Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 23 of 186
Found at i:6771774 original size:24 final size:24
Alignment explanation
Indices: 6771747--6771865 Score: 166
Period size: 24 Copynumber: 5.0 Consensus size: 24
6771737 TACTGCTGGA
*
6771747 ATGCCTCCCAACAACAGGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
6771771 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
6771795 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
* *
6771819 ATGCCACCCAACAACATGGGAAGG
1 ATGCCTCCCAACAACATGGGAGGG
* * *
6771843 ATGCCACCCAATAATATGGGAGG
1 ATGCCTCCCAACAACATGGGAGG
6771866 AATGACACCG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 87 1.00
ACGTcount: A:0.30, C:0.29, G:0.29, T:0.12
Consensus pattern (24 bp):
ATGCCTCCCAACAACATGGGAGGG
Found at i:6773045 original size:6 final size:6
Alignment explanation
Indices: 6773034--6773068 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
6773024 TGTGCAGTCA
6773034 AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
1 AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
6773069 GAACAGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAC
Found at i:6779782 original size:29 final size:29
Alignment explanation
Indices: 6779740--6779798 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
6779730 AAAAAAAGAT
6779740 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
* *
6779769 AGAGAGATATAAGAGTTTGTTGGGATAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
6779798 A
1 A
6779799 AAGGCTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.24
Consensus pattern (29 bp):
AGAGAGATAAAAGAGTTTGTTGGGAGAGA
Found at i:6783204 original size:30 final size:31
Alignment explanation
Indices: 6783168--6783234 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
6783158 GGTTTCATTT
* *
6783168 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
6783198 CAGTCACTAACGTTATAAAAAAGTTACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
6783229 CAGTCA
1 CAGTCA
6783235 TTGATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.50
31 13 0.41
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:6787456 original size:38 final size:38
Alignment explanation
Indices: 6787405--6787527 Score: 192
Period size: 38 Copynumber: 3.2 Consensus size: 38
6787395 TTGAAATACG
*
6787405 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
6787443 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
6787481 ATATCTGGGTTAAATCCCGCAAGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
6787519 ATATTCGGG
1 ATATCCGGG
6787528 CCTTTGAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:6791508 original size:30 final size:31
Alignment explanation
Indices: 6791443--6791511 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
6791433 ACTGTTAATC
* *
6791443 AGTGACTGTTTTGTCATTTTTTTATAACGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
* *
6791474 AGTGATTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
6791503 GAGTGACTG
1 -AGTGACTG
6791512 AAATAAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.16
30 13 0.41
31 14 0.44
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (31 bp):
AGTGACTGTTTTGTCATTTTTTCATAAAGTT
Found at i:6794208 original size:159 final size:159
Alignment explanation
Indices: 6793919--6794581 Score: 1070
Period size: 159 Copynumber: 4.2 Consensus size: 159
6793909 AGTATCCGTG
* * *
6793919 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
6793984 GATCTGCTTGACTCTGACCTGGTACATTCG-ATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTG
66 GATCTGTTTGACTCTGACCTGCTACATTCGAAT-GAAATTGCCCAGTATGCTGAGAGTTCGAGTG
6794048 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
130 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
* *
6794078 ATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACAAAGCTGTCACTCGGCACTGAATTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
6794143 GATCTGTTTGACTCTGACGTGCTACATTCGAATGAAATTGCCCAGTATGGTGAGAGTTCGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
6794208 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
*
6794237 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* * * *
6794302 GATCTG--T---T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
*
6794361 TGAATCAGAGTCTGGTTCTGACGTCTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
* *
6794390 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACAGAATTTGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* * ** *
6794455 GATCTGTTTGACTCTGACCTACTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTTAACTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
6794520 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
6794549 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
6794582 TTCCCAAAAG
Statistics
Matches: 471, Mismatches: 26, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
153 143 0.30
154 1 0.00
155 1 0.00
157 1 0.00
158 1 0.00
159 322 0.68
160 2 0.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (159 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
TGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:6794493 original size:312 final size:315
Alignment explanation
Indices: 6793919--6794581 Score: 1107
Period size: 312 Copynumber: 2.1 Consensus size: 315
6793909 AGTATCCGTG
* *
6793919 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
*
6793984 GATCTGCTTGACTCTGACCTGGTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
66 GATCTGC-T-A-TCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
*
6794049 TGAATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCAC
128 TGAATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCAC
* * *
6794114 AAAGCTGTCACTCGGCACTGAATTCGTTAGATCTGTTTGACTCTGACGTGCTACATTCGAATGAA
193 AAAGCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAA
* * *
6794179 ATTGCCCAGTATGGTGAGAGTTCGAGTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
258 ATTGCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
6794237 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
* * * *
6794302 GATCTG-T-T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGATGA
66 GATCTGCTATCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
* *
6794364 ATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAA
131 ATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACAAA
* *
6794429 GCTGTCACTCGGCACAGAATTTGTTAGATCTGTTTGACTCTGACCTACTACATTCGATTGAAATT
196 GCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAAATT
*
6794494 GCCCAGTATGCTGAGAGTTTAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
261 GCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
6794549 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
6794582 TTCCCAAAAG
Statistics
Matches: 326, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
312 255 0.78
313 1 0.00
316 1 0.00
318 69 0.21
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (315 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
GATCTGCTATCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
ATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACAAA
GCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAAATT
GCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:6811216 original size:61 final size:61
Alignment explanation
Indices: 6811149--6811272 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
6811139 GAAGAGTCAC
6811149 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
1 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
6811210 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
1 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
6811271 AC
1 AC
6811273 ACTTCATATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.39
Consensus pattern (61 bp):
ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
Found at i:6811918 original size:42 final size:42
Alignment explanation
Indices: 6811869--6811995 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
6811859 CTTCGTTTTC
** * *
6811869 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
6811912 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
6811953 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
6811994 TC
1 TC
6811996 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:6812039 original size:88 final size:89
Alignment explanation
Indices: 6811912--6812079 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 89
6811902 CTTCACATAA
* * *
6811912 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATAT-CGATGCCATAGCCCAGCTATGG
