Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 69 of 322
Found at i:22062803 original size:29 final size:29
Alignment explanation
Indices: 22062730--22062804 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
22062720 ATTTGTGTAT
* ** *
22062730 AATGGGCCATATGAATGTGAGTTGGGCCT
1 AATGGGCCATATGAATATGAACTGGGCCA
* *
22062759 AGTGGGCCATAAGAATATGAACTGGGCCA
1 AATGGGCCATATGAATATGAACTGGGCCA
*
22062788 AATGGGCCATTTGAATA
1 AATGGGCCATATGAATA
22062805 AGCTTGGGCC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
AATGGGCCATATGAATATGAACTGGGCCA
Found at i:22064548 original size:13 final size:13
Alignment explanation
Indices: 22064530--22064555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22064520 CTTCGATCAA
22064530 ATAGGGCTGAGAT
1 ATAGGGCTGAGAT
22064543 ATAGGGCTGAGAT
1 ATAGGGCTGAGAT
22064556 CTTTAAGGGC
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:0.31, C:0.08, G:0.38, T:0.23
Consensus pattern (13 bp):
ATAGGGCTGAGAT
Found at i:22065659 original size:16 final size:17
Alignment explanation
Indices: 22065638--22065673 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
22065628 GTAACACCCC
*
22065638 AAAAATCCTAAAAT-TT
1 AAAAATCCCAAAATCTT
22065654 AAAAATCCCAAAATCTT
1 AAAAATCCCAAAATCTT
22065671 AAA
1 AAA
22065674 TTTTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATCCCAAAATCTT
Found at i:22066919 original size:24 final size:24
Alignment explanation
Indices: 22066885--22066943 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
22066875 ATGAATCGAC
* *
22066885 AAAAGTCGAAATGCCGAAATGCCA
1 AAAAGTTGAAAAGCCGAAATGCCA
*
22066909 AAAAGTTGAAAAGCCGAAATGCCG
1 AAAAGTTGAAAAGCCGAAATGCCA
*
22066933 AAAAGCTGAAA
1 AAAAGTTGAAA
22066944 GTTGGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.17, G:0.22, T:0.12
Consensus pattern (24 bp):
AAAAGTTGAAAAGCCGAAATGCCA
Found at i:22067211 original size:29 final size:28
Alignment explanation
Indices: 22067158--22067272 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
22067148 GCATGAGTAT
*
22067158 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGA-TTGGGCCTAGTGGGCCATATG
* * *
22067187 AATGTGAGTTCGGCCTAGTGGGCCATAAG
1 AATATGA-TTGGGCCTAGTGGGCCATATG
* *
22067216 AATATGAACTGGGCCATA-TGGGCCATTTG
1 AATATG-ATTGGGCC-TAGTGGGCCATATG
*
22067245 AATAAGATTGGGCCTAGTGGGCCATATG
1 AATATGATTGGGCCTAGTGGGCCATATG
22067273 CATGTATGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.03
28 17 0.24
29 48 0.69
30 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
AATATGATTGGGCCTAGTGGGCCATATG
Found at i:22067230 original size:58 final size:57
Alignment explanation
Indices: 22067158--22067270 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
22067148 GCATGAGTAT
** **
22067158 AATATGATTTGGGCC-TAATGGGCCATATGAATGTGAGTTCGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCAT-ATGGGCCATATGAATAAGA-TTCGGCCTAGTGGGCCATAAG
* *
22067216 AATATGAACTGGGCCATATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCATATGGGCCATATGAATAAGATTCGGCCTAGTGGGCCATA
22067271 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 18 0.38
58 29 0.60
59 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
AATATGAACTGGGCCATATGGGCCATATGAATAAGATTCGGCCTAGTGGGCCATAAG
Found at i:22076512 original size:55 final size:56
Alignment explanation
Indices: 22076447--22076561 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
22076437 AGCATGGCTG
* *
22076447 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
22076503 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
22076558 CCAG
1 CCAG
22076562 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:22076524 original size:27 final size:27
Alignment explanation
Indices: 22076472--22076561 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
22076462 GTGACAGAGT
22076472 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
22076501 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
22076528 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
22076556 CACCAG
1 CACCAG
22076562 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:22076714 original size:28 final size:28
Alignment explanation
Indices: 22076667--22076731 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
22076657 AAATCAACCC
*
22076667 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
22076695 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
22076723 TAGGGGTAT
1 TAGGGGTAT
22076732 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:22090195 original size:40 final size:40
Alignment explanation
Indices: 22090112--22090327 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
22090102 CAACCAAGTA
** *
22090112 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
22090150 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
22090190 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22090230 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
22090270 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTTGCACAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
22090309 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22090328 TTATCATCCG
Statistics
Matches: 161, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 14 0.09
39 44 0.27
40 103 0.64
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22094541 original size:55 final size:56
Alignment explanation
Indices: 22094476--22094590 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
22094466 AGCATGGCTG
* * *
22094476 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAAATAATTTGTGGCA-TAGCCA
* * *
22094532 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAAATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAAATAATTTGTGGCATAGCCA
22094587 CCAG
1 CCAG
22094591 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAAATAATTTGTGGCATAGCCA
Found at i:22094553 original size:27 final size:27
Alignment explanation
Indices: 22094501--22094590 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
22094491 GTGACAGAGT
22094501 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
22094530 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
22094557 CACCAGAACAAATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
22094585 CACCAG
1 CACCAG
22094591 GATGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:22094586 original size:28 final size:27
Alignment explanation
Indices: 22094501--22094590 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
22094491 GTGACAGAGT
*
22094501 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
22094530 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
22094557 CACCAGAACAAATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
22094585 CACCAG
1 CACCAG
22094591 GATGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:22094743 original size:28 final size:28
Alignment explanation
Indices: 22094696--22094788 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
22094686 AAATTAACCC
*
22094696 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
22094724 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
22094752 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
22094780 TAGGGGTAT
1 TAGGGGTAT
22094789 TCTAGTACAT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:22098652 original size:49 final size:49
Alignment explanation
Indices: 22098595--22098910 Score: 509
Period size: 49 Copynumber: 6.6 Consensus size: 49
22098585 TTAAACCCAT
22098595 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
22098644 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
22098693 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
22098742 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
22098791 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* * ** * * *
22098838 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
22098885 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
22098911 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
47 95 0.37
48 1 0.00
49 160 0.62
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:22103304 original size:40 final size:40
Alignment explanation
Indices: 22103249--22103498 Score: 446
Period size: 40 Copynumber: 6.2 Consensus size: 40
22103239 NNNNNNNNNN
*
22103249 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
*
22103289 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
22103329 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
*
22103369 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
*
22103409 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
* *
22103449 CCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
22103489 CCGAAGAGCA
1 CCGAAGAGCA
22103499 ATCATGCTGG
Statistics
Matches: 203, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 203 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
Found at i:22106404 original size:492 final size:491
Alignment explanation
Indices: 22105423--22106405 Score: 1921
Period size: 491 Copynumber: 2.0 Consensus size: 491
22105413 CGAACTTGTT
22105423 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAGCTCGTTGAGTTGAGTCTGAGTTTGC
1 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAGCTCGTTGAGTTGAGTCTGAGTTTGC
22105488 TTTTGGGTGGGTTACATGGTAGCTTGGCTACATAATTTCCACAGGCTATTGAGTTTGTCTAGCTG
66 TTTTGGGTGGGTTACATGGTAGCTTGGCTACATAATTTCCACAGGCTATTGAGTTTGTCTAGCTG
