Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 42 of 295
Found at i:12204400 original size:31 final size:31
Alignment explanation
Indices: 12204333--12204402 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
12204323 TACCTGATCA
* * *
12204333 TCGGCTACTTGATTAGTGAAAAATGGTAACT
1 TCGGCTACCTGATCAGTGAAAAATGATAACT
* * * *
12204364 CCGGCTACCTGATCAGTGAATAGTGATAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAACT
12204395 TCGGCTAC
1 TCGGCTAC
12204403 AAGTGACAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (31 bp):
TCGGCTACCTGATCAGTGAAAAATGATAACT
Found at i:12207462 original size:16 final size:16
Alignment explanation
Indices: 12207441--12207471 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12207431 TCTTGAGGCC
*
12207441 TTAAAAAAATTAAAAA
1 TTAAAAAAAATAAAAA
12207457 TTAAAAAAAATAAAA
1 TTAAAAAAAATAAAA
12207472 TTCAAACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
TTAAAAAAAATAAAAA
Found at i:12208793 original size:64 final size:64
Alignment explanation
Indices: 12208605--12208794 Score: 299
Period size: 64 Copynumber: 3.0 Consensus size: 64
12208595 TCATTCATAA
* *
12208605 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCTTAATTATTTGACATAAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* ** * *
12208669 CACATCTAGTTAGGAACATTTGATTCATTTCGATCATAGTGTCCTGATTAGTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
12208733 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGTCATAAGC
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGC
12208795 GTAGATACAT
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 112 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:12209275 original size:177 final size:177
Alignment explanation
Indices: 12209090--12209426 Score: 505
Period size: 177 Copynumber: 1.9 Consensus size: 177
12209080 AAAATTACAG
* *
12209090 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGGGCAAATCTTATCTCCATGTATCGGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGGACAAATCTTATCTCCATGTATAGGA
* *
12209155 AATAGAGCATATTTTAACCA-TCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGGCGATT
66 AATAGAGCAGATTTTAACCACT-AGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTAGGCGATT
* * *
12209219 GTAGTCTTATCTTTCTGAGTTAACAAGGAAGCAGACTGAAGATTGAAA
130 GTAATCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAA
* ** * *
12209267 ATCTTATCTCCCTAAGCAGTTGTGGAGCAGATCGAGGATGACAAATCTTATCTCCATGTATAGGC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGGACAAATCTTATCTCCATGTATAGGA
* * * *
12209332 AATAGAGCAGATTTTAGCCACTAGCCTTGTCTCTCTGAGGTAGCAAGAGAGCAGGTAGGCGATTG
66 AATAGAGCAGATTTTAACCACTAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTAGGCGATTG
*
12209397 TAATCTTATCTTCCTGAGGTAGCAAGGAAG
131 TAATCTTATCTTCCTGAGGTAACAAGGAAG
12209427 TCGAGGATGA
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
177 141 0.99
178 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (177 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAGGACAAATCTTATCTCCATGTATAGGA
AATAGAGCAGATTTTAACCACTAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTAGGCGATTG
TAATCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAA
Found at i:12209453 original size:129 final size:129
Alignment explanation
Indices: 12209298--12209555 Score: 480
Period size: 129 Copynumber: 2.0 Consensus size: 129
12209288 GTGGAGCAGA
* *
12209298 TCGAGGATGACAAATCTTATCTCCATGTATAGGCAATAGAGCAGATTTTAGCCACTAGCCTTGTC
1 TCGAGGATGACAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
12209363 TCTCTGAGGTAGCAAGAGAGCAGGTAGGCGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAG
66 TCTCTGAGGTAGCAAGAGAGCAGGTAGGCGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAG
*
12209427 TCGAGGATGACAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGTCACTAGCCTTGTC
1 TCGAGGATGACAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
*
12209492 TCTCTGAGGTAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAG
66 TCTCTGAGGTAGCAAGAGAGCAGGTAGGCGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAG
12209556 CAGACTGAAG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 125 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (129 bp):
TCGAGGATGACAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGCCACTAGCCTTGTC
TCTCTGAGGTAGCAAGAGAGCAGGTAGGCGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAG
Found at i:12209554 original size:306 final size:306
Alignment explanation
Indices: 12209131--12209732 Score: 927
Period size: 306 Copynumber: 2.0 Consensus size: 306
12209121 TCGAAAAGGG
* * * *
12209131 CAAATCTTATCTCCATGTATCGGAAATAGAGCATATTTTAACCATCAGCCTTATCTCTCTAAAGT
1 CAAATCTTATCTCCATGCATAGGAAATAGAACAGATTTTAACCATCAGCCTTATCTCTCTAAAGT
* * *
12209196 AGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTTCTGAGTTAACAAGGAAGCAGACTGAAGA
66 AGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGA
* * *
12209261 TTGAAAATCTTATCTCCCTAAGCAGTTGTGGAGCAGATCGAGGATGACAAATCTTATCTCCATGT
131 TTGAAAATCTTATCTCCCTAAGCAGTTGTGGAACAGATCGAAGATGACAAATATTATCTCCATGT
*
12209326 ATAGGCAATAGAGCAGATTTTAGCCACTAGCCTTGTCTCTCTGAGGTAGCAAGAGAGCAGGTAGG
196 ATAGGCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGG
12209391 CGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAGTCGAGGATGA
261 CGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAGTCGAGGATGA
* ** * * *
12209437 CAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGTCA-CTAGCCTTGTCTCTCTGAGG
1 CAAATCTTATCTCCATGCATAGGAAATAGAACAGATTTTAACCATC-AGCCTTATCTCTCTAAAG
*
12209501 TAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAG
65 TAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAG
* * **
12209566 ATTGAAGATCTTATCTCTCTAAGCAGTTGTGGAACAGATCGAAGATGGTAAATATTATCTCCATG
130 ATTGAAAATCTTATCTCCCTAAGCAGTTGTGGAACAGATCGAAGATGACAAATATTATCTCCATG
* * * * *
12209631 TATCGGCAATGGAGCAGATTTTAGCCATTAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTG
195 TATAGGCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAG
* *
12209696 GCGATTGTAGTCTTATCTTCCTGATGTAGCAAGGAAG
260 GCGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAG
12209733 CAGACTGAAG
Statistics
Matches: 266, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
305 1 0.00
306 265 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (306 bp):
CAAATCTTATCTCCATGCATAGGAAATAGAACAGATTTTAACCATCAGCCTTATCTCTCTAAAGT
AGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGA
TTGAAAATCTTATCTCCCTAAGCAGTTGTGGAACAGATCGAAGATGACAAATATTATCTCCATGT
ATAGGCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTAGG
CGATTGTAATCTTATCTTCCTGAGGTAGCAAGGAAGTCGAGGATGA
Found at i:12209803 original size:177 final size:177
Alignment explanation
Indices: 12209432--12209803 Score: 584
Period size: 177 Copynumber: 2.1 Consensus size: 177
12209422 GGAAGTCGAG
* * *
12209432 GATGACAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGTCACTAGCCTTGTCTCTCT
1 GATGGCAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGCCACTAGCCTTATCTCTCT
12209497 GAGGTAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT
66 GAGGTAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT
*
12209562 GAAGATTGAAGATCTTATCTCTCTAAGCAGTTGTGGAACAGATCGAA
131 GAAGATTGAAGATCTTATCTCTCTAAGCAGTTGTGGAACAGATCAAA
* * * * * * * *
12209609 GATGGTAAATATTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCATTAGCCTTATCTCTTT
1 GATGGCAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGCCACTAGCCTTATCTCTCT
* *
12209674 GAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGATGTAGCAAGGAAGCAGACT
66 GAGGTAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT
*
12209739 GAAGATTGAAGATCTTATCTC-CTTAAGCAGTTGTGGAGCAGATCAAA
131 GAAGATTGAAGATCTTATCTCTC-TAAGCAGTTGTGGAACAGATCAAA
*
12209786 GATGGCGAATCTTATCTC
1 GATGGCAAATCTTATCTC
12209804 GAACAAGGCC
Statistics
Matches: 176, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
176 1 0.01
177 175 0.99
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (177 bp):
GATGGCAAATCTTATCTCCATGCATAGGCAATAGAACAGATTTTAGCCACTAGCCTTATCTCTCT
GAGGTAGCAAGAGAGCAGGTAGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT
GAAGATTGAAGATCTTATCTCTCTAAGCAGTTGTGGAACAGATCAAA
Found at i:12210666 original size:31 final size:30
Alignment explanation
Indices: 12210631--12210693 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
12210621 CGTGTTATTT
*
12210631 TATATAAATTCTTTTAAATTTATTATATATA
1 TATATAAATTCTTTTAAACTTATT-TATATA
** *
12210662 TATATATTTTCTTTTAAACTTATTTATGTA
1 TATATAAATTCTTTTAAACTTATTTATATA
12210692 TA
1 TA
12210694 ATTTGTTTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (30 bp):
TATATAAATTCTTTTAAACTTATTTATATA
Found at i:12220240 original size:74 final size:73
Alignment explanation
Indices: 12220143--12220349 Score: 240
Period size: 73 Copynumber: 2.8 Consensus size: 73
12220133 ATTTCTGTTC
* ** * *
12220143 CAAAGATCAACTTATAGGGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAAATT
1 CAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC-AA-T
12220208 C-TT-TTT-T
64 CGTTGTTTGT
* * * * *
12220215 CAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGGAATTTTCAAT
1 C--AAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
12220280 CGTTGTTTGT
64 CGTTGTTTGT
* * *
12220290 CAAAAATCAACTCATACTGCCAGAGGAGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1 CAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
12220350 GATTTCCGCT
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
72 3 0.03
73 55 0.49
74 53 0.47
75 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (73 bp):
CAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATCG
TTGTTTGT
Found at i:12220487 original size:164 final size:163
Alignment explanation
Indices: 12220214--12220841 Score: 545
Period size: 164 Copynumber: 3.9 Consensus size: 163
12220204 AATTCTTTTT
* * * *
12220214 TCAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGG-AATTTTCA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA-TTTCA
*
12220278 ATCGT-TGTTTGTCAAAAATCAACTCATACTGCCAGAGGAGAGTTGAGCCTCAGG-GCAC-GCTG
