Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 277 of 318
Found at i:88824184 original size:151 final size:151
Alignment explanation
Indices: 88823905--88824340 Score: 674
Period size: 151 Copynumber: 2.9 Consensus size: 151
88823895 TGAGAACACA
* * * * * *
88823905 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTAGGTCATGTGTGTAGTACGAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCATGTGTGTAGTACTAAGT
* * * *
88823970 GCAAGCTACTACGTGTATCAAATTGATAGGTCGCACGTGTAGTACTAAGTGCAGGCTACTATGCA
66 GCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
*
88824035 TACCCGATAACTTCGATCACG
131 TACCCGATAACTTCGATCACC
* * *
88824056 TGTGTAGTACTAAGTGCAGACTACTACGTATATCAGATGGATAGGTCATGGGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCATGTGTGTAGTACTAAGT
* * * * *
88824121 GTAGGATACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTACGTGCAGGCTATTATGCG
66 GCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
88824186 TACCCGATAACTTCGATCACC
131 TACCCGATAACTTCGATCACC
* * *
88824207 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATTGATAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCATGTGTGTAGTACTAAGT
88824272 GCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
88824337 TACC
131 TACC
88824341 AGAAAGCTTT
Statistics
Matches: 255, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 255 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCATGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGATAACTTCGATCACC
Found at i:88824564 original size:16 final size:16
Alignment explanation
Indices: 88824543--88824574 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88824533 AGAATGGAGT
88824543 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
88824559 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
88824575 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:88825254 original size:180 final size:180
Alignment explanation
Indices: 88824906--88825257 Score: 501
Period size: 180 Copynumber: 2.0 Consensus size: 180
88824896 GAGCTGTATA
*
88824906 ATGAGATAAATAATTTTTAGTGAAGAAAGGTCGGAACTATCAAACAGTGAAATAGGGGTATATTT
1 ATGAGATAAATAATTTTTAGTGAAGAAAGGTCAGAACTATCAAACAGTGAAATAGGGGTATATTT
* * *
88824971 AATGAATAAACTGTACTAATTTGCTAAACCAAAAATTTTGAAAACTTTATGGTAAGAATATATGT
66 AATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAACTTTATGGTAAGAATATATAT
* * *
88825036 GACTCTAGTTTCTGGGAAAATTATCAGTTCTCAATTTGGAGTCCCGTACC
131 GACTCTAGTTTCAGGGAAAATTAACAGATCTCAATTTGGAGTCCCGTACC
* * * * * * *
88825086 ATGATATAAATAATTTTTGGTGAAGAGAGGTCAGAACTGTTAGACAGTGAAATAGGGGTATTTTT
1 ATGAGATAAATAATTTTTAGTGAAGAAAGGTCAGAACTATCAAACAGTGAAATAGGGGTATATTT
* *
88825151 AATGAATAAACTGTACTTATTGGCTAAACCAAAAATTCT-AAAGATTTTATGGTAAGAATATATA
66 AATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAA-ACTTTATGGTAAGAATATATA
* * *
88825215 TGAGTCTAGTTTCAGAGG-AAATTAACGGATCTTAATTTGGAGT
130 TGACTCTAGTTTCAG-GGAAAATTAACAGATCTCAATTTGGAGT
88825258 TTTTTAGCTC
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
179 3 0.02
180 146 0.97
181 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (180 bp):
ATGAGATAAATAATTTTTAGTGAAGAAAGGTCAGAACTATCAAACAGTGAAATAGGGGTATATTT
AATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAACTTTATGGTAAGAATATATAT
GACTCTAGTTTCAGGGAAAATTAACAGATCTCAATTTGGAGTCCCGTACC
Found at i:88830068 original size:14 final size:14
Alignment explanation
Indices: 88830049--88830080 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
88830039 ATTTCTCCCT
*
88830049 TTTCTTTTTCTTTC
1 TTTCTTTTTCCTTC
88830063 TTTCTTTTTCCTTC
1 TTTCTTTTTCCTTC
88830077 TTTC
1 TTTC
88830081 CTTCCCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTCTTTTTCCTTC
Found at i:88833542 original size:45 final size:44
Alignment explanation
Indices: 88833440--88833846 Score: 363
Period size: 45 Copynumber: 9.1 Consensus size: 44
88833430 ATGGTGAATT
* * *
88833440 TTATCTCCCTCAAGTT-CTAGTGGAGTAGATT-AAAACCACAAATC
1 TTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAAA-TACAAATC
* * ** * *
88833484 TTATCACCTTGAAGTTATAGTGGAGTAGATTGAAAATAGCAAATT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATA-CAAATC
* * *
88833529 TTATCTCCCTGAAGTTACAGTAGAGCAGATT-AAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-ATACAAATC
* * * * *
88833573 TTCTCTCCCTGAAGTTGCAGTGGGGCACATTGAAGATAGAAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATA-CAAATC
* * * * **
88833618 TTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATACAAATC
* * ** *
88833662 TTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAAGCCAAAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-ATACAAATC
* * *
88833707 TTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAAATAGCAAATA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATA-CAAATC
* * * *
88833752 TTATCTTCCTGAAGTTGCAGTAGAGCAGATT-AAAACCATAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAA-TACAAATC
* **
88833796 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGATGATAACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAT-ACAAATC
88833841 TTATCT
1 TTATCT
88833847 TTTTGATGTT
Statistics
Matches: 294, Mismatches: 58, Indels: 21
0.79 0.16 0.06
Matches are distributed among these distances:
44 135 0.46
45 159 0.54
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATACAAATC
Found at i:88833840 original size:134 final size:133
Alignment explanation
Indices: 88833523--88833875 Score: 395
Period size: 134 Copynumber: 2.6 Consensus size: 133
88833513 TTGAAAATAG
* * * * * * *
88833523 CAAATTTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGTTACAAATCTTCTCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTAACAAATCTTATCTTCTTGAAGT
* * * * * * *
88833588 TGCAGTGGGGCACATTGAAGATAGAAAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTGAAG
66 TGCAGTGGAGCAGATTGAAAATAGAAAATATTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAA
**
88833653 TTA
131 CCA
* *
88833656 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAAGCCAA-AAATCTTATCTTCTTGAA
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG-AAG-TAACAAATCTTATCTTCTTGAA
* *
88833720 GTTGCAGTGGAGCAGATTGAAAATAGCAAATATTATCT-TCCTGAAGTTGCAGTAGAGCAGATTA
64 GTTGCAGTGGAGCAGATTGAAAATAGAAAATATTATCTCT-CTAAAGTTGCAGTAGAGCAGATTA
88833784 AAACCA
128 AAACCA
* * * * * *
88833790 TAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGATGATAACAAATCTTATCTTTTTGATG
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG-TAACAAATCTTATCTTCTTGAAG
** *
88833855 TTGCAGCAGAGTAGATTGAAA
65 TTGCAGTGGAGCAGATTGAAA
88833876 TTACAGTTTC
Statistics
Matches: 184, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
133 39 0.21
134 144 0.78
135 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (133 bp):
CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTAACAAATCTTATCTTCTTGAAGT
TGCAGTGGAGCAGATTGAAAATAGAAAATATTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAA
CCA
Found at i:88833847 original size:89 final size:88
Alignment explanation
Indices: 88833477--88833875 Score: 345
Period size: 89 Copynumber: 4.5 Consensus size: 88
88833467 GATTAAAACC
* * ** * * * *
88833477 ACAAATCTTATCACCTTGAAGTTATAGTGGAGTAGATTGAAAA-TAGCAAATTTTATCTCCCTGA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAACCA--AAATCTTATCTCCCTGA
* * *
88833541 AGTTACAGTAGAGCAGATTAAAGTT
64 AGTTGCAGTAGAGCAGATTGAAGTA
* * * * * * *
88833566 ACAAATCTTCTCTCCCTGAAGTTGCAGTGGGGCACATTGAAGATA-GAAAATCTTATCTCTCTAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAA-A-ACCAAAATCTTATCTCCCTGA
* *
88833630 AGTTGTAGTAGAGCAGATTGAAGTT
64 AGTTGCAGTAGAGCAGATTGAAGTA
* * * * * *
88833655 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAAGCCAAAAATCTTATCTTCTTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAACC-AAAATCTTATCTCCCTGAA
* *
88833720 GTTGCAGTGGAGCAGATTGAAAATA
65 GTTGCAGTAGAGCAGATTG-AAGTA
* * *
88833745 GCAAATATTATCTTCCTGAAGTTGCAGTAGAGCAGATT-AAAACCATAAATCTTATCTCCCTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAACCA-AAATCTTATCTCCCTGAA
* * *
88833809 GTTGCAGTGGAGTAGATTGATGATA
65 GTTGCAGTAGAGCAGATTGAAG-TA
*** * * *
88833834 ACAAATCTTATCTTTTTGATGTTGCAGCAGAGTAGATTGAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAA
88833876 TTACAGTTTC
Statistics
Matches: 253, Mismatches: 49, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
88 3 0.01
89 209 0.83
90 39 0.15
91 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (88 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAACCAAAATCTTATCTCCCTGAAG
TTGCAGTAGAGCAGATTGAAGTA
Found at i:88838218 original size:45 final size:44
Alignment explanation
Indices: 88838162--88838587 Score: 303
Period size: 45 Copynumber: 9.5 Consensus size: 44
88838152 TTAGACGGGG
* *
88838162 AGCAAATCGAAGATAGCAGATCTAACATTCATGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTC-TGTGTTTACATCGA
* * * * * *
88838207 AGCAGATCGAAGAT-GACAGATTTGGCA-TCTTTGTATTAGATGGGG
1 AGCAGATCGAAGATAG-CAGATCTGACATTCTGTGT-TTACAT-CGA
*
88838252 AGCAGATCAAAGATAGCAGATCTGACATTCATGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTC-TGTGTTTACATCGA
* * * * * *
88838297 AGCAGATCGAAGAT-GACAGATTTGGCGTCTCTGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAG-CAGATCTGACAT-TCTGTGTTTACATC--GA
*
88838342 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTCACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTC-TGTGTTTACATCGA
* * * * * * *
88838387 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAGCAGATCTGACAT-TCTGTGTTTACATC--GA
* *
88838432 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTGCATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTC-TGTGTTTACATCGA
* * * * * * * ***
88838477 AGCAGATCGAAAAT-GATAGATTTGGCGTCTCTGTATTAGACGGGGA
1 AGCAGATCGAAGATAG-CAGATCTGACAT-TCTGTGTT-TACATCGA
*
88838523 A-CAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTC-TGTGTTTACATCGA
88838567 AGCAGATCGAAGATAGCAGAT
1 AGCAGATCGAAGATAGCAGAT
88838588 TTGGCGTCTC
Statistics
Matches: 285, Mismatches: 70, Indels: 52
0.70 0.17 0.13
Matches are distributed among these distances:
43 6 0.02
44 28 0.10
45 219 0.77
46 26 0.09
47 6 0.02
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (44 bp):
AGCAGATCGAAGATAGCAGATCTGACATTCTGTGTTTACATCGA
Found at i:88838230 original size:90 final size:90
Alignment explanation
Indices: 88838111--88838619 Score: 806
Period size: 90 Copynumber: 5.7 Consensus size: 90
88838101 TCTGACATTA
* * * *
88838111 ACATTGAAGCATATCGAA-ATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGA
1 ACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
* *
88838175 TAGCAGATCTAACATTCATGTGTTT
66 TAGCAGATCTGACATTCGTGTGTTT
* * * *
88838200 ACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTTTGTATTAGATGGGGAGCAGATCAAAGA
1 ACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
