Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 129 of 235
Found at i:43691375 original size:19 final size:19
Alignment explanation
Indices: 43691336--43691376 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
43691326 ATGGAGAAAA
43691336 AAAAGAAACGTAAATAGAAG
1 AAAAGAAACGT-AATAGAAG
43691356 AAAAGAAACGT-ATGAGAAG
1 AAAAGAAACGTAAT-AGAAG
43691375 AA
1 AA
43691377 GAAGCAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 7 0.35
20 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.22, T:0.10
Consensus pattern (19 bp):
AAAAGAAACGTAATAGAAG
Found at i:43693476 original size:52 final size:53
Alignment explanation
Indices: 43693414--43693520 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
43693404 TTTGAAATTC
*
43693414 ATCAGCATAAGAGTTGCATT-TGTTC-TTTCCAACTCTACTTAGCATTTAAACT
1 ATCAGCATAAGAGTTGCATTGT-TTCTTTTCCAACTCTACTTAGCATCTAAACT
* * *
43693466 ATCAGCATAAGAGTTGCATTGTTTCTTTTTCAACTTTACTTGGCATCTAAACT
1 ATCAGCATAAGAGTTGCATTGTTTCTTTTCCAACTCTACTTAGCATCTAAACT
43693519 AT
1 AT
43693521 ATCTCTCTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
52 23 0.47
53 26 0.53
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (53 bp):
ATCAGCATAAGAGTTGCATTGTTTCTTTTCCAACTCTACTTAGCATCTAAACT
Found at i:43693680 original size:49 final size:49
Alignment explanation
Indices: 43693608--43693702 Score: 147
Period size: 49 Copynumber: 1.9 Consensus size: 49
43693598 GCAGAGAAAT
43693608 ACCAATTTAGCCACCTTTTCTTTATGCA-TACACTTATTTCTAAGATGTA
1 ACCAATTTAGCCACCTTTTCTTTATGCACT-CACTTATTTCTAAGATGTA
* **
43693657 ACCAATTTAGCTACCTTTTCTTTATGCACTCGTTTATTTCTAAGAT
1 ACCAATTTAGCCACCTTTTCTTTATGCACTCACTTATTTCTAAGAT
43693703 ATATCCTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.43
Consensus pattern (49 bp):
ACCAATTTAGCCACCTTTTCTTTATGCACTCACTTATTTCTAAGATGTA
Found at i:43697111 original size:23 final size:23
Alignment explanation
Indices: 43697070--43697113 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43697060 GGCACCAGGT
**
43697070 TGCTACGGCGCTGGGGCAGAAGC
1 TGCTACGGCGCTGAAGCAGAAGC
43697093 TGCTACGGCGCTGAAGCAGAA
1 TGCTACGGCGCTGAAGCAGAA
43697114 AGGGCTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.39, T:0.14
Consensus pattern (23 bp):
TGCTACGGCGCTGAAGCAGAAGC
Found at i:43698479 original size:11 final size:11
Alignment explanation
Indices: 43698463--43698498 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
43698453 AAATATATAT
43698463 AAATATTATTA
1 AAATATTATTA
43698474 AAATATTATTA
1 AAATATTATTA
*
43698485 AAAAATATATTA
1 AAATAT-TATTA
43698497 AA
1 AA
43698499 GAATTGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATATTATTA
Found at i:43708411 original size:19 final size:19
Alignment explanation
Indices: 43708387--43708423 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
43708377 TTGTTTTAAG
43708387 AATTAAATGCATGGAAAAA
1 AATTAAATGCATGGAAAAA
43708406 AATTAAATGCATGGAAAA
1 AATTAAATGCATGGAAAA
43708424 GTCAATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (19 bp):
AATTAAATGCATGGAAAAA
Found at i:43715226 original size:3 final size:3
Alignment explanation
Indices: 43715215--43715247 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
43715205 GCGGCTGCTG
*
43715215 TCC TTC TCC TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
43715248 GCCCGCTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:43716136 original size:22 final size:22
Alignment explanation
Indices: 43716111--43716152 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
43716101 ATAATAACAA
* *
43716111 CAAAATAGTATCAACATAGTAG
1 CAAAATAGTAGCAAAATAGTAG
*
43716133 CAAAATGGTAGCAAAATAGT
1 CAAAATAGTAGCAAAATAGT
43716153 GAAAAAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (22 bp):
CAAAATAGTAGCAAAATAGTAG
Found at i:43718126 original size:23 final size:24
Alignment explanation
Indices: 43718087--43718136 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
43718077 AGATTGAAGT
* *
43718087 TTAATTAAGCATGATT-AAGTTAA
1 TTAATTAAGCATAATTAAAATTAA
*
43718110 TTAATTAAGCTTAATTAAAATTAA
1 TTAATTAAGCATAATTAAAATTAA
43718134 TTA
1 TTA
43718137 TAGTGTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (24 bp):
TTAATTAAGCATAATTAAAATTAA
Found at i:43721547 original size:18 final size:19
Alignment explanation
Indices: 43721512--43721547 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43721502 AATACAAAAA
43721512 GTTCTTTTGATAATTTCTC
1 GTTCTTTTGATAATTTCTC
43721531 GTTCTTTTGAT-ATTTCT
1 GTTCTTTTGATAATTTCT
43721548 AGTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (19 bp):
GTTCTTTTGATAATTTCTC
Found at i:43721557 original size:19 final size:19
Alignment explanation
Indices: 43721511--43721557 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
43721501 TAATACAAAA
*
43721511 AGTTCTTTTGATAATTTCT
1 AGTTATTTTGATAATTTCT
* *
43721530 CGTTCTTTTGAT-ATTTCT
1 AGTTATTTTGATAATTTCT
43721548 AGTTTATTTT
1 AG-TTATTTT
43721558 TTATTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.62
Consensus pattern (19 bp):
AGTTATTTTGATAATTTCT
Found at i:43721641 original size:19 final size:19
Alignment explanation
Indices: 43721609--43721656 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
43721599 CTTTAAATGC
43721609 AATTATTAATAAATTAATT
1 AATTATTAATAAATTAATT
43721628 AATTAATTAA-AAATTAATTT
1 AATT-ATTAATAAATTAA-TT
*
43721648 AAATATTAA
1 AATTATTAA
43721657 AATATAGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATTAATAAATTAATT
Found at i:43729999 original size:33 final size:33
Alignment explanation
Indices: 43729962--43730025 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
43729952 TACATGAACT
43729962 AGCTAAAATAAACCCAAGATAACAGGCAATGAA
1 AGCTAAAATAAACCCAAGATAACAGGCAATGAA
*
43729995 AGCTAAAATAATCCCAAGATAACAGGCAATG
1 AGCTAAAATAAACCCAAGATAACAGGCAATG
43730026 CCAATTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.14
Consensus pattern (33 bp):
AGCTAAAATAAACCCAAGATAACAGGCAATGAA
Found at i:43733681 original size:17 final size:17
Alignment explanation
Indices: 43733659--43733692 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43733649 TTGCAATATG
43733659 GTACTAAAATTTTTCAA
1 GTACTAAAATTTTTCAA
**
43733676 GTACTAAGGTTTTTCAA
1 GTACTAAAATTTTTCAA
43733693 CTAATACAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
GTACTAAAATTTTTCAA
Found at i:43734797 original size:27 final size:27
Alignment explanation
Indices: 43734743--43734819 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
43734733 GGCATCGTAA
* *
43734743 ATAGTTTGACAGGACGTTACACATGAG
1 ATAGTTTGACAGGACGTTAAACAGGAG
*
43734770 ATAGTTTGAC-GGCACGTTAAATAGGAG
1 ATAGTTTGACAGG-ACGTTAAACAGGAG
** * *
43734797 ATAGTCCGACATGATGTTAAACA
1 ATAGTTTGACAGGACGTTAAACA
43734820 TAGGGTAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.05
27 37 0.93
28 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (27 bp):
ATAGTTTGACAGGACGTTAAACAGGAG
Found at i:43746236 original size:15 final size:16
Alignment explanation
Indices: 43746216--43746248 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43746206 ATATTTTTAA
43746216 AATTTATAAAAAT-AT
1 AATTTATAAAAATGAT
*
43746231 AATTTATTAAAATGAT
1 AATTTATAAAAATGAT
43746247 AA
1 AA
43746249 AAAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTTATAAAAATGAT
Found at i:43749461 original size:25 final size:25
Alignment explanation
Indices: 43749433--43749548 Score: 78
Period size: 26 Copynumber: 4.6 Consensus size: 25
43749423 CAGATAACAC
43749433 GCCACAAAGGCTTTCCACAATATTA
1 GCCACAAAGGCTTTCCACAATATTA
* *
43749458 GCCACAAAGGTTTTTCCAGAGA-ATTCA
1 GCCACAAAGG-CTTTCCACA-ATATT-A
* *
43749485 -CCACAAAGGTTTTTCCACAAGATTA
1 GCCACAAAGG-CTTTCCACAATATTA
* * * *
43749510 GTCATAAAGGC-TTCCTA-GATATCA
1 GCCACAAAGGCTTTCC-ACAATATTA
43749534 CGCCACAAAGGCTTT
1 -GCCACAAAGGCTTT
43749549 TCTAGAGAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
24 8 0.11
25 22 0.31
26 40 0.56
27 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCACAATATTA
Found at i:43749518 original size:26 final size:26
Alignment explanation
Indices: 43749433--43749519 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 26
43749423 CAGATAACAC
* *
43749433 GCCACAAAGG-CTTTCCACAATATTA
1 GCCACAAAGGTTTTTCCACAAGATTA
*
43749458 GCCACAAAGGTTTTTCCA-GAGAATTCA
1 GCCACAAAGGTTTTTCCACAAG-ATT-A
43749485 -CCACAAAGGTTTTTCCACAAGATTA
1 GCCACAAAGGTTTTTCCACAAGATTA
* *
43749510 GTCATAAAGG
1 GCCACAAAGG
43749520 CTTCCTAGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 12 0.24
26 36 0.71
27 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (26 bp):
GCCACAAAGGTTTTTCCACAAGATTA