65 AT-TTCTGTTTGTCAAAAATCAACTCATACTGCCAGAGGAGAGTTGAGCCTC-GGCGCACAGCTG
* *
12220340 AGGTATTTTCGATTTCCGCTTTCCAATTTCTACTCT
128 AGGTATTTTCAATTTCCGCTTTCCAATTTCTACTCG
** *
12220376 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACACTGAGGTAATTTC
1 TC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTC
* * *
12220441 AATTTCTGTTTGTCAAAAATCAACTCATA-TCGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
64 AATTTCTGTTTGTCAAAAATCAACTCATACT-GCCAGAGGAGAGTTGAGCCTCGGCGCACA-GCT
* ** * * **
12220505 GAGGTCTTTTCAATTTTTGTTTTTCAATTTCTGTTCG
127 GAGGTATTTTCAATTTCCGCTTTCCAATTTCTACTCG
12220542 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCGAT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA-----A-
* * *
12220607 TTCTGCTTTCCAATTTCTGTCTT-TCAAAATAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
60 ------TTT-CAATTTCTGT-TTGTC-AAA-AATCAACTCATACTGCCAGAGGAGAGTTGAGCCT
* * *
12220671 CAG-G-ACACGCTGAGGTAATTTT-GA--T---C--TCC--GTT-T--TCG
115 CGGCGCACA-GCTGAGGT-ATTTTCAATTTCCGCTTTCCAATTTCTACTCG
*
12220707 -----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAA
* ** * *
12220767 TTTCTGTTTGTCAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC-GCTGAG
66 TTTCTGTTTGTC-AAAAATCAACTCATACTGCCAGAGGAGAGTTGAGCCTCGGCGCACAGCTGAG
12220831 GTATTTTCAAT
130 GTATTTTCAAT
12220842 CATTGTTTTT
Statistics
Matches: 398, Mismatches: 37, Indels: 77
0.78 0.07 0.15
Matches are distributed among these distances:
145 5 0.01
146 45 0.11
147 17 0.04
148 5 0.01
155 1 0.00
160 52 0.13
162 2 0.01
163 4 0.01
164 152 0.38
165 5 0.01
166 33 0.08
167 1 0.00
168 2 0.01
169 1 0.00
170 2 0.01
175 1 0.00
176 3 0.01
177 24 0.06
178 9 0.02
179 33 0.08
180 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (163 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAA
TTTCTGTTTGTCAAAAATCAACTCATACTGCCAGAGGAGAGTTGAGCCTCGGCGCACAGCTGAGG
TATTTTCAATTTCCGCTTTCCAATTTCTACTCG
Found at i:12220652 original size:88 final size:86
Alignment explanation
Indices: 12220440--12220687 Score: 311
Period size: 88 Copynumber: 2.8 Consensus size: 86
12220430 GAGGTAATTT
* *
12220440 CAATTTCTGTTTGTC-AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATG
1 CAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACG
* * * *
12220503 CTGAGGTCTTTTCAATTTTTGTTTTT
62 CTGAGGT-ATTTCAATTTCTGCTTTC
* *
12220529 CAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
1 CAATTTCTGTT-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
12220594 GAGGTATTTCGATTTCTGCTTTC
64 GAGGTATTTCAATTTCTGCTTTC
*
12220617 CAATTTCTGTCTTTCAAAATAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
1 CAATTTCTGT-TTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
12220682 GAGGTA
64 GAGGTA
12220688 ATTTTGATCT
Statistics
Matches: 141, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
87 4 0.03
88 74 0.52
89 24 0.17
91 37 0.26
92 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (86 bp):
CAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTCAATTTCTGCTTTC
Found at i:12220754 original size:72 final size:71
Alignment explanation
Indices: 12220637--12220894 Score: 322
Period size: 72 Copynumber: 3.5 Consensus size: 71
12220627 CTTTCAAAAT
* * *
12220637 AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTGATCTCCGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATCTCTGT
12220702 TTTCGAA
66 TTTC-AA
* *
12220709 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATCTCTGT
12220774 TTGTCAAAA
66 TT-TC--AA
* * *
12220783 AATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTTTCAATCAT-T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATC-TCT
12220846 GTTTTTCAA
64 G-TTTTCAA
* * * *
12220855 GAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGA
1 -AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
12220895 TCACACACCG
Statistics
Matches: 162, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
72 64 0.40
73 38 0.23
74 56 0.35
75 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (71 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATCTCTGT
TTTCAA
Found at i:12220826 original size:74 final size:72
Alignment explanation
Indices: 12220617--12220894 Score: 342
Period size: 74 Copynumber: 3.8 Consensus size: 72
12220607 TTCTGCTTTC
*
12220617 CAATTTCTGTCTTTCAAAATAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
1 CAATTTCTGT-TTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
12220682 GAGGTAATTT
63 GAGGTAATTT
** * * *
12220692 TGATCTCCGTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 CAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
12220757 GTAATTT
66 GTAATTT
* * *
12220764 CAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 CAATTTCTGTTT-TC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
12220829 AGGTATTTT
64 AGGTAATTT
* * * * * *
12220838 CAATCAT-TGTTTTTCAAGAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGA
1 CAAT-TTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
12220895 TCACACACCG
Statistics
Matches: 175, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
72 62 0.35
73 38 0.22
74 65 0.37
75 10 0.06
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (72 bp):
CAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTT
Found at i:12220910 original size:14 final size:14
Alignment explanation
Indices: 12220891--12220920 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12220881 ATTGAGCCTC
12220891 AGGATCACACACCG
1 AGGATCACACACCG
12220905 AGGATCACACACCG
1 AGGATCACACACCG
12220919 AG
1 AG
12220921 TAAAGAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.33, G:0.23, T:0.07
Consensus pattern (14 bp):
AGGATCACACACCG
Found at i:12221344 original size:25 final size:25
Alignment explanation
Indices: 12221310--12221357 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
12221300 AAAAGTCTTT
*
12221310 ACTCTATTCTCGTTACACGACAAAA
1 ACTCTATTCTCGTTACACAACAAAA
*
12221335 ACTCTGTTCTCGTTACACAACAA
1 ACTCTATTCTCGTTACACAACAA
12221358 TGAGTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.29
Consensus pattern (25 bp):
ACTCTATTCTCGTTACACAACAAAA
Found at i:12223099 original size:24 final size:24
Alignment explanation
Indices: 12223062--12223169 Score: 73
Period size: 24 Copynumber: 4.4 Consensus size: 24
12223052 GTATATATTG
*
12223062 TATATGTTTTATA-TATGTTATGTA
1 TATAT-TTTTATACCATGTTATGTA
**
12223086 TATATTTTTAATATTACTAGTTA--TA
1 TATATTTTT-ATACCA-T-GTTATGTA
12223111 TATATTTCTTATA-CAT-TTCCATGTA
1 TATATTT-TTATACCATGTT--ATGTA
* *
12223136 CATATTTTTATACCATCTTATGTA
1 TATATTTTTATACCATGTTATGTA
12223160 TATATTTTTA
1 TATATTTTTA
12223170 AATACTATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
21 2 0.03
23 6 0.09
24 28 0.40
25 25 0.36
26 5 0.07
27 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATTTTTATACCATGTTATGTA
Found at i:12223232 original size:36 final size:33
Alignment explanation
Indices: 12223153--12223235 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 33
12223143 TTATACCATC
*
12223153 TTATGTATATATTTTTAAATACTATATTGTATA
1 TTATGTATATATTCTTAAATACTATATTGTATA
* *
12223186 TGTATATATATATTCTT-AGTACTATATTACGCATATA
1 T-TATGTATATATTCTTAAATACTATATT--G--TATA
12223223 TTATGTATATATT
1 TTATGTATATATT
12223236 TATTTTTACC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
33 11 0.27
34 13 0.32
35 1 0.02
36 11 0.27
37 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (33 bp):
TTATGTATATATTCTTAAATACTATATTGTATA
Found at i:12232841 original size:205 final size:205
Alignment explanation
Indices: 12232490--12233591 Score: 1902
Period size: 205 Copynumber: 5.4 Consensus size: 205
12232480 CAGATGTTAT
*
12232490 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATA-CT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
12232554 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
12232619 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGTAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
12232684 AGATGATTTC
196 AGATGATTTC
*
12232694 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
12232759 GATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
12232824 AGAATAAATCGAAGTTTGGCATATTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
12232889 AGATGATTTC
196 AGATGATTTC
* *
12232899 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAAACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
12232964 GATTTGGCTTTCACGTGATTACGATGAATCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
12233029 AGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
12233094 AGATGATTTC
196 AGATGATTTC
* *
12233104 ACTGAAGCAGATCCAAGATAGTTTGGCATCCTTGTGTTTACAAGGAATAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
12233169 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
12233234 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAACAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
12233299 AGATGATTTC
196 AGATGATTTC
12233309 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
12233374 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * ** * *
12233439 AGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTAACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
*
12233504 AGATG-TTTAT
196 AGATGATTT-C
* * *
12233514 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
* *
12233579 AGATTTGACTTTC
65 TGATTTGGCTTTC
12233592 GGATGTTCCC
Statistics
Matches: 855, Mismatches: 40, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
204 65 0.08
205 726 0.85
206 64 0.07
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
AGATGATTTC
Found at i:12233779 original size:44 final size:44
Alignment explanation
Indices: 12233709--12233974 Score: 210
Period size: 44 Copynumber: 6.1 Consensus size: 44
12233699 GATCTAAGAT
* * *
12233709 GATTTGGCATCTCC-GT-ATTATCAGGGAACAAGTTGAAAACAGCA
1 GATTTGGCATC-CCTGTGCTTAT-AGGGAACAAGTTGAAGATAGCA
* *
12233753 GATTTGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGTA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCA
** * * * * **
12233797 GAACTGACATTCCTGTGCTTA-CGGTGAAGC-AGATCGAAGATTTCA
1 GATTTGGCATCCCTGTGCTTATAGG-GAA-CAAG-TTGAAGATAGCA
*
12233842 GCA--TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCA
1 G-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCA
* * *
12233885 GATTTGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGACAGCA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCA
* *
12233929 GATTTGGCATCCCTGTGTTTAT-GAGGAAC-AGATCGAAGA-AGCA
1 GATTTGGCATCCCTGTGCTTATAG-GGAACAAG-TTGAAGATAGCA
12233972 GAT
1 GAT
12233975 CAAGAACTCA
Statistics
Matches: 184, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
42 1 0.01
43 26 0.14
44 136 0.74
45 20 0.11
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCA
Found at i:12233941 original size:88 final size:87
Alignment explanation
Indices: 12233733--12233975 Score: 237
Period size: 88 Copynumber: 2.8 Consensus size: 87
12233723 GTATTATCAG
* *
12233733 GGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGTAG
1 GGAACAAGTTGAAGACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
* * **
12233798 AACTGACATTCCTGTGCTTACG
66 ATCTGACATCCCTGTGCTTAAA
* *** * *
12233820 GTGAAGC-AGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAGAT
1 G-GAA-CAAG-TTGAAGACAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* * *
12233881 AGCAGATTTGGCATCCCTGTGTTTATAA
61 AGCAGATCTGACATCCCTGTGCTTA-AA
*
12233909 GGAACAAGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTAT-GAGGAACAGATCGAAGA-AGCA
1 GGAACAAGTTGAAGACAGCAGATTTGGCATCCCTGTGCTTATAG-GGAACAGATCGAAGATAGCA
12233972 GATC
65 GATC
12233976 AAGAACTCAA
Statistics
Matches: 122, Mismatches: 23, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
86 1 0.01
87 20 0.16
88 89 0.73
89 11 0.09
90 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (87 bp):
GGAACAAGTTGAAGACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAG
ATCTGACATCCCTGTGCTTAAA
Found at i:12234417 original size:16 final size:17
Alignment explanation
Indices: 12234376--12234411 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12234366 CATTGTAACA
12234376 AAGGAGAGGGGGGATTG
1 AAGGAGAGGGGGGATTG
12234393 AAGGAGAGGGGGGATTG
1 AAGGAGAGGGGGGATTG
12234410 AA
1 AA
12234412 TAGAGGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.56, T:0.11
Consensus pattern (17 bp):
AAGGAGAGGGGGGATTG
Found at i:12234482 original size:25 final size:25
Alignment explanation
Indices: 12234437--12234504 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
12234427 TATTTTGGAG
*
12234437 AGAAGAGA-TTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTTTAGATTCA
12234461 AGAAGAGATTTTTTTTTTAGATTCA
1 AGAAGAGATTTTTTTTTTAGATTCA
* *
12234486 AGAGGGGATTTTTCTTTTT
1 AGAAGAGATTTTT-TTTTT
12234505 TTTTGAGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 8 0.21
25 26 0.67
26 5 0.13
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (25 bp):
AGAAGAGATTTTTTTTTTAGATTCA
Found at i:12235120 original size:3 final size:3
Alignment explanation
Indices: 12235112--12235138 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12235102 TGTATTTCTA
12235112 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
12235139 ATGGTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12235262 original size:16 final size:15
Alignment explanation
Indices: 12235231--12235273 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
12235221 CCTTCATTCC
*
12235231 ATTATTATTATTACT
1 ATTATTATTTTTACT
12235246 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
12235262 ATCATTATTTTT
1 ATTATTATTTTT
12235274 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:12235382 original size:3 final size:3
Alignment explanation
Indices: 12235337--12235520 Score: 72
Period size: 3 Copynumber: 60.7 Consensus size: 3
12235327 TTTACTACTC
* * * * * *
12235337 TAT TAT GTAT TAC TAA TA- TAT TAT TAC TAC TAT TGT TAC TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
12235382 TAT CAT CACT TAT TAT TCT CAT CAC TAT TAT TAT AATT TAT CAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * *
12235429 TACT TAT TAT T-T TAC TAT TAT TAT CTAA TA- TAT CAT CAT TAT CAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * *
12235474 TAT T-T TCAT TAT AACT TAA TA- GAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12235519 TA
1 TA
12235521 GCACTACTTT
Statistics
Matches: 137, Mismatches: 32, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
2 9 0.07
3 112 0.82
4 16 0.12
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.54
Consensus pattern (3 bp):
TAT
Found at i:12235397 original size:16 final size:15
Alignment explanation
Indices: 12235374--12235415 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
12235364 TACTATTGTT
12235374 ACTATTATTATCATC
1 ACTATTATTATCATC
*
12235389 ACTTATTATTCTCATC
1 AC-TATTATTATCATC
12235405 ACTATTATTAT
1 ACTATTATTAT
12235416 AATTTATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (15 bp):
ACTATTATTATCATC
Found at i:12235564 original size:12 final size:13
Alignment explanation
Indices: 12235529--12235566 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
12235519 TAGCACTACT
12235529 TTTATTACTATTA
1 TTTATTACTATTA
*
12235542 TTTAATA-TATTA
1 TTTATTACTATTA
12235554 TTT-TTACTATTA
1 TTTATTACTATTA
12235566 T
1 T
12235567 CGTCATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTACTATTA
Found at i:12236873 original size:2 final size:2
Alignment explanation
Indices: 12236866--12236895 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12236856 CTAACATTCA
*
12236866 CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12236896 TTTTACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:12239499 original size:21 final size:22
Alignment explanation
Indices: 12239454--12239499 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12239444 TTCTTTGGGA
*
12239454 TTGAATTCTTTTTATTTAAGAT
1 TTGAATTCTTTTTATTCAAGAT
* *
12239476 TTGAATTTTTTTTCTTCAAG-T
1 TTGAATTCTTTTTATTCAAGAT
12239497 TTG
1 TTG
12239500 TCCCTGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (22 bp):
TTGAATTCTTTTTATTCAAGAT
Found at i:12256362 original size:14 final size:15
Alignment explanation
Indices: 12256345--12256391 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
12256335 ATTTTCATTT
12256345 TATT-ATTTAAAATA
1 TATTAATTTAAAATA
12256359 TATTAATTTCAAATATA
1 TATTAATTT-AAA-ATA
12256376 TATATAACTTTAAAAT
1 TAT-TAA-TTTAAAAT
12256392 GTTCTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.14
15 4 0.14
16 3 0.11
17 8 0.29
18 6 0.21
19 3 0.11
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTTAAAATA
Found at i:12265218 original size:10 final size:8
Alignment explanation
Indices: 12265196--12265229 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
12265186 AAATCAAAAA
12265196 TTCTTTTT
1 TTCTTTTT
12265204 TTCTTTTT
1 TTCTTTTT
* *
12265212 TACTCTTT
1 TTCTTTTT
12265220 TTCTTTTT
1 TTCTTTTT
12265228 TT
1 TT
12265230 GTAAGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TTCTTTTT
Found at i:12268550 original size:290 final size:290
Alignment explanation
Indices: 12268024--12268603 Score: 989
Period size: 290 Copynumber: 2.0 Consensus size: 290
12268014 TCCTCATTGG
*
12268024 TAAGTTTTTCGTTTCGCTCGACTTGAATATTGTTCGAGTTAAGTGTCTAGTAAGAGGTTTCTGCT
1 TAAGTTTTTCGTTTCGCTCGACTTGAATATTGTTCGAGTTAAGTGTCTAGTAAGAGGTTTCTACT
* * * *
12268089 GTTTGATAGGAGTGGATCAAGGGGCTGAAGAACAGCCATTAATGCTTTAATGATTCGGGTTTGCT
66 GTTTGATAGGAGTGGATCAAGGGGCTAAAAAACAACCATTAACGCTTTAATGATTCGGGTTTGCT
* *
12268154 ACTTTCCATTCAAGGGTAAGTTGATCGTTCGTTGAGTGGATATTTTGCTTGGGGTTAAGTGAAAA
131 ACTTTCCATTCAAGGGTAAGTTGATCGTTCGTTGAGTGGATATTTCGCTTGAGGTTAAGTGAAAA
** **
12268219 AACTTGTTTATGAGGTTTTAATAGGTTGGATATACTGATTATAGGTCTTAAAGTGCTCGGGATTG
196 AACTCATTTATGAGGTTCGAATAGGTTGGATATACTGATTATAGGTCTTAAAGTGCTCGGGATTG
12268284 CGTTAGGCTTCAATCGAAACCAGATGTGTA
261 CGTTAGGCTTCAATCGAAACCAGATGTGTA
*
12268314 TAAGTTTTTCGTTTCGCTTGACTTGAATATTGTTCGAGTTAAGTGTCTAGTAAGAGGTTTCTACT
1 TAAGTTTTTCGTTTCGCTCGACTTGAATATTGTTCGAGTTAAGTGTCTAGTAAGAGGTTTCTACT
12268379 GTTTGATAGGAGTGGATCAAGGGGCTAAAAAACAACCATTAACGCTTTAATGATTCGGGTTTGCT
66 GTTTGATAGGAGTGGATCAAGGGGCTAAAAAACAACCATTAACGCTTTAATGATTCGGGTTTGCT
* *
12268444 ACTTTCCATTCAAGGGTAAGTTGATTGTTCGTTGAGTGGATATTTCGTTTGAGGTTAAGTGAAAA
131 ACTTTCCATTCAAGGGTAAGTTGATCGTTCGTTGAGTGGATATTTCGCTTGAGGTTAAGTGAAAA
* * *
12268509 GACTCATTTATGAGGTTCGAATAGGTTGGATATATTGATTATATGTCTTAAAGTGCTCGGGATTG
196 AACTCATTTATGAGGTTCGAATAGGTTGGATATACTGATTATAGGTCTTAAAGTGCTCGGGATTG
* *
12268574 TGTTAGGCTTCAATCGAAACCAGGTGTGTA
261 CGTTAGGCTTCAATCGAAACCAGATGTGTA
12268604 CTCCAATCAA
Statistics
Matches: 271, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
290 271 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (290 bp):
TAAGTTTTTCGTTTCGCTCGACTTGAATATTGTTCGAGTTAAGTGTCTAGTAAGAGGTTTCTACT
GTTTGATAGGAGTGGATCAAGGGGCTAAAAAACAACCATTAACGCTTTAATGATTCGGGTTTGCT
ACTTTCCATTCAAGGGTAAGTTGATCGTTCGTTGAGTGGATATTTCGCTTGAGGTTAAGTGAAAA
AACTCATTTATGAGGTTCGAATAGGTTGGATATACTGATTATAGGTCTTAAAGTGCTCGGGATTG
CGTTAGGCTTCAATCGAAACCAGATGTGTA
Found at i:12269320 original size:40 final size:40
Alignment explanation
Indices: 12269263--12269340 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
12269253 TGCGGTACCT
* *
12269263 TATGGTGTGTAGGGATGGATGAGACGATTGTATCCCCATA
1 TATGGTGTGCAGAGATGGATGAGACGATTGTATCCCCATA
* * * *
12269303 TATGGTGTGCAGAGATGGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGAGATGGATGAGACGATTGTATCCCCA
12269341 CATAGTGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (40 bp):
TATGGTGTGCAGAGATGGATGAGACGATTGTATCCCCATA
Found at i:12274072 original size:31 final size:31
Alignment explanation
Indices: 12274037--12274097 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
12274027 CTTGTCACTT
12274037 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * *
12274068 GTAGCCGGAGCTACCATTTTTCACTGATCA
1 GTAGCCGAAGCTACCACTATTCACTGATCA
12274098 AATTACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAG
Found at i:12274306 original size:69 final size:70
Alignment explanation