*
88838265 TAGCAGATCTGACATTCATGTGTTT
66 TAGCAGATCTGACATTCGTGTGTTT
88838290 ACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
1 ACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
*
88838355 TAGCAGATCTGACATTCGTGTGTTC
66 TAGCAGATCTGACATTCGTGTGTTT
* *
88838380 ACATCGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGA
1 ACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
88838445 TAGCAGATCTGACATTCGTGTGTTT
66 TAGCAGATCTGACATTCGTGTGTTT
* * * * *
88838470 GCATCGAAGCAGATCGAAAATGATAGATTTGGCGTCTCTGTATTAGACGGGGAACAGGTCGAAGA
1 ACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
88838535 TAGCAGATCTGACATTCGTGTGTTT
66 TAGCAGATCTGACATTCGTGTGTTT
* *
88838560 ACATCGAAGCAGATCGAAGAT-AGCAGATTTGGCGTCTCTGTATTTGACGGGAAGCAGATC
1 ACATCGAAGCAGATCGAAGATGA-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
88838620 AAGGATATTA
Statistics
Matches: 388, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
89 17 0.04
90 371 0.96
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (90 bp):
ACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGA
TAGCAGATCTGACATTCGTGTGTTT
Found at i:88838364 original size:180 final size:179
Alignment explanation
Indices: 88837985--88838626 Score: 909
Period size: 180 Copynumber: 3.7 Consensus size: 179
88837975 GACGTTTCTA
* * *
88837985 TATTAGATGGGGAGCATATCGAAGATAGTAGATCTGACATTCGTGTG------TCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
* * * * *
88838044 GAAGATGACAGATGTGACGTCTCTGTATTAGACGGAGAGTAGATCGAAGATAGCAGATCTGACAT
66 GAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACAT
* * *
88838109 T-A-------ACATTGAAGCATATCGAAATGACAGATTTGGCATCTCTG
131 TCATGTGTTTACATCGAAGCAGATCGAAATGACAGATTTGGCGTCTCTG
* * *
88838150 TATTAGACGGGGAGCAAATCGAAGATAGCAGATCTAACATTCATGTGTTTACATCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
* * *
88838215 GAAGATGACAGATTTGGCATCTTTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACAT
66 GAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACAT
88838280 TCATGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTG
131 TCATGTGTTTACATCGAAGCAGATCGAA-ATGACAGATTTGGCGTCTCTG
*
88838330 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTCACATCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
*
88838395 GAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACAT
66 GAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACAT
* * *
88838460 TCGTGTGTTTGCATCGAAGCAGATCGAAAATGATAGATTTGGCGTCTCTG
131 TCATGTGTTTACATCGAAGCAGATCG-AAATGACAGATTTGGCGTCTCTG
* *
88838510 TATTAGACGGGGAACAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
* * *
88838575 GAAGAT-AGCAGATTTGGCGTCTCTGTATTTGACGGGAAGCAGATCAAGGATA
66 GAAGATGA-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
88838627 TTAACATGGC
Statistics
Matches: 427, Mismatches: 33, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
165 42 0.10
171 70 0.16
172 1 0.00
179 17 0.04
180 295 0.69
181 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (179 bp):
TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
GAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACAT
TCATGTGTTTACATCGAAGCAGATCGAAATGACAGATTTGGCGTCTCTG
Found at i:88840056 original size:27 final size:27
Alignment explanation
Indices: 88840026--88840083 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
88840016 ATTTTAATCC
* *
88840026 TTTTTAAATTTTTTATATATAATTTAT
1 TTTTTAAATATTTTATATATAATCTAT
*
88840053 TTTTTAAATATTTTATATATTATCTAT
1 TTTTTAAATATTTTATATATAATCTAT
88840080 TTTT
1 TTTT
88840084 ACTATAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAAATATTTTATATATAATCTAT
Found at i:88840130 original size:12 final size:12
Alignment explanation
Indices: 88840113--88840293 Score: 121
Period size: 12 Copynumber: 15.1 Consensus size: 12
88840103 TATGTAAAAA
88840113 ATTATTATATAT
1 ATTATTATATAT
* *
88840125 ATTATTTTTATTT
1 ATTA-TTATATAT
*
88840138 ATGTATTATTTAT
1 AT-TATTATATAT
*
88840151 -TATATTATTTAT
1 AT-TATTATATAT
88840163 ATT-TTATTATAT
1 ATTATTA-TATAT
88840175 ATT-TTATTATAT
1 ATTATTA-TATAT
88840187 ATT-TTAT-TAT
1 ATTATTATATAT
88840197 A-TATTATATCAT
1 ATTATTATAT-AT
*
88840209 TTTATTATATAT
1 ATTATTATATAT
88840221 ATTATTCAT-TAT
1 ATTATT-ATATAT
*
88840233 ATTATT-TTTAT
1 ATTATTATATAT
*
88840244 TTTATTATATAT
1 ATTATTATATAT
88840256 -TATATTATAT-T
1 AT-TATTATATAT
*
88840267 ATTATTTATTATTT
1 ATTA-TTA-TATAT
*
88840281 ATTATTATGTAT
1 ATTATTATATAT
88840293 A
1 A
88840294 ATTTTAAAAA
Statistics
Matches: 140, Mismatches: 13, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
9 1 0.01
10 9 0.06
11 17 0.12
12 76 0.54
13 30 0.21
14 7 0.05
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:88840151 original size:7 final size:7
Alignment explanation
Indices: 88840114--88840286 Score: 97
Period size: 7 Copynumber: 23.1 Consensus size: 7
88840104 ATGTAAAAAA
88840114 TTATTAT
1 TTATTAT
88840121 ATATATTAT
1 -T-TATTAT
88840130 TT-TTAT
1 TTATTAT
88840136 TTATGTA-
1 TTAT-TAT
88840143 TTATTTAT
1 TTA-TTAT
88840151 TATATTAT
1 T-TATTAT
88840159 TTA-TATT
1 TTATTA-T
88840166 TTATTAT
1 TTATTAT
*
88840173 ATA-T-T
1 TTATTAT
88840178 TTATTAT
1 TTATTAT
* *
88840185 ATATTTT
1 TTATTAT
88840192 ATTATATAT
1 -TTAT-TAT
*
88840201 TATATCATT
1 T-TATTA-T
88840210 TTATTAT
1 TTATTAT
88840217 ATATATTAT
1 -T-TATTAT
*
88840226 TCATTAT
1 TTATTAT
88840233 ATTATT-T
1 -TTATTAT
*
88840240 TTATTTT
1 TTATTAT
88840247 ATTATATAT
1 -TTAT-TAT
88840256 TATATTAT
1 T-TATTAT
88840264 ATTATTAT
1 -TTATTAT
88840272 TTATTAT
1 TTATTAT
88840279 TTATTAT
1 TTATTAT
88840286 T
1 T
88840287 ATGTATAATT
Statistics
Matches: 132, Mismatches: 11, Indels: 45
0.70 0.06 0.24
Matches are distributed among these distances:
5 3 0.02
6 15 0.11
7 45 0.34
8 42 0.32
9 27 0.20
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATTAT
Found at i:88840224 original size:79 final size:80
Alignment explanation
Indices: 88840114--88840288 Score: 243
Period size: 79 Copynumber: 2.2 Consensus size: 80
88840104 ATGTAAAAAA
* *
88840114 TTATTATATA-TATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATT
1 TTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATATT
*
88840178 TTATTATA-TA-T-T
66 ATATTATATTATTAT
*
88840190 TTATTATATATTA-TATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATTATAT
1 TTATTATATATTATTAT--TTTTATT-TATATATTATTCATTATATTATTTATATTTTATTATAT
88840254 ATTATATTATATTATTAT
63 ATTATATTATATTATTAT
*
88840272 TTATTATTTATTATTAT
1 TTATTATATATTATTAT
88840289 GTATAATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
76 13 0.15
77 2 0.02
78 7 0.08
79 45 0.52
80 2 0.02
81 1 0.01
82 13 0.15
83 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.66
Consensus pattern (80 bp):
TTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATATT
ATATTATATTATTAT
Found at i:88840297 original size:17 final size:15
Alignment explanation
Indices: 88840113--88840293 Score: 119
Period size: 15 Copynumber: 12.6 Consensus size: 15
88840103 TATGTAAAAA
*
88840113 ATTATTATATATATT
1 ATTATTATATTTATT
88840128 ATT-TT-TATTTATGT
1 ATTATTATATTTAT-T
88840142 ATTATT-TA-TTA-T
1 ATTATTATATTTATT
88840154 ATTATT-TA--TATT
1 ATTATTATATTTATT
88840166 -TTATTATATATT-TT
1 ATTATTATAT-TTATT
88840180 ATTA-TATATTTTATT
1 ATTATTATA-TTTATT
*
88840195 ATATATTATA-TCATT
1 AT-TATTATATTTATT
*
88840210 -TTATTATATATATT
1 ATTATTATATTTATT
88840224 ATTCATTATA-TTA-T
1 ATT-ATTATATTTATT
88840238 -TT-TTAT-TTTATT
1 ATTATTATATTTATT
88840250 ATATATTATATTATATT
1 AT-TATTATATT-TATT
88840267 ATTATTTATTATTTATT
1 ATTA-TTA-TATTTATT
88840284 ATTATGTATA
1 ATTAT-TATA
88840294 ATTTTAAAAA
Statistics
Matches: 136, Mismatches: 5, Indels: 49
0.72 0.03 0.26
Matches are distributed among these distances:
11 14 0.10
12 13 0.10
13 16 0.12
14 23 0.17
15 28 0.21
16 15 0.11
17 23 0.17
18 4 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (15 bp):
ATTATTATATTTATT
Found at i:88840684 original size:17 final size:18
Alignment explanation
Indices: 88840664--88840697 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88840654 ATCTCATAAA
*
88840664 TTATTTGTT-TTTTTATG
1 TTATTTATTATTTTTATG
88840681 TTATTTATTATTTTTAT
1 TTATTTATTATTTTTAT
88840698 ATATTTGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:88842866 original size:19 final size:20
Alignment explanation
Indices: 88842823--88842868 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
88842813 ACCAAAAAAA
88842823 TAAAATAAATTTCAAATATT
1 TAAAATAAATTTCAAATATT
* * *
88842843 CAAAATAATTTTTAAA-ATT
1 TAAAATAAATTTCAAATATT
88842862 TAAAATA
1 TAAAATA
88842869 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAATAAATTTCAAATATT
Found at i:88842905 original size:39 final size:38
Alignment explanation
Indices: 88842817--88842919 Score: 91
Period size: 39 Copynumber: 2.6 Consensus size: 38
88842807 AAAATTACCA
* * *
88842817 AAAAAATAAAATAAATTTCAAATATTCAAAATAATTTTT
1 AAAAAATAAAAT-AATTTAAAAAATCCAAAATAATTTTT
** *
88842856 AAAATTTAAAAT-ATTTAAAAAATCCAAAATTTATTTTCT
1 AAAAAATAAAATAATTTAAAAAATCCAAAA-TAATTTT-T
* *
88842895 AAAAAATAAAAAAATTATATAAAAT
1 AAAAAATAAAATAATT-TAAAAAAT
88842920 ATATAAAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
37 14 0.28
38 6 0.12
39 20 0.40
40 3 0.06
41 7 0.14
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (38 bp):
AAAAAATAAAATAATTTAAAAAATCCAAAATAATTTTT
Found at i:88843645 original size:13 final size:13
Alignment explanation
Indices: 88843590--88843653 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
88843580 AGTTCTTCAT
88843590 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
88843603 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
88843616 TACTGTGGAGAAA-
1 TGCTTTTGA-AAAG
*
88843629 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
88843642 TGCTTTGGAAAA
1 TGCTTTTGAAAA
88843654 ATTTAAGTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
12 2 0.05
13 33 0.87
14 3 0.08
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:88843650 original size:26 final size:26
Alignment explanation
Indices: 88843597--88843655 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
88843587 CATTGCTTTT
* *
88843597 GAAAAGTGTTTTTGAAAAGTACTGTG
1 GAAAAATGCTTTTGAAAAGTACTGTG
* * * *
88843623 GAGAAATGCTTTTGAGAAGTGCTTTG
1 GAAAAATGCTTTTGAAAAGTACTGTG
88843649 GAAAAAT
1 GAAAAAT
88843656 TTAAGTGTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (26 bp):
GAAAAATGCTTTTGAAAAGTACTGTG
Found at i:88844805 original size:17 final size:16
Alignment explanation
Indices: 88844774--88844815 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
88844764 ACATTATCAC
*
88844774 AGAACCACTCTTATTTG
1 AGAACAACTCTTA-TTG
88844791 -GAACAACTCTATATTG
1 AGAACAACTCT-TATTG
88844807 AGAACAACT
1 AGAACAACT
88844816 GTATTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (16 bp):