22105553 CGAGTATGGAACTTATATGCATGCAATCCGTGTATCCAAATTATATTCCGATGTGCTCAACGGGT
131 CGAGTATGGAACTTATATGCATGCAATCCGTGTATCCAAATTATATTCCGATGTGCTCAACGGGT
*
22105618 GAATCTTAAGTGAATAAGGAGAACACTTAAGACAAAGGTGACATGTTGGAAAGTTGGTGAATGAG
196 GAATCTTAAGTGAAAAAGGAGAACACTTAAGACAAAGGTGACATGTTGGAAAGTTGGTGAATGAG
22105683 AAAATTTGGACAGGTATGCGCTTAAACCCTCGGGTTGAGAACTTGGTATGATAAAATCGTGGTAA
261 AAAATTTGGACAGGTATGCGCTTAAACCCTCGGGTTGAGAACTTGGTATGATAAAATCGTGGTAA
22105748 GATAGTAAATGCAAGTGTAACATGAATGTCTTGGTGATATTTATGCAAATGACATTTTATGTTGG
326 GATAGTAAATGCAAGTGTAACATGAATGTCTTGGTGATATTTATGCAAATGACATTTTATGTTGG
22105813 ATTGTATGCTTATGTTACTTGCTATTTGCATGTGAACTTACTAAGCACTTATGCTTACTCCCTCC
391 ATTGTATGCTTATGTTACTTGCTATTTGCATGTGAACTTACTAAGCACTTATGCTTACTCCCTCC
22105878 TTTCCATTCTTTGTAGTTTTGATAAGCCAGCTCGGA
456 TTTCCATTCTTTGTAGTTTTGATAAGCCAGCTCGGA
22105914 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAGCTCGTTGAGTTGAGTCTGAGTTTGC
1 GAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAGCTCGTTGAGTTGAGTCTGAGTTTGC
22105979 TTTTGGGTGGGTTACATGGTAGCTTGGCTACATAATTTCCACAGGCTATTGAGTTTGTCTAGCTG
66 TTTTGGGTGGGTTACATGGTAGCTTGGCTACATAATTTCCACAGGCTATTGAGTTTGTCTAGCTG
22106044 CGAGTATGGAACTTATATGCATGCAATCCGTGTATCCAAATTATATTCCGATGTGCTCAACGGGT
131 CGAGTATGGAACTTATATGCATGCAATCCGTGTATCCAAATTATATTCCGATGTGCTCAACGGGT
* * *
22106109 GAATCTTAAGTGAAAAAGGAGAATACTTAAGACGAAGGTGACATGTTGGTAAGTGTGGTGAATGA
196 GAATCTTAAGTGAAAAAGGAGAACACTTAAGACAAAGGTGACATGTTGGAAAGT-TGGTGAATGA
22106174 GAAAATTTGGACAGGTATGCGCTTAAACCCTCGGGTTGAGAACTTGGTATGATAAAATCGTGGTA
260 GAAAATTTGGACAGGTATGCGCTTAAACCCTCGGGTTGAGAACTTGGTATGATAAAATCGTGGTA
22106239 AGATAGTAAATGCAAGTGTAACATGAATGTCTTGGTGATATTTATGCAAATGACATTTTATGTTG
325 AGATAGTAAATGCAAGTGTAACATGAATGTCTTGGTGATATTTATGCAAATGACATTTTATGTTG
22106304 GATTGTATGCTTATGTTACTTGCTATTTGCATGTGAACTTACTAAGCACTTATGCTTACTCCCTC
390 GATTGTATGCTTATGTTACTTGCTATTTGCATGTGAACTTACTAAGCACTTATGCTTACTCCCTC
22106369 CTTTCCATTCTTTGTAGTTTTGATAAGCCAGCTCGGA
455 CTTTCCATTCTTTGTAGTTTTGATAAGCCAGCTCGGA
22106406 AATTGGGAAC
Statistics
Matches: 487, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
491 245 0.50
492 242 0.50
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (491 bp):
GAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAGCTCGTTGAGTTGAGTCTGAGTTTGC
TTTTGGGTGGGTTACATGGTAGCTTGGCTACATAATTTCCACAGGCTATTGAGTTTGTCTAGCTG
CGAGTATGGAACTTATATGCATGCAATCCGTGTATCCAAATTATATTCCGATGTGCTCAACGGGT
GAATCTTAAGTGAAAAAGGAGAACACTTAAGACAAAGGTGACATGTTGGAAAGTTGGTGAATGAG
AAAATTTGGACAGGTATGCGCTTAAACCCTCGGGTTGAGAACTTGGTATGATAAAATCGTGGTAA
GATAGTAAATGCAAGTGTAACATGAATGTCTTGGTGATATTTATGCAAATGACATTTTATGTTGG
ATTGTATGCTTATGTTACTTGCTATTTGCATGTGAACTTACTAAGCACTTATGCTTACTCCCTCC
TTTCCATTCTTTGTAGTTTTGATAAGCCAGCTCGGA
Found at i:22112351 original size:44 final size:46
Alignment explanation
Indices: 22112236--22112351 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 46
22112226 GAGTGCCAAA
*
22112236 GTAAGACATTTCTGGGACATGCATCGGACTCAACAGAGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGACT-AACAGAGATAGCCAGT
* * * * * * *
22112283 GTAAGACGTGTTTGGAACACGCATCGG-CT-A-AGAGTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGACTAACAGAGAT-AGCCAGT
22112327 GTAAGACATGTCTGGGACATGCATC
1 GTAAGACATGTCTGGGACATGCATC
22112352 AGCATGCATA
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
43 5 0.09
44 27 0.48
46 2 0.04
47 22 0.39
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGACTAACAGAGATAGCCAGT
Found at i:22129941 original size:47 final size:43
Alignment explanation
Indices: 22129843--22130001 Score: 115
Period size: 47 Copynumber: 3.5 Consensus size: 43
22129833 TACGCCAGTA
* **
22129843 TAAGACCATGTCTGGGACATAGCATCGGC-ACAGAGATGAGTGCCAAAG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCTA-AGAG-T-AGT-CTAGTG
*
22129891 TAAGACATGTCTGGGACATTCATCGGCCTCAATAGAGATAGT-TAGTG
1 TAAGACATGTCTGGGACATGCATCGG-CT--A-AGAG-TAGTCTAGTG
* * * *
22129938 TAAGACGTGTCTAGGACACGCATCGGCTAAGAGTTGTGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTAAGAGTAGT-CTAGTG
*
22129982 TAATACATGTCTGGGACATG
1 TAAGACATGTCTGGGACATG
22130002 TACCAGCACG
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 22 0.24
46 8 0.09
47 39 0.43
48 5 0.05
49 3 0.03
50 7 0.08
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (43 bp):
TAAGACATGTCTGGGACATGCATCGGCTAAGAGTAGTCTAGTG
Found at i:22132597 original size:120 final size:120
Alignment explanation
Indices: 22132365--22132623 Score: 319
Period size: 120 Copynumber: 2.2 Consensus size: 120
22132355 TTGAATGATG
* *
22132365 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGACCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATTT
* **
22132430 GTGCGAGTTACTAAATCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * ** *
22132485 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATT
* * *
22132549 TGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
65 TGTGCGAGTTACTA-AATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAA
* *
22132605 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22132624 TACGTGATTT
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
119 16 0.13
120 95 0.79
121 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:22132604 original size:40 final size:40
Alignment explanation
Indices: 22132365--22132590 Score: 321
Period size: 40 Copynumber: 5.7 Consensus size: 40
22132355 TTGAATGATG
* * * * *
22132365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
22132405 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22132445 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
22132485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
22132525 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
22132566 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
22132591 AACGAGTAGC
Statistics
Matches: 172, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
40 163 0.95
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22135848 original size:40 final size:40
Alignment explanation
Indices: 22135801--22135950 Score: 241
Period size: 40 Copynumber: 3.8 Consensus size: 40
22135791 CCGCAAGCAC
* * *
22135801 AATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACG-
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG--CGT
22135842 AA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGT
22135881 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGT
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGT
22135921 AATTGCCTTCGGGTCTTAGCCCGGATATAT
1 AATTGCCTTCGGGTCTTAGCCCGGATATAT
22135951 TCCAATGCTC
Statistics
Matches: 104, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 98 0.94
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGT
Found at i:22145992 original size:12 final size:12
Alignment explanation
Indices: 22145975--22146002 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22145965 ATATTAACTA
22145975 ATTTAAATGCAT
1 ATTTAAATGCAT
22145987 ATTTAAATGCAT
1 ATTTAAATGCAT
22145999 ATTT
1 ATTT
22146003 GTTACTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (12 bp):
ATTTAAATGCAT
Found at i:22146111 original size:13 final size:13
Alignment explanation
Indices: 22146093--22146145 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
22146083 TTTAAACTAA
*
22146093 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
* *
22146106 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
22146119 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
22146132 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
22146145 A
1 A
22146146 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:22148297 original size:42 final size:44
Alignment explanation
Indices: 22148203--22148297 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 44
22148193 CAATGCCAAC
*
22148203 GTCCCAGAC-GTGATCTTACATGCAATCAAATATCCATGCCATT
1 GTCCCAGACAGTGATCTTACATGAAATCAAATATCCATGCCATT
* *
22148246 GTCCCAGACAG-GGTCTTACATGAAATCAAATA-CGATGCCGA-T
1 GTCCCAGACAGTGATCTTACATGAAATCAAATATCCATGCC-ATT
22148288 GTCCCAGACA
1 GTCCCAGACA
22148298 TAGTCTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
42 17 0.36
43 29 0.62
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
GTCCCAGACAGTGATCTTACATGAAATCAAATATCCATGCCATT
Found at i:22148315 original size:43 final size:43
Alignment explanation
Indices: 22148203--22148315 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 43
22148193 CAATGCCAAC
* * *
22148203 GTCCCAGAC-GTGATCTTACATGCAATCAAATATCCATGCCATT
1 GTCCCAGACAGAG-TCTTACACGAAATCAAATATCCATGCCATT
* * *
22148246 GTCCCAGACAGGGTCTTACATGAAATCAAATA-CGATGCCGA-T
1 GTCCCAGACAGAGTCTTACACGAAATCAAATATCCATGCC-ATT
* *
22148288 GTCCCAGACATAGTCTTATACGTAAATC
1 GTCCCAGACAGAGTCTTACACG-AAATC
22148316 TTAAATCGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.42
43 33 0.55
44 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAGAGTCTTACACGAAATCAAATATCCATGCCATT
Found at i:22149660 original size:25 final size:25
Alignment explanation
Indices: 22149630--22149680 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
22149620 ACATTTTACC
22149630 ACACATTTTACAACCTTTTACAATT
1 ACACATTTTACAACCTTTTACAATT
22149655 ACACATTTTACAACCTTTTACAATT
1 ACACATTTTACAACCTTTTACAATT
22149680 A
1 A
22149681 GGTCCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (25 bp):
ACACATTTTACAACCTTTTACAATT