Found at i:43755259 original size:59 final size:58
Alignment explanation
Indices: 43755184--43755304 Score: 224
Period size: 59 Copynumber: 2.1 Consensus size: 58
43755174 AGACAATGAG
*
43755184 AAAGTTGAAAACCCAGCGTGGCTCGGTTAACTGCTTTCCCCCAGCAAGACACTTGTCTC
1 AAAGTTGAAAACCCAGCGTGACTCGGTTAACTGCTTT-CCCCAGCAAGACACTTGTCTC
43755243 AAAGTTGAAAACCCAGCGTGACTCGGTTAACTGCTTTCCCCAGCAAGACACTTGTCTC
1 AAAGTTGAAAACCCAGCGTGACTCGGTTAACTGCTTTCCCCAGCAAGACACTTGTCTC
43755301 AAAG
1 AAAG
43755305 GGATTACTCC
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 25 0.41
59 36 0.59
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (58 bp):
AAAGTTGAAAACCCAGCGTGACTCGGTTAACTGCTTTCCCCAGCAAGACACTTGTCTC
Found at i:43777703 original size:22 final size:22
Alignment explanation
Indices: 43777664--43777705 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43777654 AGAATGTCAG
*
43777664 CTAACTTGTAGATCATATGCAC
1 CTAACTTGTACATCATATGCAC
43777686 CTAACTTGTTACAT-ATATGC
1 CTAACTTG-TACATCATATGC
43777706 TTAATCTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (22 bp):
CTAACTTGTACATCATATGCAC
Found at i:43781343 original size:134 final size:133
Alignment explanation
Indices: 43781091--43781444 Score: 399
Period size: 134 Copynumber: 2.6 Consensus size: 133
43781081 TAAGGTCAGT
* * * *
43781091 TGTGATCGTAAGTCAGCGAGCTGTTAGAATGGAGTTGCAATCATAAATTC-GCTAACTCAGATGA
1 TGTGATCGTAAATCAGCGAGCTGTTTGAAT-GAGTTGCGATCGTAAA-TCAGCTAACTCAGATGA
* * * *
43781155 AACGGTTCATGATCGTAAATCAATGAACTTAGGATGTGATCATAAATTAACGAGCC-TCAATAAT
64 AAAGGTTCATGATCGTAAATCAATGAACTAAGGATGTGATCAGAAATCAACGAGCCAT-AATAAT
43781219 ATCAAC
128 ATCAAC
* * * *
43781225 TGTGATCGTAAATCAGCTAGTTGTTTGAATAGAGTTGCGATCGTAAATCAGCTATCTCAGAAGAA
1 TGTGATCGTAAATCAGCGAGCTGTTTGAAT-GAGTTGCGATCGTAAATCAGCTAACTCAGATGAA
** * *
43781290 AATTTTCATGATCGTAAATCAATGAACGTAAGG-TGTGATCAGAAATCAGCGAGCCATGATAATA
65 AAGGTTCATGATCGTAAATCAATGAAC-TAAGGATGTGATCAGAAATCAACGAGCCATAATAATA
**
43781354 TCAGT
129 TCAAC
* * * *
43781359 TGTGATCATAAATCTGCGAGCTGTTTGAATGACATTGCGATCGTAAATTAGCTAACTCAGATGAA
1 TGTGATCGTAAATCAGCGAGCTGTTTGAATGA-GTTGCGATCGTAAATCAGCTAACTCAGATGAA
** **
43781424 ATCGTTCATGATAATAAATCA
65 AAGGTTCATGATCGTAAATCA
43781445 GCAAGCCTTA
Statistics
Matches: 184, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
133 4 0.02
134 175 0.95
135 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (133 bp):
TGTGATCGTAAATCAGCGAGCTGTTTGAATGAGTTGCGATCGTAAATCAGCTAACTCAGATGAAA
AGGTTCATGATCGTAAATCAATGAACTAAGGATGTGATCAGAAATCAACGAGCCATAATAATATC
AAC
Found at i:43782955 original size:134 final size:134
Alignment explanation
Indices: 43782715--43783038 Score: 470
Period size: 134 Copynumber: 2.4 Consensus size: 134
43782705 CTTAGTTTAA
* * * *
43782715 CAAAAGAAATCATTCATGATCATAAATCAATGAACTTAGGCTGTGATCATAAATCATCGAGCCTT
1 CAAAAGAAATTATTCGTGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCATCAAGCCTT
* * *
43782780 AATAATATTAAACGTGATCGTAAATCAATGAGCAATTAGAATGGAGTTGCGATCGTAAATCAGCT
66 AATAATATCAAACGCGATCGTAAATCAATGAGCAATTAGAATGCAGTTGCGATCGTAAATCAGCT
43782845 AACT
131 AACT
* * * *
43782849 CAAAAGAAATTATTCGTGATCGTAAATCAATAAACTTAGGCTATGATCGTAAATTAGT-AAGCCT
1 CAAAAGAAATTATTCGTGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCA-TCAAGCCT
* * ***
43782913 TAATAATATCAATCGCGATCGTAAATTAATGAGTTGTTAGAATGCAGTTGCGATCGTAAATCAGC
65 TAATAATATCAAACGCGATCGTAAATCAATGAGCAATTAGAATGCAGTTGCGATCGTAAATCAGC
43782978 TAACT
130 TAACT
* *
43782983 CAAAAGAAATTGTTCGTGATCATAAATCAATGAACTTAGGTTGTGATCGTAAATCA
1 CAAAAGAAATTATTCGTGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCA
43783039 GCGAGCTATT
Statistics
Matches: 167, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
134 166 0.99
135 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (134 bp):
CAAAAGAAATTATTCGTGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCATCAAGCCTT
AATAATATCAAACGCGATCGTAAATCAATGAGCAATTAGAATGCAGTTGCGATCGTAAATCAGCT
AACT
Found at i:43790112 original size:23 final size:23
Alignment explanation
Indices: 43790078--43790121 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43790068 AAGCATGTAT
43790078 ATATATTAATTACAAATGTATAC
1 ATATATTAATTACAAATGTATAC
* *
43790101 ATATATTTATTACACATGTAT
1 ATATATTAATTACAAATGTAT
43790122 TTATAATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATATTAATTACAAATGTATAC
Found at i:43801073 original size:27 final size:27
Alignment explanation
Indices: 43801043--43801102 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
43801033 CCGCAGGCAT
43801043 TTCCTTCA-TAGTTCGCCATGAGTACCA
1 TTCCTTCAGTA-TTCGCCATGAGTACCA
* *
43801070 TTCCTTTAGTATTCGCCATGAGTACGA
1 TTCCTTCAGTATTCGCCATGAGTACCA
43801097 TTCCTT
1 TTCCTT
43801103 TAGAGCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (27 bp):
TTCCTTCAGTATTCGCCATGAGTACCA
Found at i:43801103 original size:27 final size:27
Alignment explanation
Indices: 43801054--43801105 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
43801044 TCCTTCATAG
43801054 TTCGCCATGAGTACCATTCCTTTAGTA
1 TTCGCCATGAGTACCATTCCTTTAGTA
*
43801081 TTCGCCATGAGTACGATTCCTTTAG
1 TTCGCCATGAGTACCATTCCTTTAG
43801106 AGCTTTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (27 bp):
TTCGCCATGAGTACCATTCCTTTAGTA
Found at i:43803245 original size:25 final size:25
Alignment explanation
Indices: 43803166--43803246 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
43803156 GTGCTAAACG
* *
43803166 GAGAGCACTGACATGCTAGTAATCA
1 GAGAGCACTGACGTGCTAATAATCA
* **
43803191 GAGAACACCAACGTGCTAATAATCA
1 GAGAGCACTGACGTGCTAATAATCA
43803216 GAGAGCACTGACGTGCTAATAATCA
1 GAGAGCACTGACGTGCTAATAATCA
43803241 GAGAGC
1 GAGAGC
43803247 GCACTAAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (25 bp):
GAGAGCACTGACGTGCTAATAATCA
Found at i:43804227 original size:10 final size:10
Alignment explanation
Indices: 43804208--43804285 Score: 54
Period size: 10 Copynumber: 7.9 Consensus size: 10
43804198 TTTATTTGTT
*
43804208 TATATAATAA
1 TATATTATAA
43804218 TATATTATAA
1 TATATTATAA
*
43804228 TATAATATAA
1 TATATTATAA
*
43804238 TATAATTACTTA
1 TAT-ATTA-TAA
* *
43804250 TTTATTA-AG
1 TATATTATAA
*
43804259 T-TAATATAA
1 TATATTATAA
*
43804268 TATAATATAA
1 TATATTATAA
43804278 TAT-TTATA
1 TATATTATA
43804286 TTTTATTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
8 4 0.07
9 7 0.13
10 32 0.59
11 7 0.13
12 4 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (10 bp):
TATATTATAA
Found at i:43804231 original size:5 final size:5
Alignment explanation
Indices: 43804214--43804280 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
43804204 TGTTTATATA
* * *
43804214 ATAAT ATATT ATAAT ATAAT ATAAT ATAAT -TACT -TATTT ATTAAGT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT A-TAA-T
43804260 -TAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT AT
43804281 TTATATTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
4 6 0.12
5 43 0.83
7 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (5 bp):
ATAAT
Found at i:43804282 original size:30 final size:30
Alignment explanation
Indices: 43804214--43804284 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
43804204 TGTTTATATA
43804214 ATAATATATTA-TAATATAATATAATATAAT
1 ATAATAT-TTATTAATATAATATAATATAAT
*
43804244 -TACTTATTTATTAAGT-TAATATAATATAAT
1 ATA-ATATTTATTAA-TATAATATAATATAAT
43804274 ATAATATTTAT
1 ATAATATTTAT
43804285 ATTTTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
29 5 0.14
30 27 0.77
31 3 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
ATAATATTTATTAATATAATATAATATAAT
Found at i:43807474 original size:17 final size:17
Alignment explanation
Indices: 43807452--43807511 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
43807442 TCATTTCTGA
43807452 TTAGATTAAGTTAATGT
1 TTAGATTAAGTTAATGT
** *
43807469 TTAGATTATCTACTAACGT
1 TTAGATTAAGT--TAATGT
43807488 TTAGATTAAGTTAATGT
1 TTAGATTAAGTTAATGT
43807505 TTAGATT
1 TTAGATT
43807512 TTCCTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 21 0.60
19 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (17 bp):
TTAGATTAAGTTAATGT
Found at i:43808052 original size:17 final size:17
Alignment explanation
Indices: 43808030--43808076 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
43808020 ATTTTCTGTC
43808030 TTTTAT-TTTATAACAAT
1 TTTTATATTT-TAACAAT
*
43808047 TTTTATATTTTAATAAT
1 TTTTATATTTTAACAAT
* *
43808064 TTTGAAATTTTAA
1 TTTTATATTTTAA
43808077 AAATGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTATATTTTAACAAT
Found at i:43811441 original size:9 final size:9
Alignment explanation