Indices: 12274192--12274524 Score: 343
Period size: 69 Copynumber: 4.8 Consensus size: 70
12274182 TTCCTCATTG
* * * *
12274192 AAATACCATACCTACATTTCATAACTCGGTATAGA-GA-ACATCATACCTACTTTTCAT-GCTCG
1 AAATACCATACCTACGTTTCATAACTCGGTATGGACGATAC--CATACCTACGTTTCATAGCTCA
12274254 GTATGGA
64 GTATGGA
** * * * * *
12274261 AAATACCATACCTATATTTCATAACTCAGTATAGACGATGCCATACTTACGTATCATAGCTCAGT
1 AAATACCATACCTACGTTTCATAACTCGGTATGGACGATACCATACCTACGTTTCATAGCTCAGT
12274326 ATGGA
66 ATGGA
** *** *
12274331 CGACGTCATACCTACGTTTCATAGCTCGGTATGGACGATACCATACCTACGTTTCATAGCTCAGT
1 AAATACCATACCTACGTTTCATAACTCGGTATGGACGATACCATACCTACGTTTCATAGCTCAGT
12274396 ATGG-
66 ATGGA
* * *** * * *
12274400 AAATACCATACCTATGTTTCACAACTCGGTATGGTTAATACCATACCTATGTTTCA-AACTCGGT
1 AAATACCATACCTACGTTTCATAACTCGGTATGGACGATACCATACCTACGTTTCATAGCTCAGT
12274464 ATGGA
66 ATGGA
** * * *
12274469 TGATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACATTTCA
1 AAATACCATACCTACGTTTCATAACTCGGTATGGACGATACCATACCTACGTTTCA
12274525 CACTTTGCCA
Statistics
Matches: 219, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
68 10 0.05
69 139 0.63
70 69 0.32
71 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (70 bp):
AAATACCATACCTACGTTTCATAACTCGGTATGGACGATACCATACCTACGTTTCATAGCTCAGT
ATGGA
Found at i:12274526 original size:35 final size:35
Alignment explanation
Indices: 12274194--12274524 Score: 321
Period size: 35 Copynumber: 9.5 Consensus size: 35
12274184 CCTCATTGAA
* *
12274194 ATACCATACCTACATTTCATAACTCGGTATAGA-G
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
* * **
12274228 A-ACATCATACCTACTTTTCAT-GCTCGGTATGGAAA
1 ATAC--CATACCTACGTTTCATAACTCGGTATGGACG
** * *
12274263 ATACCATACCTATATTTCATAACTCAGTATAGACG
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
* * * * *
12274298 ATGCCATACTTACGTATCATAGCTCAGTATGGACG
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
*** *
12274333 ACGTCATACCTACGTTTCATAGCTCGGTATGGACG
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
* * *
12274368 ATACCATACCTACGTTTCATAGCTCAGTATGGA-A
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
* * ***
12274402 ATACCATACCTATGTTTCACAACTCGGTATGGTTA
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
* *
12274437 ATACCATACCTATGTTTCA-AACTCGGTATGGATG
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
* *
12274471 ATACCATACCTACGTTTCACAACTCGGTATGGATG
1 ATACCATACCTACGTTTCATAACTCGGTATGGACG
*
12274506 ATACCATACCTACATTTCA
1 ATACCATACCTACGTTTCA
12274525 CACTTTGCCA
Statistics
Matches: 253, Mismatches: 37, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
33 2 0.01
34 84 0.33
35 165 0.65
36 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACGTTTCATAACTCGGTATGGACG
Found at i:12279976 original size:31 final size:32
Alignment explanation
Indices: 12279925--12279996 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
12279915 TTAAAAAAAC
* *
12279925 AATTTAACTCTTTTTAAAAAAGTTAATAGTCA
1 AATTTAACTCTTTTTAAAAAAGTTAAGAGCCA
* * *
12279957 AATTTAA-TTTTTTTTAAAAAGTTGAGAGCCA
1 AATTTAACTCTTTTTAAAAAAGTTAAGAGCCA
12279988 AATTTAACT
1 AATTTAACT
12279997 AAAAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 26 0.76
32 8 0.24
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (32 bp):
AATTTAACTCTTTTTAAAAAAGTTAAGAGCCA
Found at i:12289131 original size:19 final size:19
Alignment explanation
Indices: 12289107--12289144 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12289097 TCTAAATGAA
12289107 ATTGTCTTTAAAATATTTT
1 ATTGTCTTTAAAATATTTT
12289126 ATTGTCTTTAAAATATTTT
1 ATTGTCTTTAAAATATTTT
12289145 GCATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTGTCTTTAAAATATTTT
Found at i:12290650 original size:18 final size:18
Alignment explanation
Indices: 12290627--12290680 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
12290617 ACAAGTGGTG
12290627 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
12290645 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
12290657 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
12290675 GTGGAG
1 GTGGAG
12290681 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:12290710 original size:18 final size:17
Alignment explanation
Indices: 12290621--12290710 Score: 56
Period size: 18 Copynumber: 5.7 Consensus size: 17
12290611 GTAGGTACAA
*
12290621 GTGGTGGTGGAGCAAGT
1 GTGGTAGTGGAGCAAGT
12290638 GTGGCTAGT-G-G--AGT
1 GTGG-TAGTGGAGCAAGT
*
12290652 -AGGTAGTGGAGCAAGT
1 GTGGTAGTGGAGCAAGT
12290668 GTGGCTAGT-G-G--AGT
1 GTGG-TAGTGGAGCAAGT
*
12290682 -TGGTGGTGGAGCAAGT
1 GTGGTAGTGGAGCAAGT
12290698 GTGGTTAGTGGAG
1 GTGG-TAGTGGAG
12290711 TTGGTGGTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 25
0.65 0.06 0.29
Matches are distributed among these distances:
12 7 0.13
13 7 0.13
14 8 0.15
16 8 0.15
17 11 0.20
18 14 0.25
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.26
Consensus pattern (17 bp):
GTGGTAGTGGAGCAAGT
Found at i:12290712 original size:30 final size:30
Alignment explanation
Indices: 12290622--12290719 Score: 169
Period size: 30 Copynumber: 3.3 Consensus size: 30
12290612 TAGGTACAAG
12290622 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
12290652 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
12290682 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
12290712 TGGTGGTG
1 TGGTGGTG
12290720 TCAAAGGCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.17, C:0.05, G:0.50, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:12291882 original size:73 final size:73
Alignment explanation
Indices: 12291682--12292198 Score: 727
Period size: 73 Copynumber: 7.1 Consensus size: 73
12291672 AGAAAAAAAT
* *
12291682 AAATTGAAAATACCTCAGCATGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAATTACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
*
12291746 TTGA-AAAGTAG
63 TTGACAAA-CAG
* ** * *
12291757 AACTTGAAAAGCACCTCAGCGTGCCCTGAAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 AAATTG-AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
12291822 GACAAACAG
65 GACAAACAG
*
12291831 AAATTGAAATTACCTCAGCGTGCCATGAGGCTCAACTCACCTCTCGCAATATGAGTTG-TGTTTT
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTT
12291895 GACAAACAG
65 GACAAACAG
*
12291904 AAATTGAAATTACCTCAGCTTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
12291969 ACAAACAA
66 ACAAACAG
*
12291977 AAATTGAAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
**
12292042 ACAAATTG
66 ACAAACAG
* *
12292050 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
12292115 ACAAACAG
66 ACAAACAG
* * * ** * * *
12292123 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTAAATTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
12292188 A-AAATAG
66 ACAAACAG
12292195 AAAT
1 AAAT
12292199 AAAGACATCA
Statistics
Matches: 402, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
72 10 0.02
73 322 0.80
74 15 0.04
75 11 0.03
76 44 0.11
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (73 bp):
AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
ACAAACAG
Found at i:12299257 original size:45 final size:44
Alignment explanation
Indices: 12299186--12299523 Score: 266
Period size: 44 Copynumber: 7.5 Consensus size: 44
12299176 AGTTATAAGA
* * * *
12299186 TTGCAGTAGAGCAGATTAAAGCTATAAA-CTTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATC-TTATCTCCCTAAAG
* *
12299230 TTTGCAGTGGAGAAGATTGAAGTTATAAGTCTTATCTCCCTAAAG
1 -TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
* * * *
12299275 TTGCAGTGGAGCAGACTGAAGATA-ACGAATTTTATTTCCCTAAAG
1 TTGCAGTGGAGCAGATTGAAGTTATA--AATCTTATCTCCCTAAAG
* * * * *
12299320 TTTCAGTAGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
** * * *
12299364 TTGCAGTGGAGCAGATTGAAGTTACGAGTTTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
** * * *
12299408 TTGCAGTGGAATAAATTGAAGCTATAAATCTTATTTCCCTAAAG
1 TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
* * * * *
12299452 TTGTAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATT---G----AAGTTATAAATCTTATCTCCCTAAAG
* * *
12299503 TAGTAGTGGAGCAGGTTGAAG
1 TTGCAGTGGAGCAGATTGAAG
12299524 CGACAAACTC
Statistics
Matches: 234, Mismatches: 48, Indels: 23
0.77 0.16 0.08
Matches are distributed among these distances:
43 1 0.00
44 124 0.53
45 70 0.30
46 2 0.01
47 1 0.00
48 1 0.00
51 35 0.15
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (44 bp):
TTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTAAAG
Found at i:12299339 original size:89 final size:88
Alignment explanation
Indices: 12299215--12299454 Score: 311
Period size: 88 Copynumber: 2.7 Consensus size: 88
12299205 AGCTATAAAC
*
12299215 TTTATCTCCCTGAAGTTTGCAGTGGAGAAGATTGAAGTTATAAGTCTTATCTCCCTAAAGTTGCA
1 TTTATCTCCCTGAAGTTT-CAGTGGAGAAGATTGAAGTTATAAATCTTATCTCCCTAAAGTTGCA
12299280 GTGGAGCAGACTGAAGATAACGAAT
65 GTGGAGCAGACTGAAG-TAACGAAT
* * * * * * *
12299305 TTTATTTCCCTAAAGTTTCAGTAGAGCAGGTTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
1 TTTATCTCCCTGAAGTTTCAGTGGAGAAGATTGAAGTTATAAATCTTATCTCCCTAAAGTTGCAG
* * *
12299370 TGGAGCAGATTGAAGTTACGAGT
66 TGGAGCAGACTGAAGTAACGAAT
* * * *
12299393 TTTATCTCCCTGAAGTTGCAGTGGA-ATAAATTGAAGCTATAAATCTTATTTCCCTAAAGTTG
1 TTTATCTCCCTGAAGTTTCAGTGGAGA-AGATTGAAGTTATAAATCTTATCTCCCTAAAGTTG
12299455 TAATGGAACA
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 56 0.44
89 55 0.43
90 16 0.13
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (88 bp):
TTTATCTCCCTGAAGTTTCAGTGGAGAAGATTGAAGTTATAAATCTTATCTCCCTAAAGTTGCAG
TGGAGCAGACTGAAGTAACGAAT
Found at i:12299428 original size:133 final size:133
Alignment explanation
Indices: 12299189--12299478 Score: 354
Period size: 133 Copynumber: 2.2 Consensus size: 133
12299179 TATAAGATTG
*
12299189 CAGTAGAGCAGATTAAAGCTATAAACTTTATCTCCCTGAAGTTTGCAGTGGAGAAGATTGAAGTT
1 CAGTAGAGCAGATTAAAGCTACAAACTTTATCTCCCTGAAGTTTGCAGTGGAGAAGATTGAAGTT
* * * *
12299254 ATAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA-ACGAATTTTATTTCCCTAA
66 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAAACTGAAGATATA--AATCTTATTTCCCTAA
12299318 AGTTT
129 AGTTT