1 TGATGCCATAGCCCAGATATGGTCTTACACATATGCATATATCCGATGCCATAGCCCAGATATGG
6811976 TCTTACACGAATCACATATCTCAC
66 TCTTACACGAATCACATATCTCAC
* * *
6812000 TGATGCCATATCCCAGATATGGTCTTATACAGTA-GCATATATCACACCGATGCCATATCCCAGA
1 TGATGCCATAGCCCAGATATGGTCTTACACA-TATGCATATAT----CCGATGCCATAGCCCAGA
*
6812064 TATGGTCTTATACGAA
61 TATGGTCTTACACGAA
6812080 AATCACTTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
88 35 0.52
89 2 0.03
93 30 0.45
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (89 bp):
TGATGCCATAGCCCAGATATGGTCTTACACATATGCATATATCCGATGCCATAGCCCAGATATGG
TCTTACACGAATCACATATCTCAC
Found at i:6812057 original size:47 final size:46
Alignment explanation
Indices: 6811954--6812079 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 46
6811944 ATTCATATAT
* * * * *
6811954 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
6812000 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
6812047 CGATGCCATATCCCAGATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
6812080 AATCACTTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 28 0.41
47 41 0.59
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:6812137 original size:31 final size:31
Alignment explanation
Indices: 6812102--6812281 Score: 279
Period size: 31 Copynumber: 5.8 Consensus size: 31
6812092 CTTGTCTCTT
*
6812102 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
6812133 GTAGCCGGTGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
6812164 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
6812195 GTAGCCGGAGCTACCACTTTTCACTGTTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
6812226 GTAGCATAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
6812257 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
6812282 TGTCATTTGT
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 138 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:6812363 original size:50 final size:51
Alignment explanation
Indices: 6812257--6812385 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
6812247 CACTGATCAG
* * *
6812257 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
6812308 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
6812358 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
6812386 TGCAATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:6815785 original size:13 final size:13
Alignment explanation
Indices: 6815764--6815834 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
6815754 AAATTTTTTC
6815764 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
6815777 AAAGTACTTCTCA
1 AAAGCACTTCTCA
*
6815790 AAAGCACTTCTCC
1 AAAGCACTTCTCA
* * * *
6815803 ACAGCATTTTTTA
1 AAAGCACTTCTCA
* *
6815816 AAAGTACTTTTCA
1 AAAGCACTTCTCA
6815829 AAAGCA
1 AAAGCA
6815835 ATGAAGAATT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:6815818 original size:26 final size:26
Alignment explanation
Indices: 6815756--6815834 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
6815746 AAACACTTAA
* *
6815756 ATTTTTTCAAAGCACTTCTCAAAAGT
1 ATTTTTTAAAAGCACTTCTCAAAAGC
* * * * *
6815782 ACTTCTCAAAAGCACTTCTCCACAGC
1 ATTTTTTAAAAGCACTTCTCAAAAGC
* *
6815808 ATTTTTTAAAAGTACTTTTCAAAAGC
1 ATTTTTTAAAAGCACTTCTCAAAAGC
6815834 A
1 A
6815835 ATGAAGAATT
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATTTTTTAAAAGCACTTCTCAAAAGC
Found at i:6821809 original size:37 final size:37
Alignment explanation
Indices: 6821768--6821849 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
6821758 AAATATTTAT
* * *
6821768 TAATCAATGTTCAAACTTTGAACATGCTTTATTAAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
*
6821805 TAATCAATGCTAAAACTTTGAACATGCTTTAATGAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
6821842 TAATCAAT
1 TAATCAAT
6821850 ATATTTATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (37 bp):
TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
Found at i:6821929 original size:33 final size:33
Alignment explanation
Indices: 6821892--6821967 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
6821882 TTAAAACTTG
*
6821892 AATTATACATATACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
6821925 AATTATACATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
6821958 AATTATACAT
1 AATTATACAT
6821968 GCTTTATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (33 bp):
AATTATACATACACCAACAATTAATTTTAGGTC
Found at i:6825210 original size:37 final size:37
Alignment explanation
Indices: 6825169--6825250 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
6825159 AAATATTTAT
* * *
6825169 TAATCAATGTTCAAACTTTGAACATGCTTTATTAAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
*
6825206 TAATCAATGCTAAAACTTTGAACATGCTTTAATGAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
6825243 TAATCAAT
1 TAATCAAT
6825251 ACTTAACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (37 bp):
TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
Found at i:6828506 original size:120 final size:120
Alignment explanation
Indices: 6828309--6829051 Score: 1441
Period size: 120 Copynumber: 6.2 Consensus size: 120
6828299 TTTTCAAGTT
6828309 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
6828374 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
6828429 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
6828494 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
6828549 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
6828614 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
6828669 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
6828734 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
6828789 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
6828854 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
6828909 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
6828974 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
6829029 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
6829052 TAAATATGAT
Statistics
Matches: 619, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 619 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:6828908 original size:18 final size:17
Alignment explanation
Indices: 6828880--6828914 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6828870 ATTATTAAGA
*
6828880 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6828897 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6828915 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6829028 original size:18 final size:17
Alignment explanation
Indices: 6829000--6829034 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6828990 ATTATTAAGA
*
6829000 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6829017 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6829035 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6829248 original size:44 final size:45
Alignment explanation
Indices: 6829199--6829289 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6829189 ACCTCTATTC
* * *
6829199 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
6829243 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
6829288 CA
1 CA
6829290 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:6829291 original size:16 final size:16
Alignment explanation
Indices: 6829270--6829338 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
6829260 GATTAGCTAT
6829270 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6829286 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
6829303 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
6829319 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
6829335 TACA
1 TACA
6829339 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6829312 original size:33 final size:32
Alignment explanation
Indices: 6829270--6829338 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
6829260 GATTAGCTAT
6829270 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
6829303 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
6829335 TACA
1 TACA
6829339 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:6829678 original size:4 final size:4
Alignment explanation
Indices: 6829669--6829706 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
6829659 TTTTAGAATC
6829669 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
6829707 AGATGAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:6834314 original size:17 final size:17
Alignment explanation
Indices: 6834272--6834318 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
6834262 AATTTAATTT
*
6834272 TAATATAAAT-ATTTAA
1 TAATATAAATAATTCAA