Found at i:22152447 original size:40 final size:39
Alignment explanation
Indices: 22152350--22152527 Score: 124
Period size: 40 Copynumber: 4.5 Consensus size: 39
22152340 TTGAATGCTG
* * * ** * *
22152350 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATA
1 TCCGGGTTAAGTCCCGAAGCCTTTGTGC-GAGTTACTAAA
** *
22152390 TCCGGACTAAGAT-CCGAAGACCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAG-CCTTTGTGCGAGTTACTAAA
* * **
22152430 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAA-GCCTTTGTGCGAGTTACTAAA
* * * *
22152470 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGCCTTTGTGCGAGTTACTAAA
* * *
22152509 ACCGGGCTATGTCCCGAAG
1 TCCGGGTTAAGTCCCGAAG
22152528 GCATTTGAAC
Statistics
Matches: 109, Mismatches: 25, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
39 31 0.28
40 68 0.62
41 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGCCTTTGTGCGAGTTACTAAA
Found at i:22152514 original size:39 final size:39
Alignment explanation
Indices: 22152413--22152532 Score: 159
Period size: 39 Copynumber: 3.1 Consensus size: 39
22152403 CCGAAGACCT
*
22152413 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA
1 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
** *
22152452 TTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCA
1 TT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
* * * *
22152492 TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
22152531 TT
1 TT
22152533 TGAACGAGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
39 35 0.50
40 35 0.50
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
Found at i:22152552 original size:79 final size:78
Alignment explanation
Indices: 22152413--22152567 Score: 175
Period size: 79 Copynumber: 2.0 Consensus size: 78
22152403 CCGAAGACCT
* * ** ** *
22152413 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTT
1 TTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCC-GGTT
**
22152478 ACGTCCCGAAGGCA
65 AAATCCCGAAGGCA
* * * * *
22152492 TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTA
1 TTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGTTA
22152557 AATCCCGAAGG
66 AATCCCGAAGG
22152568 TACGTGATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
78 14 0.23
79 48 0.77
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGTTA
AATCCCGAAGGCA
Found at i:22160383 original size:40 final size:39
Alignment explanation
Indices: 22160352--22160561 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
22160342 GGACTAAGAT
* *
22160352 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
22160392 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
22160432 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
22160472 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
22160512 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
22160551 CCGAAGGCATT
1 CCGAAGGCATT
22160562 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:22160515 original size:120 final size:120
Alignment explanation
Indices: 22160299--22160561 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
22160289 TTGAATGCTG
* *
22160299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
22160363 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
22160419 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
22160482 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
22160538 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
22160562 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:22160581 original size:79 final size:80
Alignment explanation
Indices: 22160300--22160596 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
22160290 TGAATGCTGT
* ** * * * **
22160300 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
22160363 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
22160380 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
22160444 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
22160460 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
22160524 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
22160539 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
22160597 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:22169368 original size:3 final size:3
Alignment explanation
Indices: 22169360--22169385 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22169350 GGCATTAAAA
22169360 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22169386 AGACTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22170842 original size:28 final size:28
Alignment explanation
Indices: 22170810--22170878 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
22170800 GTGGTTGTAC
*
22170810 ATATATTATATATATGCATGGCTTTCTT
1 ATATATTATATATATGCATGGCTTTATT
* * * *
22170838 TTATATAATATAGATGCATGGTTTTATT
1 ATATATTATATATATGCATGGCTTTATT
*
22170866 ATATAGTATATAT
1 ATATATTATATAT
22170879 TAATGGATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (28 bp):
ATATATTATATATATGCATGGCTTTATT
Found at i:22170904 original size:5 final size:5
Alignment explanation
Indices: 22170894--22170924 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
22170884 GATTTTGGTG
22170894 TAATA TAATA TAATA TAATA TAATA T-ATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TA
22170925 GTTATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:22171343 original size:36 final size:36
Alignment explanation
Indices: 22171302--22171372 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
22171292 TTGTGAACCA
*
22171302 TGTTAACTTGGTGAATTATATTATTATGGCGAACTG
1 TGTTAACTTGGTGAATTATATTATTATGGCAAACTG
*
22171338 TGTTAATTTGGTGAATTATATTATTATGGCAAACT
1 TGTTAACTTGGTGAATTATATTATTATGGCAAACT
22171373 AAATTACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (36 bp):
TGTTAACTTGGTGAATTATATTATTATGGCAAACTG
Found at i:22173798 original size:20 final size:20
Alignment explanation
Indices: 22173766--22173803 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22173756 TAATATTTAG
22173766 TTTAAGCAATTAA-ATGTGT
1 TTTAAGCAATTAACATGTGT
22173785 TTTAAGCTAATTAACATGT
1 TTTAAGC-AATTAACATGT
22173804 CTAAGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (20 bp):
TTTAAGCAATTAACATGTGT
Found at i:22190613 original size:30 final size:32
Alignment explanation
Indices: 22190550--22190613 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 32
22190540 AAAATGTCCA
* **
22190550 TTTTTTAAATATCTATGGGATTAGGTTGTTTT
1 TTTTTTAAATATCTATGGGATTAAGTTAATTT
*
22190582 TTTTTTAAAT-T-TGTGGGATTAAGTTAATTT
1 TTTTTTAAATATCTATGGGATTAAGTTAATTT
22190612 TT
1 TT
22190614 GAAAACGCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 17 0.61
31 1 0.04
32 10 0.36
ACGTcount: A:0.23, C:0.02, G:0.17, T:0.58
Consensus pattern (32 bp):
TTTTTTAAATATCTATGGGATTAAGTTAATTT
Found at i:22199919 original size:19 final size:19
Alignment explanation
Indices: 22199881--22199919 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22199871 CATGCTTGAA
* *
22199881 TGCATACTTGTTGTAGATT
1 TGCATACTTGTCGTAAATT
22199900 TGCATACTTGTCGTAAATT
1 TGCATACTTGTCGTAAATT
22199919 T
1 T
22199920 CCAAAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (19 bp):
TGCATACTTGTCGTAAATT
Found at i:22200163 original size:46 final size:46
Alignment explanation
Indices: 22200111--22200203 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
22200101 CTTTGGAAAG
22200111 CCCCCAAAAGAAAAGGTGGAAGGATATTAAACAACACATCACATTT
1 CCCCCAAAAGAAAAGGTGGAAGGATATTAAACAACACATCACATTT
* *
22200157 CCCCCAAAAGAAAAGGTGGAAGGATATTCAATAACACATCACATTT
1 CCCCCAAAAGAAAAGGTGGAAGGATATTAAACAACACATCACATTT
22200203 C
1 C
22200204 TTAATAGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (46 bp):
CCCCCAAAAGAAAAGGTGGAAGGATATTAAACAACACATCACATTT
Found at i:22203713 original size:44 final size:43
Alignment explanation
Indices: 22203641--22203799 Score: 162
Period size: 42 Copynumber: 3.7 Consensus size: 43
22203631 GGTATTGATC
* * * * *
22203641 TGAATTATCGTGTAAGACCGTGTTTGGGACACAGGCATCGATT
1 TGAATTTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATA
*
22203684 TGAATTTTACGTGTAAAACCATGTCTGGGACAGAGGCATCGTATA
1 TGAATTTT-CGTGTAAGACCATGTCTGGGACAGAGGCATCG-ATA
* * *
22203729 TG--TTTTCGTATAAGACCCTGTCTGGGATAGAGGCATCGATA
1 TGAATTTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATA
* * *
22203770 CTGAA-TTACATGTAAGACCACGTCTGGGAC
1 -TGAATTTTCGTGTAAGACCATGTCTGGGAC
22203800 GTCAGCATTG
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.03
42 30 0.32
43 30 0.32
44 28 0.29
45 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
TGAATTTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATA
Found at i:22205598 original size:46 final size:46
Alignment explanation
Indices: 22205542--22205717 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
22205532 TATTTGGGCA
*
22205542 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
22205588 TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
22205633 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22205681 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22205718 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22205709 original size:93 final size:93
Alignment explanation
Indices: 22205538--22205709 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
22205528 GGGATATTTG
* * * * *
22205538 GGCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