* * * *
12299323 CAGTAGAGCAGGTTGAAGTTACAAA-TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGT
1 CAGTAGAGCAGATTAAAGCTACAAACT-TTATCTCCCTGAAGTTTGCAGTGGAGAAGATTGAAGT
* * * * * *
12299386 TACGAGTTTTATCTCCCTGAAGTTGCAGTGGAATAAATTGAAGCTATAAATCTTATTTCCCTAAA
65 TACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAAACTGAAGATATAAATCTTATTTCCCTAAA
12299451 GTTGT
130 GTT-T
* * *
12299456 -AATGGAACAGATTAAAGCTACAA
1 CAGTAGAGCAGATTAAAGCTACAA
12299479 GTTACAAATC
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
132 36 0.27
133 60 0.45
134 36 0.27
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (133 bp):
CAGTAGAGCAGATTAAAGCTACAAACTTTATCTCCCTGAAGTTTGCAGTGGAGAAGATTGAAGTT
ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAAACTGAAGATATAAATCTTATTTCCCTAAAG
TTT
Found at i:12301376 original size:17 final size:17
Alignment explanation
Indices: 12301322--12301377 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
12301312 ATTATCGCTA
12301322 TTATTTTATT-TTTACTT
1 TTATTTTATTATTT-CTT
*
12301339 TT-TTTATATTATTT-TCG
1 TTATTT-TATTATTTCT-T
12301356 TTATTTTATTATTTCTT
1 TTATTTTATTATTTCTT
12301373 TTATT
1 TTATT
12301378 ATTTTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
16 4 0.12
17 21 0.66
18 7 0.22
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (17 bp):
TTATTTTATTATTTCTT
Found at i:12301389 original size:29 final size:28
Alignment explanation
Indices: 12301320--12301389 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 28
12301310 TTATTATCGC
12301320 TATTATTTTAT-TTTTACTTTTTTTATAT
1 TATT-TTTTATATTTTACTTTTTTTATAT
* *
12301348 TATTTTCGT-TATTTTA-TTATTTCTTTTAT
1 TATTTT-TTATATTTTACTT-TTT-TTATAT
12301377 TATTTTTTATATT
1 TATTTTTTATATT
12301390 CTCATTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
27 5 0.15
28 14 0.41
29 15 0.44
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (28 bp):
TATTTTTTATATTTTACTTTTTTTATAT
Found at i:12306067 original size:29 final size:27
Alignment explanation
Indices: 12306024--12306078 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
12306014 TCAAATTTGA
* *
12306024 AAAGTAGAGGTACTAAATTATTGAAAATC
1 AAAGTACAGGGACTAAATT-TT-AAAATC
12306053 AAAGTACAGGGACTAAATTTTAAAAT
1 AAAGTACAGGGACTAAATTTTAAAAT
12306079 TGTGAAGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 2 0.08
29 17 0.71
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAGTACAGGGACTAAATTTTAAAATC
Found at i:12308820 original size:33 final size:31
Alignment explanation
Indices: 12308783--12308856 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
12308773 TTTAAAAATT
12308783 AAAAATTATTTAA-ATTATTTAAAAATTTATAAA
1 AAAAATTATTTAATATT-TTT-AAAATTTA-AAA
* *
12308816 AAAAATATTTTTAATATTTTTTAAATTTAAAA
1 AAAAAT-TATTTAATATTTTTAAAATTTAAAA
12308848 AAATAATTA
1 AAA-AATTA
12308857 AATGTTGACA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
32 7 0.20
33 16 0.46
34 9 0.26
35 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAAATTATTTAATATTTTTAAAATTTAAAA
Found at i:12312060 original size:28 final size:30
Alignment explanation
Indices: 12311973--12312061 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 30
12311963 CAAATTGAAA
* *
12311973 AAACCTAAATACCAAAGTGAACATTAAAACC
1 AAACTTAAATACCAAATTGAACATTAAAA-C
* *
12312004 AAACTCAAGTACCAAATTGAGACA--AAAA-
1 AAACTTAAATACCAAATTGA-ACATTAAAAC
* *
12312032 AAAATTAAATACAAAATTGAACATTAAAAC
1 AAACTTAAATACCAAATTGAACATTAAAAC
12312062 TGAACTCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
27 3 0.07
28 16 0.35
29 4 0.09
30 4 0.09
31 16 0.35
32 3 0.07
ACGTcount: A:0.58, C:0.17, G:0.07, T:0.18
Consensus pattern (30 bp):
AAACTTAAATACCAAATTGAACATTAAAAC
Found at i:12312436 original size:22 final size:23
Alignment explanation
Indices: 12312398--12312445 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
12312388 CTTTGAATTT
12312398 TAAACATTAAATCAATA-ATTCAA
1 TAAACATTAAATCAATACATT-AA
12312421 TAAA-ATTAAAAT-AATACATTAA
1 TAAACATT-AAATCAATACATTAA
12312443 TAA
1 TAA
12312446 TATATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAACATTAAATCAATACATTAA
Found at i:12313240 original size:46 final size:46
Alignment explanation
Indices: 12313155--12313242 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
12313145 AAATAGTTGA
**
12313155 GTGACCATTTTGTAACATTTCATAGTTGGGTGACCAAAAAAGTTAG
1 GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAGTTAG
* * *
12313201 GTGATCATTTTGTAACATTTCATAGTTGAATGGCTAAAAAAG
1 GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAG
12313243 AAATTTACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (46 bp):
GTGACCATTTTGTAACATTTCATAGTTGAATGACCAAAAAAGTTAG
Found at i:12318253 original size:14 final size:14
Alignment explanation
Indices: 12318217--12318255 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12318207 TTCTTTCACT
* *
12318217 GAAAATGACTTCCG
1 GAAAATGATTTCCA
*
12318231 GAAAATGATTTCTA
1 GAAAATGATTTCCA
12318245 GAAAATGATTT
1 GAAAATGATTT
12318256 ATATTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCA
Found at i:12318737 original size:15 final size:15
Alignment explanation
Indices: 12318717--12318768 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
12318707 ACTACAAAAC
12318717 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
12318732 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
12318751 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
12318766 ATT
1 ATT
12318769 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:12318832 original size:16 final size:16
Alignment explanation
Indices: 12318801--12318837 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12318791 ATGTGAATAA
12318801 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
12318817 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
12318833 TATTA
1 TATTA
12318838 AAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:12323679 original size:15 final size:15
Alignment explanation
Indices: 12323661--12323689 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12323651 AATCCTTTAA
12323661 AAATTATTAAAATCC
1 AAATTATTAAAATCC
12323676 AAATTATTAAAATC
1 AAATTATTAAAATC
12323690 ATAAAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTATTAAAATCC
Found at i:12323798 original size:41 final size:41
Alignment explanation
Indices: 12323753--12323835 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
12323743 AAATTTTTTT
* * *
12323753 TGACTTCACCCCTAGAGGAGGCCAACCAGAACTTTGTGGAA
1 TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
* *
12323794 TGACTTCACCCCTAGAAGAGGCCTACGAAAACTTTGTAGAA
1 TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
12323835 T
1 T
12323836 TTCTCCAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
TGACTTCACCCCTAGAAGAGGCCAACCAAAACTTTGTAGAA
Found at i:12324989 original size:18 final size:19
Alignment explanation
Indices: 12324966--12325001 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12324956 TCATTAAAAT
12324966 TTAAATATG-TAATTTTTG
1 TTAAATATGATAATTTTTG
*
12324984 TTAAATTTGATAATTTTT
1 TTAAATATGATAATTTTT
12325002 AATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTAAATATGATAATTTTTG
Found at i:12325666 original size:12 final size:12
Alignment explanation
Indices: 12325649--12325686 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
12325639 CCGCCTGTAT
12325649 TAATTTTTTATA
1 TAATTTTTTATA
12325661 TAATTTTTTATA
1 TAATTTTTTATA
*
12325673 TAATTTTATATA
1 TAATTTTTTATA
12325685 TA
1 TA
12325687 TATAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:12325848 original size:17 final size:18
Alignment explanation
Indices: 12325814--12325854 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
12325804 ATGTCTTTAA
*
12325814 AATAATAATAAAATTTAT
1 AATAATAATAAAAGTTAT
*
12325832 AATAA-AATAAGAGTTAT
1 AATAATAATAAAAGTTAT
12325849 AA-AATA
1 AATAATA
12325855 TTCAGGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 13 0.65
18 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AATAATAATAAAAGTTAT
Found at i:12329100 original size:40 final size:40
Alignment explanation
Indices: 12329046--12329127 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
12329036 ATATATAGAT
12329046 ATATTCATTTTCTATGTGCTTTCATTGTTATTCACATTTG
1 ATATTCATTTTCTATGTGCTTTCATTGTTATTCACATTTG
12329086 ATATTCATTTTCTATGTGCTTTCATTGTTATTCACATTTG
1 ATATTCATTTTCTATGTGCTTTCATTGTTATTCACATTTG
12329126 AT
1 AT
12329128 TATACATGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.55
Consensus pattern (40 bp):
ATATTCATTTTCTATGTGCTTTCATTGTTATTCACATTTG
Found at i:12331462 original size:17 final size:17
Alignment explanation
Indices: 12331409--12331463 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 17
12331399 AATTTATTTA
*
12331409 AATCACAATATTAAAAT
1 AATCACAAAATTAAAAT
*
12331426 AATCAAAAAGTTATTTAAAAT
1 AATCACAAA---A-TTAAAAT
12331447 AATCACAAAATTAAAAT
1 AATCACAAAATTAAAAT
12331464 TAAAAAGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 14 0.45
18 1 0.03
20 1 0.03
21 15 0.48
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (17 bp):
AATCACAAAATTAAAAT
Found at i:12331475 original size:38 final size:39
Alignment explanation
Indices: 12331409--12331485 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
12331399 AATTTATTTA
*
12331409 AATCACAATATTAAAATAATCAAAAAGTTA-TTT-AAAAT
1 AATCACAAAATTAAAATAA-CAAAAAGTTACTTTGAAAAT
12331447 AATCACAAAATTAAAATTAA-AAAGAAGTTACTTTGAAAA
1 AATCACAAAATTAAAA-TAACAAA-AAGTTACTTTGAAAA
12331486 CTTATTACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 3 0.09
38 21 0.62
39 6 0.18
40 4 0.12
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (39 bp):
AATCACAAAATTAAAATAACAAAAAGTTACTTTGAAAAT
Found at i:12332725 original size:6 final size:6
Alignment explanation
Indices: 12332703--12332755 Score: 88
Period size: 6 Copynumber: 8.5 Consensus size: 6
12332693 TTCCGAAAGA
12332703 TTTCAT TTCTCCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
12332753 TTT
1 TTT
12332756 GGAAAAAGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 38 0.84
7 2 0.04
8 5 0.11