6834288 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
6834306 TAATATAAATAAT
1 TAATATAAATAAT
6834319 ATAAAATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 13 0.50
18 7 0.27
19 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:6834642 original size:14 final size:14
Alignment explanation
Indices: 6834623--6834670 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
6834613 TTTTAAGGGT
6834623 TTTTGAGAGTAAAA
1 TTTTGAGAGTAAAA
*
6834637 TTTTGAG-GAAAAA
1 TTTTGAGAGTAAAA
**
6834650 TGAATGAGAGTAAAA
1 T-TTTGAGAGTAAAA
6834665 TTTTGA
1 TTTTGA
6834671 TGAGAAATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (14 bp):
TTTTGAGAGTAAAA
Found at i:6834658 original size:28 final size:28
Alignment explanation
Indices: 6834626--6834682 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
6834616 TAAGGGTTTT
6834626 TGAGAGTAAAATTTTGAGGAAAAATGAA
1 TGAGAGTAAAATTTTGAGGAAAAATGAA
* *
6834654 TGAGAGTAAAATTTTGATGAGAAATGAA
1 TGAGAGTAAAATTTTGAGGAAAAATGAA
6834682 T
1 T
6834683 TTTGAGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (28 bp):
TGAGAGTAAAATTTTGAGGAAAAATGAA
Found at i:6839237 original size:24 final size:24
Alignment explanation
Indices: 6839192--6839268 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
6839182 ACCACTCAAC
*
6839192 CCACCATAAACAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
* * *
6839216 CCGCCATAACCAGCTGATCCTGGT
1 CCACCATAACCAGTTGAACCTGGT
*
6839240 CCACCATAGCCAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
6839264 CCACC
1 CCACC
6839269 GTACCCACCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.19
Consensus pattern (24 bp):
CCACCATAACCAGTTGAACCTGGT
Found at i:6846238 original size:11 final size:11
Alignment explanation
Indices: 6846224--6846261 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6846214 ATAAGGTATA
6846224 AAAGAAAAACG
1 AAAGAAAAACG
**
6846235 AAAGAAAAAAA
1 AAAGAAAAACG
6846246 AAAG-AAAACG
1 AAAGAAAAACG
6846256 AAAGAA
1 AAAGAA
6846262 CAGCAGAAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAACG
Found at i:6847948 original size:621 final size:622
Alignment explanation
Indices: 6846767--6848014 Score: 2480
Period size: 621 Copynumber: 2.0 Consensus size: 622
6846757 ATTAATAGTG
6846767 TAAATTATTATTATTTTCGTAGCTAACAAGGAACTCGAGGCATCGACACACAAAGCAAAAAAGAA
1 TAAATTATTATTATTTTCGTAGCTAACAAGGAACTCGAGGCATCGACACACAAAGCAAAAAAGAA
6846832 GGTTATCGAGGAATAATCGAATAAATCCGAGTTTGTATTACTATAATTCAAATCTATTTATTATT
66 GGTTATCGAGGAATAATCGAATAAATCCGAGTTTGTATTACTATAATTCAAATCTATTTATTATT
6846897 AATTGTTATATTTTAATTAAAGTGCATGGTAGATAAATTTAGGAAACTAATTGAAATAATGGTAT
131 AATTGTTATATTTTAATTAAAGTGCATGGTAGATAAATTTAGGAAACTAATTGAAATAATGGTAT
6846962 TGATTTGAATGAAATTGATTTAAAAGTGTTTATGGCTATTGAAATTAAATGTTAAATTAAATTAT
196 TGATTTGAATGAAATTGATTTAAAAGTGTTTATGGCTATTGAAATTAAATGTTAAATTAAATTAT
6847027 GTATTGGTAAGTAAATTATGAGGCAAGTGTTGTTATGGTATTGAATGATAATTGAAATAGTTGTT
261 GTATTGGTAAGTAAATTATGAGGCAAGTGTTGTTATGGTATTGAATGATAATTGAAATAGTTGTT
6847092 AAATAAATTTTAGTGTTGGATTATGATTGAATTGTTGAATTGAAAGAGAATTTGGGATTTAAAGT
326 AAATAAATTTTAGTGTTGGATTATGATTGAATTGTTGAATTGAAAGAGAATTTGGGATTTAAAGT
*
6847157 GATGTTGAATTGAATGAGAAATATGTGTTAGTATTGAATTGTATTTTGATTGATGAATGGAAAGT
391 GAAGTTGAATTGAATGAGAAATATGTGTTAGTATTGAATTGTATTTTGATTGATGAATGGAAAGT
6847222 GTATTTGATTTTGAAAGTGGATTTTTGAAATGAAAGTGAAATTGGATTGTGGGATTGAATTGCAT
456 GTATTTGATTTTGAAAGTGGATTTTTGAAATGAAAGTGAAATTGGATTGTGGGATTGAATTGCAT
6847287 ATTGATTTGTAAGTGAAAAGTGTATTTGAATTGGTAAATATATGAGAAATTGTGATTTAAGTGGA
521 ATTGATTTGTAAGTGAAAAGTGTATTTGAATTGGTAAATATATGAGAAATTGTGATTTAAGTGGA
6847352 ATTGATGTGAACATTGATTGAAATAGAGAAAGTGAA-
586 ATTGATGTGAACATTGATTGAAATAGAGAAAGTGAAT
6847388 TAAATTATTATTATTTTCGTAGCTAACAAGGAACTCGAGGCATCGACACACAAAGCAAAAAAGAA
1 TAAATTATTATTATTTTCGTAGCTAACAAGGAACTCGAGGCATCGACACACAAAGCAAAAAAGAA
6847453 GGTTATCGAGGAATAATCGAATAAATCCGAGTTTGTATTACTATAATTCAAATCTATTTATTATT
66 GGTTATCGAGGAATAATCGAATAAATCCGAGTTTGTATTACTATAATTCAAATCTATTTATTATT
6847518 AATTGTTATATTTTAATTAAAGTGCATGGTAGATAAATTTAGGAAACTAATTGAAATAATGGTAT
131 AATTGTTATATTTTAATTAAAGTGCATGGTAGATAAATTTAGGAAACTAATTGAAATAATGGTAT
6847583 TGATTTGAATGAAATTGATTTAAAAGTGTTTATGGCTATTGAAATTAAATGTTAAATTAAATTAT
196 TGATTTGAATGAAATTGATTTAAAAGTGTTTATGGCTATTGAAATTAAATGTTAAATTAAATTAT
6847648 GTATTGGTAAGTAAATTATGAGGCAAGTGTTGTTATGGTATTGAATGATAATTGAAATAGTTGTT
261 GTATTGGTAAGTAAATTATGAGGCAAGTGTTGTTATGGTATTGAATGATAATTGAAATAGTTGTT
6847713 AAATAAATTTTAGTGTTGGATTATGATTGAATTGTTGAATTGAAAGAGAATTTGGGATTTAAAGT
326 AAATAAATTTTAGTGTTGGATTATGATTGAATTGTTGAATTGAAAGAGAATTTGGGATTTAAAGT
6847778 GAAGTTGAATTGAATGAGAAATATGTGTTAGTATTGAATTGTATTTTGATTGATGAATGGAAAGT
391 GAAGTTGAATTGAATGAGAAATATGTGTTAGTATTGAATTGTATTTTGATTGATGAATGGAAAGT
6847843 GTATTTGATTTTGAAAGTGGATTTTTGAAATGAAAGTGAAATTGGATTGTGGGATTGAATTGCAT
456 GTATTTGATTTTGAAAGTGGATTTTTGAAATGAAAGTGAAATTGGATTGTGGGATTGAATTGCAT
6847908 ATTGATTTGTAAGTGAAAAGTGTATTTGAATTGGTAAATATATGAGAAATTGTGATTTAAGTGGA
521 ATTGATTTGTAAGTGAAAAGTGTATTTGAATTGGTAAATATATGAGAAATTGTGATTTAAGTGGA
6847973 ATTGATGTGAACATTGATTGAAATAGAGAAAGTGAAT
586 ATTGATGTGAACATTGATTGAAATAGAGAAAGTGAAT
6848010 TAAAT
1 TAAAT
6848015 ACCCTATTAA
Statistics
Matches: 625, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
621 620 0.99
622 5 0.01
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (622 bp):
TAAATTATTATTATTTTCGTAGCTAACAAGGAACTCGAGGCATCGACACACAAAGCAAAAAAGAA
GGTTATCGAGGAATAATCGAATAAATCCGAGTTTGTATTACTATAATTCAAATCTATTTATTATT
AATTGTTATATTTTAATTAAAGTGCATGGTAGATAAATTTAGGAAACTAATTGAAATAATGGTAT
TGATTTGAATGAAATTGATTTAAAAGTGTTTATGGCTATTGAAATTAAATGTTAAATTAAATTAT
GTATTGGTAAGTAAATTATGAGGCAAGTGTTGTTATGGTATTGAATGATAATTGAAATAGTTGTT
AAATAAATTTTAGTGTTGGATTATGATTGAATTGTTGAATTGAAAGAGAATTTGGGATTTAAAGT
GAAGTTGAATTGAATGAGAAATATGTGTTAGTATTGAATTGTATTTTGATTGATGAATGGAAAGT
GTATTTGATTTTGAAAGTGGATTTTTGAAATGAAAGTGAAATTGGATTGTGGGATTGAATTGCAT
ATTGATTTGTAAGTGAAAAGTGTATTTGAATTGGTAAATATATGAGAAATTGTGATTTAAGTGGA
ATTGATGTGAACATTGATTGAAATAGAGAAAGTGAAT
Found at i:6848546 original size:12 final size:12
Alignment explanation
Indices: 6848523--6848553 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
6848513 TAAGAGAAAG
6848523 TGAAATTATGAAT
1 TGAAA-TATGAAT
6848536 TGAAATATGAAT
1 TGAAATATGAAT
6848548 TGAAAT
1 TGAAAT
6848554 TGAGGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:6848577 original size:26 final size:25
Alignment explanation
Indices: 6848520--6848584 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
6848510 AAGTAAGAGA
* * *
6848520 AAGTGAAATTATGAATTGAAATATG
1 AAGTGAAATTAGGAATCGAAATAAG
* *
6848545 AATTGAAATTGAGGTATCGAAATAAG
1 AAGTGAAATT-AGGAATCGAAATAAG
*
6848571 AAGTGAAAATAGGA
1 AAGTGAAATTAGGA
6848585 TGAATAGGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (25 bp):
AAGTGAAATTAGGAATCGAAATAAG
Found at i:6851482 original size:46 final size:46
Alignment explanation
Indices: 6851422--6851741 Score: 534
Period size: 46 Copynumber: 7.0 Consensus size: 46
6851412 TTTAACATGA
* * * * * *
6851422 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** *
6851468 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
6851514 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
6851560 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
6851606 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
6851652 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
6851698 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
6851742 AGAGCACACT
Statistics
Matches: 263, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
45 4 0.02
46 259 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:6853068 original size:153 final size:152
Alignment explanation
Indices: 6852816--6853123 Score: 490
Period size: 153 Copynumber: 2.0 Consensus size: 152
6852806 TTTTATGAAT
* * *
6852816 ATTCAAGTTGTCCATCTGTGTCATAATCACTAAATTATTTATATCTGGAGCTATAGAAATAAAAA
1 ATTCAAGCTGTCCATCTGTGTCATAATCACTAAATTATTTAAATCTGCAGCTATAGAAATAAAAA
* *
6852881 TTAAGATCCGATAATTTTCCTTGAAACTAGACTCATATATATTATTACCATAAAATTTTCAGAAT
66 TTAAGATCCCATAATTTTCCCTGAAACTAGACTCATATATATTATTACCATAAAATTTTCAGAAT
6852946 TTTTGGTTTAGCCAATAAATAC
131 TTTTGGTTTAGCCAATAAATAC
* * * **
6852968 ANTTCAAGCTGTCCATCTGTGTCATAGTCACTAAATTATTTAAATCTGCAGCTATAGGACTTCAA
1 A-TTCAAGCTGTCCATCTGTGTCATAATCACTAAATTATTTAAATCTGCAGCTATAGAAATAAAA
*
6853033 ATTAAGATCCCATAATTTTCCCTGAAACTAGACTCATATATATTCTTACCATAAAATTTTCAGAA
65 ATTAAGATCCCATAATTTTCCCTGAAACTAGACTCATATATATTATTACCATAAAATTTTCAGAA
* *
6853098 TTTTTGGTTTAGTCAATAAGTAC
130 TTTTTGGTTTAGCCAATAAATAC
6853121 ATT
1 ATT
6853124 TTATTCTTTA
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