AGAACAACTCTTATTG
Found at i:88852021 original size:3 final size:3
Alignment explanation
Indices: 88851949--88852002 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
88851939 TCTTGTATAT
* * * *
88851949 TTA TTA TTA TTG CTA TTA TTG TTA TTT TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
88851997 TTA TTA
1 TTA TTA
88852003 GGTACTTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:88852265 original size:24 final size:22
Alignment explanation
Indices: 88852238--88852284 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
88852228 TAGTGTGTTT
88852238 TATTATATGTACATATACTCTTAA
1 TATTATAT-T-CATATACTCTTAA
*
88852262 TATTATATTCTTATACTCTTAA
1 TATTATATTCATATACTCTTAA
88852284 T
1 T
88852285 GCCATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 1 0.05
24 8 0.36
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTATATTCATATACTCTTAA
Found at i:88852291 original size:22 final size:22
Alignment explanation
Indices: 88852251--88852292 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
88852241 TATATGTACA
**
88852251 TATACTCTTAATATTATATTCT
1 TATACTCTTAATACCATATTCT
*
88852273 TATACTCTTAATGCCATATT
1 TATACTCTTAATACCATATT
88852293 ATTCTTATTA
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:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (22 bp):
TATACTCTTAATACCATATTCT
Found at i:88854291 original size:25 final size:26
Alignment explanation
Indices: 88854263--88854318 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
88854253 CATTTAGGTC
**
88854263 AATTTAAC-CCTAGGGGTATTTCAGT
1 AATTTAACACCTAGGGGTATAACAGT
**
88854288 AATTTTGCACCTAGGGGTATAACAGT
1 AATTTAACACCTAGGGGTATAACAGT
88854314 AATTT
1 AATTT
88854319 TCCATACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (26 bp):
AATTTAACACCTAGGGGTATAACAGT
Found at i:88854300 original size:26 final size:27
Alignment explanation
Indices: 88854271--88854346 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
88854261 TCAATTTAAC
*
88854271 CCTAGGGGTATTTCAGTAATTTTGC-A
1 CCTAGGGGTATTTCAGTAATTTTCCAA
**
88854297 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTTCAGTAATTTTCCA-A
*
88854325 CATAGGGGTATTAT-AGTAATTT
1 CCTAGGGGTATT-TCAGTAATTT
88854347 ATCTATTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.54
28 19 0.46
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTTCAGTAATTTTCCAA
Found at i:88854342 original size:28 final size:26
Alignment explanation
Indices: 88854273--88854346 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 26
88854263 AATTTAACCC
* *
88854273 TAGGGGTATT-TCAGTAATTTTGCACC
1 TAGGGGTATTAT-AGTAATTTTCCACA
* *
88854299 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATTATAGTAATTTTCC--ACA
88854327 TAGGGGTATTATAGTAATTT
1 TAGGGGTATTATAGTAATTT
88854347 ATCTATTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.49
28 20 0.51
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (26 bp):
TAGGGGTATTATAGTAATTTTCCACA
Found at i:88855829 original size:26 final size:26
Alignment explanation
Indices: 88855791--88855874 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
88855781 CATGAAATTC
* *
88855791 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
88855817 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
88855843 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
88855869 TTATCA
1 TTATCA
88855875 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:88856925 original size:17 final size:18
Alignment explanation
Indices: 88856883--88856937 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
88856873 CTAAAAATAA
88856883 AATTTTT-ATAATATTTT
1 AATTTTTAATAATATTTT
*
88856900 AATAATTTTAATGAT-TTTT
1 AAT--TTTTAATAATATTTT
*
88856919 AATTTTTAAAAATAGTTTT
1 AATTTTTAATAATA-TTTT
88856938 TATATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
17 11 0.37
19 15 0.50
20 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
AATTTTTAATAATATTTT
Found at i:88856932 original size:29 final size:30
Alignment explanation
Indices: 88856900--88856961 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
88856890 ATAATATTTT
88856900 AATAATTTTAATGAT-TTTTA-ATTTTTAAA
1 AATAATTTTAAT-ATATTTTATATTTTTAAA
* * *
88856929 AATAGTTTTTATATATTTTATATTTTTTAA
1 AATAATTTTAATATATTTTATATTTTTAAA
88856959 AAT
1 AAT
88856962 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 15 0.54
30 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
AATAATTTTAATATATTTTATATTTTTAAA
Found at i:88856947 original size:39 final size:37
Alignment explanation
Indices: 88856882--88856970 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 37
88856872 TCTAAAAATA
*
88856882 AAATTTTT-ATAATATTTTAATAATTTTA-ATGATTTTT
1 AAATTTTTAAAAATATTTTAATAATTTTATAT--TTTTT
*
88856919 -AATTTTTAAAAATAGTTTTTATATATTTTATATTTTTT
1 AAATTTTTAAAAATA-TTTTAATA-ATTTTATATTTTTT
*
88856957 AAAATTTTAAAAAT
1 AAATTTTTAAAAAT
88856971 TAATTATGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
36 7 0.16
37 5 0.11
38 12 0.27
39 18 0.41
40 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (37 bp):
AAATTTTTAAAAATATTTTAATAATTTTATATTTTTT
Found at i:88879550 original size:33 final size:33
Alignment explanation
Indices: 88879503--88879567 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
88879493 TGACTAACCA
88879503 AAACCGAGCTCAATGTACTCATCATCAAATGCT
1 AAACCGAGCTCAATGTACTCATCATCAAATGCT
*
88879536 AAACTGAGCTCAATGTACTCATCATCAAATGC
1 AAACCGAGCTCAATGTACTCATCATCAAATGC
88879568 CAAAAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (33 bp):
AAACCGAGCTCAATGTACTCATCATCAAATGCT
Found at i:88884261 original size:7 final size:7
Alignment explanation
Indices: 88884249--88884282 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
88884239 AGGAGAAATT
88884249 GATGAAG
1 GATGAAG
88884256 GATGAAG
1 GATGAAG
88884263 GATGAAG
1 GATGAAG
88884270 GATGAAG
1 GATGAAG
88884277 GATGAA
1 GATGAA
88884283 ACAGATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (7 bp):
GATGAAG
Found at i:88892268 original size:37 final size:37
Alignment explanation
Indices: 88892226--88892302 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
88892216 ATCAACCAGA
* *
88892226 ATTCTTCCATCAAAAATCTGTCAAGTCTGCTCCTTTT
1 ATTCTTCCAACAAAAATCTATCAAGTCTGCTCCTTTT
*
88892263 ATTCTTCTAACAAAAATCTATCAAGTCTGCTCCTTTT
1 ATTCTTCCAACAAAAATCTATCAAGTCTGCTCCTTTT
88892300 ATT
1 ATT
88892303 ATCCGAGCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (37 bp):
ATTCTTCCAACAAAAATCTATCAAGTCTGCTCCTTTT
Found at i:88904206 original size:18 final size:18
Alignment explanation
Indices: 88904183--88904218 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
88904173 ATGTGATTAA
88904183 GTATTGTTTGGATGTGCT
1 GTATTGTTTGGATGTGCT
88904201 GTATTGTTTGGATGTGCT
1 GTATTGTTTGGATGTGCT
88904219 AAATAGCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.33, T:0.50
Consensus pattern (18 bp):
GTATTGTTTGGATGTGCT
Found at i:88913232 original size:426 final size:426
Alignment explanation
Indices: 88912439--88913292 Score: 1627
Period size: 426 Copynumber: 2.0 Consensus size: 426
88912429 TTTTACGACA
*
88912439 GTTTGAATCCTTCAACTAGGCAATTGATCTATACAACCGCTAGTGGGACTCTGAATAATAAAACA
1 GTTTGAATCCCTCAACTAGGCAATTGATCTATACAACCGCTAGTGGGACTCTGAATAATAAAACA
*
88912504 TCTGAAGAGGCTTATGAGTTTATAGAGGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAG
66 CCTGAAGAGGCTTATGAGTTTATAGAGGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAG
88912569 AACGAAGCCCACAAAAGTAGCTAGTGTTTTTAACTTAGATGCGGTCACCATGTTGTCGAATTTGG
131 AACGAAGCCCACAAAAGTAGCTAGTGTTTTTAACTTAGATGCGGTCACCATGTTGTCGAATTTGG
*
88912634 TAGAACTCTTGAATAAAAAAATTGATGGTTTATGTGTTTCTACACAGGTACATCCAGTGATGCAA
196 TAGAACTCTTAAATAAAAAAATTGATGGTTTATGTGTTTCTACACAGGTACATCCAGTGATGCAA
*
88912699 TGCGACGCAAATAGAGGTGGAATTAATAATTTAGAATATTTACCCTATAGTCCTAGCATGGAGAA
261 TGCGACGCAAATAGAGGTGGAATTAATAATTCAGAATATTTACCCTATAGTCCTAGCATGGAGAA
* *
88912764 TGAGCAACTAAATTATATGGGTAATAATTCTAGACCTCAAAATAATCTTTATAGTAATAACTATA
326 TGAGCAACAAAATTATATGGGTAATAATTCTAGACCTCAAAATAATCCTTATAGTAATAACTATA
88912829 ATGCAGGATGGATAAACCACCTAAATTTCTCATAGG
391 ATGCAGGATGGATAAACCACCTAAATTTCTCATAGG
88912865 GTTTGAATCCCTCAACTAGGCAATTGATCTATACAACCGCTAGTGGGACTCTGAATAATAAAACA
1 GTTTGAATCCCTCAACTAGGCAATTGATCTATACAACCGCTAGTGGGACTCTGAATAATAAAACA
88912930 CCTGAAGAGGCTTATGAGTTTATAGAGGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAG
66 CCTGAAGAGGCTTATGAGTTTATAGAGGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAG
*
88912995 GACGAAGCCCACAAAAGTAGCTAGTGTTTTTAACTTAGATGCGGTCACCATGTTGTCGAATTTGG
131 AACGAAGCCCACAAAAGTAGCTAGTGTTTTTAACTTAGATGCGGTCACCATGTTGTCGAATTTGG
*
88913060 TAGAACTCTTAAATAAAAAATTTGATGGTTTATGTGTTTCTACACAGGTACATCCAGTGATGCAA
196 TAGAACTCTTAAATAAAAAAATTGATGGTTTATGTGTTTCTACACAGGTACATCCAGTGATGCAA
88913125 TGCGACGCAAATAGAGGTGGAATTAATAATTCAGAATATTTACCCTATAGTCCTAGCATGGAGAA
261 TGCGACGCAAATAGAGGTGGAATTAATAATTCAGAATATTTACCCTATAGTCCTAGCATGGAGAA
88913190 TGAGCAACAAAATTATATGGGTAATAATTCTAGACCTCAAAATAATCCTTATAGTAATAACTATA
326 TGAGCAACAAAATTATATGGGTAATAATTCTAGACCTCAAAATAATCCTTATAGTAATAACTATA
*
88913255 ATGCAGGATGGATGAACCACCTAAATTTCTCATAGG
391 ATGCAGGATGGATAAACCACCTAAATTTCTCATAGG
88913291 GT
1 GT
88913293 GGTCAAGGAA
Statistics
Matches: 419, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
426 419 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (426 bp):
GTTTGAATCCCTCAACTAGGCAATTGATCTATACAACCGCTAGTGGGACTCTGAATAATAAAACA
CCTGAAGAGGCTTATGAGTTTATAGAGGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAG
AACGAAGCCCACAAAAGTAGCTAGTGTTTTTAACTTAGATGCGGTCACCATGTTGTCGAATTTGG
TAGAACTCTTAAATAAAAAAATTGATGGTTTATGTGTTTCTACACAGGTACATCCAGTGATGCAA
TGCGACGCAAATAGAGGTGGAATTAATAATTCAGAATATTTACCCTATAGTCCTAGCATGGAGAA
TGAGCAACAAAATTATATGGGTAATAATTCTAGACCTCAAAATAATCCTTATAGTAATAACTATA
ATGCAGGATGGATAAACCACCTAAATTTCTCATAGG
Found at i:88918640 original size:16 final size:15
Alignment explanation
Indices: 88918621--88918657 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
88918611 TTCTATTTTT
88918621 TTTATTTAATTCATTA
1 TTTATTTAATTC-TTA
88918637 TTTATTTAATTCTTA
1 TTTATTTAATTCTTA
*
88918652 TCTATT
1 TTTATT
88918658 ATTATTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATTTAATTCTTA
Found at i:88918824 original size:5 final size:5
Alignment explanation
Indices: 88918814--88918841 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
88918804 TTCTTACTAG
88918814 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
88918842 TCATTCCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:88920344 original size:34 final size:34
Alignment explanation
Indices: 88920305--88920374 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
88920295 ATTGAGTCTA
* *
88920305 TTTATTTT-ATTTTTATTTTATGGTCATTTTTATT