Indices: 43811413--43811456 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
43811403 TGGACAGTAA
43811413 AAGAAAAAG
1 AAGAAAAAG
*
43811422 AAG-CAAAG
1 AAGAAAAAG
*
43811430 AAGAAGAAG
1 AAGAAAAAG
43811439 AAGAAAAAG
1 AAGAAAAAG
43811448 AAGAGAAAA
1 AAGA-AAAA
43811457 CTTCTAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 7 0.24
9 18 0.62
10 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:43812589 original size:18 final size:17
Alignment explanation
Indices: 43812566--43812601 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
43812556 CCCAGTATCT
43812566 ATACTACTATATATATAA
1 ATACTACTAT-TATATAA
43812584 ATACTACTATTATATAA
1 ATACTACTATTATATAA
43812601 A
1 A
43812602 AGGAAGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (17 bp):
ATACTACTATTATATAA
Found at i:43818559 original size:444 final size:444
Alignment explanation
Indices: 43817730--43818601 Score: 1717
Period size: 444 Copynumber: 2.0 Consensus size: 444
43817720 CAAGGGCATC
*
43817730 ACTAGAAGAAGTGGGGGAGAAGGTCATGGGTTGCGTAGGGAAACCAACAACCATGGCTCACTTGT
1 ACTAGAAGAAGTGGGGGAGAAGGTCATAGGTTGCGTAGGGAAACCAACAACCATGGCTCACTTGT
43817795 GCAATCCATTATGTTCAAAATGGGTCATTTGGCCCAATCGGACTGGCTCATTGCTTGGAGAGATC
66 GCAATCCATTATGTTCAAAATGGGTCATTTGGCCCAATCGGACTGGCTCATTGCTTGGAGAGATC
43817860 GAAGGCCCATATACAAAGCTTGACAAATATGGAATGTGATCTTCAAAGATATGTAATCCTAGATA
131 GAAGGCCCATATACAAAGCTTGACAAATATGGAATGTGATCTTCAAAGATATGTAATCCTAGATA
43817925 CGATATGTAATCTTTGAAAGATACGATTCTATAATCTTAGATATTTGATTTGTAGATAGCTTTTA
196 CGATATGTAATCTTTGAAAGATACGATTCTATAATCTTAGATATTTGATTTGTAGATAGCTTTTA
*
43817990 ATCTTAGCCATTGATGTATTTTGATCTATACCGTTGATTTTGTGAGGCTCAGTTATAAATAAAGG
261 ATCTTAGCCATTGATGTATTTTGATCTATACCGTTGATTTTGGGAGGCTCAGTTATAAATAAAGG
43818055 CCTCTCCTCCTCATTGTAATTCATTCAGTGAATAATAGAATTTTGAGAGCATTTACTTAAACTTT
326 CCTCTCCTCCTCATTGTAATTCATTCAGTGAATAATAGAATTTTGAGAGCATTTACTTAAACTTT
43818120 CTCTCTAGTATTCTTGCTTTTCTGTGGCTTTTGTTCATGGAAACCAGCAACCAT
391 CTCTCTAGTATTCTTGCTTTTCTGTGGCTTTTGTTCATGGAAACCAGCAACCAT
*
43818174 ACTAGAAGAAGTGGTGGAGAAGGTCATAGGTTGCGTAGGGAAACCAACAACCATGGCTCACTTGT
1 ACTAGAAGAAGTGGGGGAGAAGGTCATAGGTTGCGTAGGGAAACCAACAACCATGGCTCACTTGT
43818239 GCAATCCATTATGTTCAAAATGGGTCATTTGGCCCAATCGGACTGGCTCATTGCTTGGAGAGATC
66 GCAATCCATTATGTTCAAAATGGGTCATTTGGCCCAATCGGACTGGCTCATTGCTTGGAGAGATC
43818304 GAAGGCCCATATACAAAGCTTGACAAATATGGAATGTGATCTTCAAAGATATGTAATCCTAGATA
131 GAAGGCCCATATACAAAGCTTGACAAATATGGAATGTGATCTTCAAAGATATGTAATCCTAGATA
43818369 CGATATGTAATCTTTGAAAGATACGATTCTATAATCTTAGATATTTGATTTGTAGATAGCTTTTA
196 CGATATGTAATCTTTGAAAGATACGATTCTATAATCTTAGATATTTGATTTGTAGATAGCTTTTA
43818434 ATCTTAGCCATTGATGTATTTTGATCTATACCGTTGATTTTGGGAGGCTCAGTTATAAATAAAGG
261 ATCTTAGCCATTGATGTATTTTGATCTATACCGTTGATTTTGGGAGGCTCAGTTATAAATAAAGG
43818499 CCTCTCCTCCTCATTGTAATTCATTCAGTGAATAATAGAATTTTGAGAGCATTTACTTAAACTTT
326 CCTCTCCTCCTCATTGTAATTCATTCAGTGAATAATAGAATTTTGAGAGCATTTACTTAAACTTT
43818564 CTCTCTAGTATTCTTGCTTTTCTGTGGCTTTTGTTCAT
391 CTCTCTAGTATTCTTGCTTTTCTGTGGCTTTTGTTCAT
43818602 CTTTGAGTGC
Statistics
Matches: 425, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
444 425 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (444 bp):
ACTAGAAGAAGTGGGGGAGAAGGTCATAGGTTGCGTAGGGAAACCAACAACCATGGCTCACTTGT
GCAATCCATTATGTTCAAAATGGGTCATTTGGCCCAATCGGACTGGCTCATTGCTTGGAGAGATC
GAAGGCCCATATACAAAGCTTGACAAATATGGAATGTGATCTTCAAAGATATGTAATCCTAGATA
CGATATGTAATCTTTGAAAGATACGATTCTATAATCTTAGATATTTGATTTGTAGATAGCTTTTA
ATCTTAGCCATTGATGTATTTTGATCTATACCGTTGATTTTGGGAGGCTCAGTTATAAATAAAGG
CCTCTCCTCCTCATTGTAATTCATTCAGTGAATAATAGAATTTTGAGAGCATTTACTTAAACTTT
CTCTCTAGTATTCTTGCTTTTCTGTGGCTTTTGTTCATGGAAACCAGCAACCAT
Found at i:43820178 original size:56 final size:59
Alignment explanation
Indices: 43820084--43820199 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 59
43820074 AAATTGTGAC
* * *
43820084 AATGGAGAAATGAGAAACAGTTGGAAATGATTATGGTTTTTTCCAAAATG-AAAATAAA
1 AATGGAGAAATGAGAAACAGTTGGAAATGAATATGGTTTTCTCCAAAAAGAAAAATAAA
* * * *
43820142 AATGGAGAAATGA-AATCA-TTTGAAATGAATGTGGTTTTCTCGAAAAAGAAAAATAAA
1 AATGGAGAAATGAGAAACAGTTGGAAATGAATATGGTTTTCTCCAAAAAGAAAAATAAA
43820199 A
1 A
43820200 TTAAAATGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 24 0.48
57 13 0.26
58 13 0.26
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (59 bp):
AATGGAGAAATGAGAAACAGTTGGAAATGAATATGGTTTTCTCCAAAAAGAAAAATAAA
Found at i:43823848 original size:28 final size:28
Alignment explanation
Indices: 43823778--43823848 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
43823768 TTGATGAATT
*
43823778 TTTTATATTTT-AAATTTATTAATAAATA
1 TTTTATATTTTAAAATTAATTAAT-AATA
* *
43823806 TTTTATATTTAAAAATTAATTAAT-TTCA
1 TTTTATATTTTAAAATTAATTAATAAT-A
43823834 TTTTATATTTTAAAA
1 TTTTATATTTTAAAA
43823849 AAATTATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 25 0.68
29 11 0.30
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTATATTTTAAAATTAATTAATAATA
Found at i:43824393 original size:14 final size:15
Alignment explanation
Indices: 43824367--43824395 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43824357 CTAACTTCAA
43824367 TTTCATATTTTTATT
1 TTTCATATTTTTATT
43824382 TTTCAT-TTTTTATT
1 TTTCATATTTTTATT
43824396 CTGTAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCATATTTTTATT
Found at i:43825799 original size:28 final size:28
Alignment explanation
Indices: 43825763--43825820 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
43825753 TAATATATTT
43825763 TTCGAGAGTAAGAGCAACTAACTCTATA
1 TTCGAGAGTAAGAGCAACTAACTCTATA
43825791 TTCGAGAGTAAGAGCAACTAACTCTATA
1 TTCGAGAGTAAGAGCAACTAACTCTATA
43825819 TT
1 TT
43825821 GATTAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (28 bp):
TTCGAGAGTAAGAGCAACTAACTCTATA
Found at i:43829599 original size:37 final size:39
Alignment explanation
Indices: 43829513--43829608 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 39
43829503 ATACGCCAGT
**
43829513 TTGGCACCCAATGCCTCATCGGATAATTCAAAGTAGTAAA
1 TTGGCACCCAATGCCTCATCGGATAAACCAAAG-AGTAAA
** * *
43829553 TTGATACCCAATGTCTCATCGGTTAAACCAAA-A-TAAA
1 TTGGCACCCAATGCCTCATCGGATAAACCAAAGAGTAAA
*
43829590 TTGGCACCCAA-CCCTCATC
1 TTGGCACCCAATGCCTCATC
43829609 AAATAAATTC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
36 6 0.13
37 13 0.28
38 1 0.02
40 26 0.57
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (39 bp):
TTGGCACCCAATGCCTCATCGGATAAACCAAAGAGTAAA
Found at i:43829848 original size:9 final size:9
Alignment explanation
Indices: 43829836--43829875 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
43829826 TAATATATAT
43829836 ATCAATTCA
1 ATCAATTCA
43829845 ATCAATTCA
1 ATCAATTCA
*
43829854 ATCAACTTTA
1 ATCAA-TTCA
43829864 ATTCAATTCA
1 A-TCAATTCA
43829874 AT
1 AT
43829876 GTCAAAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 15 0.56
10 8 0.30
11 4 0.15
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (9 bp):
ATCAATTCA
Found at i:43830556 original size:12 final size:13
Alignment explanation
Indices: 43830533--43830571 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
43830523 GCCGTGACTT
43830533 TCTTTCTTCTTTC
1 TCTTTCTTCTTTC
*
43830546 TCTTT-TTCTTTT
1 TCTTTCTTCTTTC
43830558 TCTTTCTTTCTTTC
1 TCTTTC-TTCTTTC
43830572 CTGTTTCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTTTCTTCTTTC
Found at i:43830562 original size:25 final size:26
Alignment explanation
Indices: 43830531--43830612 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 26
43830521 AGGCCGTGAC
43830531 TTTCTTTC-TTCTTTCTCTTTTTCTT
1 TTTCTTTCGTTCTTTCTCTTTTTCTT
* * *
43830556 TTTCTTTCTTTCTTTC-CTGTTTC-G
1 TTTCTTTCGTTCTTTCTCTTTTTCTT
*
43830580 TTTCGTTTCGTT-TTGCT-TTGTTTCTT
1 TTTC-TTTCGTTCTTTCTCTT-TTTCTT
43830606 TTTCTTT
1 TTTCTTT
43830613 TTTCTATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
24 8 0.17
25 27 0.59
26 11 0.24
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.72
Consensus pattern (26 bp):
TTTCTTTCGTTCTTTCTCTTTTTCTT
Found at i:43832394 original size:18 final size:18
Alignment explanation
Indices: 43832356--43832395 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
43832346 AACTCTGTAA
*
43832356 TTAATTTAAATTTAGTCT
1 TTAATTTAAATTTAATCT
*
43832374 TTAATTTAAATTTAATTT
1 TTAATTTAAATTTAATCT
43832392 TTAA
1 TTAA
43832396 ATTTTGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTAATTTAAATTTAATCT
Found at i:43836308 original size:19 final size:19
Alignment explanation
Indices: 43836284--43836324 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
43836274 TGATTTATTC
43836284 TAAGATTTATCTACCCAAA
1 TAAGATTTATCTACCCAAA
* *
