Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 23 of 318
Found at i:5997802 original size:138 final size:138
Alignment explanation
Indices: 5997554--5997922 Score: 533
Period size: 138 Copynumber: 2.6 Consensus size: 138
5997544 GTGTGCTCTC
** * * * * **
5997554 TGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
***
5997619 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATAAATAAGACCATGGTTGAAAGATACCA
5997684 TGGCAACG
131 TGGCAACG
*
5997692 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
5997757 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATAAATAAGACCATGGTTGAAAGATACCA
66 CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATAAATAAGACCATGGTTGAAAGATACCA
5997822 TGGCAACG
131 TGGCAACG
* *
5997830 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A-
* * *
5997894 TAAGACCATAGTTGAAAGACACTATGGCA
61 TAAGACCATGGTTGAAAGATACCATGGCA
5997923 TCATGTCAAA
Statistics
Matches: 209, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
137 5 0.02
138 176 0.84
139 1 0.00
141 1 0.00
142 26 0.12
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (138 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
CCATGGTTGAAAGATACCATGGCAACCTAATATGAAATAAATAAGACCATGGTTGAAAGATACCA
TGGCAACG
Found at i:6010124 original size:43 final size:43
Alignment explanation
Indices: 6010064--6010172 Score: 184
Period size: 43 Copynumber: 2.5 Consensus size: 43
6010054 AGTGCAGGGG
6010064 ACACACGGCCATA-ACACACGCCCATAGGTGTGAACAGTGTGTC
1 ACACACGGCC-TAGACACACGCCCATAGGTGTGAACAGTGTGTC
*
6010107 ACACACGGCCTAGACACACGCCCATGGGTGTGAACAGTGTGTC
1 ACACACGGCCTAGACACACGCCCATAGGTGTGAACAGTGTGTC
*
6010150 ACACATGGCCTAGACACACGCCC
1 ACACACGGCCTAGACACACGCCC
6010173 GTGTGTCTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 2 0.03
43 61 0.97
ACGTcount: A:0.28, C:0.33, G:0.24, T:0.15
Consensus pattern (43 bp):
ACACACGGCCTAGACACACGCCCATAGGTGTGAACAGTGTGTC
Found at i:6011089 original size:48 final size:46
Alignment explanation
Indices: 6010855--6011209 Score: 203
Period size: 47 Copynumber: 7.6 Consensus size: 46
6010845 CTACCAATGC
*
6010855 CATGTCCCAGACATGGTCTTACACTGGC--TCTAA-TATACGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCAAAGTATA-GC---C-GATG
* * * *
6010904 CATGTCCCAGACATGTCTTACACTAGC-A-C-AACTCTTAGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCAAAGT-ATAGCCGATG
** * * * **
6010948 TGTGTCCTAGACACGTCTTACACTGGCTGTC--TCTATCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCAAAGTAT--A-GCCGATG
** *
6010995 CATGTCCCAGACATGTCTTACACTGGC-ACTC-ATCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA-TCAAAGTATA-GCCGATG
* *
6011041 CCATGTCGCAGACATGGTCTTACACTGGCTATCAAAGTATAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCAAAGTATAGCCGATG
* * * ** *** *
6011089 CATGTCCCAAACATGTCTTACGCTAGCCCTCGTTTGGAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATC-AAAGTATAGCCGATG
* * *
6011135 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-TGTAGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCA-AAGTATAGCCGATG
6011183 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
6011210 GCACAAATCA
Statistics
Matches: 242, Mismatches: 45, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
44 27 0.11
45 2 0.01
46 42 0.17
47 89 0.37
48 61 0.25
49 21 0.09
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCAAAGTATAGCCGATG
Found at i:6011108 original size:94 final size:94
Alignment explanation
Indices: 6010851--6011206 Score: 347
Period size: 94 Copynumber: 3.8 Consensus size: 94
6010841 TATACTACCA
* ** *
6010851 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAATATACGCGT-GCTGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-GTATAGCCGATGCATGTCCCAGA
* *
6010915 CATGTCTTACACTAGCA--CAACTCTTAGCTG
64 CATGTCTTACACTAGCACTCATCTC-TAGCCG
** * *
6010945 ATG-TGTGTCCTAGACA-CGTCTTACACTGGCTGTCTC-T-A-TCA-AGGCCGATGCATGTCCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAGT-ATA-GCCGATGCATGTCCCA
*
6011004 GACATGTCTTACACTGGCACTCATCTCTACGCCG
62 GACATGTCTTACACTAGCACTCATCTCTA-GCCG
* * * *
6011038 ATGCCATGTCGCAGACATGGTCTTACACTGGCTATCA-AAGTATAGCTGATGCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGTATAGCCGATGCATGTCCCAGACA
* * * * **
6011102 TGTCTTACGCTAGCCCTCGTTTGGATGCCG
66 TGTCTTACACTAGCACTCATCTCTA-GCCG
* *
6011132 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-TGTAGCCGAAGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGTATAGCCGATGCATGTCCCAGACA
6011196 TGTCTTACACT
66 TGTCTTACACT
6011207 GGCGCACAAA
Statistics
Matches: 213, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
91 34 0.16
92 15 0.07
93 25 0.12
94 122 0.57
95 17 0.08
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGTATAGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTAGCCG
Found at i:6011108 original size:141 final size:138
Alignment explanation
Indices: 6010851--6011209 Score: 372
Period size: 141 Copynumber: 2.6 Consensus size: 138
6010841 TATACTACCA
6010851 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-A-ATATACGCGTGCTGATGCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATACGC---C-GATGCATGTCCCAG
* * ** * * * *
6010914 ACATGTCTTACACTAGCACAACTCTTAGCTGATGTGTGTCCTAGACACGTCTTACACTGGCTGTC
62 ACATGTCTTACACTGGCACAACTCATAGCTGATGCATGTCCCAAACACGTCTTACACTAGC--CC
6010979 TC-TATCAAGGCCG
125 TCGTATCAAGGCCG
* * * *
6010992 ATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCGCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATACGCCGATG-CATGTCCCAGACA
* * *
6011055 TGGTCTTACACTGGCTATCAAAGT-ATAGCTGATGCATGTCCCAAACATGTCTTACGCTAGCCCT
65 T-GTCTTACACTGGC-A-C-AACTCATAGCTGATGCATGTCCCAAACACGTCTTACACTAGCCCT
* ** *
6011119 CGTTTGGATGCCG
126 CGTATCAAGGCCG
* *
6011132 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTA-GCCGAAGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATACGCCGATGCATGTCCCAGACA
6011196 TGTCTTACACTGGC
65 TGTCTTACACTGGC
6011210 GCACAAATCA
Statistics
Matches: 183, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
137 4 0.02
138 14 0.08
139 30 0.16
140 39 0.21
141 66 0.36
142 27 0.15