1 TTTATTTTCAGTTTT-TTTTATGGTCATTGTTATT
* *
88920339 TTTATTTTCAGTTTTTTTTATGTTTATTGTTATT
1 TTTATTTTCAGTTTTTTTTATGGTCATTGTTATT
88920373 TT
1 TT
88920375 CTTAAACTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.16, C:0.03, G:0.07, T:0.74
Consensus pattern (34 bp):
TTTATTTTCAGTTTTTTTTATGGTCATTGTTATT
Found at i:88928819 original size:2 final size:2
Alignment explanation
Indices: 88928814--88928840 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
88928804 TCTTTGGTAT
88928814 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
88928841 ATACATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:88928965 original size:5 final size:5
Alignment explanation
Indices: 88928957--88928983 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
88928947 TAGTATAATA
88928957 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
88928984 ATGTTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:88935355 original size:32 final size:32
Alignment explanation
Indices: 88935292--88935360 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
88935282 ATAATTCATA
*
88935292 TTTAAAGTTATTTTTCTATGTATATATTTTCT
1 TTTAAAGTTATTTTTCTATATATATATTTTCT
*
88935324 TTTAAAGTTATTTATGTGTATAT-TATA-TTTCT
1 TTTAAAGTTATTT-T-TCTATATATATATTTTCT
88935356 TTTAA
1 TTTAA
88935361 GAACCATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 23 0.70
33 5 0.15
34 5 0.15
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (32 bp):
TTTAAAGTTATTTTTCTATATATATATTTTCT
Found at i:88936836 original size:3 final size:3
Alignment explanation
Indices: 88936828--88936886 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
88936818 CATCTTACTT
88936828 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
88936876 GAA GAAA GAA G
1 GAA G-AA GAA G
88936887 GGTTTGTTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:88937742 original size:3 final size:3
Alignment explanation
Indices: 88937734--88937784 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
88937724 TTTTATAGTC
88937734 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
88937782 TCT
1 TCT
88937785 CTGTTATTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:88937878 original size:21 final size:21
Alignment explanation
Indices: 88937854--88937894 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
88937844 GCCAACGTGG
*
88937854 CTAGTTAATTGGCCACGTCAT
1 CTAGTTAACTGGCCACGTCAT
88937875 CTAGTTAACTGGCCACGTCA
1 CTAGTTAACTGGCCACGTCA
88937895 CCTTTCCCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (21 bp):
CTAGTTAACTGGCCACGTCAT
Found at i:88947109 original size:61 final size:62
Alignment explanation
Indices: 88947009--88947131 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 62
88946999 GGAAAACAAC
*
88947009 ATAGATAAATACCTACAACAGTTGCAACCCTATAAATTTGTCCAAG-AAAAAGTGTTTGATT
1 ATAGATAAATACCTACAACAGTTGCAACCCTATAAATTTGTCCAAGAAAAAAATGTTTGATT
* *
88947070 ATAGATAAATACCTACAACAGTTGCAACCTTATACATTTGTCCAAGAAAAAAATGTTTGATT
1 ATAGATAAATACCTACAACAGTTGCAACCCTATAAATTTGTCCAAGAAAAAAATGTTTGATT
88947132 CTTTGATGAG
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 44 0.76
62 14 0.24
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (62 bp):
ATAGATAAATACCTACAACAGTTGCAACCCTATAAATTTGTCCAAGAAAAAAATGTTTGATT
Found at i:88949189 original size:20 final size:21
Alignment explanation
Indices: 88949154--88949208 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 21
88949144 CCTAAAACTA
*
88949154 CTTCC-ATATGCC-ATATAAC
1 CTTCCAATATACCAATATAAC
*
88949173 CTTCCAATAT-CCAATATCAC
1 CTTCCAATATACCAATATAAC
* *
88949193 ATTCAAATATACCAAT
1 CTTCCAATATACCAAT
88949209 TACCAGCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.23
20 18 0.60
21 5 0.17
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.31
Consensus pattern (21 bp):
CTTCCAATATACCAATATAAC
Found at i:88954916 original size:25 final size:25
Alignment explanation
Indices: 88954888--88955004 Score: 112
Period size: 25 Copynumber: 4.7 Consensus size: 25
88954878 AAGAATTCTC
*
88954888 TAGAAAGCCTTTGTAGCGTATCATT
1 TAGAAAGCCTTTGTGGCGTATCATT
** * *
88954913 TAGAAAGTTTTTGTGGCATATAATT
1 TAGAAAGCCTTTGTGGCGTATCATT
* * *
88954938 TGGAAAGCCTTTGTGGCGAATTC-TG
1 TAGAAAGCCTTTGTGGCGTA-TCATT
88954963 T-GAAAAGCCTTTGTGGCGTATCATT
1 TAG-AAAGCCTTTGTGGCGTATCATT
* *
88954988 TGGAAATCCTTTGTGGC
1 TAGAAAGCCTTTGTGGC
88955005 AAATTCTCTA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
24 3 0.04
25 68 0.93
26 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (25 bp):
TAGAAAGCCTTTGTGGCGTATCATT
Found at i:88955020 original size:50 final size:49
Alignment explanation
Indices: 88954913--88955028 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 49
88954903 GCGTATCATT
* * *
88954913 TAGAAAGTTTTTGTGGCATATAATTTGGAAAGCCTTTGTGGCGAATTCTG
1 TAGAAAG-CTTTGTGGCATATAATTTGGAAAGCCTTTGTGGCAAATTCTC
* * *
88954963 T-GAAAAGCCTTTGTGGCGTATCATTTGGAAATCCTTTGTGGCAAATTCTC
1 TAG-AAAG-CTTTGTGGCATATAATTTGGAAAGCCTTTGTGGCAAATTCTC
88955013 TAGAAAGCTGTTGTGG
1 TAGAAAGCT-TTGTGG
88955029 TGAGTTGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
49 3 0.05
50 52 0.93
51 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (49 bp):
TAGAAAGCTTTGTGGCATATAATTTGGAAAGCCTTTGTGGCAAATTCTC
Found at i:88955686 original size:48 final size:48
Alignment explanation
Indices: 88955615--88955712 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
88955605 TATGTAGGTC
88955615 TGATAATTGAACCAGTGCGTCGGAAGGGACCAAGCTAGTGATATGCCA
1 TGATAATTGAACCAGTGCGTCGGAAGGGACCAAGCTAGTGATATGCCA
*
88955663 TGATAATTGAACCAGTGTGTCGGAAGGGACCAAGCTAGTGATATGCCA
1 TGATAATTGAACCAGTGCGTCGGAAGGGACCAAGCTAGTGATATGCCA
88955711 TG
1 TG
88955713 GTGGTAGACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (48 bp):
TGATAATTGAACCAGTGCGTCGGAAGGGACCAAGCTAGTGATATGCCA
Found at i:88956090 original size:11 final size:11
Alignment explanation
Indices: 88956076--88956115 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
88956066 GTTTTCTCCA
*
88956076 TATTTTGCTAC
1 TATTTTGCTAT
*
88956087 TATTTTACTAT
1 TATTTTGCTAT
*
88956098 TATGTTGCTAT
1 TATTTTGCTAT
88956109 TATTTTG
1 TATTTTG
88956116 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:88957023 original size:81 final size:81
Alignment explanation
Indices: 88956932--88957093 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 81
88956922 ACCTTCTTTT
* * * *
88956932 TAAATATATATAATTAACTTATTTGTTTTAGTTGGTCTGTTGTAACCTTTTATGTTTGCAAAATT
1 TAAATATATATAATTAACTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGCAAAATT
* * *
88956997 TTCTCTCATGTATTTG
66 CTATCTCATGGATTTG
* *
88957013 TAAATATATATAATTAGCTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGTAAAATT
1 TAAATATATATAATTAACTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGCAAAATT
88957078 CTATCTCATGGATTTG
66 CTATCTCATGGATTTG
88957094 AGGTGTTTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (81 bp):
TAAATATATATAATTAACTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGCAAAATT
CTATCTCATGGATTTG
Found at i:88962250 original size:24 final size:25
Alignment explanation
Indices: 88962194--88962258 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
88962184 AAAACGAAAC
88962194 AAAAT-AATATATATAAAAACAATTT
1 AAAATAAATA-ATATAAAAACAATTT
* *
88962219 AAAGTAAATAATATGAAAA-AATTT
1 AAAATAAATAATATAAAAACAATTT
88962243 AAAATAAATAA-ATAAA
1 AAAATAAATAATATAAA
88962259 TTGCAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.11
24 15 0.43
25 12 0.34
26 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (25 bp):
AAAATAAATAATATAAAAACAATTT
Found at i:88964121 original size:41 final size:41
Alignment explanation
Indices: 88964065--88964188 Score: 144
Period size: 41 Copynumber: 3.0 Consensus size: 41
88964055 AAACGCCATA
* * * *
88964065 AAAAATTGAGAAATAGTGGTGTTTTTTG-TCTAAACGCCGCT
1 AAAAACTGAGCAATAGTGGCGTTTTTGGTTC-AAACGCCGCT
*
88964106 AAAAACTGAGCAATAGCGGCGTTTTTGGTTCAAACGCCGCT
1 AAAAACTGAGCAATAGTGGCGTTTTTGGTTCAAACGCCGCT
* * **
88964147 AAAAACTGAACAATAGTGGCGCTTTTGG-AGAAACGCCGCT
1 AAAAACTGAGCAATAGTGGCGTTTTTGGTTCAAACGCCGCT
88964187 AA
1 AA
88964189 CGCCAATATA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
40 12 0.17
41 58 0.81
42 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (41 bp):
AAAAACTGAGCAATAGTGGCGTTTTTGGTTCAAACGCCGCT
Found at i:88964294 original size:41 final size:41
Alignment explanation
Indices: 88964229--88964329 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
88964219 TTTTGGATCA
* *
88964229 AGCTTTTAGCTGCGCTTTTGGAGAAACGCCGCTATAGATAG
1 AGCTTTTAGCGGCGCTTTTAGAGAAACGCCGCTATAGATAG
* * * *
88964270 AGCTGTTAGCGGCGCTTTTAGAGAAATGCTGCTATAGATTG
1 AGCTTTTAGCGGCGCTTTTAGAGAAACGCCGCTATAGATAG
*
88964311 AGCTTTTAGCGGTGCTTTT
1 AGCTTTTAGCGGCGCTTTT
88964330 TAAAAAACGC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (41 bp):
AGCTTTTAGCGGCGCTTTTAGAGAAACGCCGCTATAGATAG
Found at i:88964482 original size:15 final size:15
Alignment explanation
Indices: 88964464--88964495 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
88964454 GGATTTTTTT
*
88964464 ATAATATAAATCTAA
1 ATAAGATAAATCTAA
88964479 ATAAGATAAATCTAA
1 ATAAGATAAATCTAA
88964494 AT
1 AT
88964496 TATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (15 bp):
ATAAGATAAATCTAA
Found at i:88964934 original size:14 final size:14
Alignment explanation
Indices: 88964896--88964935 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
88964886 TGTTTATTAT
*
88964896 TTTAGGGTTTAAGA
1 TTTAAGGTTTAAGA
* *
88964910 TTTATGATTTAAGA
1 TTTAAGGTTTAAGA
88964924 TTTAAGGTTTAA
1 TTTAAGGTTTAA
88964936 TGTAGGGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:88965454 original size:18 final size:17
Alignment explanation
Indices: 88965422--88965455 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
88965412 TATTAATTTT
88965422 AATATATTAAAATTATC
1 AATATATTAAAATTATC
*
88965439 AATATAATTTAAATTAT
1 AATAT-ATTAAAATTAT
88965456 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATATTAAAATTATC
Found at i:88970856 original size:31 final size:32
Alignment explanation
Indices: 88970818--88970882 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
88970808 TTGCTGTATT
88970818 TTATTTATATTTA-TATTT-AATCTA-ATTTTTA
1 TTATTTAT-TTTAGT-TTTGAATCTATATTTTTA
*
88970849 TTATTTATTTTAGTTTTGATTCTATATTTTTA
1 TTATTTATTTTAGTTTTGAATCTATATTTTTA
88970881 TT
1 TT
88970883 TTAATTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 14 0.47
32 9 0.30
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (32 bp):
TTATTTATTTTAGTTTTGAATCTATATTTTTA
Found at i:88976653 original size:22 final size:22
Alignment explanation
Indices: 88976628--88976675 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
88976618 TTAATTTTAA
88976628 TTTTGCCATTTC-TATTTTTTTC
1 TTTTGCC-TTTCGTATTTTTTTC
**
88976650 TTTTTTCTTTCGTATTTTTTTC
