTTCAATTCAAATTC
1 ACTTTCAATTCAAATTC
*
42984207 ACAATTCAATTC-AATTC
1 AC-TTTCAATTCAAATTC
* * *
42984224 TCATTCAAATCAAATTC
1 ACTTTCAATTCAAATTC
42984241 ACTTT
1 ACTTT
42984246 TCCACTTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
16 8 0.17
17 23 0.48
18 17 0.35
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (17 bp):
ACTTTCAATTCAAATTC
Found at i:42985456 original size:16 final size:14
Alignment explanation
Indices: 42985425--42985472 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 14
42985415 TATATTAGTG
42985425 AATAATATTAATAAT
1 AATAATA-TAATAAT
*
42985440 AATACATTATGATAAT
1 AATA-A-TATAATAAT
42985456 -ATAATATAATAAT
1 AATAATATAATAAT
42985469 AATA
1 AATA
42985473 TTGAATTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 7 0.25
16 7 0.25
17 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:42985883 original size:3 final size:3
Alignment explanation
Indices: 42985875--42985934 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
42985865 ATTTTATTTC
* * * **
42985875 ATA ATA ATA ATA ATA ATA ATA ATA TTT A-A ATA AAA ACC ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
42985922 ATT ATA ATA ATA A
1 ATA ATA ATA ATA A
42985935 ATTGATAACA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42986455 original size:48 final size:48
Alignment explanation
Indices: 42986400--42986492 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
42986390 GAGTGTGGCA
* *
42986400 TTCATATACCTTTTATTCCTATCATTTTTGATAGTGGGTCAAGGTTCG
1 TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGTTCG
* *
42986448 TTCATATACCTTTGGTTCCTATCATTTTTTATAGCGGGTCAAGGT
1 TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGT
42986493 CCTTTGCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (48 bp):
TTCATATACCTTTGATTCCTATCATTTTTGATAGCGGGTCAAGGTTCG
Found at i:42988016 original size:22 final size:24
Alignment explanation
Indices: 42987987--42988034 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
42987977 AGCATGTGAA
42987987 AAAGAAAA-AAAAG-GAT-GAAAG
1 AAAGAAAAGAAAAGAGATCGAAAG
42988008 AAAGCAAAAGGAAAAGAGATCGAAAG
1 AAAG-AAAA-GAAAAGAGATCGAAAG
42988034 A
1 A
42988035 GAATAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
24 5 0.23
25 3 0.14
26 6 0.27
ACGTcount: A:0.67, C:0.04, G:0.25, T:0.04
Consensus pattern (24 bp):
AAAGAAAAGAAAAGAGATCGAAAG
Found at i:42988256 original size:21 final size:21
Alignment explanation
Indices: 42988232--42988271 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42988222 GGACTAAACT
* *
42988232 GAAAACTTTGAAAAGTTTTAG
1 GAAAACTTAGAAAAATTTTAG
42988253 GAAAACTTAGAAAAATTTT
1 GAAAACTTAGAAAAATTTT
42988272 CATGAAACAG
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:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
GAAAACTTAGAAAAATTTTAG
Found at i:42993287 original size:26 final size:26
Alignment explanation
Indices: 42993258--42993365 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
42993248 TGGTACAAAT
42993258 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * **
42993284 TGATAATGGATTAGGTAAATATTTTA
1 TGATAATGGGTTAGGTAAATGTTCCA
42993310 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
42993336 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42993362 TGAT
1 TGAT
42993366 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:42997178 original size:108 final size:107
Alignment explanation
Indices: 42996989--42997200 Score: 388
Period size: 108 Copynumber: 2.0 Consensus size: 107
42996979 ATCACCCATA
*
42996989 TTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCGTTGAACACTTCGGATCAATC
1 TTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAACACTTCGGATCAATC
*
42997054 CTCGATACTTGGTGGTTTCAGCACATAGCTCCACCCATCACAC
66 CTCGATACTTGGTGGTTTCAGCACATAGATCCA-CCATCACAC
42997097 TTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAACACTTCGGATCAATC
1 TTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAACACTTCGGATCAATC
*
42997162 CTCGATACTTGGTGGTTTCAGTACATAGATCCACCATCA
66 CTCGATACTTGGTGGTTTCAGCACATAGATCCACCATCA
42997201 TAAAGTTTGG