143 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (138 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATACGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCACAACTCATAGCTGATGCATGTCCCAAACACGTCTTACACTAGCCCTCGTAT
CAAGGCCG
Found at i:6011576 original size:30 final size:30
Alignment explanation
Indices: 6011536--6011592 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6011526 ATTTTACATC
* *
6011536 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGCAAAATGACCATTTTACCCCTAGAT
6011566 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
6011593 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAT
Found at i:6013657 original size:43 final size:42
Alignment explanation
Indices: 6013591--6013720 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 42
6013581 TGATATGGTT
*
6013591 TTTAGCGGCGTTTGTAGGGAAAGCGTCGCTAAAGATTATGTTC
1 TTTAGCGGCGTTTGTA-GGAAAGCGTCGCTAAAGGTTATGTTC
* * *
6013634 TTTAGTGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCT-TGTTC
1 TTTAGCGGCGTTTGT-AGGAAAGCGTCGCTAAAGGT-TATGTTC
* * *
6013677 TTTAGCAGAGTTTGTAGTGAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTAG-GAAAGCGTCGCTAAAGGTTATGTTC
6013720 T
1 T
6013721 ATAAAAATGC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.03
43 69 0.95
44 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTAGGAAAGCGTCGCTAAAGGTTATGTTC
Found at i:6024021 original size:12 final size:12
Alignment explanation
Indices: 6024003--6024042 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
6023993 AAAAGATCAT
6024003 AAAAA-TTATAA
1 AAAAAGTTATAA
*
6024014 ACAAAATTTATAA
1 A-AAAAGTTATAA
6024027 AAAAAGTTATAA
1 AAAAAGTTATAA
6024039 AAAA
1 AAAA
6024043 TATAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 1 0.04
12 18 0.69
13 7 0.27
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAAAGTTATAA
Found at i:6024204 original size:18 final size:16
Alignment explanation
Indices: 6024166--6024205 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6024156 TTATTTTTAA
6024166 TAAAAATATATAATTT
1 TAAAAATATATAATTT
*
6024182 AAAAAATATATAACTTT
1 TAAAAATATATAA-TTT
*
6024199 TTAAAAT
1 TAAAAAT
6024206 TTTGTTCATA
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAATATATAATTT
Found at i:6026315 original size:18 final size:19
Alignment explanation
Indices: 6026276--6026316 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6026266 TAGATTAAAT
6026276 AAATTAAAGACATTATATA
1 AAATTAAAGACATTATATA
*
6026295 AAATTTAAGA-ATTCATA-A
1 AAATTAAAGACATT-ATATA
6026313 AAAT
1 AAAT
6026317 CATTTAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATTAAAGACATTATATA
Found at i:6031298 original size:13 final size:13
Alignment explanation
Indices: 6031277--6031334 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
6031267 AAATTTTTCC
6031277 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
6031290 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* * * *
6031303 AAAGTATTTTTTA
1 AAAGCACTTCTCA
*
6031316 AAAGCACTTTTCA
1 AAAGCACTTCTCA
6031329 AAAGCA
1 AAAGCA
6031335 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:6037465 original size:30 final size:30
Alignment explanation
Indices: 6037412--6037515 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
6037402 ACGATCATCG
*
6037412 AACTATG-ACAAGAGATAGCTTCGACTATTA
1 AACTATGAAAAAG-GATAGCTTCGACTATTA
* * **
6037442 AACTATGAAAATGGAT-GATTTCGACTATCG
1 AACTATGAAAAAGGATAG-CTTCGACTATTA
* *
6037472 AACTACGAAAAAGGATAGCTTCGGCTATTA
1 AACTATGAAAAAGGATAGCTTCGACTATTA
*
6037502 AATTATGGAAAAAG
1 AACTAT-GAAAAAG
6037516 ATGGTGACGA
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.02
30 45 0.79
31 11 0.19
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (30 bp):
AACTATGAAAAAGGATAGCTTCGACTATTA
Found at i:6037542 original size:60 final size:59
Alignment explanation
Indices: 6037360--6037547 Score: 193
Period size: 60 Copynumber: 3.2 Consensus size: 59
6037350 TTGACAAATA
* * * *
6037360 GAAAAGGGATAGCTTTGGCTATT-GATTATGAAAAGGATGGTGACGATCATCGAACTAT
1 GAAAAAGGATAGCTTCGGCTATTAAATTATGAAAAGGATGGTGACGACCATCGAACTAT
* * * * ** * *
6037418 G-ACAAGAGATAGCTTCGACTATTAAACTATGAAAATGGATGATTTCGACTATCGAACTAC
1 GAAAAAG-GATAGCTTCGGCTATTAAATTATGAAAA-GGATGGTGACGACCATCGAACTAT
*
6037478 GAAAAAGGATAGCTTCGGCTATTAAATTATGGAAAAAGATGGTGACGACCATCGAA-TAAT
1 GAAAAAGGATAGCTTCGGCTATTAAATTAT-GAAAAGGATGGTGACGACCATCGAACT-AT
*
6037538 GAAAATGGAT
1 GAAAAAGGAT
6037548 GGTGACGACC
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
57 3 0.03
58 15 0.15
59 10 0.10
60 65 0.64
61 9 0.09
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (59 bp):
GAAAAAGGATAGCTTCGGCTATTAAATTATGAAAAGGATGGTGACGACCATCGAACTAT
Found at i:6037549 original size:30 final size:30
Alignment explanation
Indices: 6037515--6037577 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
6037505 TATGGAAAAA
*
6037515 GATGGTGACGACCATC-GAATAATGAAAATG
1 GATGGTGACGACCATCAGAAT-ATGAAAAGG
*
6037545 GATGGTGACGACCATCAGACTATGAAAAGG
1 GATGGTGACGACCATCAGAATATGAAAAGG
6037575 GAT
1 GAT
6037578 AGCTTTGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (30 bp):
GATGGTGACGACCATCAGAATATGAAAAGG
Found at i:6050122 original size:16 final size:16
Alignment explanation
Indices: 6050073--6050134 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
6050063 GGAAAGAAAA
6050073 TTTATATTTT-TTATCCT
1 TTTA-ATTTTCTT-TCCT
* **
6050090 TTTAGTTTTCTACCCT
1 TTTAATTTTCTTTCCT
6050106 TTTAATTTTCTTTCCT
1 TTTAATTTTCTTTCCT
**
6050122 TCCAATTTTCTTT
1 TTTAATTTTCTTT
6050135 TCACTCTACC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 31 0.86
17 5 0.14
ACGTcount: A:0.15, C:0.19, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTAATTTTCTTTCCT
Found at i:6050675 original size:2 final size:2
Alignment explanation
Indices: 6050619--6050656 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6050609 CATGCAACAA
6050619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6050657 TGGTCTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6051162 original size:31 final size:31
Alignment explanation