**
22205603 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* *
22205631 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
22205696 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
22205710 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:22208691 original size:15 final size:15
Alignment explanation
Indices: 22208671--22208735 Score: 82
Period size: 15 Copynumber: 4.4 Consensus size: 15
22208661 GTATCTTGGG
22208671 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
22208686 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
22208701 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
22208716 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
22208730 TTTCTT
1 TTTCTT
22208736 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
14 12 0.27
15 29 0.64
16 4 0.09
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22209523 original size:53 final size:53
Alignment explanation
Indices: 22209446--22209550 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
22209436 CTAAAATCTG
*
22209446 ATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTTCTCATGAAAA
1 ATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAAA
22209499 ATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAA
1 ATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAA
22209551 GCAGACTCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.43
Consensus pattern (53 bp):
ATTATCTCTTAATATACTGCCCATATGATCTTTTCGTTACTTCCTCATGAAAA
Found at i:22210397 original size:27 final size:27
Alignment explanation
Indices: 22210367--22210544 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
22210357 ATATTGAGCC
* *
22210367 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
22210394 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
22210421 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
22210449 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
22210476 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
22210503 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
22210530 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22210545 GAACAAGCAC
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.80
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:22210506 original size:82 final size:81
Alignment explanation
Indices: 22210388--22210543 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
22210378 TGCTATATAA
* * * *
22210388 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAG-TAGAATCGCA
22210453 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
22210470 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCA
22210534 CACTTAGTGC
65 CACTTAGTGC
22210544 TGAACAAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 20 0.31
82 44 0.69
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22212595 original size:201 final size:201
Alignment explanation
Indices: 22212226--22212627 Score: 628
Period size: 201 Copynumber: 2.0 Consensus size: 201
22212216 TTGTGGTCCC
* *
22212226 GAAACCACTTCCCGACTAGGGTAAATTTTGGGCTGTCACAACTCTCCCTCACTTAAGAAATTTTC
1 GAAACCACTTCCCGACTAGGGTAAATTTAGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTC
* *
22212291 GTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATTGTTCTTTCATCGAGCTCTCGGGTTCCC
66 GTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGGTTCCC
* * * *
22212356 AGGTTGCTTCCTCGATCCCGTGTTTAAGCCACAACACCTTAACCAACGGAACCCTTTTGTTTCAC
131 AAGTAGCTTCCTCAATCCCATGTTTAAGCCACAACACCTTAACCAACGGAACCCTTTTGTTTCAC
22212421 AACTCT
196 AACTCT
*
22212427 GAAACCACATT-CCGACTAGGGTCGAA-TTAGGGCTGTCACAACTCTCCCCCACTTAAGAAATTT
1 GAAACCAC-TTCCCGACTAGGGT-AAATTTAGGGCTGTCACAACTCTCCCCCACTTAAGAAATTT
* *
22212490 TCGTCCCCGAAATTCTTACCGGTAAATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGTTTC
64 TCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGGTTC
* * * * *
22212555 CCAAGTAGCTTTCTCAATCCCATGTTTGAGCCATAACACCTTCACTAACGGAACCCTTTTGTTTC
129 CCAAGTAGCTTCCTCAATCCCATGTTTAAGCCACAACACCTTAACCAACGGAACCCTTTTGTTTC
22212620 ACAACTCT
194 ACAACTCT
22212628 TTCACCTCAC
Statistics
Matches: 183, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
201 179 0.98
202 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (201 bp):
GAAACCACTTCCCGACTAGGGTAAATTTAGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTC
GTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTTTCATCGAGCTCTCAGGTTCCC
AAGTAGCTTCCTCAATCCCATGTTTAAGCCACAACACCTTAACCAACGGAACCCTTTTGTTTCAC
AACTCT
Found at i:22212961 original size:103 final size:103
Alignment explanation
Indices: 22212782--22212986 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 103
22212772 TCAAGCTCAG
*
22212782 GGGGCAAAATCAATCTATACGCAACTGGCCCCACTCGTTCGGAGATTTCGTACGGCCCAATGAAT
1 GGGGCAAAATCAATCTATACGCAACTGGCCCCACTCGTTCAGAGATTTCGTACGGCCCAATGAAT
22212847 CTCGGGCTCAACTTGCCCTTACGGCCAAACCTAAGTAC
66 CTCGGGCTCAACTTGCCCTTACGGCCAAACCTAAGTAC
22212885 GGGGCAAAATCAATCTATACGCAACTGGCCCCACTCGTTCAGAGATTTCGTACGGCCCAATGAAT
1 GGGGCAAAATCAATCTATACGCAACTGGCCCCACTCGTTCAGAGATTTCGTACGGCCCAATGAAT
22212950 CTCGGGCTCAACTTGCCCTTACGGCCAAACCTAAGTA
66 CTCGGGCTCAACTTGCCCTTACGGCCAAACCTAAGTA
22212987 TCTTTTTCCA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (103 bp):
GGGGCAAAATCAATCTATACGCAACTGGCCCCACTCGTTCAGAGATTTCGTACGGCCCAATGAAT
CTCGGGCTCAACTTGCCCTTACGGCCAAACCTAAGTAC
Found at i:22220161 original size:13 final size:13
Alignment explanation
Indices: 22220143--22220167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22220133 AATAGTTGTG
22220143 TGTTATTTAATTA
1 TGTTATTTAATTA
22220156 TGTTATTTAATT
1 TGTTATTTAATT
22220168 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:22222002 original size:12 final size:12
Alignment explanation
Indices: 22221947--22222009 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
22221937 GTTCCTTTTG
*
22221947 TTTCAATTTCTT
1 TTTCATTTTCTT
*
22221959 TTTCATCTTCTT
1 TTTCATTTTCTT
* * **
22221971 TTTCACTCTCAA
1 TTTCATTTTCTT
*
22221983 TCTCATTTTCTT
1 TTTCATTTTCTT
*
22221995 TTTCATTTCCTT
1 TTTCATTTTCTT
22222007 TTT
1 TTT
22222010 TTTCCAAACT
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:22222112 original size:5 final size:5
Alignment explanation
Indices: 22222099--22222142 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
22222089 CTTTTTTTTA
22222099 TTTCAT TTTCT TTT-T TTTCT TTTGCTT TTTCT TTTCT TTTCT TT
1 TTTC-T TTTCT TTTCT TTTCT TTT-C-T TTTCT TTTCT TTTCT TT
22222143 GTTTTCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 6 0.17
7 4 0.11
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:22222116 original size:21 final size:20
Alignment explanation
Indices: 22222088--22222143 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
22222078 CTCTTGCCGC
*
22222088 TCTTTTTTTTATTT-CATTT
1 TCTTTTTTTTTTTTGCATTT
*
22222107 TCTTTTTTTTCTTTTGCTTTT
1 TCTTTTTTTT-TTTTGCATTT
*
22222128 TCTTTTCTTTTCTTTG
1 TCTTTT-TTTTTTTTG
22222144 TTTTCTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 14 0.45
22 4 0.13
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.79
Consensus pattern (20 bp):
TCTTTTTTTTTTTTGCATTT
Found at i:22222153 original size:21 final size:21
Alignment explanation
Indices: 22222088--22222142 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
22222078 CTCTTGCCGC
* *
22222088 TCTTTTTTTT-ATTT-CATTT
1 TCTTTTTTTTCTTTTGCTTTT
22222107 TCTTTTTTTTCTTTTGCTTTT
1 TCTTTTTTTTCTTTTGCTTTT
22222128 TCTTTTCTTTTCTTT
1 TCTTTT-TTTTCTTT
22222143 GTTTTCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 10 0.32
22 8 0.26
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.80
Consensus pattern (21 bp):
TCTTTTTTTTCTTTTGCTTTT
Found at i:22240222 original size:19 final size:19
Alignment explanation
Indices: 22240198--22240237 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22240188 AGCTCCCATG
22240198 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
22240217 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
22240236 TA
1 TA
22240238 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:22243385 original size:11 final size:11
Alignment explanation
Indices: 22243369--22243418 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
22243359 TATACAAGTT
22243369 AAAAAAAATCA
1 AAAAAAAATCA
**
22243380 AAAAAAAATTG
1 AAAAAAAATCA
22243391 AAAAAAAAT-A
1 AAAAAAAATCA
*
22243401 AAAAAAAATCG
1 AAAAAAAATCA
22243412 AAAAAAA
1 AAAAAAA
22243419 GAGTGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 9 0.26
11 25 0.74
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:22243394 original size:21 final size:21
Alignment explanation
Indices: 22243369--22243418 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
22243359 TATACAAGTT
*
22243369 AAAAAAAATCAAAAAAAAATTG
1 AAAAAAAAT-AAAAAAAAATCG
22243391 AAAAAAAATAAAAAAAAATCG
1 AAAAAAAATAAAAAAAAATCG
22243412 AAAAAAA
1 AAAAAAA
22243419 GAGTGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (21 bp):
AAAAAAAATAAAAAAAAATCG
Found at i:22260822 original size:13 final size:13
Alignment explanation
Indices: 22260804--22260828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22260794 TGGTCATCAT
22260804 GGTGTGAACACAA
1 GGTGTGAACACAA
22260817 GGTGTGAACACA
1 GGTGTGAACACA
22260829 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:22261331 original size:30 final size:30
Alignment explanation