152 3 0.02
153 139 0.98
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (152 bp):
ATTCAAGCTGTCCATCTGTGTCATAATCACTAAATTATTTAAATCTGCAGCTATAGAAATAAAAA
TTAAGATCCCATAATTTTCCCTGAAACTAGACTCATATATATTATTACCATAAAATTTTCAGAAT
TTTTGGTTTAGCCAATAAATAC
Found at i:6853616 original size:11 final size:11
Alignment explanation
Indices: 6853600--6853627 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6853590 ACTAAATAAT
6853600 TAATAATAAAA
1 TAATAATAAAA
6853611 TAATAATAAAA
1 TAATAATAAAA
6853622 TAATAA
1 TAATAA
6853628 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:6853654 original size:20 final size:21
Alignment explanation
Indices: 6853601--6853676 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
6853591 CTAAATAATT
*
6853601 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
6853620 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
6853641 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
6853662 TAATCATAAAATATC
1 -AATAATAAAATATC
6853677 ATCAACATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:6856129 original size:15 final size:14
Alignment explanation
Indices: 6856072--6856132 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
6856062 TATATGCTTG
6856072 TAATTAAAATATAAT
1 TAATTAAAAT-TAAT
* * *
6856087 TAATCATAATTATT
1 TAATTAAAATTAAT
* *
6856101 TATTTAAACTTTAAT
1 TAATTAAA-ATTAAT
6856116 TAATTAAAAGTTAAT
1 TAATTAAAA-TTAAT
6856131 TA
1 TA
6856133 CAAATAACAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
14 8 0.24
15 26 0.76
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATTAAAATTAAT
Found at i:6858652 original size:15 final size:15
Alignment explanation
Indices: 6858616--6858655 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
6858606 AAATGGTAAT
*
6858616 AAACAGCTTGCACAA
1 AAACAGTTTGCACAA
6858631 AAACAGTTTGCACAA
1 AAACAGTTTGCACAA
6858646 AAACAGTTTG
1 AAACAGTTTG
6858656 GACAGCAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (15 bp):
AAACAGTTTGCACAA
Found at i:6861708 original size:3 final size:3
Alignment explanation
Indices: 6861694--6861821 Score: 132
Period size: 3 Copynumber: 43.0 Consensus size: 3
6861684 AAAATGATAG
* * * *
6861694 TAA TAG TAA TAA TAA TAA T-A TAA TAA TAA TAG TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
6861741 AAA TAA AAA TAA AAA TAA TAA AAA TAA TAC TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
6861789 TAA TAA TAA TAG TAA AAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6861822 GACCGTAATA
Statistics
Matches: 100, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
2 2 0.02
3 98 0.98
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:6861869 original size:20 final size:20
Alignment explanation
Indices: 6861844--6861890 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6861834 AAGAAAAAGA
* *
6861844 AATAATAACATGTAAATAGT
1 AATAATAACATATAAATAAT
* *
6861864 AATAATAATATATTAATAAT
1 AATAATAACATATAAATAAT
6861884 AATAATA
1 AATAATA
6861891 GTATATGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AATAATAACATATAAATAAT
Found at i:6861895 original size:20 final size:20
Alignment explanation
Indices: 6861700--6861915 Score: 77
Period size: 21 Copynumber: 10.7 Consensus size: 20
6861690 ATAGTAATAG
*
6861700 TAATAATAATAATATAATAA
1 TAATAATAATAATATATTAA
* * *
6861720 TAATAGTAGTAATAGTAATAA
1 TAATAATAATAATA-TATTAA
* * * *
6861741 AAATAAAAATAAAAATAATAA
1 TAATAATAAT-AATATATTAA
* * *
6861762 AAATAATACTAATAGTAATAA
1 TAATAATAATAATA-TATTAA
*
6861783 TAATAATAATAATAATAGTAA
1 TAATAATAATAAT-ATATTAA
* *
6861804 AAATAGTAATAATA-A-TAA
1 TAATAATAATAATATATTAA
* * *
6861822 GACCGTAATAA-AA-AGA--AA
1 TA--ATAATAATAATATATTAA
* * * *
6861840 -AAGAAATAATAACATGTAAA
1 TAA-TAATAATAATATATTAA
*
6861860 TAGTAATAATAATATATTAA
1 TAATAATAATAATATATTAA
*
6861880 TAATAATAATAGTATATGTTAA
1 TAATAATAATA--ATATATTAA
* *
6861902 TAATGACAATAATA
1 TAATAATAATAATA
6861916 GAAAATAAAA
Statistics
Matches: 150, Mismatches: 31, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
16 5 0.03
17 3 0.02
18 8 0.05
19 4 0.03
20 49 0.33
21 60 0.40
22 21 0.14
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
TAATAATAATAATATATTAA
Found at i:6861912 original size:22 final size:22
Alignment explanation
Indices: 6861871--6861912 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6861861 AGTAATAATA
*
6861871 ATATATTAATAATAATAATAGT
1 ATATATTAATAATAACAATAGT
* *
6861893 ATATGTTAATAATGACAATA
1 ATATATTAATAATAACAATA
6861913 ATAGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (22 bp):
ATATATTAATAATAACAATAGT
Found at i:6863545 original size:15 final size:16
Alignment explanation
Indices: 6863525--6863572 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
6863515 TAAGTAAATG
6863525 ATATTA-AATTATAAT
1 ATATTATAATTATAAT
*
6863540 ATATTATATATTATTAT
1 ATATTATA-ATTATAAT
*
6863557 ATAATATAATTA-AAT
1 ATATTATAATTATAAT
6863572 A
1 A
6863573 AATGAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 14 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTATAATTATAAT
Found at i:6864007 original size:22 final size:22
Alignment explanation
Indices: 6863979--6864021 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6863969 GTTTTAAGTG
6863979 ATAAATTG-AAGAAAAATAAAGA
1 ATAAATTGTAA-AAAAATAAAGA
6864001 ATAAATTGTAAAAAAATAAAG
1 ATAAATTGTAAAAAAATAAAG
6864022 TTAGTATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAAATTGTAAAAAAATAAAGA
Found at i:6867708 original size:16 final size:17
Alignment explanation
Indices: 6867678--6867710 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6867668 ATTTAAATGA
6867678 AACTGCATACATATTAC
1 AACTGCATACATATTAC
*
6867695 AACT-CATACGTATTAC
1 AACTGCATACATATTAC
6867711 CAAAAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
AACTGCATACATATTAC
Found at i:6869980 original size:29 final size:29
Alignment explanation
Indices: 6869946--6870011 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
6869936 ATAGAAGTTT
* *
6869946 AATTAAATTAATCACTCTATTATTAAATA
1 AATTAAATTAATCACTATATTATTAAAAA
* * * *
6869975 AATTAATTTAGTTATTATATTATTAAAAA
1 AATTAAATTAATCACTATATTATTAAAAA
6870004 AATTAAAT
1 AATTAAAT
6870012 AAGATTAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
AATTAAATTAATCACTATATTATTAAAAA
Found at i:6873012 original size:15 final size:16
Alignment explanation
Indices: 6872992--6873023 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6872982 TACTAGATAG
6872992 ATATGAAATAA-TATA
1 ATATGAAATAAGTATA
6873007 ATATGAAATAAGTATA
1 ATATGAAATAAGTATA
6873023 A
1 A
6873024 AGTTTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (16 bp):
ATATGAAATAAGTATA
Found at i:6876040 original size:12 final size:12
Alignment explanation
Indices: 6876023--6876066 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
6876013 TGTCACGTAT
*
6876023 TTTTCTTTATTA
1 TTTTCTTTATAA
6876035 TTTTCTTTATAA
1 TTTTCTTTATAA
* *
6876047 ATTT-TTAATAA
1 TTTTCTTTATAA
6876058 TTTTCTTTA
1 TTTTCTTTA
6876067 ACATTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTTATAA
Found at i:6878442 original size:21 final size:22
Alignment explanation
Indices: 6878403--6878443 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6878393 TCAATTTTTT
*
6878403 CATTTTTAATTATTGATTTAAG
1 CATTTTAAATTATTGATTTAAG
*
6878425 CATTTTAAATT-TTTATTTA
1 CATTTTAAATTATTGATTTA
6878444 TTTATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
CATTTTAAATTATTGATTTAAG
Found at i:6880737 original size:13 final size:14
Alignment explanation
Indices: 6880716--6880744 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6880706 ATTGATTAAA
6880716 AATTAAAATTAACT
1 AATTAAAATTAACT
6880730 AATT-AAATTAACT
1 AATTAAAATTAACT
6880743 AA
1 AA
6880745 AAAAAGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAAATTAACT
Found at i:6884083 original size:85 final size:87
Alignment explanation
Indices: 6883933--6884107 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 87
6883923 AGGCCTTGTT
* * * **
6883933 CTTGGGTAATAATTGCAATGATAAAAGTCAAATGTTTTTTGTTTGTAGAAGACTTGTTTAACTGA
1 CTTGAGTAATAATTGCAATGATAAAAGTCAAATGTTCTTTATAGGTAGAAGACTTGTTTAACTGA
6883998 GGTTTAAAATGTTAATAAATTG
66 GGTTTAAAATGTTAATAAATTG
* * * *
6884020 CTTGAGTAATAATTGCAATGGT-ATAGT-AAATGTTCTTTATAGGTAGAAGAGTTGTTTAGCTGA
1 CTTGAGTAATAATTGCAATGATAAAAGTCAAATGTTCTTTATAGGTAGAAGACTTGTTTAACTGA
*
6884083 GGTTTAAAATGTTAATAGATTG
66 GGTTTAAAATGTTAATAAATTG
6884105 CTT
1 CTT
6884108 CACAGTTCAC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 54 0.69
86 4 0.05
87 20 0.26
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (87 bp):