1 TTTTGCCTTTCGTATTTTTTTC
88976672 TTTT
1 TTTT
88976676 TACTATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTGCCTTTCGTATTTTTTTC
Found at i:88976660 original size:21 final size:22
Alignment explanation
Indices: 88976636--88976676 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
88976626 AATTTTGCCA
88976636 TTTC-TATTTTTTTCTTTTTTC
1 TTTCGTATTTTTTTCTTTTTTC
88976657 TTTCGTATTTTTTTCTTTTT
1 TTTCGTATTTTTTTCTTTTT
88976677 ACTATTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTCGTATTTTTTTCTTTTTTC
Found at i:88976730 original size:3 final size:3
Alignment explanation
Indices: 88976724--88976757 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
88976714 ATTATTGAGT
88976724 TTA TTA TTA TTA CTTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T
88976758 CTTTCTTTTT
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:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88977788 original size:13 final size:12
Alignment explanation
Indices: 88977767--88977798 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
88977757 ATTGTTCTCC
88977767 AAAAAAAAAGTG
1 AAAAAAAAAGTG
88977779 AAATAAAAAAGTG
1 AAA-AAAAAAGTG
88977792 AAAAAAA
1 AAAAAAA
88977799 TACATTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (12 bp):
AAAAAAAAAGTG
Found at i:88978639 original size:30 final size:30
Alignment explanation
Indices: 88978598--88978658 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
88978588 GAGTTTTCAG
88978598 GATCCACACGGGCAGGCCAAACACCCATGT
1 GATCCACACGGGCAGGCCAAACACCCATGT
* * * *
88978628 GATCTACACGGGTAGGCCACACGCCCATGT
1 GATCCACACGGGCAGGCCAAACACCCATGT
88978658 G
1 G
88978659 TCAGCCCGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (30 bp):
GATCCACACGGGCAGGCCAAACACCCATGT
Found at i:88987930 original size:19 final size:20
Alignment explanation
Indices: 88987902--88987940 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
88987892 GAAAAAATAG
*
88987902 TTATAATTTTTA-ATTATTT
1 TTATAATTTTAATATTATTT
*
88987921 TTATATTTTTAATATTATTT
1 TTATAATTTTAATATTATTT
88987941 AAAACTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATAATTTTAATATTATTT
Found at i:88988305 original size:60 final size:60
Alignment explanation
Indices: 88988229--88988350 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
88988219 GACTTCCTTA
88988229 CTCCTTACCATTTCCATCCAAATAACTTGTGTTTCATGCTGTGATTAGACCCTCAGGAAG
1 CTCCTTACCATTTCCATCCAAATAACTTGTGTTTCATGCTGTGATTAGACCCTCAGGAAG
88988289 CTCCTTACCATTTCCATCCAAATAACTTGTGTTTCATGCTGTGATTAGACCCTCAGGAAG
1 CTCCTTACCATTTCCATCCAAATAACTTGTGTTTCATGCTGTGATTAGACCCTCAGGAAG
88988349 CT
1 CT
88988351 AGAAAATTGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (60 bp):
CTCCTTACCATTTCCATCCAAATAACTTGTGTTTCATGCTGTGATTAGACCCTCAGGAAG
Found at i:88995531 original size:27 final size:26
Alignment explanation
Indices: 88995476--88995531 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
88995466 TTATTTTTCA
* *
88995476 TTTTCCTTTTCTTCTTCCCTTTTTAT
1 TTTTCCTTTTCTCCTTCCCTCTTTAT
*
88995502 TTTTCTCTTTTCTCCTTTCCC-CTTTGT
1 TTTTC-CTTTTCTCC-TTCCCTCTTTAT
88995529 TTT
1 TTT
88995532 CCTCCCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 5 0.20
27 15 0.60
28 5 0.20
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTCCTTTTCTCCTTCCCTCTTTAT
Found at i:88995669 original size:27 final size:26
Alignment explanation
Indices: 88995614--88995669 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
88995604 TTATTTTTCA
* *
88995614 TTTTCCTTTTCTTCTTCCCTTTTTAT
1 TTTTCCTTTTCTCCTTCCCTCTTTAT
* *
88995640 TTTTCTCTTTTCTCCTTTCCTCTTTGT
1 TTTTC-CTTTTCTCCTTCCCTCTTTAT
88995667 TTT
1 TTT
88995670 CCTCCCATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTCCTTTTCTCCTTCCCTCTTTAT
Found at i:88995791 original size:138 final size:138
Alignment explanation
Indices: 88995370--88995791 Score: 738
Period size: 138 Copynumber: 3.1 Consensus size: 138
88995360 TTTACTATTT
* * * *
88995370 TCTTCTCCTTCCCTCTCTATTTTCCTCCCATCTTTATTTTTTTTAAACATAGTTTTTCTATGTTT
1 TCTTCTCCTTTCCTCTTTGTTTTCCTCCCATCTTTA-TTTTTTTAAATATAGTTTTTCTATGTTT
88995435 TCCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTTTTCTTCTTCCCTTTTT
65 TCCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTTTTCTTCTTCCCTTTTT
88995500 ATTTTTCTC
130 ATTTTTCTC
* * *
88995509 TTTTCTCCTTTCCCCTTTGTTTTCCTCCCATTTTTATTTTTTTAAATATAGTTTTTCTATGTTTT
1 TCTTCTCCTTTCCTCTTTGTTTTCCTCCCATCTTTATTTTTTTAAATATAGTTTTTCTATGTTTT
88995574 CCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTTTTCTTCTTCCCTTTTTA
66 CCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTTTTCTTCTTCCCTTTTTA
88995639 TTTTTCTC
131 TTTTTCTC
* *
88995647 TTTTCTCCTTTCCTCTTTGTTTTCCTCCCATCTTTATTTTTTTAAATGTAGTTTTTCTATGTTTT
1 TCTTCTCCTTTCCTCTTTGTTTTCCTCCCATCTTTATTTTTTTAAATATAGTTTTTCTATGTTTT
88995712 CCATTTGTTAAAACCAGTCCCTATACTTTTTTTATTTTTCATTTTCCTTTTCTTCTTCCCTTTTT
66 CCATTTGTTAAAACCAGTCCCTATAC-TTTTTTATTTTTCATTTTCCTTTTCTTCTTCCCTTTTT
88995777 A-TTTTCTC
130 ATTTTTCTC
88995785 TCTTCTC
1 TCTTCTC
88995792 ATATTATTTA
Statistics
Matches: 271, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
138 202 0.75
139 69 0.25
ACGTcount: A:0.14, C:0.24, G:0.04, T:0.59
Consensus pattern (138 bp):
TCTTCTCCTTTCCTCTTTGTTTTCCTCCCATCTTTATTTTTTTAAATATAGTTTTTCTATGTTTT
CCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTTTTCTTCTTCCCTTTTTA
TTTTTCTC
Found at i:89007928 original size:16 final size:17
Alignment explanation
Indices: 89007896--89007929 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89007886 TTTTTTTGTT
89007896 TTAGTTTTTAATTTAAAA
1 TTAGTTTTT-ATTTAAAA
89007914 TTAGTTTTT-TTTAAAA
1 TTAGTTTTTATTTAAAA
89007930 CCCTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTAGTTTTTATTTAAAA
Found at i:89010387 original size:22 final size:21
Alignment explanation
Indices: 89010361--89010416 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
89010351 GTTATTTTCC
89010361 ATATTATATATTAAATTAACAT
1 ATATTAT-TATTAAATTAACAT
** *
89010383 ATATTATTATTACTTTAACTT
1 ATATTATTATTAAATTAACAT
89010404 ATTATTATTATTA
1 A-TATTATTATTA
89010417 TTTTGTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTATTATTAAATTAACAT
Found at i:89010392 original size:3 final size:3
Alignment explanation
Indices: 89010384--89010551 Score: 55
Period size: 3 Copynumber: 54.7 Consensus size: 3
89010374 AATTAACATA
* * *
89010384 TAT TAT TAT TACT T-T AACT TAT TAT TAT TAT TAT T-T TGT TAA TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
89010429 TAC TAT TAT AAT TA- TAT T-T TAT TTT TGT GTATT TATT TGT TCAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TA-T TAT T-AT TAT
* * *
89010475 TAT TAT TAAT TCAT TAAT T-T T-T TAT TAT TAA CA- TAT TCT TAT TAT
1 TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
89010520 TTT TAT TAAT GTAT TAG TAT TAT TAT ATAT TA
1 TAT TAT T-AT -TAT TAT TAT TAT TAT -TAT TA
89010552 GTGTATATTT
Statistics
Matches: 124, Mismatches: 25, Indels: 32
0.69 0.14 0.18
Matches are distributed among these distances:
2 14 0.11
3 80 0.65
4 28 0.23
5 2 0.02
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:89010425 original size:25 final size:23
Alignment explanation
Indices: 89010384--89010442 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
89010374 AATTAACATA
*
89010384 TATTATTATTACTTTAACTTATTAT
1 TATTATTATTACTTTAA--TATTAC
*
89010409 TATTATTATT-TTGTTAATATTAC
1 TATTATTATTACT-TTAATATTAC
*
89010432 TATTATAATTA
1 TATTATTATTA
89010443 TATTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 14 0.48
24 1 0.03
25 14 0.48
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATTACTTTAATATTAC
Found at i:89010560 original size:20 final size:19
Alignment explanation
Indices: 89010537--89010603 Score: 50
Period size: 20 Copynumber: 3.5 Consensus size: 19
89010527 AATGTATTAG
89010537 TATTATTATATATTAGTGTA
1 TATTATTATATATTA-TGTA
*
89010557 TATT-TTTTATTATATATGTA
1 TATTATTATA-TAT-TATGTA
*
89010577 TATGTA-TATATATT-TATA
1 TAT-TATTATATATTATGTA
*
89010595 TAGTATTAT
1 TATTATTAT
89010604 TTTTAATTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 2 0.05
18 8 0.21
19 5 0.13
20 17 0.45
21 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TATTATTATATATTATGTA
Found at i:89010689 original size:141 final size:143
Alignment explanation
Indices: 89010531--89010822 Score: 507
Period size: 141 Copynumber: 2.0 Consensus size: 143
89010521 TTTATTAATG
*
89010531 TATTAGTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTATA-
1 TATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTATAT
* *
89010595 TAGTATTATTTTTAATTACTTTATTTTAATA-TTTTCTTATATTATATATGCTTTTTGTATTTCA
66 TAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATATACTTTTTGTATTTCA
89010659 ATACTATTACTAT
131 ATACTATTACTAT
89010672 TATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTATAT
1 TATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTATA-
*
89010737 TTAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTACTTTTTGTATTTC
65 TTAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATATACTTTTTGTATTTC
* *
89010802 AATATTATTATTAT
130 AATACTATTACTAT
89010816 TATTATT
1 TATTATT
89010823 GTAATAGGCC
Statistics
Matches: 142, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
141 63 0.44
143 31 0.22
144 48 0.34
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (143 bp):
TATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTATAT
TAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATATACTTTTTGTATTTCA
ATACTATTACTAT
Found at i:89012204 original size:29 final size:25
Alignment explanation
Indices: 89012174--89012224 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
89012164 TCCTTCATAT
*
89012174 ATATATTATATAATTTATTTATTTTAA
1 ATATTTTATAT-A-TTATTTATTTTAA
*
89012201 ATATTTTGTATATTATTTATTTTA
1 ATATTTTATATATTATTTATTTTA
89012225 CTTTAAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 1 0.05
27 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATTTTATATATTATTTATTTTAA
Found at i:89012243 original size:30 final size:28
Alignment explanation
Indices: 89012179--89012243 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
89012169 CATATATATA
* *
89012179 TTATATAATTTATTTATTTTAAATATTT
1 TTATATAATTTATTTACTTTAAACATTT
* *
89012207 TGTATATTATTTATTTTACTTTAAACCTTAT
1 T-TATATAATTTA-TTTACTTTAAACATT-T
89012238 TTATAT
1 TTATAT
89012244 GTAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 10 0.33
30 17 0.57
31 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATATAATTTATTTACTTTAAACATTT
Found at i:89012268 original size:12 final size:12
Alignment explanation
Indices: 89012253--89012328 Score: 70
Period size: 12 Copynumber: 6.2 Consensus size: 12
89012243 TGTAAAAAAA
89012253 TATTTATTTTAT
1 TATTTATTTTAT
89012265 TATTTATTTTAT