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:12332773 original size:21 final size:21
Alignment explanation
Indices: 12332749--12332796 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
12332739 ATTTTCATTT
12332749 TCATTTTGGA-AAAAGTCATAA
1 TCATTTTGGAGAAAA-TCATAA
12332770 TCATTTTGGAGAAAATCATAA
1 TCATTTTGGAGAAAATCATAA
12332791 TCATTT
1 TCATTT
12332797 CCAAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
TCATTTTGGAGAAAATCATAA
Found at i:12337035 original size:31 final size:32
Alignment explanation
Indices: 12336987--12337060 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
12336977 GATATTTTGA
*
12336987 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATAAGATATAATAT
*
12337017 TATTTTATTAA-TACTTTAATAAGATATTTATTAT
1 TATTTTATTAATTA-TTTAATAAGATA--TAATAT
12337051 TATTTTATTA
1 TATTTTATTA
12337061 GTATACAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 9 0.24
31 14 0.38
34 14 0.38
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATAAGATATAATAT
Found at i:12339301 original size:46 final size:46
Alignment explanation
Indices: 12339234--12339581 Score: 484
Period size: 46 Copynumber: 7.7 Consensus size: 46
12339224 ATGGCAACCT
12339234 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
12339280 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
* *
12339326 ATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACC-----T---
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
12339364 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
* *
12339410 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATG-A
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
12339455 GATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-A
1 G-TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
* * *
12339501 GATGTGTAAGACCATGGTTGAAAGATGCCATGGCAACATGACA-GAAA
1 G-TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AA
* * * * *
12339548 ATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTGTAAGACCATGGTTGAAAGATACCATGGCA
12339582 TCACGTCAAA
Statistics
Matches: 274, Mismatches: 17, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
38 35 0.13
41 1 0.00
43 1 0.00
45 2 0.01
46 234 0.85
47 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.23
Consensus pattern (46 bp):
GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
Found at i:12339419 original size:130 final size:130
Alignment explanation
Indices: 12339186--12339581 Score: 596
Period size: 130 Copynumber: 3.0 Consensus size: 130
12339176 AGTGTGCTCT
*
12339186 CTGATTTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
*
12339251 TGAAAGATACCATGGCAACCTGATATGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12339316 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
12339381 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
12339446 CTAATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
* * * * * *
12339511 ACCATGGTTGAAAGATGCCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
*
12339575 TATGGCA
122 CATGGCA
12339582 TCACGTCAAA
Statistics
Matches: 244, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
130 171 0.70
135 1 0.00
137 2 0.01
138 70 0.29
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12339483 original size:176 final size:168
Alignment explanation
Indices: 12339197--12339537 Score: 558
Period size: 176 Copynumber: 2.0 Consensus size: 168
12339187 TGATTTGAAA
12339197 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
*
12339262 ATGGCAACCTGATATGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
66 ATGGCAACCTAATATGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
12339327 TGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTG
131 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
12339365 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG---TGTGTAAGACCATGGTTGA
12339430 AAGATACCATGGCAACCTAATATG-AGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
58 AAGATACCATGGCAACCTAATATGAAG-TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
* *
12339494 GATATGAGATGTGTAAGACCATGGTTGAAAGATGCCATGGCAAC
122 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
12339538 ATGACAGAAA
Statistics
Matches: 160, Mismatches: 4, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
168 36 0.22
173 2 0.01
175 2 0.01
176 120 0.75
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (168 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACCTAATATGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:12339887 original size:23 final size:25
Alignment explanation
Indices: 12339842--12339888 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12339832 AATAAATATA
*
12339842 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
12339867 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
12339889 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:12341392 original size:32 final size:32
Alignment explanation
Indices: 12341351--12341412 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
12341341 TAAAATTCAT
12341351 ATTTAAAATAAATTAATATTTTTATTTTATAA
1 ATTTAAAATAAATTAATATTTTTATTTTATAA
* **
12341383 ATTTAAAATATATTTTTATTTTTATTTTAT
1 ATTTAAAATAAATTAATATTTTTATTTTAT
12341413 TGAAAGTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
ATTTAAAATAAATTAATATTTTTATTTTATAA
Found at i:12345496 original size:30 final size:30
Alignment explanation
Indices: 12345462--12345525 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
12345452 TTGGACTTAT
** * *
12345462 TTGATTCTTTTTAATAGTATAGGGACTAAA
1 TTGATTCCATTTAATAATAGAGGGACTAAA
*
12345492 TTGA-TCCATTTAATAATAGAGGGACTAAT
1 TTGATTCCATTTAATAATAGAGGGACTAAA
12345521 TTGAT
1 TTGAT
12345526 ATAGTCCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (30 bp):
TTGATTCCATTTAATAATAGAGGGACTAAA
Found at i:12345650 original size:8 final size:8
Alignment explanation
Indices: 12345639--12345672 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
12345629 GTTAAAATGT
12345639 AAAAAAAG
1 AAAAAAAG
*
12345647 AAAAGAAG
1 AAAAAAAG
*
12345655 AAAAGAAG
1 AAAAAAAG
12345663 AAAAAAAG
1 AAAAAAAG
12345671 AA
1 AA
12345673 GTGAGCCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:12349660 original size:31 final size:31
Alignment explanation
Indices: 12349625--12349686 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
12349615 AAAAAAACTT
*
12349625 AATAGCTCT-GTGACTTAAATGAAAAGTTTTA
1 AATAG-TCTAGTGACTTAAATGAAAACTTTTA
* *
12349656 AATAGTTTAGTGATTTAAATGAAAACTTTTA
1 AATAGTCTAGTGACTTAAATGAAAACTTTTA
12349687 GTAATCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (31 bp):
AATAGTCTAGTGACTTAAATGAAAACTTTTA
Found at i:12352059 original size:16 final size:14
Alignment explanation
Indices: 12352015--12352072 Score: 66
Period size: 13 Copynumber: 4.1 Consensus size: 14
12352005 CCTATTCTAA
12352015 AATAATAAAAATAAT
1 AATAAT-AAAATAAT
12352030 AATAA-AAAATAAT
1 AATAATAAAATAAT
12352043 AATAATAAAACTAAAT
1 AATAATAAAA-T-AAT
*
12352059 AA-AACAAAATAAT
1 AATAATAAAATAAT
12352072 A
1 A
12352073 TCTTCTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 17 0.44
14 5 0.13
15 12 0.31
16 5 0.13
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:12353464 original size:14 final size:15
Alignment explanation
Indices: 12353444--12353514 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
12353434 TAATATTAAA
12353444 AAATATTTCAAT-AT
1 AAATATTTCAATAAT
* *
12353458 TAATATTTTAATAAT
1 AAATATTTCAATAAT
* *
12353473 AAATATTTATTACAATTAC
1 AAATA--T-TT-CAATAAT
*
12353492 AAATATATCAATAAT
1 AAATATTTCAATAAT
12353507 AAATATTT
1 AAATATTT
12353515 TGTAATATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
14 10 0.24
15 18 0.43
16 1 0.02
17 2 0.05
18 2 0.05
19 9 0.21
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTCAATAAT
Found at i:12354424 original size:16 final size:16
Alignment explanation
Indices: 12354410--12354441 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
12354400 ATAATATTTT
12354410 ATAATAAATATATTTAA
1 ATAA-AAATATATTTAA
12354427 ATAAAAATATATTTA
1 ATAAAAATATATTTA
12354442 TGTTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAAAATATATTTAA
Found at i:12361777 original size:28 final size:28
Alignment explanation
Indices: 12361742--12361796 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
12361732 GATACTCAAA
12361742 CTTGGCTCCCTTGAGAAATCAAGCTCAG
1 CTTGGCTCCCTTGAGAAATCAAGCTCAG
12361770 CTTGGCTCCCTTGAGAAATCAAGCTCA
1 CTTGGCTCCCTTGAGAAATCAAGCTCA
12361797 ACTTAAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (28 bp):
CTTGGCTCCCTTGAGAAATCAAGCTCAG
Found at i:12372233 original size:46 final size:46
Alignment explanation
Indices: 12372166--12372261 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
12372156 TTTCACGTAC
*
12372166 CTATTAGCTTCCATAATAACAACTTTTAAC-TTTTAACATTTTTATG
1 CTATTAGCTTCCATAATAACAA-TTTTAACTTTTTAACATTTTTACG
* *
12372212 CTATTAGCTTCTATAATAACAATTTTAACTTTTTAACTTTTTTACG
1 CTATTAGCTTCCATAATAACAATTTTAACTTTTTAACATTTTTACG
12372258 CTAT
1 CTAT
12372262 GTTAATTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (46 bp):
CTATTAGCTTCCATAATAACAATTTTAACTTTTTAACATTTTTACG
Found at i:12392083 original size:197 final size:186
Alignment explanation
Indices: 12391686--12392090 Score: 474
Period size: 188 Copynumber: 2.1 Consensus size: 186
12391676 AGAAACTATG
* * * * *
12391686 AAAACAGTCACTATTTCGATCTTTTCTTTCCACTTTCTCAAATCCAGTGGAGAGAAAATAAAATC
1 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAG-GCAGAGAAAAGAAAATA
* *
12391751 ATCAACTAAATACCGATCTAAAAAGTTCAAAACACAGATAAAATCCATAGCCACAACACAAAATT
65 ATCAACCAAATACCGATCTAAAAAGTTCAAAACACAAATAAAATCCATAGCCACAACACAAAATT
* ** * * *
12391816 CAAAAACCTCGGTAAGAAGTGATACTATATAGATATATATACATGCAAGCAGGATTA
130 CAAAAAACTCAATAACAAGTGATACTATATAGATATATATACATACAAGAAGGATTA
*
12391873 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCGAATCCA-GCA-AGTAAATAGAAAAT
1 AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAGGCAGAG-AAA-AGAAAAT
* * * *
12391936 AAAATCAACCAAATACCGATC-AAAAGAGTTCAAAACGCAAATAAATTCCGTAGCCACAACACCA