43836303 TAAGATTTATTTACCTAAA
1 TAAGATTTATCTACCCAAA
43836322 TAA
1 TAA
43836325 CTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCCAAA
Found at i:43840817 original size:23 final size:22
Alignment explanation
Indices: 43840765--43840817 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
43840755 TCCACGTCTT
*
43840765 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
43840787 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
43840810 TTTCTTTT
1 TTTCTTTT
43840818 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:43843208 original size:4 final size:4
Alignment explanation
Indices: 43843199--43843225 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
43843189 AAACTAAGTA
43843199 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
43843226 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:43859395 original size:10 final size:10
Alignment explanation
Indices: 43859380--43859410 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
43859370 GCTTAAATAT
43859380 GATATAGATA
1 GATATAGATA
43859390 GATATAGATA
1 GATATAGATA
43859400 GATATAGATA
1 GATATAGATA
43859410 G
1 G
43859411 TGTACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (10 bp):
GATATAGATA
Found at i:43865693 original size:5 final size:5
Alignment explanation
Indices: 43865683--43865726 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
43865673 AAAGTCATAG
* *
43865683 AAAAT AAAAT AAAAT AAAGT AAAAT AATAAA AATAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AAAAT AA
43865727 TAATCAGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:43865723 original size:8 final size:8
Alignment explanation
Indices: 43865690--43865729 Score: 53
Period size: 9 Copynumber: 4.6 Consensus size: 8
43865680 TAGAAAATAA
43865690 AATAAAAT
1 AATAAAAT
43865698 AAAGTAAAAT
1 -AA-TAAAAT
43865708 AATAAAAAT
1 AAT-AAAAT
43865717 AATAAAAT
1 AATAAAAT
43865725 AATAA
1 AATAA
43865730 TCAGGTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 11 0.38
9 12 0.41
10 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
AATAAAAT
Found at i:43866918 original size:14 final size:14
Alignment explanation
Indices: 43866899--43866930 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
43866889 TGTTGATGGT
43866899 AACATATATGTATA
1 AACATATATGTATA
43866913 AACATATATGTATA
1 AACATATATGTATA
43866927 AACA
1 AACA
43866931 CAAACACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (14 bp):
AACATATATGTATA
Found at i:43869461 original size:21 final size:21
Alignment explanation
Indices: 43869431--43869471 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43869421 AATTTTTGGC
* *
43869431 AAATCGCACACGCCTGTGTGG
1 AAATCCCACACACCTGTGTGG
43869452 AAATCCCACACACCTGTGTG
1 AAATCCCACACACCTGTGTG
43869472 TGATAGCTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.20
Consensus pattern (21 bp):
AAATCCCACACACCTGTGTGG
Found at i:43874767 original size:6 final size:6
Alignment explanation
Indices: 43874756--43874781 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43874746 CTTGGGTTTT
43874756 TGAAAA TGAAAA TGAAAA TGAAAA TG
1 TGAAAA TGAAAA TGAAAA TGAAAA TG
43874782 GGAGTCGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAAAA
Found at i:43875257 original size:110 final size:109
Alignment explanation
Indices: 43875093--43875596 Score: 803
Period size: 110 Copynumber: 4.6 Consensus size: 109
43875083 GTTAAACGAG
* * * * * *
43875093 AAATCGAAACCCAACACATTAGGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTACCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
43875157 TTAAAATTTTTAAAAGGATATTAAGTCATTTAGATGAATGAGAA
66 TTAAAATTTTTAAAAGGATATTAAGCCATTTAGTTGAACGAGAA
*
43875201 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAAATTTCCAAACGCAAAACATTACCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCG-AATTTCCAAACGCAAAACATTGCCTTAT
*
43875266 TTTAAAATTTTTAAAAGGATATTAAGTCATTTAGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTAGTTGAACGAGAA
*
43875311 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAATGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
*
43875376 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTAGTTGAACGAGAA
* *
43875421 AAATCGACACCCAGCACCTTAGAGCATATTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
*
43875486 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTAGTTGAACGAGAA
* * *
43875531 AAATCGACACCCAGCACCTTAAGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTCATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
43875596 T
66 T
43875597 AGAAAAATTT
Statistics
Matches: 374, Mismatches: 19, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
108 24 0.06
109 35 0.09
110 315 0.84
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTAAAAGGATATTAAGCCATTTAGTTGAACGAGAA
Found at i:43875726 original size:4 final size:4
Alignment explanation
Indices: 43875717--43875747 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
43875707 ATACCATAAC
43875717 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
43875748 ACACAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:43876301 original size:3 final size:3
Alignment explanation
Indices: 43876287--43876384 Score: 81
Period size: 3 Copynumber: 32.7 Consensus size: 3
43876277 AAATAGAAAT
* * * * * *
43876287 ATA ATG ATA ATA ATA ATA ACA TTA ATA TTA ATA ATA ATA GTA A-A GATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
43876335 ATA ATA GTA ATA ATA ATA ATA ATA ATA GTA AAA ATA TTA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43876383 AT
1 AT
43876385 GTTAAAAATA
Statistics
Matches: 71, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
2 1 0.01
3 70 0.99
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:43886994 original size:14 final size:14
Alignment explanation
Indices: 43886975--43887013 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
43886965 ATTATTCTAG
43886975 TAAATAATTTTAAA
1 TAAATAATTTTAAA
*
43886989 TAAATATTATTTAAA
1 TAAATAAT-TTTAAA
43887004 TAAATTAATT
1 TAAA-TAATT
43887014 AATTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 7 0.33
15 11 0.52
16 3 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAATAATTTTAAA
Found at i:43897146 original size:17 final size:18
Alignment explanation
Indices: 43897126--43897176 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
43897116 CTTTTAGATT
*
43897126 TTTTTATT-TTTTCTGAA
1 TTTTTATTATTTTATGAA
*
43897143 TTTTT-TTATTTTATGTA
1 TTTTTATTATTTTATGAA
43897160 TTTTTATAATATTTTAT
1 TTTTTAT--TATTTTAT
43897177 TTTATTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 17 0.61
18 1 0.04
20 8 0.29
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTTATTATTTTATGAA
Found at i:43897208 original size:17 final size:17
Alignment explanation
Indices: 43897160--43897210 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
43897150 ATTTTATGTA
43897160 TTTTTATAATATTTTAT
1 TTTTTATAATATTTTAT
**
43897177 TTTATTACCAT-TTTTAT
1 TTT-TTATAATATTTTAT
43897194 TTTTTATAATATTTTAT
1 TTTTTATAATATTTTAT
43897211 CAGTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATAATATTTTAT
Found at i:43897774 original size:44 final size:44
Alignment explanation
Indices: 43897723--43897811 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
43897713 TATCTCTCTC
43897723 AACAATGTCTACTCTAATATTTGAATTCATATCCTCCCTTTATG
1 AACAATGTCTACTCTAATATTTGAATTCATATCCTCCCTTTATG
43897767 AACAATGTCTACTCTAATATTTGAATTCATATCCTCCCTTTATG
1 AACAATGTCTACTCTAATATTTGAATTCATATCCTCCCTTTATG
43897811 A
1 A
43897812 GTGTAACATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (44 bp):
AACAATGTCTACTCTAATATTTGAATTCATATCCTCCCTTTATG
Found at i:43898132 original size:21 final size:19
Alignment explanation
Indices: 43898107--43898181 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
43898097 GATTTTTAAA
43898107 TAATTTATTGTAATAATTTTC
1 TAATTTA-T-TAATAATTTTC
*
43898128 TAATTTATTAATAATTTTA
1 TAATTTATTAATAATTTTC
43898147 T-ATTT-TTATATAA-TTTC
1 TAATTTATTA-ATAATTTTC
*
43898164 TTAATTT-TTTATAATTTT
1 -TAATTTATTAATAATTTT
43898182 TATTCTATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 6 0.13
18 13 0.28
19 20 0.43
20 1 0.02
21 7 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (19 bp):
TAATTTATTAATAATTTTC
Found at i:43898160 original size:29 final size:29
Alignment explanation
Indices: 43898128--43898184 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
43898118 AATAATTTTC
43898128 TAATTTATTAATAATTTTAT-ATTTTTATA
1 TAATTTATTAAT-ATTTTATAATTTTTATA
* *
43898157 TAATTTCTTAATTTTTTATAATTTTTAT
1 TAATTTATTAATATTTTATAATTTTTAT