Indices: 22261233--22261333 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
22261223 AGTTTAAACT
*
22261233 AAAATGAGCTAAGCTTTAGCTCGTGAGCT-
1 AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
* * * * * * *
22261262 AAAGTTGAGCTGAGGCTAAACTCCTAAGCTG
1 AAA-ATGAGCTAAGGTTTAGCTCGTGAGCTG
** *
22261293 AAGTTGAGCTAAGGTTTAGCTCGTGAGTTG
1 AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
22261323 AAAATGAGCTA
1 AAAATGAGCTA
22261334 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
29 3 0.06
30 47 0.90
31 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (30 bp):
AAAATGAGCTAAGGTTTAGCTCGTGAGCTG
Found at i:22269579 original size:20 final size:21
Alignment explanation
Indices: 22269537--22269581 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
22269527 AGCTCCGTCC
* *
22269537 AGCTCAAATCCAGCTTATTTG
1 AGCTCAAATCCAACTTATCTG
*
22269558 AGCTC-AATCCAACTTGTCTG
1 AGCTCAAATCCAACTTATCTG
22269578 AGCT
1 AGCT
22269582 AAACCGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (21 bp):
AGCTCAAATCCAACTTATCTG
Found at i:22269693 original size:30 final size:30
Alignment explanation
Indices: 22269617--22269702 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
22269607 TTCAGCTCAC
22269617 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTTAG
* *
22269647 GAG-TATAATCTCAGCTCAACTTTAGCTTAAG
1 GAGCTA-AACCTTAGCTCAACTTTAGCTT-AG
* *
22269678 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
22269703 CAAACCCGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 10 0.21
30 33 0.69
31 5 0.10
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTTAG
Found at i:22278214 original size:170 final size:171
Alignment explanation
Indices: 22277932--22278272 Score: 648
Period size: 170 Copynumber: 2.0 Consensus size: 171
22277922 GCCGAATTTT
*
22277932 ACATGTAATGCTCCTAAAGATTTAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCC
1 ACATGTAATGCTCCTAAAGATTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCC
22277997 TTTGACATTTTGGCCTGATTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGT
66 TTTGACATTTTGGCCTGATTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGT
*
22278062 TATTGGGTCTCGCCTTCAAG-ATTTGGGCTCGTGATCCATC
131 TATTGGGCCTCGCCTTCAAGAATTTGGGCTCGTGATCCATC
*
22278102 ACATGTAATGCTCCTAAAGATTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCT
1 ACATGTAATGCTCCTAAAGATTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCC
22278167 TTTGACATTTTGGCCTGATTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGT
66 TTTGACATTTTGGCCTGATTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGT
22278232 TATTGGGCCTCGCCTTCAAGAATTTGGGCTCGTGATCCATC
131 TATTGGGCCTCGCCTTCAAGAATTTGGGCTCGTGATCCATC
22278273 TCCTACCAAA
Statistics
Matches: 167, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
170 147 0.88
171 20 0.12
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (171 bp):
ACATGTAATGCTCCTAAAGATTAAAAAATTAAATTAAACAAGTAAGATGTTTACAAATTGGGCCC
TTTGACATTTTGGCCTGATTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGT
TATTGGGCCTCGCCTTCAAGAATTTGGGCTCGTGATCCATC
Found at i:22278573 original size:126 final size:126
Alignment explanation
Indices: 22278424--22278674 Score: 484
Period size: 126 Copynumber: 2.0 Consensus size: 126
22278414 GGGCCAAGAT
*
22278424 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGC
1 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGA
22278489 ATCTAAGGCCTTGCTAACAAGCTCTTGAATGGTCCCATTTAGTTTCGACCGCATTTGTCGA
66 ATCTAAGGCCTTGCTAACAAGCTCTTGAATGGTCCCATTTAGTTTCGACCGCATTTGTCGA
22278550 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGA
1 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGA
*
22278615 ATCTAAGGCCTTGCTAACAAGCTCTTGAATGGTCCCATTTAGTTTGGACCGCATTTGTCG
66 ATCTAAGGCCTTGCTAACAAGCTCTTGAATGGTCCCATTTAGTTTCGACCGCATTTGTCG
22278675 GGCCTTTGAT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 123 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (126 bp):
TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGTATGA
ATCTAAGGCCTTGCTAACAAGCTCTTGAATGGTCCCATTTAGTTTCGACCGCATTTGTCGA
Found at i:22280755 original size:4 final size:4
Alignment explanation
Indices: 22280746--22280781 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
22280736 TTAAACTAAG
22280746 TAAA TAAA TAAA TAAA TAAA TAAA -AATA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAAA TAAA
22280782 ACTTTACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 26 0.87
5 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:22289950 original size:27 final size:27
Alignment explanation
Indices: 22289920--22290070 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
22289910 ATATTGAGTC
* *
22289920 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
22289947 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
22289974 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
22290002 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
22290029 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
22290056 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22290071 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
27 83 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:22290012 original size:55 final size:54
Alignment explanation
Indices: 22289920--22290070 Score: 169
Period size: 55 Copynumber: 2.8 Consensus size: 54
22289910 ATATTGAGTC
* * *
22289920 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
* ** ** *
22289974 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAAT
* **
22290029 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCT
22290071 GTACAATTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 37 0.45
55 45 0.55
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAAT
Found at i:22293324 original size:43 final size:43
Alignment explanation
Indices: 22293276--22293378 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
22293266 TTGGTTTTCA
22293276 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
22293319 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
22293362 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
22293379 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:22293399 original size:29 final size:29
Alignment explanation
Indices: 22293364--22293433 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
22293354 TGAGATTGGC
* *
22293364 ACTAAGTGTGCGGGCTTGAAA-TGCATGGA
1 ACTAAGTGTGCGAG-TTGAAAGTACATGGA
* *
22293393 ACTAAGTGTGCGAGTTTAAAGTACATGGC
1 ACTAAGTGTGCGAGTTGAAAGTACATGGA
22293422 ACTAAGTGTGCG
1 ACTAAGTGTGCG
22293434 TGGTTGATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (29 bp):
ACTAAGTGTGCGAGTTGAAAGTACATGGA
Found at i:22293867 original size:40 final size:40
Alignment explanation
Indices: 22293823--22294147 Score: 479
Period size: 40 Copynumber: 7.9 Consensus size: 40
22293813 GAGTTACTAA
*
22293823 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
22293863 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
22293903 ATCCGGGCTAAGTCCCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCC-GG----G---CTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
22293951 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
22293991 ATCCGGGCTAAGTCCCGAAGAGCATTCATGATAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
22294031 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
22294071 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
22294111 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
22294148 CGTGTATTCG
Statistics
Matches: 263, Mismatches: 14, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
40 220 0.84
41 2 0.01
43 1 0.00
45 1 0.00
47 2 0.01
48 37 0.14
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:22297159 original size:27 final size:27
Alignment explanation
Indices: 22297128--22297305 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22297118 TAAATTGTAC
22297128 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22297155 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22297181 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22297209 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22297237 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22297264 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22297291 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22297306 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22297242 original size:82 final size:81
Alignment explanation
Indices: 22297129--22297284 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
22297119 AAATTGTACA
*
22297129 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
22297193 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22297210 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
22297275 TGCGAGTTGA
65 TGCGAATTGA
22297285 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22297296 original size:82 final size:81
Alignment explanation
Indices: 22297125--22297305 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
22297115 GATTAAATTG
*
22297125 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
22297190 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22297206 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