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 6 0.06
108 95 0.94
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (107 bp):
TTATTCATCACAAAACTCACAAAGCAATACATAGAGAGTCTCCCATTGAACACTTCGGATCAATC
CTCGATACTTGGTGGTTTCAGCACATAGATCCACCATCACAC
Found at i:42999117 original size:4 final size:4
Alignment explanation
Indices: 42999103--42999135 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
42999093 CATAAAAATT
42999103 TAAA CTAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA
42999136 AATAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:43000547 original size:23 final size:22
Alignment explanation
Indices: 43000495--43000547 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
43000485 TCCACGTCTT
*
43000495 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
43000517 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
43000540 TTTCTTTT
1 TTTCTTTT
43000548 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:43005200 original size:45 final size:44
Alignment explanation
Indices: 43005035--43005200 Score: 111
Period size: 45 Copynumber: 3.7 Consensus size: 44
43005025 CATCCATTAT
* * * * * * * *
43005035 GAACTCGGACCAACTCAATGAGCTCAGA-TGCTCGCATCTGTAAT
1 GAACTCGGACCAACTCAACGAGCTCAAATTTC-CACATATATCAC
* * *
43005079 GAACTCGGACTAACTCAACGAGCTCGAATGCTT-CACATATACCAC
1 GAACTCGGACCAACTCAACGAGCTCAAAT--TTCCACATATATCAC
* * * * * * *
43005124 TAACTTGGACCAACTAAACAAGTTTAGATTTCCCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCAAATTT-CCACATATATCAC
*
43005169 GAACTCGGACCAACTCAATGAGCTCAAATTTC
1 GAACTCGGACCAACTCAACGAGCTCAAATTTC
43005201 TTAATTACTA
Statistics
Matches: 88, Mismatches: 29, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
43 2 0.02
44 25 0.28
45 60 0.68
47 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCAAATTTCCACATATATCAC
Found at i:43005345 original size:24 final size:24
Alignment explanation
Indices: 43005313--43005360 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
43005303 GTGCTATCCG
43005313 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
43005337 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
43005361 ATAATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (24 bp):
TAGTACCAATTGCCCATTCATGGC
Found at i:43005442 original size:14 final size:16
Alignment explanation
Indices: 43005410--43005448 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
43005400 ATTTTCATAA
*
43005410 CATATATCACATATTT
1 CATATATCACATATGT
43005426 CATATATCAC-T-TGT
1 CATATATCACATATGT
43005440 CATATATCA
1 CATATATCA
43005449 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:43006195 original size:12 final size:12
Alignment explanation
Indices: 43006178--43006202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43006168 AGAGATTGAT
43006178 AGTGAAAAAGAA
1 AGTGAAAAAGAA
43006190 AGTGAAAAAGAA
1 AGTGAAAAAGAA
43006202 A
1 A
43006203 AAAAAAGAGT
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGTGAAAAAGAA
Found at i:43007811 original size:21 final size:21
Alignment explanation
Indices: 43007787--43007826 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43007777 TCAACCCATC
*
43007787 TTTAATTTGCTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
43007808 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
43007827 ATTAAATAAT
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:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:43007940 original size:54 final size:54
Alignment explanation
Indices: 43007879--43008007 Score: 170
Period size: 54 Copynumber: 2.4 Consensus size: 54
43007869 TTTAGTTTAA
* *
43007879 TTAATTAATTTTCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
* ** * *
43007933 TTAATTAAGTCGCTGGAATAAATCACTCGTCTTAGTTCATTAAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
*
43007987 TTAATTTATTTGT-TGGAATAA
1 TTAATTAATTT-TCTGGAATAA
43008008 TTTATTGTTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (54 bp):
TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:43008084 original size:19 final size:19
Alignment explanation