43898185 TCTATCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TAATTTATTAATATTTTATAATTTTTATA
Found at i:43906746 original size:2 final size:2
Alignment explanation
Indices: 43906739--43906763 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43906729 CAAATCCTAC
43906739 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
43906764 GTCGAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43907949 original size:10 final size:10
Alignment explanation
Indices: 43907922--43907959 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
43907912 TAATATCTAC
*
43907922 ATAAAAATA-
1 ATAAATATAT
43907931 ATAAATATAT
1 ATAAATATAT
*
43907941 ATGAATATAT
1 ATAAATATAT
43907951 ATAAATATA
1 ATAAATATA
43907960 AAAAGAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAAATATAT
Found at i:43908050 original size:17 final size:16
Alignment explanation
Indices: 43908024--43908055 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
43908014 ATATATAATT
43908024 AAAAAATAATTACATA
1 AAAAAATAATTACATA
43908040 AAAATAATAATTACAT
1 AAAA-AATAATTACAT
43908056 CCTAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATAATTACATA
Found at i:43908302 original size:3 final size:3
Alignment explanation
Indices: 43908294--43908327 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
43908284 ATATGTAGGT
43908294 ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
43908328 CAAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:43908796 original size:23 final size:22
Alignment explanation
Indices: 43908753--43908810 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
43908743 AAAGGGTATC
* *
43908753 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
43908774 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
43908797 TACATATCATATCT
1 TACAAATCATATCT
43908811 GAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:43908821 original size:19 final size:19
Alignment explanation
Indices: 43908789--43908844 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
43908779 AATCATATCT
*
43908789 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
43908808 TCTGAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
43908829 TCTAAGATTGAATATC
1 TCTAAGATTGCATATC
43908845 CTCGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.45
21 17 0.55
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43908826 original size:21 final size:21
Alignment explanation
Indices: 43908800--43908843 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
43908790 CTAAGATTAC
* *
43908800 ATATCATATCTGAGATTGCAT
1 ATATCATATCTAAGATTGAAT
43908821 ATATCATATCTAAGATTGAAT
1 ATATCATATCTAAGATTGAAT
43908842 AT
1 AT
43908844 CCTCGAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGAAT
Found at i:43909408 original size:44 final size:44
Alignment explanation
Indices: 43909199--43909409 Score: 191
Period size: 44 Copynumber: 4.8 Consensus size: 44
43909189 TTAGTATGCC
* * * **
43909199 CCACTGCAATTTCAGGGGGATAAGGCTTGCTTTC-TTAAGTCTACT
1 CCACTGCAACTTCAGGGAGATAAGACTTG-TAGCTTTAA-TCTACT
* * *
43909244 CCACTGCAACTTCAGGGAGATAAGACTCG-A--TGTGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTACT
* * * * *
43909285 CTACTGCAACTTCAGAGAGATAAGA-TATGTGGTTTTAATCCACT
1 CCACTGCAACTTCAGGGAGATAAGACT-TGTAGCTTTAATCTACT
* * * *
43909329 CCACTGCAACTTCAGGGAGATAGGA-TTATTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTT-GTAGCTTTAATCTACT
43909373 CCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTA
1 CCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTA
43909410 GCTTGCTCCG
Statistics
Matches: 135, Mismatches: 24, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 30 0.22
42 2 0.01
43 1 0.01
44 74 0.55
45 27 0.20
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTACT
Found at i:43909657 original size:132 final size:132
Alignment explanation
Indices: 43909420--43910626 Score: 2015
Period size: 132 Copynumber: 9.1 Consensus size: 132
43909410 GCTTGCTCCG
* * *
43909420 AGGGAGGCAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* *
43909485 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCCGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
43909550 TC
131 TC
* * *
43909552 AGGGAAACAAGGCTTGGTGACTTAAATCTGCTTCCCACTATCTTGGAAAGTTAAGATTTG-CTGT
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTC-GT
* * *
43909616 CTTCGATTTGCTCCACAACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
65 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
43909681 CTC
130 CTC
*
43909684 AGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* * *
43909749 TTTAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
43909814 TC
131 TC
* *
43909816 AGGGAGACAAGGCTTAGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-ACTGT
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTC-GT
* *
43909880 CTTTGATCTCCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTG
65 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
*
43909945 CTA
130 CTC
* *
43909948 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTTGCCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* *
43910013 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
43910078 TC
131 TC
*
43910080 AGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* * *
43910145 TTTAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
43910210 TC
131 TC
* *
43910212 AGGGAGACAAGGCTTAGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-ACTGT
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTC-GT
*
43910276 CTTTGATCTCCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
65 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
*
43910341 CTA
130 CTC
*
43910344 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGAAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
*
43910409 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
43910474 TC
131 TC
*
43910476 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
* ** *
43910541 TTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTTTCCGCTGCTAC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
43910606 TC
131 TC
43910608 AGGGAGACAAGGCTTGGTG
1 AGGGAGACAAGGCTTGGTG
43910627 TTTCACCGGT
Statistics
Matches: 1008, Mismatches: 61, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
131 3 0.00
132 1002 0.99
133 3 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
TC
Found at i:43917354 original size:17 final size:16
Alignment explanation
Indices: 43917328--43917359 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
43917318 ATATATAATT
43917328 AAAAAATAATTACATA
1 AAAAAATAATTACATA
43917344 AAAATAATAATTACAT
1 AAAA-AATAATTACAT
43917360 CCTAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATAATTACATA
Found at i:43917607 original size:3 final size:3
Alignment explanation
Indices: 43917599--43917635 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
43917589 ATATGTAGGT
43917599 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
43917636 CAAAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:43917613 original size:21 final size:18
Alignment explanation
Indices: 43917598--43917634 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
43917588 TATATGTAGG
43917598 TATAATAATAATATATAA
1 TATAATAATAATATATAA
43917616 TATAATAATAATA-ATAA
1 TATAATAATAATATATAA
43917633 TA
1 TA
43917635 ACAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAATAATAATATATAA
Found at i:43917645 original size:24 final size:24
Alignment explanation
Indices: 43917599--43917651 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
43917589 ATATGTAGGT
* *
43917599 ATAATAATAATATATAATATAATA
1 ATAATAATAATACAAAATATAATA
43917623 ATAATAATAATAACAAAAT-TAATA
1 ATAATAATAAT-ACAAAATATAATA
43917647 A-AATA
1 ATAATA
43917652 GACTAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 17 0.65
25 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATACAAAATATAATA
Found at i:43918087 original size:22 final size:23
Alignment explanation
Indices: 43918060--43918104 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
43918050 GGGTATCTAC
43918060 AAATTAAATC-TCTAAGATTACA
1 AAATTAAATCTTCTAAGATTACA
*
43918082 AAATTATATCTTCTAAGATTACA
1 AAATTAAATCTTCTAAGATTACA
43918105 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
AAATTAAATCTTCTAAGATTACA
Found at i:43918112 original size:22 final size:23
Alignment explanation
Indices: 43918070--43918114 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
43918060 AAATTAAATC
*
43918070 TCTAAGATTACAAAATTATATCT