22297270 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22297288 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22297306 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22306843 original size:21 final size:21
Alignment explanation
Indices: 22306814--22306869 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
22306804 ATTAACACAT
22306814 AATAATAATGATAATAATAAC
1 AATAATAATGATAATAATAAC
* *
22306835 AATATTAATGATATTAATAATTC
1 AATAATAATGATAATAATAA--C
*
22306858 AAAAATAATGAT
1 AATAATAATGAT
22306870 GATATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.62
23 11 0.38
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (21 bp):
AATAATAATGATAATAATAAC
Found at i:22313690 original size:43 final size:43
Alignment explanation
Indices: 22313644--22313798 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 43
22313634 TATCAAGATG
* * *
22313644 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATATTG
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATCATATTA
* * * *
22313687 TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATATCTGGGACATTGGCATCATATTA
* *
22313730 TGATTTCATGTAAGACTC-TATCTGGGACAGTGGCATCGATA-TA
1 TGATTACATGTAAGAC-CATATCTGGGACATTGGCATC-ATATTA
*
22313773 TGATAACATGTAAGA-CATATCTGGGA
1 TGATTACATGTAAGACCATATCTGGGA
22313799 TATAGCATTG
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 83 0.86
44 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATCTGGGACATTGGCATCATATTA
Found at i:22318985 original size:50 final size:50
Alignment explanation
Indices: 22318770--22318985 Score: 256
Period size: 50 Copynumber: 4.3 Consensus size: 50
22318760 GCTAAATGAC
* * * * *
22318770 CTTGAATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTGGAT
1 CTTGTATATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGAT
** * *
22318820 CTTGTATATTCGGATATAAAGGTATGCACAAATGTGATATTATATTTGGAT
1 CTTGTATATTCGGCCATATAGGTATGCACATATGTGATATTATATTT-GAT
* * *
22318871 -TTGTATATTCAGCCATATAAGTAAGCACATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGAT
* * * *
22318920 CTTGCATATTTGGCCATATAGGTATGCATATATGTGGTATTATAATTT-AT
1 CTTGTATATTCGGCCATATAGGTATGCACATATGTGATATTAT-ATTTGAT
22318970 CTTGTATATTCGGCCA
1 CTTGTATATTCGGCCA
22318986 AATGAATGAT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
49 3 0.02
50 128 0.93
51 7 0.05
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGAT
Found at i:22324586 original size:22 final size:22
Alignment explanation
Indices: 22324558--22324600 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22324548 TGAGTTATTA
*
22324558 GGACTAAATTGCAAAAAAAATT
1 GGACTAAAATGCAAAAAAAATT
*
22324580 GGACTAAAATGCAAAATAAAT
1 GGACTAAAATGCAAAAAAAAT
22324601 GAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
GGACTAAAATGCAAAAAAAATT
Found at i:22325552 original size:50 final size:50
Alignment explanation
Indices: 22325406--22325552 Score: 181
Period size: 50 Copynumber: 2.9 Consensus size: 50
22325396 ATTGGATCAA
* * * *
22325406 AGGTATGCACAAATGTGACATTATATTTGAAT-TTGTATATTCA-ACCATAT
1 AGGTATGCACATATGTGATATTATATTTG-ATCTTGTATATT-AGGCCACAT
* * * *
22325456 AAGTAAGCACATATGTGATATTATATTTGATCTTGCATATTTGGCCACAT
1 AGGTATGCACATATGTGATATTATATTTGATCTTGTATATTAGGCCACAT
*
22325506 AGGTATGCATATATGTGATATTATATTTGATCTTGTATATTAGGCCA
1 AGGTATGCACATATGTGATATTATATTTGATCTTGTATATTAGGCCA
22325553 AATGAATGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 80 0.98
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (50 bp):
AGGTATGCACATATGTGATATTATATTTGATCTTGTATATTAGGCCACAT
Found at i:22329753 original size:28 final size:28
Alignment explanation
Indices: 22329690--22329895 Score: 281
Period size: 28 Copynumber: 7.4 Consensus size: 28
22329680 ATAATAAGTC
* *
22329690 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22329717 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22329745 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22329773 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22329801 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
22329829 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
22329856 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
22329885 CGCACACTTAG
1 CGCACACTTAG
22329896 CGCCAATCTC
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
27 43 0.26
28 108 0.66
29 13 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:22332576 original size:29 final size:28
Alignment explanation
Indices: 22332505--22332656 Score: 180
Period size: 29 Copynumber: 5.4 Consensus size: 28
22332495 ACCCCTACAT
* * *
22332505 ACATGCATATGGCCCATAAGGTCCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* *
22332533 ACATTTATATGGCCCATCCGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAA-TC
*
22332562 GCATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAA-TC
*
22332591 ACATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATCAGGCCCAATC
* * *
22332619 TCATTTATATGGCCCATCCGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCC-AATC
22332648 ACA-TCATAT
1 ACATTCATAT
22332657 TCATGCTCAC
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
28 48 0.45
29 58 0.55
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCAATC
Found at i:22332588 original size:57 final size:56
Alignment explanation
Indices: 22332510--22332656 Score: 188
Period size: 57 Copynumber: 2.6 Consensus size: 56
22332500 TACATACATG
* * * *
22332510 CATATGGCCCATAAGGTCCAATCACATTTATATGGCCCATCCGGCCCAATTCGCATT
1 CATATGGCCCATCAGGCCCAATCACATTCATATGGCCCATCAGGCCCAA-TCGCATT
* *
22332567 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATCAGGCCCAA-TCACATTCATATGGCCCATCAGGCCCAATCGCATT
* *
22332624 TATATGGCCCATCCGGCCCAAATCACA-TCATAT
1 CATATGGCCCATCAGGCCC-AATCACATTCATAT
22332657 TCATGCTCAC
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
56 6 0.08
57 47 0.59
58 27 0.34
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (56 bp):
CATATGGCCCATCAGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCGCATT
Found at i:22339453 original size:29 final size:28
Alignment explanation
Indices: 22339379--22339505 Score: 157
Period size: 29 Copynumber: 4.5 Consensus size: 28
22339369 TACATACATG
22339379 CATATGGCCCA-CTAGGCCCAATCTCATT
1 CATATGGCCCATC-AGGCCCAATCTCATT
* * *
22339407 TATATGGCCCATCCGGCCCAATTCGCATT
1 CATATGGCCCATCAGGCCCAA-TCTCATT
* *
22339436 CATATGGCCAATCAGGCCCAATTTACATT
1 CATATGGCCCATCAGGCCCAATCT-CATT
*
22339465 CATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATCAGGCCCAATCTCATT
*
22339493 TATATGGCCCATC
1 CATATGGCCCATC
22339506 CAGTCCAAAT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
28 33 0.40
29 50 0.60
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATCTCATT
Found at i:22339453 original size:57 final size:57
Alignment explanation
Indices: 22339379--22339501 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 57
22339369 TACATACATG
* * *
22339379 CATATGGCCCACTAGGCCCAATCT-CATTTATATGGCCCATCCGGCCCAATTCGCATT
1 CATATGGCCAACTAGGCCCAATCTACATTCATATGGCCCATCAGGCCCAA-TCGCATT
* * *
22339436 CATATGGCCAA-TCAGGCCCAATTTACATTCATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCAACT-AGGCCCAATCTACATTCATATGGCCCATCAGGCCCAATCGCATT
*
22339493 TATATGGCC
1 CATATGGCC
22339502 CATCCAGTCC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 1 0.02
57 34 0.60
58 22 0.39
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (57 bp):
CATATGGCCAACTAGGCCCAATCTACATTCATATGGCCCATCAGGCCCAATCGCATT
Found at i:22339523 original size:28 final size:28
Alignment explanation
Indices: 22339380--22339525 Score: 95
Period size: 29 Copynumber: 5.1 Consensus size: 28
22339370 ACATACATGC
* *
22339380 ATATGGCCCA-CTAGGCCC-AATCTCATTT
1 ATATGGCCCATCCA-GCCCAAATCACA-TT
* * *
22339408 ATATGGCCCATCCGGCCCAATTCGCATT
1 ATATGGCCCATCCAGCCCAAATCACATT
* * *
22339436 CATATGGCCAAT-CAGGCCCAATTTACATT
1 -ATATGGCCCATCCA-GCCCAAATCACATT
* *
22339465 CATATGGCCCAT-TAGGCCC-AATCTCATTT
1 -ATATGGCCCATCCA-GCCCAAATCACA-TT
*
22339494 ATATGGCCCATCCAGTCCAAATCACATT
1 ATATGGCCCATCCAGCCCAAATCACATT
22339522 ATAT
1 ATAT
22339526 TCATGCTCAC
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
28 41 0.43
29 54 0.57
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATCCAGCCCAAATCACATT
Found at i:22339607 original size:17 final size:18
Alignment explanation
Indices: 22339585--22339618 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22339575 TGCCTAATAT
22339585 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
22339602 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
22339619 TTTGACCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:22347546 original size:29 final size:29
Alignment explanation
Indices: 22347483--22347550 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
22347473 TAATCAACCG
*
22347483 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
22347512 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
22347541 CGCACACTTA
1 CGCACACTTA
22347551 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:22347663 original size:174 final size:174
Alignment explanation
Indices: 22347372--22347699 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
22347362 AACTCAAGGT
* *
22347372 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
22347437 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
22347502 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