CTTGAGTAATAATTGCAATGATAAAAGTCAAATGTTCTTTATAGGTAGAAGACTTGTTTAACTGA
GGTTTAAAATGTTAATAAATTG
Found at i:6886781 original size:24 final size:24
Alignment explanation
Indices: 6886754--6886803 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
6886744 TTTTCTACCC
6886754 TGTTTACTCTGTTATCTATCAGTA
1 TGTTTACTCTGTTATCTATCAGTA
6886778 TGTTTACTCTGTTATCTATCAGTA
1 TGTTTACTCTGTTATCTATCAGTA
6886802 TG
1 TG
6886804 AGAAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (24 bp):
TGTTTACTCTGTTATCTATCAGTA
Found at i:6895359 original size:22 final size:23
Alignment explanation
Indices: 6895333--6895380 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
6895323 TTTAAAAGAG
*
6895333 TAATCCTATTAATATTAAAT-AT
1 TAATCCTATAAATATTAAATAAT
*
6895355 TAATCTTATAAATATTAAATAAT
1 TAATCCTATAAATATTAAATAAT
6895378 TAA
1 TAA
6895381 AATTTACGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATCCTATAAATATTAAATAAT
Found at i:6898989 original size:23 final size:21
Alignment explanation
Indices: 6898942--6898989 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
6898932 GCCACTTGCC
6898942 TGTAAAAAGAAGGAAAAGACA
1 TGTAAAAAGAAGGAAAAGACA
6898963 -GTAAATAAGAGAGGAAAA-AGCA
1 TGTAAA-AAGA-AGGAAAAGA-CA
6898985 TGTAA
1 TGTAA
6898990 CAAGGCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.22
21 5 0.22
22 9 0.39
23 4 0.17
ACGTcount: A:0.58, C:0.04, G:0.25, T:0.12
Consensus pattern (21 bp):
TGTAAAAAGAAGGAAAAGACA
Found at i:6900144 original size:22 final size:22
Alignment explanation
Indices: 6900118--6900180 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
6900108 ATTTTTTAAG
*
6900118 TATTATATACATATATATTT-TA
1 TATTATGTA-ATATATATTTATA
*
6900140 TATTATGT-ATATATTTTTAATA
1 TATTATGTAATATATATTT-ATA
6900162 TATTATGTATATATATATT
1 TATTATGTA-ATATATATT
6900181 ATGTACATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.26
22 17 0.50
24 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTATGTAATATATATTTATA
Found at i:6900152 original size:11 final size:11
Alignment explanation
Indices: 6900138--6900175 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6900128 ATATATATTT
6900138 TATATTATGTA
1 TATATTATGTA
*
6900149 TATATT-TTTAA
1 TATATTATGT-A
6900160 TATATTATGTA
1 TATATTATGTA
6900171 TATAT
1 TATAT
6900176 ATATTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.09
11 19 0.83
12 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (11 bp):
TATATTATGTA
Found at i:6900179 original size:37 final size:38
Alignment explanation
Indices: 6900138--6900209 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
6900128 ATATATATTT
* * *
6900138 TATATTATGTATATATTTTTAATA-TATTATGTATATA
1 TATATTATGTACATACTTTTAATATTATCATGTATATA
6900175 TATATTATGTACATACTTTTAATATTATCATGTAT
1 TATATTATGTACATACTTTTAATATTATCATGTAT
6900210 TCATTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 22 0.71
38 9 0.29
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (38 bp):
TATATTATGTACATACTTTTAATATTATCATGTATATA
Found at i:6900558 original size:20 final size:20
Alignment explanation
Indices: 6900522--6900565 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6900512 CCTAGCATAT
*
6900522 ATACTATGTATACATTCTTA
1 ATACTATGCATACATTCTTA
*
6900542 ATACTATAGCATA-ATTCTTT
1 ATACTAT-GCATACATTCTTA
6900562 ATAC
1 ATAC
6900566 CGTATTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (20 bp):
ATACTATGCATACATTCTTA
Found at i:6900704 original size:19 final size:17
Alignment explanation
Indices: 6900651--6900704 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 17
6900641 ATTATACATG
6900651 TATATATATATACTTTTT
1 TATATATATATA-TTTTT
6900669 TATATATAGTATCATTTTT
1 TATATATA-TAT-ATTTTT
6900688 TATATATCATTATATTT
1 TATATAT-A-TATATTT
6900705 ATCATCATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.25
19 19 0.59
20 5 0.16
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATATATATATTTTT
Found at i:6900774 original size:15 final size:14
Alignment explanation
Indices: 6900745--6900778 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
6900735 GCTTATTATT
6900745 TTATTTTAACATTA
1 TTATTTTAACATTA
*
6900759 TTATTTATATCATTA
1 TTATTT-TAACATTA
6900774 TTATT
1 TTATT
6900779 ATTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTTTAACATTA
Found at i:6903043 original size:35 final size:35
Alignment explanation
Indices: 6902973--6903043 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
6902963 TAACCTTCCG
* ***
6902973 CTACTATCAGCTAATCTGGACAAGAAATTTGCATA
1 CTACGATCAGCTAATCTGGACAAGAAATCCACATA
*
6903008 CTACGATCAGCTGATCTGGACATA-AAATCCACATA
1 CTACGATCAGCTAATCTGGACA-AGAAATCCACATA
6903043 C
1 C
6903044 CTACACATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (35 bp):
CTACGATCAGCTAATCTGGACAAGAAATCCACATA
Found at i:6905404 original size:197 final size:197
Alignment explanation
Indices: 6905069--6905463 Score: 781
Period size: 197 Copynumber: 2.0 Consensus size: 197
6905059 ATATTCATCA
6905069 CACATAAATATACATATGATAAAAGAAGAAGGGATAATATTAATTTTGCTTGTGGAAAACGAAAT
1 CACATAAATATACATATGATAAAAGAAGAAGGGATAATATTAATTTTGCTTGTGGAAAACGAAAT
*
6905134 TGAGCAATTTAGCTAACACCAACAACAAATGTATGGTTTCATATTGCATATATGTATATAATGAA
66 TGAGCAATTTAGCTAACACCAACAACAAATGTATGGTTTCATATTGCATATATATATATAATGAA
6905199 TTGGTTGTAATTTTCTGATTTGTGAGTGTAATGGCCATCTCCCAATGTCCCACCATCTCCAAAAT
131 TTGGTTGTAATTTTCTGATTTGTGAGTGTAATGGCCATCTCCCAATGTCCCACCATCTCCAAAAT
6905264 GG
196 GG
6905266 CACATAAATATACATATGATAAAAGAAGAAGGGATAATATTAATTTTGCTTGTGGAAAACGAAAT
1 CACATAAATATACATATGATAAAAGAAGAAGGGATAATATTAATTTTGCTTGTGGAAAACGAAAT
6905331 TGAGCAATTTAGCTAACACCAACAACAAATGTATGGTTTCATATTGCATATATATATATAATGAA
66 TGAGCAATTTAGCTAACACCAACAACAAATGTATGGTTTCATATTGCATATATATATATAATGAA
6905396 TTGGTTGTAATTTTCTGATTTGTGAGTGTAATGGCCATCTCCCAATGTCCCACCATCTCCAAAAT
131 TTGGTTGTAATTTTCTGATTTGTGAGTGTAATGGCCATCTCCCAATGTCCCACCATCTCCAAAAT
6905461 GG
196 GG
6905463 C
1 C
6905464 TTAGCCAGAG
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
197 197 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (197 bp):
CACATAAATATACATATGATAAAAGAAGAAGGGATAATATTAATTTTGCTTGTGGAAAACGAAAT
TGAGCAATTTAGCTAACACCAACAACAAATGTATGGTTTCATATTGCATATATATATATAATGAA
TTGGTTGTAATTTTCTGATTTGTGAGTGTAATGGCCATCTCCCAATGTCCCACCATCTCCAAAAT
GG
Found at i:6910896 original size:16 final size:17
Alignment explanation
Indices: 6910871--6910913 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
6910861 GTTTTTTTAA
*
6910871 ATATTACTTTAATTTGT
1 ATATTGCTTTAATTTGT
*
6910888 -TATTGCTTTCATTTGT
1 ATATTGCTTTAATTTGT
6910904 ATAATTGCTT
1 AT-ATTGCTT
6910914 CTGGAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 14 0.64
17 1 0.05
18 7 0.32
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (17 bp):
ATATTGCTTTAATTTGT
Found at i:6914830 original size:11 final size:11
Alignment explanation
Indices: 6914814--6914846 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
6914804 AAGCATACAT
6914814 AAAAAAAAAGA
1 AAAAAAAAAGA
6914825 AAAAAAAAAGA
1 AAAAAAAAAGA
*
6914836 AAGAAAAAAGA
1 AAAAAAAAAGA
6914847 GGAGGAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:6914832 original size:15 final size:15
Alignment explanation
Indices: 6914814--6914844 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6914804 AAGCATACAT
6914814 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
*
6914829 AAAAAGAAAGAAAAA
1 AAAAAAAAAGAAAAA
6914844 A
1 A
6914845 GAGGAGGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:6914851 original size:3 final size:3
Alignment explanation
Indices: 6914845--6914880 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
6914835 AAAGAAAAAA
*
6914845 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAA GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
6914881 AAGAAGAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:6917269 original size:18 final size:18
Alignment explanation
Indices: 6917246--6917281 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6917236 ACACGCCTTG
6917246 AAGCCTTGTCATATTTCT
1 AAGCCTTGTCATATTTCT
6917264 AAGCCTTGTCATATTTCT
1 AAGCCTTGTCATATTTCT
6917282 TCTTTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (18 bp):
AAGCCTTGTCATATTTCT
Found at i:6927300 original size:17 final size:17
Alignment explanation
Indices: 6927280--6927313 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6927270 AAATTTAAAC
*
6927280 TTTTTTATATTTTTTAA
1 TTTTTTAAATTTTTTAA
6927297 TTTTTTAAATTTTTTAA
1 TTTTTTAAATTTTTTAA
6927314 AAATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTAAATTTTTTAA
Found at i:6927317 original size:11 final size:9