1 TCTAAGATTACAAAATCATATCT
*
43918093 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
43918115 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:43918117 original size:19 final size:19
Alignment explanation
Indices: 43918093--43918148 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
43918083 AATTATATCT
43918093 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
43918112 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
43918133 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
43918149 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:43918130 original size:21 final size:21
Alignment explanation
Indices: 43918104--43918147 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43918094 CTAAGATTAC
43918104 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
43918125 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
43918146 AT
1 AT
43918148 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:43927312 original size:45 final size:45
Alignment explanation
Indices: 43927217--43927313 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
43927207 CTATACATAT
*
43927217 GGATACCATTCCGGTCTCACTACTTGGCACAAGGTATACACGACA
1 GGATACCATTCCGGTCTCACCACTTGGCACAAGGTATACACGACA
* * *
43927262 TGATACTC-TTCCGGTCTCACCACTTGGCACAAGTTATACACGAGA
1 GGATAC-CATTCCGGTCTCACCACTTGGCACAAGGTATACACGACA
43927307 GGATACC
1 GGATACC
43927314 CTTTCGAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 1 0.02
45 44 0.96
46 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
GGATACCATTCCGGTCTCACCACTTGGCACAAGGTATACACGACA
Found at i:43927326 original size:45 final size:45
Alignment explanation
Indices: 43927217--43927327 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 45
43927207 CTATACATAT
* ** *
43927217 GGATACCATTCCGGTCTCACTACTTGGCACAAGGTATACACGACA
1 GGATACCCTTCCGAACTCACCACTTGGCACAAGGTATACACGACA
* * ** * *
43927262 TGATACTCTTCCGGTCTCACCACTTGGCACAAGTTATACACGAGA
1 GGATACCCTTCCGAACTCACCACTTGGCACAAGGTATACACGACA
*
43927307 GGATACCCTTTCGAACTCACC
1 GGATACCCTTCCGAACTCACC
43927328 TTTTTCAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (45 bp):
GGATACCCTTCCGAACTCACCACTTGGCACAAGGTATACACGACA
Found at i:43928227 original size:44 final size:44
Alignment explanation
Indices: 43928177--43928265 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
43928167 GGCTAGAAAC
43928177 TAAGCTCCTTAAGTGTGGAAATAAACCGAAATAAATACTACATT
1 TAAGCTCCTTAAGTGTGGAAATAAACCGAAATAAATACTACATT
* *
43928221 TAAGCTCCTTAAGTGTGGAAATAAACTGAAATATATACTACATT
1 TAAGCTCCTTAAGTGTGGAAATAAACCGAAATAAATACTACATT
43928265 T
1 T
43928266 GATGTCAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (44 bp):
TAAGCTCCTTAAGTGTGGAAATAAACCGAAATAAATACTACATT
Found at i:43939067 original size:43 final size:43
Alignment explanation
Indices: 43939017--43939105 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
43939007 AGGTTATTAT
*
43939017 TTATTTTCTTAGATAATTTTAAAAGAGTTTTATTAGGATTCAA
1 TTATTTTCTTAGATAATTTCAAAAGAGTTTTATTAGGATTCAA
43939060 TTATTTTCTTAGATAATTTCAAAAGAGTTTTATTAGGATTCAA
1 TTATTTTCTTAGATAATTTCAAAAGAGTTTTATTAGGATTCAA
43939103 TTA
1 TTA
43939106 CTCTTGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (43 bp):
TTATTTTCTTAGATAATTTCAAAAGAGTTTTATTAGGATTCAA
Found at i:43939095 original size:24 final size:24
Alignment explanation
Indices: 43939020--43939095 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
43939010 TTATTATTTA
* *
43939020 TTTTCTTAGATAATTTTAAAAGAG
1 TTTTATTAGATAATTTCAAAAGAG
* **
43939044 TTTTATTAG--GA-TTC-AATTA-
1 TTTTATTAGATAATTTCAAAAGAG
*
43939063 TTTTCTTAGATAATTTCAAAAGAG
1 TTTTATTAGATAATTTCAAAAGAG
43939087 TTTTATTAG
1 TTTTATTAG
43939096 GATTCAATTA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
19 8 0.22
20 3 0.08
21 3 0.08
22 4 0.11
23 3 0.08
24 16 0.43
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (24 bp):
TTTTATTAGATAATTTCAAAAGAG
Found at i:43942750 original size:18 final size:18
Alignment explanation
Indices: 43942727--43942764 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
43942717 GGTCGAAGTA
43942727 CCCCTGAACACTTCCAAT
1 CCCCTGAACACTTCCAAT
43942745 CCCCTGAACACTTCCAAT
1 CCCCTGAACACTTCCAAT
43942763 CC
1 CC
43942765 TATGGCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.47, G:0.05, T:0.21
Consensus pattern (18 bp):
CCCCTGAACACTTCCAAT
Found at i:43947820 original size:25 final size:25
Alignment explanation
Indices: 43947792--43947846 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
43947782 ATTGAGAACC
43947792 TTAAAAAATATGGCTTAG-AATCATT
1 TTAAAAAATATGGCTTAGAAAT-ATT
*
43947817 TTAAAAAATGTGGCTTAGAAATATT
1 TTAAAAAATATGGCTTAGAAATATT
43947842 TTAAA
1 TTAAA
43947847 GGACTTGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.36
Consensus pattern (25 bp):
TTAAAAAATATGGCTTAGAAATATT
Found at i:43949630 original size:26 final size:28
Alignment explanation
Indices: 43949601--43949665 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
43949591 ATAACTCTTT
*
43949601 TATAAAAATA-ATA-AATTAAAAGTATA
1 TATAAAAAGATATACAATTAAAAGTATA
**
43949627 TATAAAAAGATATACTTTTAAAAGTATA
1 TATAAAAAGATATACAATTAAAAGTATA
43949655 TATAAAAAGAT
1 TATAAAAAGAT
43949666 TTTAAAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.26
27 3 0.09
28 22 0.65
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (28 bp):
TATAAAAAGATATACAATTAAAAGTATA
Found at i:43949639 original size:12 final size:13
Alignment explanation
Indices: 43949618--43949663 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
43949608 ATAATAAATT
43949618 AAAAGTATATATA
1 AAAAGTATATATA
* *
43949631 AAAAGATATACTTTT
1 AAAAG-TATA-TATA
43949646 AAAAGTATATATA
1 AAAAGTATATATA
43949659 AAAAG
1 AAAAG
43949664 ATTTTAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 12 0.44
14 8 0.30
15 7 0.26
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (13 bp):
AAAAGTATATATA
Found at i:43956338 original size:43 final size:43
Alignment explanation
Indices: 43956274--43956361 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
43956264 TATGTAGTAG
43956274 CATAATTTAAGAACTCCACTTACTTTTGAATTACGGATTAGAC
1 CATAATTTAAGAACTCCACTTACTTTTGAATTACGGATTAGAC
* * *
43956317 CATAATTTAGGAACTCTACTTACTTTTGAATTATGGATTAGAC
1 CATAATTTAAGAACTCCACTTACTTTTGAATTACGGATTAGAC
43956360 CA
1 CA
43956362 CGATGATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (43 bp):
CATAATTTAAGAACTCCACTTACTTTTGAATTACGGATTAGAC
Found at i:43959110 original size:24 final size:24
Alignment explanation
Indices: 43959050--43959110 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
43959040 TTGTATATTC
* *
43959050 TAATTAAATTTTATAAATAATTAA
1 TAATTATATTTTAAAAATAATTAA
*
43959074 TAATTAT-TATTTAAAAATATTTAA
1 TAATTATAT-TTTAAAAATAATTAA
43959098 -AACTTATATTTTA
1 TAA-TTATATTTTA
43959111 TATATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 3 0.10
24 27 0.87
25 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATTATATTTTAAAAATAATTAA
Found at i:43960173 original size:31 final size:31
Alignment explanation
Indices: 43960135--43960199 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
43960125 ATTCCTTCTG
*
43960135 GGGATATCCCATTCCAGGAATATCCGGGCTT
1 GGGATATCCCATTCCAGGAATATCCCGGCTT
43960166 GGGATATCCCATTCCAGGAATATCCCGGCTT
1 GGGATATCCCATTCCAGGAATATCCCGGCTT
43960197 GGG
1 GGG
43960200 GTTTAGGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.25
Consensus pattern (31 bp):
GGGATATCCCATTCCAGGAATATCCCGGCTT
Found at i:43960448 original size:15 final size:15
Alignment explanation
Indices: 43960428--43960457 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43960418 TGGGCTCTTT
*
43960428 TTATAATGAATCCAA
1 TTATAATAAATCCAA
43960443 TTATAATAAATCCAA
1 TTATAATAAATCCAA
43960458 CAAGTCAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (15 bp):
TTATAATAAATCCAA
Found at i:43961720 original size:19 final size:20
Alignment explanation
Indices: 43961696--43961734 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43961686 CAATTGTTTT
43961696 AAAA-TTAA-ATAAGTTTAAA
1 AAAATTTAATATAA-TTTAAA
43961715 AAAATTTAATATAATTTAAA
1 AAAATTTAATATAATTTAAA
43961735 TTTTTAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAATTTAATATAATTTAAA
Found at i:43972578 original size:29 final size:29
Alignment explanation
Indices: 43972545--43972603 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
43972535 GCACATATTT
*
43972545 CGGGCCGGGCCTGGGCCTAAGAGTCGGGC
1 CGGGCCGGGCCCGGGCCTAAGAGTCGGGC
* * *
43972574 CGGGCTGGTCCCGTGCCTAAGAGTCGGGC
1 CGGGCCGGGCCCGGGCCTAAGAGTCGGGC
43972603 C
1 C