22347546 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
22347611 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
22347676 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
22347700 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:22347691 original size:29 final size:30
Alignment explanation
Indices: 22347652--22347730 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
22347642 CTTAATAATC
22347652 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
22347682 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
22347711 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
22347731 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:22354876 original size:29 final size:29
Alignment explanation
Indices: 22354813--22354880 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
22354803 TAATCAACCG
22354813 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
22354842 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
22354871 CGCACACTTA
1 CGCACACTTA
22354881 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:22354992 original size:174 final size:174
Alignment explanation
Indices: 22354702--22355029 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
22354692 AACTCAAGGT
* *
22354702 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
22354767 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
22354832 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
22354876 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
22354941 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
22355006 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
22355030 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:22355021 original size:29 final size:30
Alignment explanation
Indices: 22354982--22355060 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
22354972 CTTAATAATC
22354982 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
22355012 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
22355041 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
22355061 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:22358615 original size:47 final size:47
Alignment explanation
Indices: 22358546--22358636 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
22358536 CTGAATCAAA
22358546 GATTGAATCTGTACCTATTGTTTGTGAGTTTTCAGATGTATTTCCAT
1 GATTGAATCTGTACCTATTGTTTGTGAGTTTTCAGATGTATTTCCAT
*
22358593 GATTGAATCTGTACCTATTGTTTGTGAGTTTTCAGATTTATTTC
1 GATTGAATCTGTACCTATTGTTTGTGAGTTTTCAGATGTATTTC
22358637 TAGAAGAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (47 bp):
GATTGAATCTGTACCTATTGTTTGTGAGTTTTCAGATGTATTTCCAT
Found at i:22361820 original size:23 final size:24
Alignment explanation
Indices: 22361745--22361828 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
22361735 CAGCTCGTAT
* * *
22361745 GAGCTTACTGATATATCAGCTCGTAA
1 GAGCTTACTG-T-TCTCAGCTCATCA
* * *
22361771 AAGCTTACTGTTCTTAGCTCGTCA
1 GAGCTTACTGTTCTCAGCTCATCA
22361795 GAGCTTACTGTT-TCAGCTCAAT-A
1 GAGCTTACTGTTCTCAGCTC-ATCA
22361818 GAGCTTACTGT
1 GAGCTTACTGT
22361829 CCATCAACTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 18 0.36
24 22 0.44
25 1 0.02
26 9 0.18
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCTTACTGTTCTCAGCTCATCA
Found at i:22362020 original size:19 final size:19
Alignment explanation
Indices: 22361996--22362048 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
22361986 AAAATCTATG
*
22361996 TGTTATACGGATGAATTAT
1 TGTTATACGGATGAAGTAT
*
22362015 TGTTATATGGATGAAGTAT
1 TGTTATACGGATGAAGTAT
*
22362034 TGTTTAAACGGATGA
1 TG-TTATACGGATGA
22362049 GTTACTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (19 bp):
TGTTATACGGATGAAGTAT
Found at i:22363150 original size:48 final size:48
Alignment explanation
Indices: 22363067--22363159 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 48
22363057 AAAAATTTTC
22363067 AAAGTTTCATGAAAGTTTTATAAGTTATCAGTTTAGT-TCTGAACCTTG
1 AAAGTTTCATGAAAGTTTTATAAGTTATCAGTTTAGTCT-TGAACCTTG
* *
22363115 AAAGTTTCGTGAAAGTTTTATAAGTTAT-TGTTTTAGTCTTGAACC
1 AAAGTTTCATGAAAGTTTTATAAGTTATCAG-TTTAGTCTTGAACC
22363160 GCTCCTAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 1 0.02
48 39 0.95
49 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (48 bp):
AAAGTTTCATGAAAGTTTTATAAGTTATCAGTTTAGTCTTGAACCTTG
Found at i:22365159 original size:21 final size:21
Alignment explanation
Indices: 22365119--22365159 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22365109 AATTAAATAA
*
22365119 TAATAAAACTTAAGACAATTT
1 TAATAAAAATTAAGACAATTT
* *
22365140 TAATAAAAATTGAGAGAATT
1 TAATAAAAATTAAGACAATT
22365160 GAGAGAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.32
Consensus pattern (21 bp):
TAATAAAAATTAAGACAATTT
Found at i:22365184 original size:25 final size:25
Alignment explanation
Indices: 22365154--22365233 Score: 133
Period size: 25 Copynumber: 3.2 Consensus size: 25
22365144 AAAAATTGAG
22365154 AGAATTGAGAGAAAATTAAAAAAAT
1 AGAATTGAGAGAAAATTAAAAAAAT
22365179 AGAATTGAGAGAAAATTAAAAAAAAT
1 AGAATTGAGAGAAAATT-AAAAAAAT
* *
22365205 AGAATTGAGAGAAAGTTAAAAAAAA
1 AGAATTGAGAGAAAATTAAAAAAAT
22365230 AGAA
1 AGAA
22365234 AATTTCGTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 28 0.54
26 24 0.46
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (25 bp):
AGAATTGAGAGAAAATTAAAAAAAT
Found at i:22365207 original size:26 final size:26
Alignment explanation
Indices: 22365154--22365233 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
22365144 AAAAATTGAG
22365154 AGAATTGAGAGAAAATT-AAAAAAAT
1 AGAATTGAGAGAAAATTAAAAAAAAT
22365179 AGAATTGAGAGAAAATTAAAAAAAAT
1 AGAATTGAGAGAAAATTAAAAAAAAT
*
22365205 AGAATTGAGAGAAAGTTAAAAAAAA-
1 AGAATTGAGAGAAAATTAAAAAAAAT
22365230 AGAA
1 AGAA
22365234 AATTTCGTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 21 0.40
26 32 0.60
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (26 bp):
AGAATTGAGAGAAAATTAAAAAAAAT
Found at i:22367386 original size:29 final size:29
Alignment explanation
Indices: 22367344--22367399 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
22367334 AATAGATTTG
*
22367344 AATAGATTTGAAGAGTAAATCAAATGACT
1 AATAGATTTCAAGAGTAAATCAAATGACT
*
22367373 AATAGATTTCAAGAGTAAATTAAATGA
1 AATAGATTTCAAGAGTAAATCAAATGA
22367400 ATATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (29 bp):
AATAGATTTCAAGAGTAAATCAAATGACT
Found at i:22368381 original size:27 final size:28
Alignment explanation
Indices: 22368320--22368394 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
22368310 ATAAAAGTTC
22368320 AAGGACCAACTAGGTACAAAAAAATTTG
1 AAGGACCAACTAGGTACAAAAAAATTTG
*
22368348 AAGGACCAACTAGGTAC-AACAAATTT-
1 AAGGACCAACTAGGTACAAAAAAATTTG
* *
22368374 TAGAGACCAACTAGATACAAA
1 AAG-GACCAACTAGGTACAAA
22368395 TGAATAAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 19 0.45
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.17
Consensus pattern (28 bp):
AAGGACCAACTAGGTACAAAAAAATTTG
Found at i:22371130 original size:47 final size:47
Alignment explanation
Indices: 22371076--22371405 Score: 468
Period size: 47 Copynumber: 7.1 Consensus size: 47
22371066 TTAGGATTTT
** * * *
22371076 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22371123 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22371170 ATGTGATGAATGTGAACATGC--ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22371215 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
22371262 ATGTGATGAATGTGAATATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
22371309 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
22371356 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
22371403 ATG
1 ATG
22371406 CAAAATGTGT
Statistics
Matches: 258, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 43 0.17
47 212 0.82
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:22371221 original size:22 final size:22
Alignment explanation
Indices: 22371194--22371315 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
22371184 AACATGCATG
22371194 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
22371216 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
22371239 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * * *
22371263 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
*
22371288 TATGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
22371310 TGTGAT
1 TGTGAT
22371316 GAATGTGAAC
Statistics
Matches: 72, Mismatches: 14, Indels: 28
0.63 0.12 0.25
Matches are distributed among these distances:
22 25 0.35
23 14 0.19
24 14 0.19
25 19 0.26
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:22371414 original size:139 final size:139
Alignment explanation
Indices: 22371076--22371405 Score: 482
Period size: 139 Copynumber: 2.4 Consensus size: 139
22371066 TTAGGATTTT
* *
22371076 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* * *
22371141 TGCATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATGTGTGATAAGGCC
66 TGCATATATATGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATGTGATAAGGCA
22371206 GAATGGCCA
131 GAATGGCCA
* * * * *
22371215 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
22371280 TGCATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
66 TGCATATATATGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGC--ATATGTGATAAGG
22371345 CAGAATGGCCA
129 CAGAATGGCCA