Alignment explanation
Indices: 6927273--6927360 Score: 63
Period size: 9 Copynumber: 9.9 Consensus size: 9
6927263 ATTTTTAAAA
6927273 TTTAAACTTT
1 TTTAAA-TTT
*
6927283 TTTATATTT
1 TTTAAATTT
6927292 TTT-AATTT
1 TTTAAATTT
6927300 TTTAAATTT
1 TTTAAATTT
**
6927309 TTTAAA-AA
1 TTTAAATTT
*
6927317 TATAAATTT
1 TTTAAATTT
**
6927326 TGAAAATTT
1 TTTAAATTT
* *
6927335 TATAAATAT
1 TTTAAATTT
*
6927344 TTTGAATTT
1 TTTAAATTT
*
6927353 TTAAAATT
1 TTTAAATT
6927361 AGTTTGAATT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
8 12 0.20
9 42 0.71
10 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTAAATTT
Found at i:6927359 original size:18 final size:20
Alignment explanation
Indices: 6927322--6927370 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6927312 AAAAATATAA
*
6927322 ATTTTGAAAATTTTATAAA-T
1 ATTTTG-AATTTTTATAAATT
6927342 ATTTTGAATTTTTA-AAATT
1 ATTTTGAATTTTTATAAATT
*
6927361 AGTTTGAATT
1 ATTTTGAATT
6927371 ATTTTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:6933756 original size:52 final size:52
Alignment explanation
Indices: 6933680--6933862 Score: 206
Period size: 52 Copynumber: 3.5 Consensus size: 52
6933670 TATTATACTG
* * * ** * *
6933680 ATGCCATATCCCGGATATGGTCTTACATGGGAGCACTTATCACTT-TTCTCCA
1 ATGCCATAGCCCAGCTATGGTCTTACA-AAGATCACTTATCACTTGTTTTCCA
* * *
6933732 ATGCCATAGCCCAGCTATGATCTTATACAGATCACTTATCACTTGTTTTCCA
1 ATGCCATAGCCCAGCTATGGTCTTACAAAGATCACTTATCACTTGTTTTCCA
* * * *
6933784 ATGCCATAGCTCAGCTATGGTCTTATACAAATATCACTTATCACTTGTTTTTCG
1 ATGCCATAGCCCAGCTATGGTC-T-TACAAAGATCACTTATCACTTGTTTTCCA
6933838 ATGCCATAGCCCAGCTATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTA
6933863 TACGGATATC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
51 14 0.13
52 50 0.45
53 2 0.02
54 45 0.41
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (52 bp):
ATGCCATAGCCCAGCTATGGTCTTACAAAGATCACTTATCACTTGTTTTCCA
Found at i:6933826 original size:54 final size:52
Alignment explanation
Indices: 6933713--6933876 Score: 231
Period size: 54 Copynumber: 3.1 Consensus size: 52
6933703 TACATGGGAG
* * *
6933713 CACTTATCACTT-TTCTCCAATGCCATAGCCCAGCTATGATCTTATACAGAT
1 CACTTATCACTTGTTTTCCAATGCCATAGCCCAGCTATGGTCTTATACATAT
*
6933764 CACTTATCACTTGTTTTCCAATGCCATAGCTCAGCTATGGTCTTATACAAATAT
1 CACTTATCACTTGTTTTCCAATGCCATAGCCCAGCTATGGTCTTATAC--ATAT
* *
6933818 CACTTATCACTTGTTTTTCGATGCCATAGCCCAGCTATGGTCTTATACGGATAT
1 CACTTATCACTTGTTTTCCAATGCCATAGCCCAGCTATGGTCTTATAC--ATAT
6933872 CACTT
1 CACTT
6933877 GCAATACCCC
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
51 12 0.12
52 32 0.32
54 57 0.56
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (52 bp):
CACTTATCACTTGTTTTCCAATGCCATAGCCCAGCTATGGTCTTATACATAT
Found at i:6934048 original size:14 final size:14
Alignment explanation
Indices: 6934029--6934058 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6934019 TTATATCAAG
6934029 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
6934043 ACCAATCCAATTCA
1 ACCAATCCAAATCA
6934057 AC
1 AC
6934059 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:6937632 original size:15 final size:13
Alignment explanation
Indices: 6937602--6937648 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
6937592 GACTTATTTA
*
6937602 TTTTTAATTTCAT
1 TTTTTTATTTCAT
6937615 TTTTTTATTTCCACT
1 TTTTTTATTT-CA-T
6937630 TTTTTTATTT-AT
1 TTTTTTATTTCAT
6937642 TTATTTT
1 TT-TTTT
6937649 CTAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 3 0.10
13 14 0.47
14 2 0.07
15 11 0.37
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTATTTCAT
Found at i:6940899 original size:12 final size:12
Alignment explanation
Indices: 6940882--6940906 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6940872 TTTTTTTTTT
6940882 AAATTTCATAAA
1 AAATTTCATAAA
6940894 AAATTTCATAAA
1 AAATTTCATAAA
6940906 A
1 A
6940907 CTTTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTTCATAAA
Found at i:6945681 original size:6 final size:6
Alignment explanation
Indices: 6945670--6945702 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6945660 AGTATATTAC
*
6945670 TTTTTA TTTTTA TTTTTA TTTTT- TTTTTC TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
6945703 AAGGAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTA
Found at i:6946591 original size:21 final size:21
Alignment explanation
Indices: 6946565--6946625 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 21
6946555 ATTAATTAAT
6946565 TTTTAAAAATTAAAAAAACTA
1 TTTTAAAAATTAAAAAAACTA
* *
6946586 TTTTAATATATATAAAAAAAATTA
1 TTTTAA-A-A-ATTAAAAAAACTA
6946610 TTTT-AAAATTAAAAAA
1 TTTTAAAAATTAAAAAA
6946626 TTAATTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 8 0.24
21 7 0.21
22 2 0.06
23 2 0.06
24 15 0.44
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTTAAAAATTAAAAAAACTA
Found at i:6949853 original size:3 final size:3
Alignment explanation
Indices: 6949845--6949961 Score: 55
Period size: 3 Copynumber: 40.3 Consensus size: 3
6949835 TTTTTCATAC
* * * * * * * **
6949845 TAT TAT TAT TAT CAC TAT TAT TAC TAT TAG CAC TAT TTT TAT TGC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6949893 TAT T-T AAT ATAT TAT T-T T-T TAT TAC TAT CAT TAC TAT TAT TA-
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6949935 TAT TGT TAT TAT TAC TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6949962 GTATTATCCT
Statistics
Matches: 80, Mismatches: 29, Indels: 10
0.67 0.24 0.08
Matches are distributed among these distances:
2 9 0.11
3 69 0.86
4 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:6949946 original size:14 final size:13
Alignment explanation
Indices: 6949890--6949968 Score: 58
Period size: 14 Copynumber: 6.1 Consensus size: 13
6949880 TTTTTATTGC
*
6949890 TATTATT-TAATA
1 TATTATTATATTA
6949902 TATTATT-T-TT-
1 TATTATTATATTA
*
6949912 TATTACTATCATTA
1 TATTATTAT-ATTA
*
6949926 CTATTATTATATTGT
1 -TATTATTATATT-A
6949941 TATTATTACTATTA
1 TATTATTA-TATTA
*
6949955 TATTATTGTATTA
1 TATTATTATATTA
6949968 T
1 T
6949969 CCTTACTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
10 6 0.11
11 2 0.04
12 8 0.15
13 8 0.15
14 18 0.33
15 12 0.22
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:6949948 original size:23 final size:22
Alignment explanation
Indices: 6949922--6949968 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
6949912 TATTACTATC
6949922 ATTACTATTAT-TATATTGTTATT
1 ATTACTATTATAT-TATTG-TATT
6949945 ATTACTATTATATTATTGTATT
1 ATTACTATTATATTATTGTATT
6949967 AT
1 AT
6949969 CCTTACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.26
23 16 0.70
24 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTACTATTATATTATTGTATT
Found at i:6952248 original size:5 final size:5
Alignment explanation
Indices: 6952220--6952260 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
6952210 TTCCTTTCTT
*
6952220 TTGCA TT-CA TTTCA -TGCA TCTGCA TTGCA TTGCA TTGCA TT
1 TTGCA TTGCA TTGCA TTGCA T-TGCA TTGCA TTGCA TTGCA TT
6952261 ATTTGCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
4 7 0.22
5 20 0.62
6 5 0.16
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (5 bp):
TTGCA
Found at i:6955001 original size:26 final size:26
Alignment explanation
Indices: 6954972--6955043 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
6954962 TGATACAAAT
6954972 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6954998 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6955024 TGATAATGGTTTAGGTAAAT
1 TGATAATGGGTTAGGTAAAT
6955044 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6960281 original size:25 final size:25
Alignment explanation
Indices: 6960247--6960296 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6960237 CTACAAAGTC
6960247 TAATTTATCAATCCTTGAGATCATA
1 TAATTTATCAATCCTTGAGATCATA
6960272 TAATTTATCAATCCTTGAGATCATA
1 TAATTTATCAATCCTTGAGATCATA
6960297 ACTTCTGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (25 bp):
TAATTTATCAATCCTTGAGATCATA
Found at i:6965595 original size:14 final size:15
Alignment explanation
Indices: 6965564--6965610 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
6965554 ATTGGTTAAT
*
6965564 AATAAAAAGATATAA
1 AATAAAAATATATAA
*
6965579 AATAAAAATAT-TTA
1 AATAAAAATATATAA
*
6965593 AATAAAAATTTA-AA
1 AATAAAAATATATAA
6965607 AATA
1 AATA
6965611 TTAAAGTAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AATAAAAATATATAA
Found at i:6970553 original size:18 final size:19
Alignment explanation
Indices: 6970517--6970563 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
6970507 TTTAAATTAA
6970517 AAATATATTCAAACCTTA-T