43972604 AAAATCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.10, C:0.32, G:0.44, T:0.14
Consensus pattern (29 bp):
CGGGCCGGGCCCGGGCCTAAGAGTCGGGC
Found at i:43982167 original size:31 final size:30
Alignment explanation
Indices: 43982124--43982185 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
43982114 AAGAAAAGCT
* *
43982124 AAATCCTTAAAATCGAATGATTTAGATAAA
1 AAATCCTCAAAATCGAATGACTTAGATAAA
*
43982154 AAATACCTCAAAATCGAATGACTTAGGTAAA
1 AAAT-CCTCAAAATCGAATGACTTAGATAAA
43982185 A
1 A
43982186 TATAATCTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (30 bp):
AAATCCTCAAAATCGAATGACTTAGATAAA
Found at i:43995962 original size:19 final size:20
Alignment explanation
Indices: 43995938--43995976 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43995928 CAATTGTTTT
43995938 AAAA-TTAA-ATAAGTTTAAA
1 AAAATTTAATATAA-TTTAAA
43995957 AAAATTTAATATAATTTAAA
1 AAAATTTAATATAATTTAAA
43995977 TTTTTAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAATTTAATATAATTTAAA
Found at i:44000666 original size:21 final size:20
Alignment explanation
Indices: 44000642--44000700 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 20
44000632 CAAATTCCGT
44000642 TCCGGTTCAGAATTTTTTGTG
1 TCCGGTTCAG-ATTTTTTGTG
44000663 TCCGGTTCAG-TTGTTTTGGTG
1 TCCGGTTCAGATT-TTTT-GTG
44000684 TCCGGTTCAGATTTTTT
1 TCCGGTTCAGATTTTTT
44000701 TGCGTATGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.06
20 4 0.11
21 27 0.77
22 2 0.06
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.49
Consensus pattern (20 bp):
TCCGGTTCAGATTTTTTGTG
Found at i:44009512 original size:230 final size:230
Alignment explanation
Indices: 44009093--44009615 Score: 691
Period size: 230 Copynumber: 2.3 Consensus size: 230
44009083 TAGCAGAATA
* *
44009093 ATTTTTGTAATATCTGCTGAGCAGAATACTTTTCCTCTCTGTTTTTAGTTGATATATTCTTCTTT
1 ATTTTTGTAATATCTGCTGAGCAGAATAATTTTCCTCTCTGTTTTTAGTTAATATATTCTTCTTT
* **
44009158 TCTTGTTTTTGCTTAGCAGAGTAATTTTGGGGTTTGGTGTTTTTGAGCCTGAATCACGATTAGAT
66 TCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTTTGGTGTTTTTGAGCCCAAATCACGATTAGAT
* * *
44009223 TTTGGCTTTTCATTTATATTTTTGTCATTATAGTTACTTTTCCAATTAACATGACACTAGTTCTA
131 TTCGGCTTATCATTTATATTTTTGTCATTATAGTTACTTTTCCAAATAACATGACACTAGTTCTA
44009288 TTCCTCCCAACACTGAAGAAAATATCTATATTAAG
196 TTCCTCCCAACACTGAAGAAAATATCTATATTAAG
*
44009323 ATTTTTTTAATAT-TCGCTGAGCAGAATAATTTTCCTCTCTGTTTTTAGTTAATATATTCTTCTT
1 ATTTTTGTAATATCT-GCTGAGCAGAATAATTTTCCTCTCTGTTTTTAGTTAATATATTCTTCTT
* * * * *
44009387 TTCTTGTTTTTGCTTAGTAGAATAATTTTGTGGTTTGGTTTTTTTGGGCCCAAATCACGCTTAGA
65 TTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTTTGGTGTTTTTGAGCCCAAATCACGATTAGA
*
44009452 TTTCGGCTTATCATTTATATTTTTGTCATTATAGTT-CATTTTCCAAATAACATTACACTAGTTC
130 TTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAC-TTTTCCAAATAACATGACACTAGTT-
* * * * * * * *
44009516 CT-TTGCTCTCAGA-ACTCAGGATAGTATCTTTA-TAAT
193 CTATTCCTCCCA-ACACTGAAGAAAATATCTATATTAAG
* * * * * * *
44009552 ATTTTTGTAATTTCTGCTTAGCAGAATACTATT-C-CTCTGTTTTTAGTTGACATATGCTTCTTT
1 ATTTTTGTAATATCTGCTGAGCAGAATAATTTTCCTCTCTGTTTTTAGTTAATATATTCTTCTTT
44009615 T
66 T
44009616 TGCTAATATG
Statistics
Matches: 257, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
227 27 0.11
228 1 0.00
229 31 0.12
230 195 0.76
231 3 0.01
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (230 bp):
ATTTTTGTAATATCTGCTGAGCAGAATAATTTTCCTCTCTGTTTTTAGTTAATATATTCTTCTTT
TCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTTTGGTGTTTTTGAGCCCAAATCACGATTAGAT
TTCGGCTTATCATTTATATTTTTGTCATTATAGTTACTTTTCCAAATAACATGACACTAGTTCTA
TTCCTCCCAACACTGAAGAAAATATCTATATTAAG
Found at i:44012060 original size:40 final size:40
Alignment explanation
Indices: 44012005--44012088 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
44011995 TTACTGCATC
44012005 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGGTGGGAGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGGTGGGAGT
44012045 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGGTGGGAGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGGTGGGAGT
44012085 TGTG
1 TGTG
44012089 ATGCACGTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (40 bp):
TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGGTGGGAGT
Found at i:44012968 original size:21 final size:21
Alignment explanation
Indices: 44012944--44012984 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44012934 GGATTTCCCC
44012944 TGTCCGGTTCAG-TTCTTTTAG
1 TGTCCGGTTCAGATT-TTTTAG
44012965 TGTCCGGTTCAGATTTTTTA
1 TGTCCGGTTCAGATTTTTTA
44012985 TGCTGCAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (21 bp):
TGTCCGGTTCAGATTTTTTAG
Found at i:44015047 original size:14 final size:14
Alignment explanation
Indices: 44015030--44015063 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44015020 ATAGCAATTA
**
44015030 TAATATTATTTAAT
1 TAATATTATACAAT
44015044 TAATATTATACAAT
1 TAATATTATACAAT
44015058 TAATAT
1 TAATAT
44015064 AAAATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTATACAAT
Found at i:44019575 original size:24 final size:24
Alignment explanation
Indices: 44019504--44019575 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
44019494 CGGTTATGAC
44019504 TTAAATATGTCTTTAATATAT-TA
1 TTAAATATGTCTTTAATATATATA
* * *
44019527 TAAAAT-TTTATGGTTAATATAATATA
1 TTAAATATGTCT--TTAATAT-ATATA
44019553 TTAAATATGTCTTTAATATATAT
1 TTAAATATGTCTTTAATATATAT
44019576 TTTTTCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
22 3 0.08
23 5 0.13
24 11 0.29
25 9 0.24
26 7 0.18
27 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (24 bp):
TTAAATATGTCTTTAATATATATA
Found at i:44019576 original size:22 final size:22
Alignment explanation
Indices: 44019504--44019576 Score: 58
Period size: 26 Copynumber: 3.1 Consensus size: 22
44019494 CGGTTATGAC
44019504 TTAAATATGTCTTTAATATATTA
1 TTAAATATGTCTTTAATATA-TA
* * *
44019527 TAAAATTTTATG-GTTAATATAATATA
1 TTAAA---TATGTCTTTA-AT-ATATA
44019553 TTAAATATGTCTTTAATATATA
1 TTAAATATGTCTTTAATATATA
44019575 TT
1 TT
44019577 TTTTCTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 13
0.67 0.11 0.23
Matches are distributed among these distances:
22 7 0.18
23 10 0.26
24 3 0.08
25 3 0.08
26 12 0.32
27 3 0.08
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (22 bp):
TTAAATATGTCTTTAATATATA
Found at i:44020600 original size:164 final size:164
Alignment explanation
Indices: 44020329--44020656 Score: 584
Period size: 164 Copynumber: 2.0 Consensus size: 164
44020319 ATTAAATATT
44020329 AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
1 AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
* *
44020394 ATCAAAATGTAAGTATTCATGCTGTAAGTATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
66 ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
*
44020459 AATTGTTCTAATCTAAACGGTCTTAATAATGAAA
131 AATTGTTCTAATCTAAACAGTCTTAATAATGAAA
* * **
44020493 AAGGTCTTAAGCTGCAATTAGAAGATGTCATTGTTGTAGTTAAGATGTCCTACTGCTGTATCGTG
1 AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
44020558 ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
66 ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
*
44020623 AATTGTTGTAATCTAAACAGTCTTAATAATGAAA
131 AATTGTTCTAATCTAAACAGTCTTAATAATGAAA
44020657 TTGTGGTATC
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
164 156 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (164 bp):
AAGGTCTTAAGCTGCAATTAGAAGATGTCATGGTTATAAATAAGATGTCCTACTGCTGTATCGTG
ATCAAAATGTAAGTATTCATGCTATAAATATTTATGTTGTCTTAAAACATTATCTGAAGTGGATT
AATTGTTCTAATCTAAACAGTCTTAATAATGAAA
Found at i:44022123 original size:16 final size:16
Alignment explanation
Indices: 44022104--44022161 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
44022094 ATCCTATTCC
44022104 AGGGATATCCCGGTTG
1 AGGGATATCCCGGTTG
**
44022120 AGGGATAT-CCTTTTG
1 AGGGATATCCCGGTTG
* * *
44022135 AAGGATACCCCGGTTT
1 AGGGATATCCCGGTTG
*
44022151 AGGTATATCCC
1 AGGGATATCCC
44022162 ATTCCAGGGA
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (16 bp):
AGGGATATCCCGGTTG
Found at i:44022147 original size:31 final size:32
Alignment explanation
Indices: 44022088--44022178 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 32
44022078 TATTCCAGCA
* *
44022088 AGGGATATCCTATTCCAGGGATATCCCGGTTG
1 AGGGATATCCTATTCCAAGGATACCCCGGTTG
** *
44022120 AGGGATATCCT-TTTGAAGGATACCCCGGTTT
1 AGGGATATCCTATTCCAAGGATACCCCGGTTG
* * *
44022151 AGGTATATCCCATTCCAGGGATATCCCC
1 AGGGATATCCTATTCCAAGGATA-CCCC
44022179 TTGTTTTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 24 0.51
32 19 0.40
33 4 0.09