1 TATTTATTTTAT
89012277 GTA-TTA-TTTAT
1 -TATTTATTTTAT
89012288 TATATTA-TTTA-
1 TAT-TTATTTTAT
89012299 TATTTTATTGTATAT
1 TA-TTTATT-T-TAT
*
89012314 TATTTATTATAT
1 TATTTATTTTAT
89012326 TAT
1 TAT
89012329 GTATAATTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
10 2 0.04
11 10 0.18
12 30 0.55
13 3 0.05
14 8 0.15
15 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TATTTATTTTAT
Found at i:89012272 original size:7 final size:7
Alignment explanation
Indices: 89012260--89012328 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
89012250 AAATATTTAT
89012260 TTTATTA
1 TTTATTA
89012267 TTTATTTTA
1 TTTA--TTA
*
89012276 TGTATTA
1 TTTATTA
89012283 TTTATTA
1 TTTATTA
89012290 --TATTA
1 TTTATTA
89012295 TTTA-TA
1 TTTATTA
*
89012301 TTTTATTG
1 -TTTATTA
*
89012309 TATATTA
1 TTTATTA
89012316 TTTATTA
1 TTTATTA
89012323 TATTAT
1 T-TTAT
89012329 GTATAATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
5 5 0.10
6 2 0.04
7 31 0.63
8 5 0.10
9 6 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:89012281 original size:16 final size:16
Alignment explanation
Indices: 89012262--89012321 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
89012252 ATATTTATTT
89012262 TATTATTTATTTTATG
1 TATTATTTATTTTATG
*
89012278 TATTATTTATTATAT-
1 TATTATTTATTTTATG
*
89012293 TATT-TATATTTTATTG
1 TATTATTTATTTTA-TG
89012309 TATATTATTTATT
1 --TATTATTTATT
89012322 ATATTATGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.20
15 5 0.14
16 14 0.40
18 4 0.11
19 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTATTTATTTTATG
Found at i:89012288 original size:28 final size:31
Alignment explanation
Indices: 89012253--89012339 Score: 108
Period size: 33 Copynumber: 2.8 Consensus size: 31
89012243 TGTAAAAAAA
*
89012253 TATTTATTTTATTATT-TATTTTA-TG-TAT
1 TATTTATTATATTATTATATTTTATTGATAT
89012281 TATTTATTATATTATTTATATTTTATTGTATAT
1 TATTTATTATATTA-TTATATTTTATTG-ATAT
89012314 TATTTATTATATTATGTATAATTTTA
1 TATTTATTATATTAT-TAT-ATTTTA
89012340 AAATTTTAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
28 13 0.25
29 2 0.04
30 7 0.14
31 2 0.04
32 1 0.02
33 20 0.39
34 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (31 bp):
TATTTATTATATTATTATATTTTATTGATAT
Found at i:89012290 original size:19 final size:19
Alignment explanation
Indices: 89012268--89012337 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
89012258 ATTTTATTAT
*
89012268 TTATTTTATGTATTATTTA
1 TTATATTATGTATTATTTA
*
89012287 TTATATTATTTA-TA-TT-
1 TTATATTATGTATTATTTA
89012303 TTAT-TGTA--TATTATTTA
1 TTATAT-TATGTATTATTTA
*
89012320 TTATATTATGTATAATTT
1 TTATATTATGTATTATTT
89012338 TAAAATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
14 2 0.05
15 3 0.07
16 8 0.20
17 8 0.20
18 3 0.07
19 17 0.41
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTATATTATGTATTATTTA
Found at i:89012331 original size:21 final size:21
Alignment explanation
Indices: 89012253--89012333 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
89012243 TGTAAAAAAA
* * *
89012253 TATTTATTTTATTATTTATTT
1 TATTTATTATATTATGTATAT
*
89012274 TATGTATTAT-TTAT-TATAT
1 TATTTATTATATTATGTATAT
*
89012293 TATTTA-TATTTTATTGTATAT
1 TATTTATTATATTA-TGTATAT
89012314 TATTTATTATATTATGTATA
1 TATTTATTATATTATGTATA
89012334 ATTTTAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.06
19 12 0.24
20 5 0.10
21 25 0.49
22 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TATTTATTATATTATGTATAT
Found at i:89012392 original size:15 final size:15
Alignment explanation
Indices: 89012353--89012393 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
89012343 TTTTAAAATT
89012353 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
89012368 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
89012381 ATTATTAAATATT
1 ATTATTAAATATT
89012394 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:89012740 original size:18 final size:18
Alignment explanation
Indices: 89012717--89012759 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
89012707 TATCTCATAA
89012717 ATTATTTGTTATTTTTAT
1 ATTATTTGTTATTTTTAT
* *
89012735 ATTATTTATTGTTTTTAT
1 ATTATTTGTTATTTTTAT
89012753 A-TATTTG
1 ATTATTTG
89012760 CATGAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTATTTGTTATTTTTAT
Found at i:89012855 original size:71 final size:70
Alignment explanation
Indices: 89012780--89012919 Score: 167
Period size: 71 Copynumber: 2.0 Consensus size: 70
89012770 GATTATTATG
* * *
89012780 TTGTTATTTTAAGTTATA-TTTGCATGAAATATTATTGTATATATA-TTATGTAATTTGTATTAT
1 TTGTT-TTCTAAGTTATATTTTGCATGAAATATTAATGTATATATATTTATGTAA-TT-TATGAT
89012843 TATATTTA
63 TATATTTA
* * * * *
89012851 TTGTTTTCTATGTTGTATTTTGCATGAAATGTTAATGTATGTATATTTATGTTATTTATGATTAT
1 TTGTTTTCTAAGTTATATTTTGCATGAAATATTAATGTATATATATTTATGTAATTTATGATTAT
89012916 ATTT
66 ATTT
89012920 GCATGAAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
70 21 0.36
71 31 0.53
72 7 0.12
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (70 bp):
TTGTTTTCTAAGTTATATTTTGCATGAAATATTAATGTATATATATTTATGTAATTTATGATTAT
ATTTA
Found at i:89012919 original size:119 final size:112
Alignment explanation
Indices: 89012793--89013006 Score: 268
Period size: 112 Copynumber: 1.8 Consensus size: 112
89012783 TTATTTTAAG
* **
89012793 TTATATTTGCATGAAATATTATTGTATATATATTATGTAATTTGTAT-TATTATATTTATTGTTT
1 TTATATTTGCATGAAATATTA----ATATATATTATGTAATTT-T-TGTAGT-TATTTATCATTT
* * *
89012857 TCTATGTTGTATTTTGCATGAAATGTTAATGTATGTATATTTATGTTATTTATGA
59 TCTATATTATA-TTTGCATGAAATGTTAAAGTATGTATATTTATGTTATTTATGA
* * *
89012912 TTATATTTGCATGAAATGTTAATGTATATTATGTAATTTTTGTCGTTATTTATCATTTTCTATAT
1 TTATATTTGCATGAAATATTAATATATATTATGTAATTTTTGTAGTTATTTATCATTTTCTATAT
89012977 TATATTTGCATGAAATGTTAAAGTATGTAT
66 TATATTTGCATGAAATGTTAAAGTATGTAT
89013007 CATGTAGTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
112 25 0.29
113 20 0.24
114 3 0.04
115 17 0.20
119 20 0.24
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.54
Consensus pattern (112 bp):
TTATATTTGCATGAAATATTAATATATATTATGTAATTTTTGTAGTTATTTATCATTTTCTATAT
TATATTTGCATGAAATGTTAAAGTATGTATATTTATGTTATTTATGA
Found at i:89012930 original size:48 final size:49
Alignment explanation
Indices: 89012843--89012938 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
89012833 TTTGTATTAT
*
89012843 TATATTTATTGTTTTCTATGTTGTATTTTGCATGAAATGTTAATGTATG
1 TATATTTATTGTTTTCTATGTTATATTTTGCATGAAATGTTAATGTATG
89012892 TATATTTA-TGTTATT-TATGATTATA-TTTGCATGAAATGTTAATGTAT
1 TATATTTATTGTT-TTCTATG-TTATATTTTGCATGAAATGTTAATGTAT
89012939 ATTATGTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
48 30 0.68
49 14 0.32
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (49 bp):
TATATTTATTGTTTTCTATGTTATATTTTGCATGAAATGTTAATGTATG
Found at i:89017149 original size:9 final size:9
Alignment explanation
Indices: 89017135--89017167 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
89017125 GTTAAACGAA
89017135 TCGAGTTAT
1 TCGAGTTAT
*
89017144 TCGAGTTAA
1 TCGAGTTAT
89017153 TCGAGTTAT
1 TCGAGTTAT
89017162 TCGAGT
1 TCGAGT
89017168 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:89017156 original size:18 final size:18
Alignment explanation
Indices: 89017133--89017167 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89017123 GAGTTAAACG
89017133 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
89017151 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
89017168 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:89018281 original size:5 final size:5
Alignment explanation
Indices: 89018271--89018296 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
89018261 CTCGAAAATT
89018271 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
89018297 CGAAAGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:89025717 original size:45 final size:44
Alignment explanation
Indices: 89025575--89025841 Score: 311
Period size: 45 Copynumber: 6.0 Consensus size: 44
89025565 TCCTCTAGAA
* * * * *
89025575 AGCAAATTTGGCGTCTCTGTATTGATGGAGAGCAGATCAAAGTT
1 AGCAGATTTGGCGTCTCTATATTGACGGGGAGCAGATCAAAGAT
* * * *
89025619 AGCAGATTTGGTGTCTCTATATTGACGGAGAGCAGATCGAAGAA
1 AGCAGATTTGGCGTCTCTATATTGACGGGGAGCAGATCAAAGAT
*
89025663 AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
1 AGCAGATTTGGCGTCTCTATATT-GACGGGGAGCAGATCAAAGAT
* * *
89025708 AGTAAATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTATATT-GACGGGGAGCAGATCAAAGAT
* * * * * *
89025753 AACAGATTTGGCATCTCCATATTGA-TGGGAGCAAATCGAAGAT
1 AGCAGATTTGGCGTCTCTATATTGACGGGGAGCAGATCAAAGAT
* *
89025796 AGCAGATTTGGCGTCTCTATATTAGACGGGGTGCAAATCAAAGAT
1 AGCAGATTTGGCGTCTCTATATT-GACGGGGAGCAGATCAAAGAT
89025841 A
1 A
89025842 TCAGCATGGT
Statistics
Matches: 191, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
43 36 0.19
44 62 0.32
45 93 0.49
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
AGCAGATTTGGCGTCTCTATATTGACGGGGAGCAGATCAAAGAT
Found at i:89025815 original size:88 final size:89
Alignment explanation
Indices: 89025574--89025841 Score: 353
Period size: 88 Copynumber: 3.0 Consensus size: 89
89025564 ATCCTCTAGA
* * *
89025574 AAGCAAATTTGGCGTCTCTGTATTGATGGAGAGCAGATCAAAGTTAGCAGATTTGGTGTCTCTAT
1 AAGCAGATTTGGCGTCTCTGTATTGATGG-GAGCAGATCAAAGATAGCAGATTTGGCGTCTCTAT
*
89025639 ATT-GACGGAGAGCAGATCGAAGA-
65 ATTAGACGGGGAGCAGATCGAAGAT
* * *
89025662 AAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAAATTTGGCGTCTCTA
1 AAGCAGATTTGGCGTCTCTGTATT-GA-TGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTA
89025727 TATTAGACGGGGAGCAGATCGAAGAT
64 TATTAGACGGGGAGCAGATCGAAGAT
* ** * *
89025753 AA-CAGATTTGGCATCTCCATATTGATGGGAGCAAATCGAAGATAGCAGATTTGGCGTCTCTATA
1 AAGCAGATTTGGCGTCTCTGTATTGATGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATA
* * *
89025817 TTAGACGGGGTGCAAATCAAAGAT
66 TTAGACGGGGAGCAGATCGAAGAT
89025841 A
1 A
89025842 TCAGCATGGT
Statistics
Matches: 158, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
88 79 0.50
89 38 0.24
90 39 0.25
91 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (89 bp):
AAGCAGATTTGGCGTCTCTGTATTGATGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATA
TTAGACGGGGAGCAGATCGAAGAT
Found at i:89025819 original size:133 final size:133
Alignment explanation
Indices: 89025578--89025841 Score: 377
Period size: 133 Copynumber: 2.0 Consensus size: 133
89025568 TCTAGAAAGC
* * * * ** *
89025578 AAATTTGGCGTCTCTGTATTGATGGAGAGCAGATCAAAGTTAGCAGATTTGGTGTCTCTATATTG
1 AAATTTGGCGTCTCTATATTGACGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCCATATTG
* * *
89025643 ACGGAGAGCAGATCGAAGAAAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
66 ACGGAGAGCAAATCGAAGAAAGCAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAGAT
89025708 AGT
131 AGT
* *
89025711 AAATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCATCTCCATATT
1 AAATTTGGCGTCTCTATATT-GACGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCCATATT
* * *
89025776 GATGG-GAGCAAATCGAAGATAGCAGATTTGGCGTCTCTATATTAGACGGGGTGCAAATCAAAGA
65 GACGGAGAGCAAATCGAAGAAAGCAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAGA
89025840 TA
130 TA
89025842 TCAGCATGGT
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
133 75 0.65
134 40 0.35
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (133 bp):
AAATTTGGCGTCTCTATATTGACGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCCATATTG
ACGGAGAGCAAATCGAAGAAAGCAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAGAT
AGT
Found at i:89027338 original size:25 final size:25
Alignment explanation
Indices: 89027304--89027358 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
89027294 TTTTAATCCT
*
89027304 TTTTATATATTATATA-ATTTATTTA
1 TTTTAAATATTATATATA-TTATTTA
* *
89027329 TTTTAAATATTTTGTATATTATTTA
1 TTTTAAATATTATATATATTATTTA
89027354 TTTTA
1 TTTTA
89027359 CTTTAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTAAATATTATATATATTATTTA
Found at i:89027427 original size:19 final size:19
Alignment explanation
Indices: 89027405--89027469 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
89027395 TTATTATTTT
89027405 TTATGTATTATTTATTATA
1 TTATGTATTATTTATTATA
*
89027424 TTATTTA-TA-TT-TTAT-
1 TTATGTATTATTTATTATA
89027439 TGTA--TATTATTTATTATA
1 T-TATGTATTATTTATTATA
*
89027457 TTATGTATAATTT
1 TTATGTATTATTT
89027470 TAAAATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 8 0.22
17 8 0.22
18 3 0.08
19 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTATGTATTATTTATTATA
Found at i:89027431 original size:33 final size:34
Alignment explanation
Indices: 89027394--89027471 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 34
89027384 AAATATTTAT
*
89027394 TTTATTATTTT-TTATGTATTATTTATTATATTA
1 TTTATTATTTTATTATATATTATTTATTATATTA
*
89027427 TTTA-TATTTTATTGTATATTATTTATTATATTA
1 TTTATTATTTTATTATATATTATTTATTATATTA
* *
89027460 TGTATAATTTTA
1 TTTATTATTTTA
89027472 AAATTTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 6 0.15
33 27 0.69
34 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (34 bp):
TTTATTATTTTATTATATATTATTTATTATATTA
Found at i:89027439 original size:26 final size:28
Alignment explanation
Indices: 89027387--89027469 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 28
89027377 TGTAAAAAAA
*
89027387 TATTTATTTTATTATTT-T-TTATGTAT
1 TATTTATTATATTATTTATATTATGTAT
89027413 TATTTATTATATTATTTATATT-T-TAT
1 TATTTATTATATTATTTATATTATGTAT
* *
89027439 TGTATATTAT-TTA-TTATATTATGTAT
1 TATTTATTATATTATTTATATTATGTAT
*
89027465 AATTT
1 TATTT
89027470 TAAAATTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 7 0.15
25 4 0.09
26 32 0.68
27 2 0.04
28 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTATTATATTATTTATATTATGTAT
Found at i:89027453 original size:7 final size:7
Alignment explanation
Indices: 89027394--89027460 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
89027384 AAATATTTAT
89027394 TTTATTA
1 TTTATTA
*
89027401 TTTTTTA
1 TTTATTA
*
89027408 TGTATTA
1 TTTATTA
89027415 TTTATTA
1 TTTATTA
89027422 --TATTA
1 TTTATTA
89027427 TTTA-TA
1 TTTATTA
*
89027433 TTTTATTG
1 -TTTATTA
*
89027441 TATATTA
1 TTTATTA
89027448 TTTATTA
1 TTTATTA
89027455 TATTAT
1 T-TTAT
89027461 GTATAATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
5 5 0.11
6 2 0.04
7 35 0.74
8 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:89027453 original size:14 final size:13
Alignment explanation
Indices: 89027387--89027460 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 13
89027377 TGTAAAAAAA
89027387 TATTTATTT-TAT
1 TATTTATTTATAT
*
89027399 TATTT-TTTAT-G
1 TATTTATTTATAT
89027410 TA-TTA-TT-TAT
1 TATTTATTTATAT
89027420 TATATTATTTATA-
1 TAT-TTATTTATAT
89027433 T-TTTATTGTATAT
1 TATTTATT-TATAT
89027446 TATTTA-TTATAT
1 TATTTATTTATAT
89027458 TAT
1 TAT
89027461 GTATAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 10 0.20
12 22 0.44
13 5 0.10
14 6 0.12
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TATTTATTTATAT
Found at i:89027524 original size:15 final size:15
Alignment explanation
Indices: 89027485--89027525 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
89027475 TTTCAAAATT
89027485 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
89027500 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
89027513 ATTATTAAATATT
1 ATTATTAAATATT
89027526 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:89036955 original size:77 final size:75
Alignment explanation
Indices: 89036867--89037201 Score: 257
Period size: 65 Copynumber: 4.7 Consensus size: 75
89036857 TGATATTTTT
89036867 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACG-T
1 ATTTCTGTTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCT
89036931 CGAGGTATTTTCA
64 -GAGGTATTTTCA
* * *
89036944 ATTTCTTTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
89037009 GGTA--TT--
66 GGTATTTTCA
* * * *
89037015 -TTT-AG--TTTC---TATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
89037073 GGTA-TTT--
66 GGTATTTTCA
* * * * * * * *
89037080 -TTT-AG--TTTC---TATCAACTCATGA-TACGATAGGTGAGTTGGGCCTCGAGACACACGCTG
1 ATTTCTGTTTTTCAAAAATCAACTCAT-ATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
89037137 AGGTATTTTCA
65 AGGTATTTTCA
* * * * *
89037148 AGTTATGTTTTTTCAAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCT
1 ATTTCTG-TTTTTC---AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
89037202 TTTAGTCTCT
Statistics
Matches: 220, Mismatches: 20, Indels: 34
0.80 0.07 0.12
Matches are distributed among these distances:
64 50 0.23
65 58 0.26
66 4 0.02
67 4 0.02
69 2 0.01
70 4 0.02
73 6 0.03
75 52 0.24
76 1 0.00
77 12 0.05
78 1 0.00
79 26 0.12
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (75 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
GGTATTTTCA
Found at i:89037117 original size:65 final size:65
Alignment explanation
Indices: 89036961--89037145 Score: 293
Period size: 65 Copynumber: 2.9 Consensus size: 65
89036951 TTTTTCAAAA
* *
89036961 ATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
89037025 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
* * * *
89037090 ATCAACTCATGA-TACGATAGGTGAGTTGGGCCTCGAGACACACGCTGAGGTATTTT
1 ATCAACTCAT-ATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTT
89037146 CAAGTTATGT
Statistics
Matches: 113, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
64 50 0.44
65 62 0.55
66 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (65 bp):
ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
Found at i:89037584 original size:88 final size:88
Alignment explanation
Indices: 89037434--89037594 Score: 277
Period size: 88 Copynumber: 1.8 Consensus size: 88
89037424 GGAGCAGGTT
* *
89037434 GAAGCTACAAATCTTTGCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCGTATCTTC
1 GAAGCTACAAATCTTTGCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCATATCTCC
89037499 TTAAAGTTCCAGCGGATTAGATC
66 TTAAAGTTCCAGCGGATTAGATC
* *
89037522 GAAGCTACAAATCTTTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTCATATCTCC
1 GAAGCTACAAATCTTTGCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCATATCTCC
*
89037587 TTGAAGTT
66 TTAAAGTT
89037595 TCAACGGAGT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (88 bp):
GAAGCTACAAATCTTTGCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCATATCTCC
TTAAAGTTCCAGCGGATTAGATC
Found at i:89037586 original size:44 final size:44
Alignment explanation
Indices: 89037451--89037591 Score: 108
Period size: 44 Copynumber: 3.2 Consensus size: 44
89037441 CAAATCTTTG
* *
89037451 CTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCGTAT
1 CTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTCATAT
* * ** * * * * * * *
89037495 CT-TCTTAAAGTTCCAGC-GGATTA-GATCGAAGCTACAAATCTTTT
1 CTCCCTGAAA-TGGCA-CTGGA-GAGGCTCGAAGCCACCATTCATAT
89037539 CTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTCATAT
1 CTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTCATAT
*
89037583 CTCCTTGAA
1 CTCCCTGAA
89037592 GTTTCAACGG
Statistics
Matches: 67, Mismatches: 24, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
43 7 0.10
44 53 0.79
45 7 0.10
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (44 bp):
CTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTCATAT
Found at i:89038922 original size:22 final size:21
Alignment explanation
Indices: 89038896--89038951 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
89038886 GTTATTTTCC
89038896 ATATTATATATTAAATTAACAT
1 ATATTAT-TATTAAATTAACAT
** *
89038918 ATATTATTATTACTTTAACTT
1 ATATTATTATTAAATTAACAT
89038939 ATTATTATTATTA
1 A-TATTATTATTA
89038952 TTATTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTATTATTAAATTAACAT
Found at i:89038927 original size:3 final size:3
Alignment explanation
Indices: 89038919--89039637 Score: 140
Period size: 3 Copynumber: 240.0 Consensus size: 3
89038909 AATTAACATA
* *
89038919 TAT TAT TAT TACT T-T AACT TAT TAT TAT TAT TAT TAT TAT TTT TA-
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
89038964 TAT TAC TAT TAT AAT TA- TAT T-T TAT TTT TGT GTATT TATT TAT TCAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TA-T TAT T-AT
* * * *
89039011 T-T TAT TAT TAAT TCAT TAA T-T TAT TAT TAT TAA CA- TAT TCT TAT
1 TAT TAT TAT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
89039055 TAT TTT TAT TAAT GTAT TAG TAT TAT TAT ATAT GTGT ATAT TTT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT -TAT -TAT -TAT TAT TAT
* *
89039102 TA- TAT TAT ATAT ATAT GTA- TAT ATAT T-T ATAT ATAG TAT TAT TTT
1 TAT TAT TAT -TAT -TAT -TAT TAT -TAT TAT -TAT -TAT TAT TAT TAT
* * **
89039147 TAAT TAC T-T TAT T-T TAA TAT T-T TAT TA- TAT TA- TAT T-T CCT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
89039187 T-T T-T GTAT T-T CAA TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89039230 TAT TAT ATAT TAGT GTA- TAT T-T T-T TAT TAT ATAT GTA- TAT GTA-
1 TAT TAT -TAT TA-T -TAT TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT
* * * *
89039273 TAT ATAT T-T ATAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT
1 TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* ** * * *
89039319 TTT TAT TA- TAT TA- TAT T-T CCT TTT GTAT T-T CAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
*
89039361 TAT TAT TAT TAT TAGT GTA- TAT T-T T-T TAT TAT ATAT GT-G TAT GTA-
1 TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT
* * * * *
89039406 TAT ATAT T-T ATAT AGAG CAT TAT TTT TAAT TAT T-T TAT T-T TAA TAT
1 TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* ** * * *
89039452 TTT TAT TA- TAT TA- TAT T-T GCT T-T T-T GTAT T-T CAA TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