64 --AATCAACCAAATACCGATCTAAAA-AGTTCAAAACACAAATAAAATCCATAGCCACAACACAA
*
12392000 AATTCGAAAGCAAAAAAACTCAATAACAAGTGATACTATATCGATATATATATACATACAAGAAG
126 AATT------C-AAAAAACTCAATAACAAGTGATACTATAT--AGATATATATACATACAAGAAG
12392065 GATTA
182 GATTA
*
12392070 AAAACAGTCGCTATTTTGATA
1 AAAACAGTCGCTATTTCGATA
12392091 GAAAAAAAAT
Statistics
Matches: 184, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
184 2 0.01
185 5 0.03
186 6 0.03
187 47 0.26
188 54 0.29
194 1 0.01
195 25 0.14
197 44 0.24
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (186 bp):
AAAACAGTCGCTATTTCGATATTTTCTTTCCACTTTCTCAAATCCAGGCAGAGAAAAGAAAATAA
TCAACCAAATACCGATCTAAAAAGTTCAAAACACAAATAAAATCCATAGCCACAACACAAAATTC
AAAAAACTCAATAACAAGTGATACTATATAGATATATATACATACAAGAAGGATTA
Found at i:12392219 original size:157 final size:156
Alignment explanation
Indices: 12391927--12392230 Score: 380
Period size: 157 Copynumber: 1.9 Consensus size: 156
12391917 CAGCAAGTAA
* * *
12391927 ATAGAAAATAAAATCAACCAAATACCGATCAAAAGAGTTCAAAACGCAAATAAATTCCGTAGCCA
1 ATAGAAAAAAAAATCAACCAAATACCGACCAAAAGAGTTCAAAACGCAAATAAATTCCATAGCCA
* * *
12391992 CAACACCAAATTCGAAAGCAAAAAAACTCAATAACAAGTGATACTATATCGATATATATATACAT
66 CAACACAAAATT----A-CAAAAAAACTCAATAACAAGTAATACTACATCGATATATATATACAT
12392057 ACAAGAAGGATTAAAAACAGTCGCTATTTTG
126 ACAAGAAGGATTAAAAACAGTCGCTATTTTG
* * *
12392088 ATAGAAAAAAAATCATCAACCAAAATACCTACCTAAAA-AGTTCGAAACGCATATAAATTCCATA
1 ATAGAAAAAAAA--ATCAACC-AAATACCGACC-AAAAGAGTTCAAAACGCAAATAAATTCCATA
* * * * *
12392152 GCCACAACACAAAATT-C-AAAAAATTCAGTAACAAGTAATACTGCATCGATATATATATATATG
62 GCCACAACACAAAATTACAAAAAAACTCAATAACAAGTAATACTACATCGATATATATATACATA
12392215 CAAGAAGGATTAAAAA
127 CAAGAAGGATTAAAAA
12392231 AGAGATTTGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
157 55 0.44
158 1 0.01
161 11 0.09
163 7 0.06
164 47 0.38
165 4 0.03
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (156 bp):
ATAGAAAAAAAAATCAACCAAATACCGACCAAAAGAGTTCAAAACGCAAATAAATTCCATAGCCA
CAACACAAAATTACAAAAAAACTCAATAACAAGTAATACTACATCGATATATATATACATACAAG
AAGGATTAAAAACAGTCGCTATTTTG
Found at i:12397371 original size:14 final size:13
Alignment explanation
Indices: 12397347--12397388 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
12397337 GTTAAATCGA
12397347 ATTTT-TAAATTT
1 ATTTTATAAATTT
12397359 ATTCTTATAAATTT
1 ATT-TTATAAATTT
*
12397373 -TTTTATTAATTT
1 ATTTTATAAATTT
12397385 ATTT
1 ATTT
12397389 AATCAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.46
13 7 0.27
14 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTATAAATTT
Found at i:12402800 original size:31 final size:31
Alignment explanation
Indices: 12402743--12402805 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
12402733 TACCAGTGAT
** *
12402743 TTAAATAAAAAATTTTGAATAGTTTAATGAC
1 TTAAATAAAAAATTTCAAATAATTTAATGAC
12402774 TTAAAT-AAAAATTATCAAATAATTTAATGAC
1 TTAAATAAAAAATT-TCAAATAATTTAATGAC
12402805 T
1 T
12402806 GTTTCGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAAATTTCAAATAATTTAATGAC
Found at i:12418743 original size:10 final size:10
Alignment explanation
Indices: 12418730--12418767 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
12418720 ATTTTTTAAA
12418730 ATTAAAAATT
1 ATTAAAAATT
12418740 ATTAAAAATT
1 ATTAAAAATT
12418750 ATT-AAAATT
1 ATTAAAAATT
12418759 ATTTAAAAA
1 A-TTAAAAA
12418768 ACATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 7 0.27
10 15 0.58
11 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:12418756 original size:9 final size:9
Alignment explanation
Indices: 12418725--12418766 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
12418715 AATTAATTTT
12418725 TTAAAATTA
1 TTAAAATTA
12418734 --AAAATTA
1 TTAAAATTA
12418741 TTAAAAATTA
1 TT-AAAATTA
12418751 TTAAAATTA
1 TTAAAATTA
12418760 TTTAAAA
1 -TTAAAA
12418767 AACATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.24
9 7 0.24
10 15 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTAAAATTA
Found at i:12418774 original size:19 final size:19
Alignment explanation
Indices: 12418734--12418777 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
12418724 TTTAAAATTA
**
12418734 AAAATTATTAAAAATTATT
1 AAAATTATTAAAAAACATT
12418753 AAAATTATTTAAAAAACA-T
1 AAAATTA-TTAAAAAACATT
12418772 AAAATT
1 AAAATT
12418778 TGTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTATTAAAAAACATT
Found at i:12420182 original size:18 final size:17
Alignment explanation
Indices: 12420149--12420182 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12420139 TCCAAATTTG
*
12420149 AGCTCGATTAAGCTCTT
1 AGCTCGATAAAGCTCTT
12420166 AGCTCGATAAGAGCTCT
1 AGCTCGATAA-AGCTCT
12420183 AAGCATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (17 bp):
AGCTCGATAAAGCTCTT
Found at i:12427060 original size:21 final size:21
Alignment explanation
Indices: 12427034--12427090 Score: 96
Period size: 22 Copynumber: 2.7 Consensus size: 21
12427024 TATATCCAAT
12427034 AAATTTTAATTAAAAATAATA
1 AAATTTTAATTAAAAATAATA
12427055 AAATTTTTAATTAAAAATAATA
1 AAA-TTTTAATTAAAAATAATA
*
12427077 AAATTTTATTTAAA
1 AAATTTTAATTAAA
12427091 GCACATGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 13 0.38
22 21 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTTAATTAAAAATAATA
Found at i:12428093 original size:28 final size:31
Alignment explanation
Indices: 12428061--12428137 Score: 79
Period size: 33 Copynumber: 2.5 Consensus size: 31
12428051 CTCAAATTTG
*
12428061 AAAAGTAGAGGGA-T-T-AATTCTTGAAAAT
1 AAAAGTAGAGGGACTATAAATTCTTAAAAAT
*
12428089 AAAAGTATAGGGACTAACTAAATTCTTAAAAAT
1 AAAAGTAGAGGGACT-A-TAAATTCTTAAAAAT
* *
12428122 AAAAGTATAAGGACTA
1 AAAAGTAGAGGGACTA
12428138 AATTCCAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.29
29 1 0.02
32 2 0.05
33 26 0.63
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (31 bp):
AAAAGTAGAGGGACTATAAATTCTTAAAAAT
Found at i:12428113 original size:33 final size:33
Alignment explanation
Indices: 12428076--12428138 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
12428066 TAGAGGGATT
* *
12428076 AATTCTTGAAAATAAAAGTATAGGGACTAACTA
1 AATTCTTAAAAATAAAAGTATAAGGACTAACTA
12428109 AATTCTTAAAAATAAAAGTATAAGGACTAA
1 AATTCTTAAAAATAAAAGTATAAGGACTAA
12428139 ATTCCAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (33 bp):
AATTCTTAAAAATAAAAGTATAAGGACTAACTA
Found at i:12428328 original size:13 final size:13
Alignment explanation
Indices: 12428310--12428335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12428300 ATAATATGTG
12428310 AAGATTATTATTT
1 AAGATTATTATTT
12428323 AAGATTATTATTT
1 AAGATTATTATTT
12428336 TTTAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAGATTATTATTT
Found at i:12428334 original size:16 final size:17
Alignment explanation
Indices: 12428313--12428352 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
12428303 ATATGTGAAG
*
12428313 ATTATTATTTAAGA-TT
1 ATTATTATTTAAAATTT
*
12428329 ATTATTTTTTAAAATTT
1 ATTATTATTTAAAATTT
12428346 ATTATTA
1 ATTATTA
12428353 AAATAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
ATTATTATTTAAAATTT
Found at i:12430465 original size:49 final size:49
Alignment explanation
Indices: 12430401--12430494 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
12430391 ATCCTGTTAC
*
12430401 ATGGCTCTCATGAGCTT-C-TTGATATTGACTCGCATGAGCTTCCCGATTG
1 ATGGCTCTCATGAGCTTCCGTT-ATA-TGACTCACATGAGCTTCCCGATTG
*
12430450 ATGGCTCTTCA-GAGCTTCCGTTATATGGCTCACATGAGCTTCCCG
1 ATGGCTC-TCATGAGCTTCCGTTATATGACTCACATGAGCTTCCCG
12430495 TTATATGGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
49 31 0.77
50 7 0.17
51 2 0.05
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (49 bp):
ATGGCTCTCATGAGCTTCCGTTATATGACTCACATGAGCTTCCCGATTG
Found at i:12430501 original size:25 final size:25
Alignment explanation
Indices: 12430396--12430519 Score: 103
Period size: 25 Copynumber: 5.0 Consensus size: 25
12430386 TAAGCATCCT
* * **
12430396 GTTACATGGCTCTCATGAGCTTCTT
1 GTTATATGGCTCACATGAGCTTCCC
* * *
12430421 GATAT-TGACTCGCATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
* *
12430445 GATT-GATGGCTCTTCA-GAGCTT-CC
1 G-TTATATGGCTC-ACATGAGCTTCCC
12430469 GTTATATGGCTCACATGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
* *
12430494 GTTATATGGCTCAAAAGAGCTTCCC
1 GTTATATGGCTCACATGAGCTTCCC
12430519 G
1 G
12430520 ATTACATGCT
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
23 4 0.05
24 32 0.41
25 41 0.52
26 2 0.03
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTTCCC
Found at i:12434190 original size:19 final size:18
Alignment explanation
Indices: 12434162--12434197 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12434152 GATCAAGTAA
*
12434162 AATTAAATTAATCTAATC
1 AATTAAATTAATATAATC
12434180 AATTAAAATTAATATAAT
1 AATT-AAATTAATATAAT
12434198 ATAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTAAATTAATATAATC
Found at i:12434197 original size:24 final size:24
Alignment explanation
Indices: 12434153--12434202 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12434143 ATTAATTTTG
*
12434153 ATCAAGTAAAATTAAATTAATCTA
1 ATCAAGTAAAATTAAATTAATATA
*
12434177 ATCAATTAAAATT-AATATAATATA
1 ATCAAGTAAAATTAAAT-TAATATA
12434201 AT
1 AT
12434203 ATTTTTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (24 bp):
ATCAAGTAAAATTAAATTAATATA
Found at i:12434681 original size:31 final size:29
Alignment explanation
Indices: 12434646--12434703 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
12434636 AATAGTATTT
*
12434646 TATTAATTTAATATTGAAGTGATTATCTTAA
1 TATTAAATTAA-ATTGAA-TGATTATCTTAA
* *
12434677 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTGAATGATTATCTT
12434704 GTAGACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTGAATGATTATCTTAA
Found at i:12436471 original size:22 final size:22
Alignment explanation
Indices: 12436443--12436497 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
12436433 CTCACAGAGG
12436443 ATGTCAGTACTTGGGACTGAGA
1 ATGTCAGTACTTGGGACTGAGA
12436465 ATGTCAGTACTTGGGACTGAGA
1 ATGTCAGTACTTGGGACTGAGA
12436487 ATGTCAGTACT
1 ATGTCAGTACT