Indices: 6051125--6051192 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
6051115 TTAATAGCCT
* *
6051125 AATGACTTAAATAAAAACTTTTGAATAGTTC
1 AATGACTTAAATAAAAACTTTTAAATAATTC
* *
6051156 AGTGACTTAAATGAAAACTTTTAAATAATTC
1 AATGACTTAAATAAAAACTTTTAAATAATTC
6051187 AATGAC
1 AATGAC
6051193 CATTTTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTTAAATAATTC
Found at i:6056040 original size:4 final size:4
Alignment explanation
Indices: 6056033--6056059 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6056023 TATATATACA
6056033 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
6056060 CCAAACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6058150 original size:2 final size:2
Alignment explanation
Indices: 6058143--6058173 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6058133 GAGACTAGTC
6058143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6058174 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6060186 original size:30 final size:30
Alignment explanation
Indices: 6060152--6060212 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6060142 TCCTTAACTC
6060152 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
6060182 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
6060212 A
1 A
6060213 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:6062531 original size:132 final size:130
Alignment explanation
Indices: 6062133--6062532 Score: 478
Period size: 132 Copynumber: 3.0 Consensus size: 130
6062123 ATTATTCGTT
* * * *
6062133 TAAAAATTCTTTAAAACGAAGGTGAGATTTGATATTTGGCAATTCGCGGAATTGTGCCCTAACGT
1 TAAAAA-TCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
* * * * * * *
6062198 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCGCTTATGTCT
65 GCTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATCTC-
6062263 TC
129 TC
* * *
6062265 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCCGAATCGTGCCCTATCGT
1 TAAAAAT-CTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
* * * *
6062330 GCTGGGTTGCAATTT-CTCGTTTGTTTAAAATAATCGAAGGTCCCTTTTGAATTTCACTCATGTT
65 GCTGGGTTGCAATTTCCT-GTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCAT-CT
*
6062394 TTC
128 CTC
* * * * *
6062397 TAAAAACTCTTCAAAACAAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
1 TAAAAA-TCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
* * * *
6062462 GCTGGGTTGCGATTTCCTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCATACTC
65 GCTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCAT-CTC
6062527 TC
129 TC
6062529 TAAA
1 TAAA
6062533 TTCTAAAATA
Statistics
Matches: 227, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
131 2 0.01
132 221 0.97
133 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (130 bp):
TAAAAATCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATCTCTC
Found at i:6074239 original size:133 final size:133
Alignment explanation
Indices: 6074001--6074395 Score: 583
Period size: 133 Copynumber: 3.0 Consensus size: 133
6073991 GAATTCTACC
* * * * * *
6074001 GATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGACGACGGCGAATCTCGTCTTCCTGAAGTG
1 GATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTT
* *
6074066 GCAGTGAAGCAGATTTAGGCCATCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATC
66 GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATC
6074131 GTA
131 GTA
* * *
6074134 GATCTTGTTTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTAGGCTTCCTAAAGTT
1 GATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTT
* *
6074199 GCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
66 GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATC
6074264 GTA
131 GTA
* * * *
6074267 GATCTTGTTCCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGACGAATCTTGTCTTCCTAAAGTT
1 GATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTT
* * * * * *
6074332 GCAGTGAAGCAGATTTAAGCCACTATCCTATCTCACTGAAGTTGTAGTGGAATAGCCTGAAGAT
66 GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
6074396 TGCGGATCTC
Statistics
Matches: 235, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 235 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (133 bp):
GATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGTCTTCCTAAAGTT
GCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATC
GTA
Found at i:6075095 original size:26 final size:26
Alignment explanation
Indices: 6075058--6075141 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6075048 TGATACAAAT
* *
6075058 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6075084 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6075110 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6075136 TGATAA
1 TGATAA
6075142 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6076799 original size:27 final size:27
Alignment explanation
Indices: 6076757--6076878 Score: 172
Period size: 27 Copynumber: 4.5 Consensus size: 27
6076747 GAGGAAGCGT
*
6076757 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
6076784 TCTAGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
6076811 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
6076838 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
6076866 TCTGGTGACTCTG
1 TCTGGTGGCTCTG
6076879 TAACATTATC
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 72 0.86
28 12 0.14
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:6076846 original size:54 final size:55
Alignment explanation
Indices: 6076757--6076896 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
6076747 GAGGAAGCGT
* * * *
6076757 TCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
6076811 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* **
6076866 TCTGGTGACTCTGTAACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
6076897 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:6076886 original size:27 final size:26
Alignment explanation
Indices: 6076755--6076896 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
6076745 TGGAGGAAGC
* *