1 AAATAT-TTCAAACCTTATT
**
6970536 AAATATTTCAAATTTTATT
1 AAATATTTCAAACCTTATT
6970555 AAATCATTT
1 AAAT-ATTT
6970564 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 11 0.46
20 4 0.17
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATATTTCAAACCTTATT
Found at i:6972021 original size:27 final size:27
Alignment explanation
Indices: 6971991--6972047 Score: 64
Period size: 30 Copynumber: 2.0 Consensus size: 27
6971981 GGCTGAAACT
6971991 AAATT-TTAATTTTTT-TTAATTTTTAAA
1 AAATTATTAATTTTTTATT-A-TTTTAAA
6972018 AAATTAAATTAATTTTTTATTATTTTAAA
1 AAATT--ATTAATTTTTTATTATTTTAAA
6972047 A
1 A
6972048 GTTTAAAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
27 5 0.19
29 8 0.31
30 11 0.42
31 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
AAATTATTAATTTTTTATTATTTTAAA
Found at i:6972053 original size:29 final size:29
Alignment explanation
Indices: 6971996--6972069 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 29
6971986 AAACTAAATT
6971996 TTAATTTTTTTTAATTTTTAAAAAATTAAA-
1 TTAATTTTTTTT-A-TTTTAAAAAATTAAAG
**
6972026 TTAATTTTTTATTATTTTAAAAGTTTAAAG
1 TTAATTTTTT-TTATTTTAAAAAATTAAAG
6972056 TGTAATTTTATTTT
1 T-TAATTTT-TTTT
6972070 TATTAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 13 0.34
30 12 0.32
31 11 0.29
32 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (29 bp):
TTAATTTTTTTTATTTTAAAAAATTAAAG
Found at i:6982127 original size:18 final size:20
Alignment explanation
Indices: 6982102--6982145 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
6982092 CTATTTAAAC
6982102 ATATTTTT-TCACACTT-CAT
1 ATATTTTTAT-ACACTTACAT
6982121 A-ATTTTTATACACTTACAT
1 ATATTTTTATACACTTACAT
6982140 ATATTT
1 ATATTT
6982146 ATGCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTTTATACACTTACAT
Found at i:6982776 original size:106 final size:106
Alignment explanation
Indices: 6982640--6982840 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
6982630 AAAATTTTTC
6982640 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* *
6982705 TTCTTGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
*
6982746 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
6982811 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
6982841 CTTAAAGCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:6986785 original size:14 final size:14
Alignment explanation
Indices: 6986766--6986794 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6986756 TACAATATAT
6986766 ATAAGAATTATACG
1 ATAAGAATTATACG
6986780 ATAAGAATTATACG
1 ATAAGAATTATACG
6986794 A
1 A
6986795 ATCTATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:6989419 original size:53 final size:52
Alignment explanation
Indices: 6989283--6989426 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 52
6989273 ATATGATATA
*
6989283 TGATTCCGTATAAGACCATATCCGA-GCTATGGCATCGGTACAATGTGATTCG
1 TGATTCCGTATAAGACCATA-CCTAGGCTATGGCATCGGTACAATGTGATTCG
* * ** *
6989335 TG-TTCCCGTATAAGACCACAGCTAGGCTATGGCATCGGTATGATGTG-TTAATG
1 TGATT-CCGTATAAGACCATACCTAGGCTATGGCATCGGTACAATGTGATT--CG
*
6989388 TGATTCCGTATAAGACCATACCTAGGATATGGCATCGGT
1 TGATTCCGTATAAGACCATACCTAGGCTATGGCATCGGT
6989427 GTGTGATGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
51 6 0.08
52 36 0.46
53 34 0.44
54 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (52 bp):
TGATTCCGTATAAGACCATACCTAGGCTATGGCATCGGTACAATGTGATTCG
Found at i:6990518 original size:20 final size:20
Alignment explanation
Indices: 6990493--6990549 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
6990483 GCACATGGGC
*
6990493 AGGCCACACGGGCATGTTCA
1 AGGCCACACGGGCATGTCCA
* *
6990513 AGGCCACACGGGCGTGACCCA
1 AGGCCACACGGGCATG-TCCA
6990534 A-GCCACACGGGCATGT
1 AGGCCACACGGGCATGT
6990550 GCCCCTATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.25, C:0.33, G:0.32, T:0.11
Consensus pattern (20 bp):
AGGCCACACGGGCATGTCCA
Found at i:6994978 original size:12 final size:12
Alignment explanation
Indices: 6994960--6994998 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6994950 TATCTAATTC
6994960 AATGTTCAGACA
1 AATGTTCAGACA
* *
6994972 CATGTTCAGGCA
1 AATGTTCAGACA
*
6994984 AATGTTTAGACA
1 AATGTTCAGACA
6994996 AAT
1 AAT
6994999 AATGTTTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (12 bp):
AATGTTCAGACA
Found at i:6995538 original size:35 final size:35
Alignment explanation
Indices: 6995499--6995570 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
6995489 TTCTTTAGAG
* *
6995499 TGTTAGCACATTCAGGCTAGATATAACCATATCCT
1 TGTTAGCAAACTCAGGCTAGATATAACCATATCCT
6995534 TGTTAGCAAACTCAGGCTAGATATAACCATATCCT
1 TGTTAGCAAACTCAGGCTAGATATAACCATATCCT
6995569 TG
1 TG
6995571 GAATTCATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (35 bp):
TGTTAGCAAACTCAGGCTAGATATAACCATATCCT
Found at i:6998301 original size:13 final size:13
Alignment explanation
Indices: 6998283--6998307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6998273 ATCCTACACA
6998283 CCCGTGTGATTCG
1 CCCGTGTGATTCG
6998296 CCCGTGTGATTC
1 CCCGTGTGATTC
6998308 ACTTGTGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.28, T:0.32
Consensus pattern (13 bp):
CCCGTGTGATTCG
Found at i:7005090 original size:38 final size:38
Alignment explanation
Indices: 7005040--7005133 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 38
7005030 CCATCTCCGT
* * *
7005040 CCCACCCAACACACCA-TGTGGGGATAAAAGT-GACCCA
1 CCCACCCTACACACCAGTATGGGGATAAAA-TCAACCCA
*
7005077 CCCAGCCCTACACACCAAGTATGGGGATTAAATCAACCCA
1 CCCA-CCCTACACACC-AGTATGGGGATAAAATCAACCCA
*
7005117 TCCAACCCTACACACCA
1 -CCCACCCTACACACCA
7005134 AAGGGTACCG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
37 4 0.09
38 10 0.21
39 3 0.06
40 27 0.57
41 3 0.06
ACGTcount: A:0.35, C:0.38, G:0.14, T:0.13
Consensus pattern (38 bp):
CCCACCCTACACACCAGTATGGGGATAAAATCAACCCA
Found at i:7012410 original size:63 final size:63
Alignment explanation
Indices: 7012340--7012462 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
7012330 AGATGCAGGG
* *
7012340 GTCACACGAGTAAGACACACAAACGTGTGTCTAGGAC-GTGTAACTAACTAAGTTTATATTAGA
1 GTCACACGAGTAAAACACACAAACATGTGTCTAGG-CTGTGTAACTAACTAAGTTTATATTAGA
*** * *
7012403 GTCACACGAGTAAAACACACGGGCATGTGTCTAGGCTGTGTAACTCACTGAGTTTATATT
1 GTCACACGAGTAAAACACACAAACATGTGTCTAGGCTGTGTAACTAACTAAGTTTATATT
7012463 TGAGAGACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
62 1 0.02
63 51 0.98
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (63 bp):
GTCACACGAGTAAAACACACAAACATGTGTCTAGGCTGTGTAACTAACTAAGTTTATATTAGA
Found at i:7015391 original size:16 final size:16
Alignment explanation
Indices: 7015370--7015402 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7015360 ACATATTTAA
7015370 TAATATAACAAATTAT
1 TAATATAACAAATTAT
*
7015386 TAATATAACTAATTAT
1 TAATATAACAAATTAT
7015402 T
1 T
7015403 TCAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAACAAATTAT
Found at i:7015499 original size:27 final size:25
Alignment explanation
Indices: 7015469--7015523 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
7015459 AATATTCTTC
*
7015469 ATATATTAGTGAAAAATATTTATATTA
1 ATATATTAATGAAAAATA--TATATTA
* *
7015496 ATATTTTAATGATAAATATATATTA
1 ATATATTAATGAAAAATATATATTA
7015521 ATA
1 ATA
7015524 ATATAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
27 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (25 bp):
ATATATTAATGAAAAATATATATTA
Found at i:7015521 original size:17 final size:17
Alignment explanation
Indices: 7015496--7015546 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
7015486 ATTTATATTA
* *
7015496 ATATTTTAATGATAAAT
1 ATATATTAATAATAAAT
7015513 ATATATTAATAATATAA-
1 ATATATTAATAATA-AAT
7015530 ATATATTAATAATAAAT
1 ATATATTAATAATAAAT
7015547 TTTTTAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 26 0.87
18 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATATATTAATAATAAAT
Found at i:7022237 original size:88 final size:88
Alignment explanation
Indices: 7022125--7022311 Score: 257
Period size: 88 Copynumber: 2.1 Consensus size: 88
7022115 TGCGGTAATT
* * * *
7022125 CGCTGTACAAATACTTTACAGTTTAAACTGCCAGGTCAGATAATGGTACGCAGCATAGCTGATGT
1 CGCTGTACAAACACTTTACAGTTTAAACTGCCAGATCAGATAATGGTACGCAGCATAGCTAACGT
*
7022190 ACATACGATATAGTGCAGTAAAC
66 ACATACGATACAGTGCAGTAAAC
* ** *
7022213 CGTTGTACAAACACTTTGTAGTTTAAACTGCCAGATCAGATAATGGTATGCAGCATAGCTAACGT
1 CGCTGTACAAACACTTTACAGTTTAAACTGCCAGATCAGATAATGGTACGCAGCATAGCTAACGT
* * *
7022278 ACGTACGGTACAGTGCGGTAAAC
66 ACATACGATACAGTGCAGTAAAC
*
7022301 TGCTGTACAAA
1 CGCTGTACAAA
7022312 TAGGTTGCAG
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (88 bp):