12436498 GGAGGTAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGTCAGTACTTGGGACTGAGA
Found at i:12438228 original size:23 final size:22
Alignment explanation
Indices: 12438177--12438229 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
12438167 TTTTAATCAA
12438177 ATATTTAATAATTTATATATAT
1 ATATTTAATAATTTATATATAT
12438199 ATTTATTTAA-AATTTATATATAGT
1 A--TATTTAATAATTTATATATA-T
12438223 CATATTT
1 -ATATTT
12438230 GTTATGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 1 0.04
23 17 0.63
24 8 0.30
25 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATTTAATAATTTATATATAT
Found at i:12438995 original size:22 final size:24
Alignment explanation
Indices: 12438943--12438996 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
12438933 TTTTGGATGA
*
12438943 TTAAATTATTGTTATTAAATATCCT
1 TTAAATTATTGTAATT-AATATCCT
* *
12438968 TGAAATTATTG-AATT-ATATCTT
1 TTAAATTATTGTAATTAATATCCT
12438990 TTAAATT
1 TTAAATT
12438997 GAATTTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 12 0.48
24 3 0.12
25 10 0.40
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
TTAAATTATTGTAATTAATATCCT
Found at i:12443906 original size:14 final size:15
Alignment explanation
Indices: 12443887--12443934 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
12443877 GCCACCCCAT
12443887 TTTATTTTA-TTTTA
1 TTTATTTTATTTTTA
12443901 TTTATTATTATTTTTA
1 TTTATT-TTATTTTTA
12443917 TATTA-TTTATTTTTA
1 T-TTATTTTATTTTTA
12443932 TTT
1 TTT
12443935 TACTTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.26
15 13 0.42
16 7 0.23
17 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:12443911 original size:15 final size:15
Alignment explanation
Indices: 12443887--12443950 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 15
12443877 GCCACCCCAT
12443887 TTTATT-TTATTTTA
1 TTTATTATTATTTTA
12443901 TTTATTATTATTTT-
1 TTTATTATTATTTTA
*
12443915 TATATTATTTATTTTTA
1 TTTATTA-TTA-TTTTA
12443932 TTTTACTTATTATTCTTA
1 -TTTA-TTATTATT-TTA
12443950 T
1 T
12443951 ACTTAGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 12 0.29
15 10 0.24
16 4 0.10
17 3 0.07
18 9 0.22
19 3 0.07
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:12443917 original size:21 final size:21
Alignment explanation
Indices: 12443891--12443935 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
12443881 CCCCATTTTA
*
12443891 TTTTATTTTATTTATTATTAT
1 TTTTATATTATTTATTATTAT
*
12443912 TTTTATATTATTTATTTTTAT
1 TTTTATATTATTTATTATTAT
12443933 TTT
1 TTT
12443936 ACTTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATATTATTTATTATTAT
Found at i:12444001 original size:21 final size:23
Alignment explanation
Indices: 12443968--12444010 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
12443958 TTTTTAAATT
12443968 TATTTTAATTTTTCTACTATTTC
1 TATTTTAATTTTTCTACTATTTC
*
12443991 TATTTT-ATTTTT-TAGTATTT
1 TATTTTAATTTTTCTACTATTT
12444011 ATTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (23 bp):
TATTTTAATTTTTCTACTATTTC
Found at i:12445132 original size:23 final size:23
Alignment explanation
Indices: 12445106--12445151 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12445096 TCTATTATTG
12445106 TCAAAAAAATTGTTAAAAAGAAA
1 TCAAAAAAATTGTTAAAAAGAAA
12445129 TCAAAAAAATTGTTAAAAAGAAA
1 TCAAAAAAATTGTTAAAAAGAAA
12445152 AAGAAAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.22
Consensus pattern (23 bp):
TCAAAAAAATTGTTAAAAAGAAA
Found at i:12446046 original size:17 final size:17
Alignment explanation
Indices: 12446024--12446056 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12446014 ATATGGGATG
*
12446024 GCCACACGCCCGTGTGA
1 GCCACACGCCCATGTGA
12446041 GCCACACGCCCATGTG
1 GCCACACGCCCATGTG
12446057 CTAGCCCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.42, G:0.27, T:0.12
Consensus pattern (17 bp):
GCCACACGCCCATGTGA
Found at i:12452301 original size:53 final size:50
Alignment explanation
Indices: 12452204--12452311 Score: 144
Period size: 53 Copynumber: 2.1 Consensus size: 50
12452194 ACCAACACAC
* * * *
12452204 CAGTACGGCACATAGTGCCTCATCGGTCAAAGCCGGAACAGTAACAGTAA
1 CAGTACGGCACAGAGTACCTCATCGGACAAAGCCGAAACAGTAACAGTAA
*
12452254 CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAA
1 CAGTACGG--CACAGAGTACCTCATCGG-ACAAAGCCGAAACAGTAACAGTAA
12452307 CAGTA
1 CAGTA
12452312 ACAGTATTCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 8 0.16
52 16 0.32
53 26 0.52
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (50 bp):
CAGTACGGCACAGAGTACCTCATCGGACAAAGCCGAAACAGTAACAGTAA
Found at i:12452304 original size:6 final size:6
Alignment explanation
Indices: 12452293--12452317 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12452283 ACAAATCCGA
12452293 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
12452318 TTCGACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:12453443 original size:5 final size:5
Alignment explanation
Indices: 12453433--12453492 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
12453423 TTTCTTTTAT
12453433 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
12453483 ATATA ATATA
1 ATATA ATATA
12453493 CTTAATTATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:12456550 original size:10 final size:10
Alignment explanation
Indices: 12456523--12456552 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12456513 GAGCTTATGG
12456523 TTTTAGCTCA
1 TTTTAGCTCA
12456533 TTTT-GCTCA
1 TTTTAGCTCA
12456542 TTTTAGCTCA
1 TTTTAGCTCA
12456552 T
1 T
12456553 ATTTTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (10 bp):
TTTTAGCTCA
Found at i:12457460 original size:18 final size:18
Alignment explanation
Indices: 12457437--12457476 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12457427 CTAAACAAGC
**
12457437 CTCACACCTTTTGATGAG
1 CTCACACCACTTGATGAG
*
12457455 CTCACACCACTTGCTGAG
1 CTCACACCACTTGATGAG
12457473 CTCA
1 CTCA
12457477 TAGCTCGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (18 bp):
CTCACACCACTTGATGAG
Found at i:12460314 original size:21 final size:23
Alignment explanation
Indices: 12460290--12460335 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
12460280 AATTTATATT
* *
12460290 TATA-ATAAA-ATAATTATATAA
1 TATATATAAATATAAGTATAAAA
12460311 TATATATAAATATAAGTATAAAA
1 TATATATAAATATAAGTATAAAA
12460334 TA
1 TA
12460336 AGTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 5 0.24
23 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATATAAATATAAGTATAAAA
Found at i:12463520 original size:20 final size:20
Alignment explanation
Indices: 12463403--12463522 Score: 59
Period size: 20 Copynumber: 5.8 Consensus size: 20
12463393 ATATATGTAA
*
12463403 AAATAATATATAATATGT-AT
1 AAATAATA-ATAATATATAAT
12463423 AAATAATTAATAAATATATAAT
1 AAATAA-TAAT-AATATATAAT
*
12463445 ACAAGTAA-AAAAATATAGATAAT
1 A-AA-TAATAATAATAT--ATAAT
* *
12463468 AATGTAA-AATATTA-ATAAT
1 AA-ATAATAATAATATATAAT
*** *
12463487 TTGTGAAAAATAATATATAAT
1 AAAT-AATAATAATATATAAT
12463508 AAATAATAATAATAT
1 AAATAATAATAATAT
12463523 GAAATAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
18 2 0.03
19 7 0.09
20 24 0.31
21 19 0.25
22 14 0.18
23 8 0.10
24 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATAATAATAATATATAAT
Found at i:12465231 original size:12 final size:12
Alignment explanation
Indices: 12465214--12465247 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12465204 CGGCCCACCC
12465214 ATATTAATTTTT
1 ATATTAATTTTT
*
12465226 ATATTATTTTTT
1 ATATTAATTTTT
12465238 ATA-TAATTTT
1 ATATTAATTTT
12465248 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:12465488 original size:22 final size:22
Alignment explanation
Indices: 12465463--12465505 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12465453 TATCCAAACA
12465463 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
12465485 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
12465506 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:12465509 original size:11 final size:11
Alignment explanation
Indices: 12465470--12465510 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
12465460 ACAATAACAA
12465470 CAAAATAGTAG
1 CAAAATAGTAG
* *
12465481 CAACATAATAG
1 CAAAATAGTAG
*
12465492 TAAAATAGTAG
1 CAAAATAGTAG
12465503 CAAAATAG
1 CAAAATAG
12465511 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:12472750 original size:26 final size:26
Alignment explanation
Indices: 12472721--12472773 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12472711 AACCCAACAG
12472721 CTTGGTCTTTCCCTAACCATCCTATT
1 CTTGGTCTTTCCCTAACCATCCTATT
12472747 CTTGGTCTTTCCCTAACCATCCTATT
1 CTTGGTCTTTCCCTAACCATCCTATT
12472773 C
1 C
12472774 CTACCATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.36, G:0.08, T:0.42
Consensus pattern (26 bp):
CTTGGTCTTTCCCTAACCATCCTATT
Found at i:12481675 original size:3 final size:3
Alignment explanation
Indices: 12481667--12481697 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12481657 ACGATGAATT
12481667 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12481698 TGGCTCAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12484460 original size:20 final size:20
Alignment explanation
Indices: 12484437--12484498 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
12484427 GAAAAAAATC
12484437 AAATCCA-AATTAAAATACTG
1 AAATCCAGAA-TAAAATACTG
* *
12484457 AAATTCAGAATAAAATCCTG
1 AAATCCAGAATAAAATACTG
* *
12484477 AAATTCAGGATAAGAATACTG
1 AAATCCAGAATAA-AATACTG
12484498 A
1 A
12484499 TGTGGCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 27 0.75
21 9 0.25
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.24
Consensus pattern (20 bp):
AAATCCAGAATAAAATACTG
Found at i:12484667 original size:20 final size:21
Alignment explanation
Indices: 12484630--12484670 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12484620 GATACAAATT
12484630 AAAAAAATTCAATAAATTTTA
1 AAAAAAATTCAATAAATTTTA
*
12484651 AAAAAAAGTT-AATAATTTTT
1 AAAAAAA-TTCAATAAATTTT
12484671 TTTAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAAAAATTCAATAAATTTTA
Done.