6076755 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * *
6076782 GATCTAGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
6076809 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
6076836 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* **
6076863 GTATCTGGTGACTCTGTAACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
6076890 GTTCTGG
1 GTTCTGG
6076897 CAGCCATGCT
Statistics
Matches: 103, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
26 6 0.06
27 81 0.79
28 16 0.16
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:6080635 original size:132 final size:130
Alignment explanation
Indices: 6080237--6080636 Score: 444
Period size: 132 Copynumber: 3.0 Consensus size: 130
6080227 ATTATTCGTT
* * * *
6080237 TAAAAATTCTTTAAAACGAAGGTGAGATTTGATATTTGGCAATTCGTGGAATTGTGCCCTAACGT
1 TAAAAA-TCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGT
* * * * * * * * *
6080302 GTTGGGTTGTAATTTTCC-GTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCGCTTATGTC
65 GCTGGGTTGCAA-TTTCCTGTTTGTTCAAAATAATCGAAGATTCCTTTAGAATTTCACTCATCTC
6080366 TTC
129 -TC
* * * *
6080369 TAAAAATCCTTTAAAACGAACGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
1 TAAAAAT-CTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGT
* * * * *
6080434 GCTAGGTTGCAATTTCTTGTTTGTTCAAAATAATCGAAG-GTCACTTTTGAATTTCACTCATGTT
65 GCTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATTC-CTTTAGAATTTCACTCAT-CT
*
6080498 TTC
128 CTC
* * * *
6080501 TAAAAACTCTTTAAAACAAAGGTAATATTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGT
1 TAAAAA-TCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGT
* * *
6080566 GCTGGGTTGCGATTTCCTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCATACTC
65 GCTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATTCCTTTAGAATTTCACTCAT-CTC
6080631 TC
129 TC
6080633 TAAA
1 TAAA
6080637 TTCTAAAATA
Statistics
Matches: 222, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
131 6 0.03
132 212 0.95
133 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (130 bp):
TAAAAATCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATTGTGCCCTATCGTG
CTGGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAAGATTCCTTTAGAATTTCACTCATCTCTC
Found at i:6088361 original size:31 final size:31
Alignment explanation
Indices: 6088323--6088384 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
6088313 GTTTGGCTCT
* **
6088323 TTTTTAAAAGATTGGGGGTTAAATTTAACTC
1 TTTTTAAAAGATTGAGAATTAAATTTAACTC
*
6088354 TTTTTAAAAGGTTGAGAATTAAATTTAACTC
1 TTTTTAAAAGATTGAGAATTAAATTTAACTC
6088385 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (31 bp):
TTTTTAAAAGATTGAGAATTAAATTTAACTC
Found at i:6089724 original size:148 final size:148
Alignment explanation
Indices: 6089456--6089754 Score: 571
Period size: 148 Copynumber: 2.0 Consensus size: 148
6089446 ATTATATAAT
*
6089456 TATTTACTATTAATGTGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
1 TATTTACTATTAATATGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
*
6089521 AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTTTCATTGATGTTAGAAGTTCTAA
66 AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
6089586 TAAGTTCTATAGTATAGG
131 TAAGTTCTATAGTATAGG
6089604 TATTTACTATTAATATGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
1 TATTTACTATTAATATGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
*
6089669 AAAAAGAATATTTTCTGTCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
66 AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
6089734 TAAGTTCTATAGTATAGG
131 TAAGTTCTATAGTATAGG
6089752 TAT
1 TAT
6089755 CTAATTTAGT
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 148 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (148 bp):
TATTTACTATTAATATGATATTTTCTAGTAACTATTATTCAAGTTAAAATCTCGTCATAAAAGTT
AAAAAGAATATTTTCTATCTAATTTATTAGTCAAAATTAGGTCTCATTGATGTTAGAAGTTCTAA
TAAGTTCTATAGTATAGG
Found at i:6092973 original size:2 final size:2
Alignment explanation
Indices: 6092968--6093004 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6092958 ATCCACAAAC
6092968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6093005 AATGACCATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6099067 original size:35 final size:35
Alignment explanation
Indices: 6099021--6099091 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
6099011 AAGAAAATAT
*
6099021 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGCAAACAATCTCTTAG
6099056 ATTTTGTTTAACTTGACTTGCAAACAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGCAAACAATCTCTTAG
6099091 A
1 A
6099092 ATTTAGGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACTTGCAAACAATCTCTTAG
Found at i:6099731 original size:105 final size:105
Alignment explanation
Indices: 6099549--6099760 Score: 388
Period size: 105 Copynumber: 2.0 Consensus size: 105
6099539 CTGTAACTAG
* *
6099549 TAGGTATCATCATATTATGAAGTTTTTATTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
1 TAGGTATCATCATATTATGAAATTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
**
6099614 AGGTATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
66 AGACATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
6099654 TAGGTATCATCATATTATGAAATTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
1 TAGGTATCATCATATTATGAAATTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
6099719 AGACATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
66 AGACATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
6099759 TA
1 TA
6099761 TTTAACTTTA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (105 bp):
TAGGTATCATCATATTATGAAATTTTTAGTAGAAGTTTCTAGGTTTCTGGTGATGTTAACTTAAA
AGACATGAGGTGTGATGCTAATGAATATGAAATATGAGCA
Found at i:6100786 original size:15 final size:15
Alignment explanation
Indices: 6100766--6100817 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
6100756 ACTACAAAAC
6100766 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
6100781 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
6100800 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
6100815 ATT