Indices: 43008060--43008104 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
43008050 TAAGTCTAAT
*
43008060 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
43008079 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
43008098 ATGTGTT
1 ATGTGTT
43008105 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:43008099 original size:10 final size:10
Alignment explanation
Indices: 43008069--43008105 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
43008059 TATGTGTTCA
43008069 AATGT-TTTT
1 AATGTGTTTT
43008078 AATGTG-TTT
1 AATGTGTTTT
*
43008087 AATGAGTTTT
1 AATGTGTTTT
43008097 AATGTGTTT
1 AATGTGTTT
43008106 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:43008777 original size:48 final size:48
Alignment explanation
Indices: 43008721--43008813 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
43008711 TCGAGTGTGG
* *
43008721 CGTTCATATACCTTTGATTCCTATCATTTTGTATAATGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCATTTTGTATAACGGGCCAAGGTT
* *
43008769 CGTTCATATACCTTTGGTTCCTATCATTTTTTATAACGGGCCAAG
1 CGTTCATATACCTTTGATTCCTATCATTTTGTATAACGGGCCAAG
43008814 CTCCTTTGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCATTTTGTATAACGGGCCAAGGTT
Found at i:43009330 original size:28 final size:28
Alignment explanation
Indices: 43009290--43009347 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
43009280 TAAAGTTGCA
43009290 AAGCTGAAAATGATTAAATGAGTATATT
1 AAGCTGAAAATGATTAAATGAGTATATT
*
43009318 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTATATT
43009346 AA
1 AA
43009348 CATATAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (28 bp):
AAGCTGAAAATGATTAAATGAGTATATT
Found at i:43016813 original size:35 final size:35
Alignment explanation
Indices: 43016773--43016931 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
43016763 GTATGTACAT
43016773 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
43016808 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
43016843 ATGTGATGTTTTATTGAGCTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
43016878 ATATGATGATATATTGTACTTGTATGTTTGGCGAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
43016913 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
43016932 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:43030453 original size:12 final size:12
Alignment explanation
Indices: 43030436--43030462 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43030426 CTGGGACAGA
43030436 GCGTCGTCCCCT
1 GCGTCGTCCCCT
43030448 GCGTCGTCCCCT
1 GCGTCGTCCCCT
43030460 GCG
1 GCG
43030463 GCTCGATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.48, G:0.30, T:0.22
Consensus pattern (12 bp):
GCGTCGTCCCCT
Found at i:43034843 original size:30 final size:30
Alignment explanation
Indices: 43034809--43034867 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
43034799 ACAAAATCGT
43034809 ATTTTGGAAAAAATACAATTTTT-CCCCTAA
1 ATTTTGGAAAAAATAC-ATTTTTGCCCCTAA
** *
43034839 ATTTTGTTAAAATTACATTTTTGCCCCTA
1 ATTTTGGAAAAAATACATTTTTGCCCCTA
43034868 GACTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (30 bp):
ATTTTGGAAAAAATACATTTTTGCCCCTAA
Found at i:43040990 original size:31 final size:31
Alignment explanation
Indices: 43040948--43041010 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
43040938 TCAAATGTTC
*
43040948 TAGGGATAGAATGTTTATAGTTTGGTTTCCT
1 TAGGGAAAGAATGTTTATAGTTTGGTTTCCT
43040979 TAGGGAAAGAATGTTTATAGTTTGGTTTCCT
1 TAGGGAAAGAATGTTTATAGTTTGGTTTCCT
43041010 T
1 T
43041011 GCTAAGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.44
Consensus pattern (31 bp):
TAGGGAAAGAATGTTTATAGTTTGGTTTCCT
Found at i:43041066 original size:14 final size:14
Alignment explanation
Indices: 43041047--43041074 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43041037 ATATGTTAGA
43041047 GTAGATGATACAGT
1 GTAGATGATACAGT
43041061 GTAGATGATACAGT
1 GTAGATGATACAGT
43041075 TTTTGGGGCA
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:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (14 bp):
GTAGATGATACAGT
Done.