*
89039492 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
89039540 ATAT TAGT GTA- TAT T-T TTT TAT TAT CTAT GTA- TAT GTA- TAT ATAT
1 -TAT TA-T -TAT TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT TAT -TAT
* * * *
89039585 T-T ATAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT TAT
1 TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
89039630 TA- TAT TAT
1 TAT TAT TAT
89039638 ATTTGCTTTT
Statistics
Matches: 531, Mismatches: 97, Indels: 176
0.66 0.12 0.22
Matches are distributed among these distances:
2 87 0.16
3 328 0.62
4 108 0.20
5 8 0.02
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:89038973 original size:23 final size:24
Alignment explanation
Indices: 89038941--89038988 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
89038931 TTTAACTTAT
* *
89038941 TATTATTATTATTATTAT-TTTTA
1 TATTACTATTATAATTATATTTTA
89038964 TATTACTATTATAATTATATTTTA
1 TATTACTATTATAATTATATTTTA
89038988 T
1 T
89038989 TTTTGTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTACTATTATAATTATATTTTA
Found at i:89038974 original size:29 final size:29
Alignment explanation
Indices: 89038919--89038992 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
89038909 AATTAACATA
* *
89038919 TATTATTATTA-CTTTAACTTATTATTAT
1 TATTATTATTATTTTTAACTTACTATTAT
89038947 TATTATTATTATTTTTATA-TTACTATTAT
1 TATTATTATTATTTTTA-ACTTACTATTAT
* *
89038976 AATTATATTTTATTTTT
1 TATTAT-TATTATTTTT
89038993 GTGTATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.28
29 18 0.46
30 10 0.26
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (29 bp):
TATTATTATTATTTTTAACTTACTATTAT
Found at i:89039072 original size:23 final size:23
Alignment explanation
Indices: 89039031--89039083 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
89039021 ATTCATTAAT
**
89039031 TTATTATTATTAACATATTCTTA
1 TTATTATTATTAACATATTAGTA
* **
89039054 TTATTTTTATTAATGTATTAGTA
1 TTATTATTATTAACATATTAGTA
89039077 TTATTAT
1 TTATTAT
89039084 ATATGTGTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (23 bp):
TTATTATTATTAACATATTAGTA
Found at i:89039110 original size:16 final size:16
Alignment explanation
Indices: 89039091--89039183 Score: 55
Period size: 16 Copynumber: 5.4 Consensus size: 16
89039081 TATATATGTG
89039091 TATATTTTTATTATAT
1 TATATTTTTATTATAT
* *
89039107 TATATATATATGTATA-
1 TATATTTTTAT-TATAT
*
89039123 TATATTTATATATAGTAT
1 TATATTTTTAT-TA-TAT
*
89039141 TAT-TTTTAATTACTTTAT
1 TATATTTTTATTA---TAT
*
89039159 TTTAATATTTTATTATAT
1 TAT-AT-TTTTATTATAT
89039177 TATATTT
1 TATATTT
89039184 CCTTTTTGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
16 25 0.42
17 13 0.22
18 13 0.22
20 1 0.02
21 7 0.12
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (16 bp):
TATATTTTTATTATAT
Found at i:89039124 original size:10 final size:10
Alignment explanation
Indices: 89039081--89039140 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
89039071 TTAGTATTAT
*
89039081 TATATATGTG
1 TATATATGTA
* *
89039091 TATATTTTTA
1 TATATATGTA
*
89039101 T-TATATTATA
1 TATATA-TGTA
89039111 TATATATGTA
1 TATATATGTA
*
89039121 TATATATTTA
1 TATATATGTA
89039131 TATATA-GTA
1 TATATATGTA
89039140 T
1 T
89039141 TATTTTTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
9 6 0.15
10 30 0.75
11 4 0.10
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (10 bp):
TATATATGTA
Found at i:89039133 original size:38 final size:38
Alignment explanation
Indices: 89039055--89039133 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
89039045 ATATTCTTAT
*
89039055 TATTTTTATTAATGTATTAGTATTATTATATATGTGTA
1 TATTTTTATTAATGTATTAGTATTATTATATATATGTA
*
89039093 TATTTTTATTATAT-TA-TA-TATATATGTATATATATTTA
1 TATTTTTATTA-ATGTATTAGTAT-TAT-TATATATATGTA
89039131 TAT
1 TAT
89039134 ATAGTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
36 3 0.08
37 5 0.14
38 26 0.72
39 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (38 bp):
TATTTTTATTAATGTATTAGTATTATTATATATATGTA
Found at i:89039135 original size:152 final size:150
Alignment explanation
Indices: 89039051--89039641 Score: 499
Period size: 152 Copynumber: 3.9 Consensus size: 150
89039041 TAACATATTC
*
89039051 TTATTATTTTTATTAATGTATTAGTATTATTATATA-T-GTGTATA-TTTTTATTATATTATATA
1 TTATTATTATTATT-AT-TATTAGTATTATTATATATTAGTGTATATTTTTTA-T-TA-TATATA
89039113 TATATGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTTTATTATATT
61 TATATGTATATATATTTATATATA-TATTATTTTTAATTACTTTATTTTAATATTTTATTATATT
* * *
89039178 ATATTTCCTTTTTGTATTTCAATACTA
125 ATATTT-CATTATGTATTACAATACTA
* *
89039205 TTATTATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATAT
1 TTATTATTATTATTATTATTAGTATTATTATATATTAGTGTATATTTTTTATTATATATATATAT
89039270 GTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATAT
66 GTATATATATTTATATATA-TATTATTTTTAATTACTTTATTTTAATA-TTTTATTATATTATAT
* * * *
89039335 TTCCTTTTGTATTTCAATATTA
129 TTCATTATGTATTACAATACTA
* * *
89039357 TTATTATTATTATTATTAGT-GTA-TATT-T-T-TTA-T-TATA-----TATGTGTATGTATATA
1 TTATTATTATTATTATTATTAGTATTATTATATATTAGTGTATATTTTTTAT-TATATATATATA
* ** *
89039410 --TAT-T-TA--TATAGA-GCATTATTTTTAATTATTTTATTTTAATATTTTTATTATATTATAT
65 TGTATATATATTTATATATATATTATTTTTAATTACTTTATTTTAATA-TTTTATTATATTATAT
* * *
89039468 TTGCTTTTTGTATTTCAATACTA
129 TT-CATTATGTATTACAATACTA
* * *
89039491 TTATTATTATTATTATTATTATTATTATTAT-TATTATTACTATTATTATATATTAGTGTATATT
1 TTATTATTATTATTATTATTAGTATTATTATATATTAGT-GTA-TATT-T-T-TTA-T-TATA--
*
89039555 TTTTTATTATCTATGTATATGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTA
57 ----TA-TATATATG--TA----TATATATTTATATATA-TATTATTTTTAATTACTTTATTTTA
89039620 ATATTATTATTATATTATATTT
110 ATATT-TTATTATATTATATTT
89039642 GCTTTTTTGT
Statistics
Matches: 367, Mismatches: 25, Indels: 72
0.79 0.05 0.16
Matches are distributed among these distances:
133 45 0.12
134 37 0.10
135 7 0.02
136 4 0.01
137 4 0.01
138 4 0.01
139 4 0.01
140 3 0.01
141 11 0.03
142 2 0.01
145 4 0.01
146 1 0.00
147 3 0.01
148 1 0.00
149 1 0.00
150 6 0.02
151 7 0.02
152 112 0.31
153 23 0.06
154 21 0.06
155 6 0.02
157 1 0.00
158 5 0.01
162 2 0.01
166 1 0.00
167 1 0.00
168 2 0.01
170 5 0.01
171 2 0.01
172 42 0.11
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (150 bp):
TTATTATTATTATTATTATTAGTATTATTATATATTAGTGTATATTTTTTATTATATATATATAT
GTATATATATTTATATATATATTATTTTTAATTACTTTATTTTAATATTTTATTATATTATATTT
CATTATGTATTACAATACTA
Found at i:89039405 original size:133 final size:134
Alignment explanation
Indices: 89039218--89039508 Score: 512
Period size: 133 Copynumber: 2.2 Consensus size: 134
89039208 TTATTATTAT
89039218 TATTATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTA
1 TATTATTATTATTATTAT-TATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTA
* *
89039283 TATATAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTT-CCTTTTGTAT
65 TATAGAGCATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCCTTTTGTAT
89039347 TTCAA
130 TTCAA
*
89039352 TATTATTATTATTATTATTATTAGTGTATATTTTTTATTATATATGTGTATGTATATATATTTAT
1 TATTATTATTATTATTATTATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTAT
* *
89039417 ATAGAGCATTATTTTTAATTATTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATT
66 ATAGAGCATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCCTTTTGTATT
89039482 TCAA
131 TCAA
*
89039486 TACTATTATTATTATTATTATTA
1 TATTATTATTATTATTATTATTA
89039509 TTATTATTAT
Statistics
Matches: 150, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
133 96 0.64
134 54 0.36
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (134 bp):
TATTATTATTATTATTATTATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTAT
ATAGAGCATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCCTTTTGTATT
TCAA
Found at i:89039562 original size:133 final size:132
Alignment explanation
Indices: 89039221--89039553 Score: 460
Period size: 133 Copynumber: 2.5 Consensus size: 132
89039211 TTATTATTAT
* * *
89039221 TATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTATAT
1 TATTATTATTATTAT-TATTAGTGTATATTTTTTATTATATATATGTATGTATATATATGTATAT
*
89039286 ATAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCCTTTTGTATTTCA
65 A-AGCATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCCTTTTGTATTTCA
*
89039351 ATAT
129 ATAC
* *
89039355 TATTATTATTATTATTATTAGTGTATATTTTTTATTATATATGTGTATGTATATATATTTATATA
1 TATTATTATTATTATTATTAGTGTATATTTTTTATTATATATATGTATGTATATATATGTATATA
* *
89039420 GAGCATTATTTTTAATTATTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTCA
66 -AGCATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTT-CCTTTTGTATTTCA
89039485 ATAC
129 ATAC
89039489 TATTATTATTATTATTATTA-T-TATTATTATTATTATTAT-TACTAT-TAT-TATATATTAGTG
1 TATTATTATTATTATTATTAGTGTA-TATT-TT-TTATTATATA-TATGTATGTATATA-TA-TG
89039549 TATAT
60 TATAT
89039554 TTTTTTATTA
Statistics
Matches: 184, Mismatches: 8, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
132 2 0.01
133 107 0.58
134 60 0.33
135 15 0.08
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (132 bp):
TATTATTATTATTATTATTAGTGTATATTTTTTATTATATATATGTATGTATATATATGTATATA
AGCATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTCCTTTTGTATTTCAAT
AC
Found at i:89039810 original size:12 final size:12
Alignment explanation
Indices: 89039793--89039817 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89039783 TATTAGAACG
89039793 TTATTTTCTTTA
1 TTATTTTCTTTA
89039805 TTATTTTCTTTA
1 TTATTTTCTTTA
89039817 T
1 T
89039818 AGTGAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTCTTTA
Found at i:89043808 original size:3 final size:3
Alignment explanation
Indices: 89043800--89043851 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
89043790 ATGATGCTCA
89043800 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89043848 TAT T
1 TAT T
89043852 TAATTATTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:89046093 original size:22 final size:23
Alignment explanation
Indices: 89046056--89046102 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
89046046 CGATCATTTT
* *
89046056 AATAAAGTATTTTGGTTTATTAA
1 AATAAAGTATTTTGGTCTATGAA
*
89046079 AATAATGT-TTTTGGTCTATGAA
1 AATAAAGTATTTTGGTCTATGAA
89046101 AA
1 AA
89046103 ACTAGAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (23 bp):
AATAAAGTATTTTGGTCTATGAA
Found at i:89047263 original size:28 final size:28
Alignment explanation
Indices: 89047232--89047286 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
89047222 AACATAAAAT
89047232 ACAAGATCTTAAAATAAACAAT-CATAAG
1 ACAA-ATCTTAAAATAAACAATACATAAG
* * *
89047260 ACAATTTTTAAAATAAATAATACATAA
1 ACAAATCTTAAAATAAACAATACATAA
89047287 AAAAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.27
Consensus pattern (28 bp):
ACAAATCTTAAAATAAACAATACATAAG
Done.