1 ATT
6100818 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:6100829 original size:49 final size:48
Alignment explanation
Indices: 6100772--6100869 Score: 112
Period size: 49 Copynumber: 2.0 Consensus size: 48
6100762 AAACATTTAT
*
6100772 TATTAATATATTT-ATAAT-TGT-AATAAATATTTATTATTAAAATATTAA
1 TATTAATATATTTAATAATATGTGAAT--ATAATTATT-TTAAAATATTAA
* *
6100820 TATTGAATATTTTTAATAATATGTGAATATAATTATTTTAAATTATTAA
1 TATT-AATATATTTAATAATATGTGAATATAATTATTTTAAAATATTAA
6100869 T
1 T
6100870 TTATTATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
48 4 0.09
49 20 0.47
50 13 0.30
51 3 0.07
52 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (48 bp):
TATTAATATATTTAATAATATGTGAATATAATTATTTTAAAATATTAA
Found at i:6100926 original size:22 final size:22
Alignment explanation
Indices: 6100901--6100944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6100891 AATATTAATA
6100901 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
6100923 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
6100945 TATATGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:6100944 original size:16 final size:16
Alignment explanation
Indices: 6100923--6100955 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6100913 AATAAATTAT
*
6100923 ATTTATTATATTAATA
1 ATTTATTATATGAATA
6100939 ATTTATTATATGAATA
1 ATTTATTATATGAATA
6100955 A
1 A
6100956 ATAAAAATAA
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:6106897 original size:19 final size:19
Alignment explanation
Indices: 6106873--6106911 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6106863 CTTAGATTTG
6106873 GTTGGTTTTCATTGTTGAA
1 GTTGGTTTTCATTGTTGAA
6106892 GTTGGTTTTCATTGTTGAA
1 GTTGGTTTTCATTGTTGAA
6106911 G
1 G
6106912 AGTACCCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.28, T:0.51
Consensus pattern (19 bp):
GTTGGTTTTCATTGTTGAA
Found at i:6109864 original size:14 final size:15
Alignment explanation
Indices: 6109845--6109873 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6109835 CAAATCATCA
6109845 AACTTTT-TTTTTTT
1 AACTTTTCTTTTTTT
6109859 AACTTTTCTTTTTTT
1 AACTTTTCTTTTTTT
6109874 TCGAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
AACTTTTCTTTTTTT
Found at i:6109903 original size:12 final size:11
Alignment explanation
Indices: 6109882--6109920 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
6109872 TTTCGAATTA
6109882 TTTTT-TCTTT
1 TTTTTGTCTTT
6109892 TTTTTGTGCTTT
1 TTTTTGT-CTTT
6109904 TTTTTGTCTCTT
1 TTTTTGTCT-TT
6109916 TTTTT
1 TTTTT
6109921 TTTTGAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.19
11 3 0.12
12 18 0.69
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (11 bp):
TTTTTGTCTTT
Found at i:6117339 original size:35 final size:35
Alignment explanation
Indices: 6117293--6117363 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
6117283 CGTCATGCCC
* *
6117293 AGCGTCGTGCCCATGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
6117328 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
6117363 A
1 A
6117364 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.15
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:6117874 original size:3 final size:3
Alignment explanation
Indices: 6117866--6117890 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6117856 AGGAATTTAT
6117866 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
6117891 GTCAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6118052 original size:16 final size:15
Alignment explanation
Indices: 6117991--6118054 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
6117981 TAGTAAATTT
*
6117991 TAATTATTT-ATAAAA
1 TAATT-TTTAATATAA
6118006 TAATATTTTATATATAA
1 TAAT-TTTTA-ATATAA
6118023 -AATTTTATAA-ATAA
1 TAATTTT-TAATATAA
6118037 TACATTTTTAATATAA
1 TA-ATTTTTAATATAA
6118053 TA
1 TA
6118055 TAATATATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
14 4 0.10
15 15 0.37
16 17 0.41
17 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTTTAATATAA
Found at i:6119495 original size:13 final size:14
Alignment explanation
Indices: 6119477--6119506 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6119467 TTTTTTGTTC
6119477 AAATAATTTTTT-A
1 AAATAATTTTTTGA
6119490 AAATAATTTTTTGA
1 AAATAATTTTTTGA
6119504 AAA
1 AAA
6119507 ATTATTCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
AAATAATTTTTTGA
Found at i:6127336 original size:24 final size:23
Alignment explanation
Indices: 6127258--6127345 Score: 106
Period size: 23 Copynumber: 3.8 Consensus size: 23
6127248 TTAATGTTCA
*
6127258 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-TGAACATTAAT
* * *
6127281 TGAATATGTTCATGAACATTAAA
1 CGAACATGTTCATGAACATTAAT
*
6127304 CGAACATGTTCAAGAACATATAAT
1 CGAACATGTTCATGAACAT-TAAT
6127328 CGAACATGTTCATGAACA
1 CGAACATGTTCATGAACA
6127346 ATGTTAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.07
23 30 0.56
24 20 0.37
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (23 bp):
CGAACATGTTCATGAACATTAAT
Found at i:6128384 original size:8 final size:9
Alignment explanation
Indices: 6128349--6128382 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6128339 TTAATTAGAA
6128349 AATTAATTT
1 AATTAATTT
*
6128358 AGTTAATTT
1 AATTAATTT
6128367 AATTAA-TT
1 AATTAATTT
6128375 AATTAATT
1 AATTAATT
6128383 AACATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:6130308 original size:40 final size:40
Alignment explanation
Indices: 6130259--6130426 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
6130249 TCTTCGGAAT
* * *
6130259 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** * * *
6130298 TTAACCCGGATTTGGTAACTTGCACAAATGCTTTCGAGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
6130338 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
6130378 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
6130418 TTAGCCCGG
1 TTAGCCCGG
6130427 GTATCATTCA
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
39 3 0.03
40 99 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:6130407 original size:80 final size:80