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (32 bp):
AGGGATATCCTATTCCAAGGATACCCCGGTTG
Found at i:44023551 original size:64 final size:64
Alignment explanation
Indices: 44023475--44023600 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
44023465 CATATGGTCC
44023475 TCTGACTGTTTTTTTCACTCCAAACTATCAAACTGGATGAATTCTAATGTTTGTTAGTCAGACT
1 TCTGACTGTTTTTTTCACTCCAAACTATCAAACTGGATGAATTCTAATGTTTGTTAGTCAGACT
44023539 TCTGACCT-TTTTTTTCACTCCAAACTATCAAACTGGATGAATTCTAATGTTTGTTAGTCAGA
1 TCTGA-CTGTTTTTTTCACTCCAAACTATCAAACTGGATGAATTCTAATGTTTGTTAGTCAGA
44023601 TGTTTCAACT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 59 0.97
65 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (64 bp):
TCTGACTGTTTTTTTCACTCCAAACTATCAAACTGGATGAATTCTAATGTTTGTTAGTCAGACT
Found at i:44024881 original size:37 final size:37
Alignment explanation
Indices: 44024836--44024907 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
44024826 TTTTTTAAAT
44024836 ACAGGATATTGGGGAAAAATGTGTTTGAGATCAATAC
1 ACAGGATATTGGGGAAAAATGTGTTTGAGATCAATAC
*
44024873 ACAGGATATTGGGGAAAAATGTGTTTTAGATCAAT
1 ACAGGATATTGGGGAAAAATGTGTTTGAGATCAAT
44024908 TGAAAAGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (37 bp):
ACAGGATATTGGGGAAAAATGTGTTTGAGATCAATAC
Found at i:44026609 original size:31 final size:31
Alignment explanation
Indices: 44026539--44026609 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
44026529 GATATTTCGG
*
44026539 GGATATCCCAAGCTGTATTAAGCTATTCCGC
1 GGATATCCCAAGCTGTATTAAGCTATTCCGA
* * *
44026570 GGAAATCCCAA-CT-TGATTTAAGGTATTCTGA
1 GGATATCCCAAGCTGT-A-TTAAGCTATTCCGA
44026601 GGATATCCC
1 GGATATCCC
44026610 TTCCAAATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 3 0.09
31 29 0.88
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (31 bp):
GGATATCCCAAGCTGTATTAAGCTATTCCGA
Found at i:44026809 original size:32 final size:32
Alignment explanation
Indices: 44026732--44026799 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
44026722 GGGATATCAT
* * *
44026732 ATTCCACGGATATCCCGGTTTAGATTTATTCC
1 ATTCCATGCATATCCCGGTTTGGATTTATTCC
*
44026764 ATTCCATGCATATCCCGGTTTGGATTTATTCT
1 ATTCCATGCATATCCCGGTTTGGATTTATTCC
44026796 ATTC
1 ATTC
44026800 TTAGCATATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (32 bp):
ATTCCATGCATATCCCGGTTTGGATTTATTCC
Found at i:44026858 original size:37 final size:39
Alignment explanation
Indices: 44026817--44026905 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 39
44026807 ATCTCGGCTT
* *
44026817 GGGTTTAGGGTTTGGCA-G-TTAAATGTTTTGGGTTTCA
1 GGGTTTAGGGTTTGGCACGATTAAAGGTTTAGGGTTTCA
* *
44026854 GGGTTTAAGGTTT--CACGATTAAAGGTTTAGGGTTTTA
1 GGGTTTAGGGTTTGGCACGATTAAAGGTTTAGGGTTTCA
*
44026891 GGGGTTAGGGTTTGG
1 GGGTTTAGGGTTTGG
44026906 GGTTTATGGN
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
35 2 0.05
36 1 0.02
37 39 0.93
ACGTcount: A:0.18, C:0.04, G:0.37, T:0.40
Consensus pattern (39 bp):
GGGTTTAGGGTTTGGCACGATTAAAGGTTTAGGGTTTCA
Found at i:44026865 original size:15 final size:15
Alignment explanation
Indices: 44026847--44026888 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
44026837 AAATGTTTTG
44026847 GGTTTCAGGGTTTAA
1 GGTTTCAGGGTTTAA
* * *
44026862 GGTTTCACGATTAAA
1 GGTTTCAGGGTTTAA
44026877 GGTTT-AGGGTTT
1 GGTTTCAGGGTTT
44026889 TAGGGGTTAG
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.21, C:0.07, G:0.31, T:0.40
Consensus pattern (15 bp):
GGTTTCAGGGTTTAA
Found at i:44043658 original size:38 final size:38
Alignment explanation
Indices: 44043616--44043719 Score: 93
Period size: 38 Copynumber: 2.7 Consensus size: 38
44043606 AAATAGGGTA
*
44043616 TTATTCAGGCTTAGTGCCTAGCAAGCTTAGTGCCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAAGCTTAATGCCGGTG
* * ** ** * *
44043654 TTATTTAGGCTTACTTTCTAATAGGCTTAATGTCGGTG
1 TTATTCAGGCTTAGTGCCTAGCAAGCTTAATGCCGGTG
* *
44043692 TTGA-TCAAGCTTAGTGCTTAGCAAGCTT
1 TT-ATTCAGGCTTAGTGCCTAGCAAGCTT
44043720 TAAGTCGGTG
Statistics
Matches: 47, Mismatches: 18, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
38 46 0.98
39 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (38 bp):
TTATTCAGGCTTAGTGCCTAGCAAGCTTAATGCCGGTG
Found at i:44047175 original size:48 final size:49
Alignment explanation
Indices: 44047113--44047247 Score: 168
Period size: 48 Copynumber: 2.8 Consensus size: 49
44047103 AAATTATGAG
* *
44047113 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AGA-CGAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGTAGATC-A-T
* * *
44047162 -GCCAGTGTAAGACCATGTCTGGGACATGACATTGGCCTCGTTGATCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGTAGATCAT
* *
44047210 AGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCA
44047248 CACTTACCCC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 37 0.50
49 36 0.49
50 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGTAGATCAT
Found at i:44049224 original size:48 final size:49
Alignment explanation
Indices: 44049162--44049296 Score: 168
Period size: 48 Copynumber: 2.8 Consensus size: 49
44049152 AAATTATGAG
* *
44049162 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AGA-CGAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGTAGATC-A-T
* * *
44049211 -GCCAGTGTAAGACCATGTCTGGGACATGACATTGGCCTCGTTGATCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGTAGATCAT
* *
44049259 AGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCA
44049297 CACTTACCCC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 37 0.50
49 36 0.49
50 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGTAGATCAT
Found at i:44062716 original size:6 final size:6
Alignment explanation
Indices: 44062705--44062729 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44062695 TAAAATTTTG
44062705 ATAATC ATAATC ATAATC ATAATC A
1 ATAATC ATAATC ATAATC ATAATC A
44062730 CCCTTCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAATC
Found at i:44064487 original size:18 final size:17
Alignment explanation
Indices: 44064451--44064499 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
44064441 AAATAGATAG
*
44064451 AATAAAAATTAATAAAAA
1 AATAAAAATT-ATATAAA
44064469 AATAAGAAATTATATAAA
1 AATAA-AAATTATATAAA
44064487 AATATAAAATTAT
1 AATA-AAAATTAT
44064500 TAATAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 22 0.79
19 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AATAAAAATTATATAAA
Found at i:44064516 original size:19 final size:18
Alignment explanation
Indices: 44064451--44064516 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
44064441 AAATAGATAG
*
44064451 AATA-AAAATTAATAAAAA
1 AATAGAAAATT-ATATAAA
44064469 AATA-AGAAATTATATAAA
1 AATAGA-AAATTATATAAA
*
44064487 AATATAAAATTAT-TAATA
1 AATAGAAAATTATATAA-A
44064505 AATTAGAAAATT
1 AA-TAGAAAATT
44064517 GTAACAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.07
18 25 0.60
19 14 0.33
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AATAGAAAATTATATAAA
Found at i:44064917 original size:64 final size:64
Alignment explanation
Indices: 44064838--44064962 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
44064828 ACACTGGAGT
* * * *
44064838 ATACAAATTCAAATATTAGAGTAGACATTGTTGAGAGAGATAACCATGAACTTCGAAGGGGAAG
1 ATACAAATTCAAATATTAGAGTAAACATTGATGAGAGAGACAACCATGAACTCCGAAGGGGAAG
44064902 ATACAAATTCAAATATTAGAGTAAACATTGATGAGAGAGACAACCATGAACTCCGAAGGGG
1 ATACAAATTCAAATATTAGAGTAAACATTGATGAGAGAGACAACCATGAACTCCGAAGGGG
44064963 TTAAGTAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (64 bp):
ATACAAATTCAAATATTAGAGTAAACATTGATGAGAGAGACAACCATGAACTCCGAAGGGGAAG
Found at i:44065907 original size:40 final size:41
Alignment explanation
Indices: 44065827--44065907 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
44065817 TTTATATTAT
44065827 TATTTATATTATGACATTAGTATTATTATTATTATAAAAGA
1 TATTTATATTATGACATTAGTATTATTATTATTATAAAAGA
* * * *
44065868 TATTTATATT-TTATATTATTATTATTATTATTATTAAAGA
1 TATTTATATTATGACATTAGTATTATTATTATTATAAAAGA
44065908 AAGATAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 26 0.72
41 10 0.28
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (41 bp):
TATTTATATTATGACATTAGTATTATTATTATTATAAAAGA
Found at i:44067397 original size:25 final size:25
Alignment explanation
Indices: 44067369--44067430 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
44067359 ACCTTAGCGC
44067369 GCTATCTGATTATTAGCACGTCAGT
1 GCTATCTGATTATTAGCACGTCAGT
44067394 GCTATCTGATTATTAGCACGTCAGT
1 GCTATCTGATTATTAGCACGTCAGT
*
44067419 GCTCTCTGATTA
1 GCTATCTGATTA
44067431 GCACATCCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTATCTGATTATTAGCACGTCAGT
Done.