* * * * *
22371356 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGTCGAATGGCTAATG
1 ATGTGATGAATGT-GAACGTGTATATATGTGATAAGGCCGAATGGCAAATG
22371406 CAAAATGTGT
Statistics
Matches: 169, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
139 106 0.63
141 60 0.36
142 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (139 bp):
ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGCATATATATGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATGTGATAAGGCA
GAATGGCCA
Found at i:22371435 original size:46 final size:46
Alignment explanation
Indices: 22371379--22371515 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
22371369 GGAAGTGTAT
* *
22371379 ATATGTGGTAAAGTCGAATGGCTAATGCAAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
22371425 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
22371471 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
22371516 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:22372646 original size:22 final size:21
Alignment explanation
Indices: 22372620--22372672 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
22372610 CGTAACAAAC
*
22372620 ATAAACAAAAAATATATAATAT
1 ATAAA-AAAAAACATATAATAT
* * *
22372642 ATAAATAAGAAGCCTATAATAT
1 ATAAA-AAAAAACATATAATAT
22372664 ATAAAAAAA
1 ATAAAAAAA
22372673 TTAATATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (21 bp):
ATAAAAAAAAACATATAATAT
Found at i:22380433 original size:46 final size:46
Alignment explanation
Indices: 22380366--22380537 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
22380356 AACCCGCCCC
* *
22380366 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
22380412 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
22380460 TCA-CGAACTCAGACTCAACTCAAGGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
22380505 TAGGTGAACTCAGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG
22380538 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:22380479 original size:93 final size:93
Alignment explanation
Indices: 22380371--22380541 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
22380361 GCCCCTAAGT
* * *
22380371 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
22380436 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
22380464 GAACTCAGACTCAACTCAAGGAGTTCGGACATTCGCATCCATAGGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
22380529 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22380542 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22380998 original size:30 final size:30
Alignment explanation
Indices: 22380964--22381023 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22380954 ATTTAATACG
22380964 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
22380994 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
22381024 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:22381857 original size:11 final size:11
Alignment explanation
Indices: 22381841--22381866 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22381831 TTACACATTT
22381841 TCAAATTTCTC
1 TCAAATTTCTC
22381852 TCAAATTTCTC
1 TCAAATTTCTC
22381863 TCAA
1 TCAA
22381867 TTCCCACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAAATTTCTC
Found at i:22382897 original size:27 final size:27
Alignment explanation
Indices: 22382859--22382913 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
22382849 GAACAACTTT
*
22382859 AATGGAACGCTCGATATCGGTGGCCAC
1 AATGGAACGCTCGATACCGGTGGCCAC
22382886 AATGGAACGCTCGATACCGGTGGCCAC
1 AATGGAACGCTCGATACCGGTGGCCAC
22382913 A
1 A
22382914 TACTTTCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.16
Consensus pattern (27 bp):
AATGGAACGCTCGATACCGGTGGCCAC
Found at i:22398293 original size:46 final size:46
Alignment explanation
Indices: 22398226--22398354 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
22398216 TGTAATCCGC
* * *
22398226 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
22398272 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
22398318 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22398355 TACTCAACCA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:22398373 original size:46 final size:45
Alignment explanation
Indices: 22398231--22398373 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
22398221 TCCGCCCATA
* **** *
22398231 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCACCATCC-T
* * *
22398276 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCACCATCC-T
22398322 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTC-ACCATCCT
22398369 AGTGA
1 AGTGA
22398374 CATGTCACTT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
46 83 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCACCATCCT
Found at i:22398811 original size:30 final size:30
Alignment explanation
Indices: 22398777--22398836 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22398767 ATTTAATACG
22398777 AACTTTGGAAAAACTACACTTTTGCCCCTA
1 AACTTTGGAAAAACTACACTTTTGCCCCTA
* * * *
22398807 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAACTACACTTTTGCCCCTA
22398837 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTGGAAAAACTACACTTTTGCCCCTA
Found at i:22402169 original size:20 final size:20
Alignment explanation
Indices: 22402144--22402208 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
22402134 TGTGTTAGAT
22402144 TGGTTTAGGTTTGTTTTCTG
1 TGGTTTAGGTTTGTTTTCTG
*
22402164 TGG-TT---TTTGTTTTTCAG
1 TGGTTTAGGTTTG-TTTTCTG
22402181 ATTGGTTTAGGTTTGTTTTCTG
1 --TGGTTTAGGTTTGTTTTCTG
22402203 TGGTTT
1 TGGTTT
22402209 TTGTTTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 4 0.11
17 6 0.17
19 5 0.14
20 11 0.31
22 6 0.17
23 4 0.11
ACGTcount: A:0.06, C:0.05, G:0.28, T:0.62
Consensus pattern (20 bp):
TGGTTTAGGTTTGTTTTCTG
Found at i:22402174 original size:16 final size:16
Alignment explanation
Indices: 22402153--22402215 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 16
22402143 TTGGTTTAGG
22402153 TTTGTTTTCTGTGGTT
1 TTTGTTTTCTGTGGTT
*
22402169 TTTGTTTTTCAGATTGGTTT
1 TTTG-TTTTCTG--TGG-TT
22402189 AGGTTTGTTTTCTGTGGTT
1 ---TTTGTTTTCTGTGGTT
22402208 TTTGTTTT
1 TTTGTTTT
22402216 TCTTCTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
16 12 0.32
17 6 0.16
19 5 0.13
20 5 0.13
22 6 0.16
23 4 0.11
ACGTcount: A:0.05, C:0.05, G:0.24, T:0.67
Consensus pattern (16 bp):
TTTGTTTTCTGTGGTT
Found at i:22402184 original size:39 final size:39
Alignment explanation
Indices: 22402140--22402217 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
22402130 TGCCTGTGTT
22402140 AGATTGGTTTAGGTTTGTTTTCTGTGGTTTTTGTTTTTC
1 AGATTGGTTTAGGTTTGTTTTCTGTGGTTTTTGTTTTTC
22402179 AGATTGGTTTAGGTTTGTTTTCTGTGGTTTTTGTTTTTC
1 AGATTGGTTTAGGTTTGTTTTCTGTGGTTTTTGTTTTTC
22402218 TTCTTTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.08, C:0.05, G:0.26, T:0.62
Consensus pattern (39 bp):
AGATTGGTTTAGGTTTGTTTTCTGTGGTTTTTGTTTTTC
Found at i:22402218 original size:17 final size:17
Alignment explanation
Indices: 22402153--22402218 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 17
22402143 TTGGTTTAGG
22402153 TTTG-TTTTCTGTGGTT
1 TTTGTTTTTCTGTGGTT
*
22402169 TTTGTTTTTCAGATTGGTT
1 TTTGTTTTTCTG--TGGTT
22402188 TAGGTT-TGTTTTCTGTGGTT
1 T---TTGT-TTTTCTGTGGTT
22402208 TTTGTTTTTCT
1 TTTGTTTTTCT
22402219 TCTTTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
16 4 0.10
17 14 0.35
18 1 0.03
19 6 0.15
20 6 0.15
21 1 0.03
22 8 0.20
ACGTcount: A:0.05, C:0.06, G:0.23, T:0.67
Consensus pattern (17 bp):
TTTGTTTTTCTGTGGTT
Found at i:22402221 original size:20 final size:20
Alignment explanation
Indices: 22402159--22402221 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
22402149 TAGGTTTGTT
22402159 TTCTGTGGTTTTTGTTTTTC
1 TTCTGTGGTTTTTGTTTTTC
*** **
22402179 AGAT-TGGTTTAGGTTTGTT-
1 TTCTGTGGTTTTTGTTT-TTC
22402198 TTCTGTGGTTTTTGTTTTTC
1 TTCTGTGGTTTTTGTTTTTC
22402218 TTCT
1 TTCT
22402222 TTTTTATATC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.05, C:0.08, G:0.22, T:0.65
Consensus pattern (20 bp):
TTCTGTGGTTTTTGTTTTTC
Found at i:22407794 original size:40 final size:40
Alignment explanation
Indices: 22407739--22407817 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
22407729 TTTGACTAGA
22407739 AATAAAATAAAATAAGGAGAAAAAGATATCAACTCTCATT
1 AATAAAATAAAATAAGGAGAAAAAGATATCAACTCTCATT
22407779 AATAAAATAAAATAAGGAGAAAAAGATATCAACTCTCAT
1 AATAAAATAAAATAAGGAGAAAAAGATATCAACTCTCAT
22407818 CTTCCTCCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (40 bp):
AATAAAATAAAATAAGGAGAAAAAGATATCAACTCTCATT
Found at i:22408234 original size:48 final size:47
Alignment explanation
Indices: 22408159--22408331 Score: 188
Period size: 48 Copynumber: 3.6 Consensus size: 47
22408149 TGATATATGT
*
22408159 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGAACATGGCATCG-CCACATTATGAGA
* * * *
22408207 GCTAGTATAAGACCATGTTTGGAACATGGCATCGGCA-ATGTAATAAGA
1 GCTAGTGTAAGACCATGTCTGGAACATGGCATCGCCACAT-T-ATGAGA
* * * *
22408255 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGA
1 GCTAGTGTAAGACCATGTCTGGAACATGGCATC-GCCAC-ATTATGAGA
* *
22408303 GCCAGTGTAAGACCATGTTTGGAACATGG
1 GCTAGTGTAAGACCATGTCTGGAACATGG
22408332 TATCAACAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 2 0.02
47 3 0.03
48 96 0.92
49 2 0.02
51 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGAACATGGCATCGCCACATTATGAGA
Done.