CGCTGTACAAACACTTTACAGTTTAAACTGCCAGATCAGATAATGGTACGCAGCATAGCTAACGT
ACATACGATACAGTGCAGTAAAC
Found at i:7024092 original size:20 final size:20
Alignment explanation
Indices: 7024011--7024093 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
7024001 AATATAATTC
7024011 TATTTATTAAATTTTATTTT
1 TATTTATTAAATTTTATTTT
* * * **
7024031 CATTTAATAAAATATTATTAA
1 TATTT-ATTAAATTTTATTTT
* *
7024052 TA-TTATTAGAA--ATAATTT
1 TATTTATTA-AATTTTATTTT
7024070 TATTTATTAAATTTTATTTT
1 TATTTATTAAATTTTATTTT
7024090 TATT
1 TATT
7024094 CAATAAAATG
Statistics
Matches: 45, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
18 7 0.16
19 9 0.20
20 17 0.38
21 12 0.27
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TATTTATTAAATTTTATTTT
Found at i:7025185 original size:21 final size:21
Alignment explanation
Indices: 7025155--7025198 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7025145 TCTTTTGTTC
*
7025155 CTTTT-TTTTTGTTC-TTTCT
1 CTTTTCTTTTTTTTCTTTTCT
7025174 CTTTTCTTTTTTTTCTTTTCT
1 CTTTTCTTTTTTTTCTTTTCT
7025195 CTTT
1 CTTT
7025199 CGCCATAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (21 bp):
CTTTTCTTTTTTTTCTTTTCT
Found at i:7027248 original size:46 final size:47
Alignment explanation
Indices: 7027161--7027321 Score: 165
Period size: 46 Copynumber: 3.5 Consensus size: 47
7027151 AGTATAAGAC
* * *
7027161 CATGTCTGGGACATGGCATCGGCATTGAGAC--AAGTGCTAGTGTAATA
1 CATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGT--TAGTGTAAAA
*
7027208 CATGTCTAGGACAT-GCATCGGCCTCGAGACGTAAGTTAGTGTAAAA
1 CATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGTTAGTGTAAAA
* * * *
7027254 TATGTCTGGGACAT-GCATCGG-CTACGAGATGT--GTCAGTGTAAGA
1 CATGTCTGGGACATGGCATCGGCCT-CGAGACGTAAGTTAGTGTAAAA
7027298 CTATGTCTGGGACATGGCATCGGC
1 C-ATGTCTGGGACATGGCATCGGC
7027322 ACCTTACCCC
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 56 0.57
47 13 0.13
48 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
CATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGTTAGTGTAAAA
Found at i:7031313 original size:10 final size:10
Alignment explanation
Indices: 7031298--7031323 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7031288 AATGAGGATT
7031298 TATGGCGGGC
1 TATGGCGGGC
7031308 TATGGCGGGC
1 TATGGCGGGC
7031318 TATGGC
1 TATGGC
7031324 CTCGGGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.46, T:0.23
Consensus pattern (10 bp):
TATGGCGGGC
Found at i:7033255 original size:56 final size:56
Alignment explanation
Indices: 7033169--7033288 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
7033159 ACAAGGGATG
7033169 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
7033225 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
7033281 ATGGGCAA
1 ATGGGCAA
7033289 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:7034552 original size:79 final size:81
Alignment explanation
Indices: 7034416--7034598 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
7034406 TCGAATGATG
* *
7034416 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
7034480 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
7034495 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
7034557 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
7034575 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
7034599 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:7034614 original size:40 final size:40
Alignment explanation
Indices: 7034417--7034600 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
7034407 CGAATGATGT
* * * *
7034417 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
7034457 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
7034497 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
7034535 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
7034576 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
7034601 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:7034622 original size:79 final size:79
Alignment explanation
Indices: 7034469--7034633 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
7034459 GGACTAAGAT
* **
7034469 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
7034534 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
7034548 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
7034611 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
7034627 CCGAAGG
1 CCGAAGG
7034634 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:7042597 original size:3 final size:3
Alignment explanation
Indices: 7042591--7042625 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7042581 GCATCATCAT
*
7042591 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAA CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
7042626 ACATCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.34, G:0.29, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:7047748 original size:18 final size:19
Alignment explanation
Indices: 7047699--7047748 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
7047689 AAAAAATATT
*
7047699 AAATTAATATAAACCTATA
1 AAATTAATAAAAACCTATA
*
7047718 AAATTAATAAAAACTTATA
1 AAATTAATAAAAACCTATA
7047737 AATATT-ATAAAA
1 AA-ATTAATAAAA
7047749 GATATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 25 0.89
20 3 0.11
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTAATAAAAACCTATA
Found at i:7048850 original size:29 final size:29
Alignment explanation
Indices: 7048796--7048858 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
7048786 CCTAATGAGT
*
7048796 AATTTTATACATTAATTTTGATTTTG-TGC
1 AATTTTATACATAAATTTTGATTTTGAT-C
7048825 AATTTTATACATGAAATTTTGA-TTTGATC
1 AATTTTATACAT-AAATTTTGATTTTGATC
7048854 AATTT
1 AATTT
7048859 CTCACAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (29 bp):
AATTTTATACATAAATTTTGATTTTGATC
Found at i:7049036 original size:31 final size:29
Alignment explanation
Indices: 7048976--7049060 Score: 73
Period size: 31 Copynumber: 2.8 Consensus size: 29
7048966 TTTTTTTAAA
* *
7048976 ATGTATGATTGAATCAAAATTAAAATTTT
1 ATGTATGATTGAACCAAAATCAAAATTTT
* *
7049005 ATGTATGCATTTGAACCACAATCAAAGTTTT
1 ATGTATG-A-TTGAACCAAAATCAAAATTTT
* *
7049036 ATGCATATAATTGCA-CAAAATCAAA
1 ATG--TATGATTGAACCAAAATCAAA
7049061 GTTAATGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 7 0.16
30 10 0.22
31 24 0.53
32 1 0.02
33 3 0.07
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.34
Consensus pattern (29 bp):
ATGTATGATTGAACCAAAATCAAAATTTT
Found at i:7049153 original size:17 final size:17
Alignment explanation
Indices: 7049108--7049154 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
7049098 GTATAATTTT
* *
7049108 AAATTTATTTATTTTAA
1 AAATATATTAATTTTAA
*
7049125 AAATA-ATAAATTTTAA
1 AAATATATTAATTTTAA
7049141 AAATATATTAATTT
1 AAATATATTAATTT
7049155 ATAGTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATATTAATTTTAA
Found at i:7049573 original size:13 final size:15
Alignment explanation
Indices: 7049540--7049581 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
7049530 TTAAAATTTT
7049540 TATTT-TATTTTTAA
1 TATTTATATTTTTAA
7049554 TATTTATATTTTTAA
1 TATTTATATTTTTAA
*
7049569 -A-TTATAATTTTAA
1 TATTTATATTTTTAA
7049582 GAAGTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 6 0.23
15 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTATATTTTTAA
Found at i:7049573 original size:26 final size:28
Alignment explanation
Indices: 7049505--7049573 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
7049495 TTTTTTAAAT
*
7049505 TATTTTTAAATAATTTAATTAAATATTAA
1 TATTTTTAAATTATTT-ATTAAATATTAA
* ** *
7049534 AATTTTTATTTTATTT-TT-AATATTTA
1 TATTTTTAAATTATTTATTAAATATTAA
7049560 TATTTTTAAATTAT
1 TATTTTTAAATTAT
7049574 AATTTTAAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 18 0.56
27 2 0.06
29 12 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTTTTAAATTATTTATTAAATATTAA
Found at i:7049700 original size:19 final size:19
Alignment explanation
Indices: 7049676--7049725 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
7049666 AAAAAACTTT
7049676 TTTAATTTTAAATTCAAAA
1 TTTAATTTTAAATTCAAAA
7049695 TTTAATTTTAAATTCAAAA
1 TTTAATTTTAAATTCAAAA
* *
7049714 TATATTTTTAAA
1 TTTAATTTTAAA
7049726 ATTAAGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAATTTTAAATTCAAAA
Found at i:7051244 original size:6 final size:6
Alignment explanation
Indices: 7051233--7051260 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7051223 GCATAAATAG
7051233 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
7051261 GACAGGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Done.