Alignment explanation
Indices: 6130259--6130426 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
6130249 TCTTCGGAAT
* * ** *
6130259 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
* *
6130323 AAATGCTTTCGAGTC
66 AAATGCCTTCGAGAC
** * *
6130338 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCA
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCA
* *
6130402 TAAATGCCTTCGGGAC
65 CAAATGCCTTCGAGAC
6130418 TTAGCCCGG
1 TTAGCCCGG
6130427 GTATCATTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 4 0.05
80 68 0.92
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
AAATGCCTTCGAGAC
Found at i:6136649 original size:25 final size:25
Alignment explanation
Indices: 6136615--6136664 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6136605 GAGGGGCTGG
6136615 TGACTTTCGGAATAAGTACTATATT
1 TGACTTTCGGAATAAGTACTATATT
*
6136640 TGACTTTCGGAGTAAGTACTATATT
1 TGACTTTCGGAATAAGTACTATATT
6136665 AGTATAGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (25 bp):
TGACTTTCGGAATAAGTACTATATT
Found at i:6141824 original size:21 final size:21
Alignment explanation
Indices: 6141800--6141839 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6141790 TTTGCCTAAG
*
6141800 ATATGAATTGGATTAAATTGA
1 ATATGAATTAGATTAAATTGA
*
6141821 ATATGAATTATATTAAATT
1 ATATGAATTAGATTAAATT
6141840 TATATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (21 bp):
ATATGAATTAGATTAAATTGA
Found at i:6157207 original size:24 final size:24
Alignment explanation
Indices: 6157078--6157237 Score: 117
Period size: 24 Copynumber: 6.7 Consensus size: 24
6157068 CAACCGATTT
* ** *
6157078 CGCACACATAGTGCTAAACAAATT
1 CGCACACATAGTGCCATTCAAATC
* * *
6157102 CGCGCACATAGTGCCATGCTACA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
6157126 CGCACACATAGTGCC-TTGAAGATT
1 CGCACACATAGTGCCATTCAA-ATC
* * ** * * *
6157150 CACTCATGTATTGACATCCAAATC
1 CGCACACATAGTGCCATTCAAATC
* *
6157174 AGCACACATAGTGCCATTCAATTC
1 CGCACACATAGTGCCATTCAAATC
6157198 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
6157222 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
6157238 ATGTTGACCC
Statistics
Matches: 100, Mismatches: 32, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 92 0.92
25 5 0.05
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:6158088 original size:34 final size:34
Alignment explanation
Indices: 6158021--6158096 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
6158011 ATTAGAAATG
* * *
6158021 GATACAGAACATATTAGATACACTTAGAGATTCA
1 GATACAAAACATATTAGATACACTTACAAATTCA
* **
6158055 TATACAAAACATATTAGATACGGTTACAAATTCA
1 GATACAAAACATATTAGATACACTTACAAATTCA
6158089 GATACAAA
1 GATACAAA
6158097 TACAGAGTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (34 bp):
GATACAAAACATATTAGATACACTTACAAATTCA
Found at i:6158282 original size:2 final size:2
Alignment explanation
Indices: 6158277--6158322 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
6158267 CATATATATA
* *
6158277 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TA
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6158319 TG TG
1 TG TG
6158323 GCTTAACACT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.02, C:0.00, G:0.46, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6158792 original size:63 final size:64
Alignment explanation
Indices: 6158705--6158910 Score: 240
Period size: 63 Copynumber: 3.3 Consensus size: 64
6158695 CAAATTCCCA
* * * * * *
6158705 AAACAGTAAGTTACACGGCTTGGACATACGCCCGTGTCTCTGGCCCGTGTGACCCT-AATTCAT
1 AAACAGTAAGTTACATGACCTGGACACATGCCCGTGTCTCTAGCCCGTGTGACCCTAAATTCAT
* *
6158768 AAACAGTAAGTTACATGACCTGGACACATGCCCGTTTCTTTAGCCCGTGTGACCCTAAATTCA-
1 AAACAGTAAGTTACATGACCTGGACACATGCCCGTGTCTCTAGCCCGTGTGACCCTAAATTCAT
* * * * * *
6158831 AAACAATGAGTTACA-CAGCCTGGACACATGCCCGTGTCTGTAGTCCGTGTGACTCTAAATTC-T
1 AAACAGTAAGTTACATGA-CCTGGACACATGCCCGTGTCTCTAGCCCGTGTGACCCTAAATTCAT
*
6158894 AAACAGTGAGTTACATG
1 AAACAGTAAGTTACATG
6158911 GCATACGGCC
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
62 1 0.01
63 115 0.94
64 6 0.05
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (64 bp):
AAACAGTAAGTTACATGACCTGGACACATGCCCGTGTCTCTAGCCCGTGTGACCCTAAATTCAT
Found at i:6165414 original size:20 final size:21
Alignment explanation
Indices: 6165391--6165431 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6165381 TTACATTAAA
*
6165391 TTTTACAAATAATT-AATTTT
1 TTTTAAAAATAATTAAATTTT
*
6165411 TTTTAAAAATATTTAAATTTT
1 TTTTAAAAATAATTAAATTTT
6165432 ATATTTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAAAATAATTAAATTTT
Found at i:6170665 original size:21 final size:21
Alignment explanation
Indices: 6170639--6170682 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6170629 TATGAAATAG
6170639 TCAATATA-TCTTTTAGA-GCAA
1 TCAATA-AGTCTTTT-GATGCAA
6170660 TCAATAAGTCTTTTGATGCAA
1 TCAATAAGTCTTTTGATGCAA
6170681 TC
1 TC
6170683 CTCCAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (21 bp):
TCAATAAGTCTTTTGATGCAA
Found at i:6173077 original size:6 final size:7
Alignment explanation
Indices: 6173060--6173087 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6173050 TCAAGAAGGG
6173060 AAAAAAT
1 AAAAAAT
6173067 AAAAAAT
1 AAAAAAT
6173074 AAAAAAT
1 AAAAAAT
6173081 AAAAAAT
1 AAAAAAT
6173088 TGATGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:6191674 original size:15 final size:16
Alignment explanation
Indices: 6191654--6191686 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6191644 TAATATATTT
6191654 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
6191669 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
6191686 T
1 T
6191687 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:6191772 original size:22 final size:22
Alignment explanation
Indices: 6191733--6191791 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
6191723 GTTTTAAGAA
*
6191733 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
6191754 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
6191776 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
6191792 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:6191808 original size:26 final size:24
Alignment explanation
Indices: 6191762--6191821 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
6191752 ATTTGTTTTA
*
6191762 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
6191786 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
6191812 TTTTTTATTT
1 ATATTTATTT
6191822 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:6194970 original size:24 final size:24
Alignment explanation
Indices: 6194935--6194984 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6194925 TTTTTCCTTA
*
6194935 AAAAACACTAAAATCCTAAACCCT
1 AAAAACACTAAAATACTAAACCCT
*
6194959 AAAAAC-CTTAAACTACTAAACCCT
1 AAAAACAC-TAAAATACTAAACCCT
6194983 AA
1 AA
6194985 CCCTAAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAAACACTAAAATACTAAACCCT
Found at i:6195482 original size:29 final size:28
Alignment explanation
Indices: 6195447--6195514 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 28
6195437 AAATTATTTT
6195447 TAAAAAAATCTAAAAAATTCAAAAAAAATA
1 TAAAAAAAT-T-AAAAATTCAAAAAAAATA
* *
6195477 TAAAAATAATTTAAAATTCAAAAAATATA
1 TAAAAA-AATTAAAAATTCAAAAAAAATA
6195506 TAAAAAAAT
1 TAAAAAAAT
6195515 AATAATTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 3 0.09
29 22 0.63
30 7 0.20
31 3 0.09
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAAAAAATTAAAAATTCAAAAAAAATA
Found at i:6200851 original size:27 final size:27
Alignment explanation
Indices: 6200813--6200869 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
6200803 CAGGAGTTCC
6200813 TATAATAATCATAGAAATTTTTTATTT
1 TATAATAATCATAGAAATTTTTTATTT
*
6200840 TATAATAATCATAGGAATTTTTTATTT
1 TATAATAATCATAGAAATTTTTTATTT
6200867 TAT
1 TAT
6200870 CCTACTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.53
Consensus pattern (27 bp):
TATAATAATCATAGAAATTTTTTATTT
Found at i:6201621 original size:5 final size:5
Alignment explanation
Indices: 6201611--6201718 Score: 76
Period size: 5 Copynumber: 21.4 Consensus size: 5
6201601 TCTTAATATT
* * * *
6201611 TCATA TCATA TCATA TCATA TTTCATA -CAAA TTATA TCCTA TCTTA TCATA
1 TCATA TCATA TCATA TCATA --TCATA TCATA TCATA TCATA TCATA TCATA
* * * * * * *
6201662 TCATAA T-GTA TCATA TCATA TCAAA TCATA GCTTA TCACA TTATA TCAAA
1 TCAT-A TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
6201712 TCATA TC
1 TCATA TC
6201719 CTACCCCTAT
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
4 5 0.06
5 65 0.84
6 2 0.03
7 5 0.06
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (5 bp):
TCATA
Found at i:6207520 original size:16 final size:17
Alignment explanation
Indices: 6207487--6207522 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6207477 AAAAAGGAAA
*
6207487 AAATAGAGAACGTAAAG
1 AAATAGAAAACGTAAAG
6207504 AAATAGAAAAC-TAAAG
1 AAATAGAAAACGTAAAG
6207520 AAA
1 AAA
6207523 AAATTGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.67, C:0.06, G:0.17, T:0.11
Consensus pattern (17 bp):
AAATAGAAAACGTAAAG
Found at i:6216255 original size:20 final size:19
Alignment explanation
Indices: 6216230--6216282 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
6216220 ATAGACCCAG
6216230 ATCATATTTAGATAGT-GCAA
1 ATCATA-TTAGATAGTAG-AA
* *
6216250 ATCATACTTATATAGTAGAT
1 ATCATA-TTAGATAGTAGAA
6216270 ATCATATTAGATA
1 ATCATATTAGATA
6216283 TACATACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 6 0.21
20 21 0.75
21 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATTAGATAGTAGAA
Found at i:6216584 original size:42 final size:42
Alignment explanation
Indices: 6216515--6216599 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
6216505 TACCAGTACT
* *
6216515 TCACACGGACTGACACACGACCGTGTGAGC-CAAGTTAGAGAG
1 TCACACGGACTGACACACGACCATGTGA-CTCAAGTGAGAGAG
* * * *
6216557 TCACACGGCCTGGCACACGTCTATGTGACTCAAGTGAGAGAG
1 TCACACGGACTGACACACGACCATGTGACTCAAGTGAGAGAG
6216599 T
1 T
6216600 TACATGGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (42 bp):
TCACACGGACTGACACACGACCATGTGACTCAAGTGAGAGAG
Found at i:6224695 original size:31 final size:31
Alignment explanation
Indices: 6224657--6224720 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
6224647 GTATGCTGAG
*
6224657 TAAAAACTCAGTGGTATTTTTATAATCCGAA
1 TAAAAACTCAGTGGTATTTCTATAATCCGAA
*
6224688 TAAAAACTCAGTGGTATTTCTATAATCTGAA
1 TAAAAACTCAGTGGTATTTCTATAATCCGAA
6224719 TA
1 TA
6224721 TTTAAAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (31 bp):
TAAAAACTCAGTGGTATTTCTATAATCCGAA
Found at i:6225217 original size:17 final size:18
Alignment explanation
Indices: 6225175--6225217 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
6225165 TCAATTTACT
* *
6225175 ATATCACTTTCATTTCTC
1 ATATCAATTTCATTTCTA
6225193 ATAT-AATTTCATTTC-A
1 ATATCAATTTCATTTCTA
6225209 ATATCAATT
1 ATATCAATT
6225218 GTAAGACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATCAATTTCATTTCTA
Found at i:6227625 original size:255 final size:255
Alignment explanation
Indices: 6227174--6227681 Score: 962
Period size: 255 Copynumber: 2.0 Consensus size: 255
6227164 AACAACCTGA
6227174 AAAGTTTGCAAAAGTATAAAGCTAGAATAGAAATAATAGAAAGTCTAAATGGAATGATCGAACTC
1 AAAGTTTGCAAAAGTATAAAGCTAGAATAGAAATAATAGAAAGTCTAAATGGAATGATCGAACTC
*
6227239 CTGAAATACCAACCCGCCTAAGCTTAAGGATTTCTTGAAATTTAAGCAAACAGACAAAATGAGGT
66 CTGAAATACCAACCCGCCTAAGCTTAAGGATTTCTTGAAATTCAAGCAAACAGACAAAATGAGGT
*
6227304 TACAAACTTAATGTGTAACCTATTTAATCAATTAAGCAGAATAATAACAAACATGCTTCAGGATA
131 TACAAACTTAATGTGTAACCTATCTAATCAATTAAGCAGAATAATAACAAACATGCTTCAGGATA
* *
6227369 TTATTATTCAGGCAGTTTTTTTATTCAGGAACGGAAACAGAAACAAAGTATGTTAGAAAC
196 TTATTATTCAGGCAATTTTTTGATTCAGGAACGGAAACAGAAACAAAGTATGTTAGAAAC
6227429 AAAGTTTGCAAAAGTATAAAGCTAGAATAGAAATAATAGAAAGTCTAAATGGAATGATCGAACTC
1 AAAGTTTGCAAAAGTATAAAGCTAGAATAGAAATAATAGAAAGTCTAAATGGAATGATCGAACTC
*
6227494 CTGAAATACCAACCCGCCTAAGCTTAAGGATTTCTTGAAATTCAAGCAAACAGACAAAATGAGTT
66 CTGAAATACCAACCCGCCTAAGCTTAAGGATTTCTTGAAATTCAAGCAAACAGACAAAATGAGGT
*
6227559 TACAAACTTAATGTGTAACCTATCTAATCAATTAAGCGGAATAATAACAAACATGCTTCAGGATA
131 TACAAACTTAATGTGTAACCTATCTAATCAATTAAGCAGAATAATAACAAACATGCTTCAGGATA
6227624 TTATTATTCAGGCAATTTTTTGATTCAGGAACGGAAACAGAAACAAAGTATGTTAGAA
196 TTATTATTCAGGCAATTTTTTGATTCAGGAACGGAAACAGAAACAAAGTATGTTAGAA
6227682 GAGATATAAA
Statistics
Matches: 247, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 247 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (255 bp):
AAAGTTTGCAAAAGTATAAAGCTAGAATAGAAATAATAGAAAGTCTAAATGGAATGATCGAACTC
CTGAAATACCAACCCGCCTAAGCTTAAGGATTTCTTGAAATTCAAGCAAACAGACAAAATGAGGT
TACAAACTTAATGTGTAACCTATCTAATCAATTAAGCAGAATAATAACAAACATGCTTCAGGATA
TTATTATTCAGGCAATTTTTTGATTCAGGAACGGAAACAGAAACAAAGTATGTTAGAAAC
Found at i:6227725 original size:28 final size:28
Alignment explanation
Indices: 6227685--6227753 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
6227675 GTTAGAAGAG
6227685 ATATAAATACATATATAGAGCTTATCAA
1 ATATAAATACATATATAGAGCTTATCAA
* *
6227713 ATATAAATACATATATAGAGGTTATCAG
1 ATATAAATACATATATAGAGCTTATCAA
* *
6227741 ATACAAATGCATA
1 ATATAAATACATA
6227754 AACCTACTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (28 bp):
ATATAAATACATATATAGAGCTTATCAA
Found at i:6227930 original size:2 final size:2
Alignment explanation
Indices: 6227925--6227956 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6227915 CATATATATA
*
6227925 TG TG TG TG TG TG TG TG TC TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6227957 GCTTAGCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6229897 original size:43 final size:43
Alignment explanation
Indices: 6229841--6229964 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
6229831 ATACATATCG
* * *
6229841 ATGCCACTATCCCAGACAGGGTCTTACGCGAAATCACAATA-A
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCACAATACA
* * * *
6229883 GATGTCAATGTCCCAGACATGGTCTTACACGTAATCTCAATACA
1 -ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCACAATACA
* * * * *
6229927 ATGCCAATGTCCCAAACATGATCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCACA
6229965 TCTCGATAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 67 0.99
44 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCACAATACA
Found at i:6231975 original size:28 final size:28
Alignment explanation
Indices: 6231944--6232011 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
6231934 TCGATATTTT
*
6231944 GCACACTAAGTGCTATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
6231972 GCACACTAAGTTCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
6232000 GCACACTAAGTG
1 GCACACTAAGTG
6232012 TCATATTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:6235171 original size:18 final size:18
Alignment explanation
Indices: 6235148--6235185 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6235138 AAGTATATAG
6235148 AAGCTTAATTATTGAACT
1 AAGCTTAATTATTGAACT
6235166 AAGCTTAATTATTGAACT
1 AAGCTTAATTATTGAACT
6235184 AA
1 AA
6235186 CATACTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
AAGCTTAATTATTGAACT
Found at i:6235509 original size:19 final size:19
Alignment explanation
Indices: 6235485--6235523 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6235475 TTAAAATATA
6235485 AAAATAAA-ATAAATTAATC
1 AAAATAAATAT-AATTAATC
*
6235504 AAAATAATTATAATTAATC
1 AAAATAAATATAATTAATC
6235523 A
1 A
6235524 CGAATTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAATATAATTAATC
Found at i:6236492 original size:17 final size:17
Alignment explanation
Indices: 6236472--6236508 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6236462 AAATTCTTTT
6236472 GAACACATAATTTTCAA
1 GAACACATAATTTTCAA
6236489 GAACACATAATTTTCAA
1 GAACACATAATTTTCAA
6236506 GAA
1 GAA
6236509 GTGTATTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (17 bp):
GAACACATAATTTTCAA
Found at i:6238761 original size:63 final size:63
Alignment explanation
Indices: 6238694--6238820 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
6238684 ACATGAAATG
6238694 ATAGAAGAAACTTCAAGAAAACCTTTTTCATTGTCTGCAAAGTACAAAGAAACTTACAAACAT
1 ATAGAAGAAACTTCAAGAAAACCTTTTTCATTGTCTGCAAAGTACAAAGAAACTTACAAACAT
* *
6238757 ATAGAAGAAACTTCAAGAAAACCTTTTTCTTTGTCTGCAAAGTACAATGAAACTTACAAACAT
1 ATAGAAGAAACTTCAAGAAAACCTTTTTCATTGTCTGCAAAGTACAAAGAAACTTACAAACAT
6238820 A
1 A
6238821 CTGTCGTCGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (63 bp):
ATAGAAGAAACTTCAAGAAAACCTTTTTCATTGTCTGCAAAGTACAAAGAAACTTACAAACAT
Found at i:6247194 original size:29 final size:29
Alignment explanation
Indices: 6247109--6247195 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
6247099 AAAAGCACTT
*
6247109 TCTAAATAACTTATAGCATTGCACATGAG
1 TCTAAATAACTTATAGCATTGCACATGGG
*
6247138 TCTAAATAACTTATAGCATCGCACATGGG
1 TCTAAATAACTTATAGCATTGCACATGGG
6247167 TCTAAATAACTTATAGCATTGCACATGGG
1 TCTAAATAACTTATAGCATTGCACATGGG
6247196 GGCCTCTGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (29 bp):
TCTAAATAACTTATAGCATTGCACATGGG
Found at i:6250258 original size:38 final size:38
Alignment explanation
Indices: 6250184--6250258 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
6250174 TTTCAAATTA
* * *
6250184 TAAGCAAATATATATACTGTCAAGAAAGCCTCATAAAT
1 TAAGCAAATATATATACTGTAAACAAAGACTCATAAAT
* *
6250222 TAAGCAAATATATATACATTTAAACAATGACT-ATAAA
1 TAAGCAAATATATATAC-TGTAAACAAAGACTCATAAA
6250259 ATGAAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 22 0.71
39 9 0.29
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (38 bp):
TAAGCAAATATATATACTGTAAACAAAGACTCATAAAT
Found at i:6254512 original size:17 final size:18
Alignment explanation
Indices: 6254487--6254529 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6254477 GAACTGCAAC
*
6254487 TCCTCAAAAACTCA-GTTT
1 TCCT-AAAAACTAAGGTTT
6254505 TCCTAAAAACTAAGGTTT
1 TCCTAAAAACTAAGGTTT
*
6254523 TCGTAAA
1 TCCTAAA
6254530 TAAAAACGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (18 bp):
TCCTAAAAACTAAGGTTT
Found at i:6256238 original size:24 final size:25
Alignment explanation
Indices: 6256201--6256249 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
6256191 TTCCTTTTCA
* *
6256201 TTTTCTTTCATTTTCATTTTTCTTC
1 TTTTCGTTCATTTTCACTTTTCTTC
*
6256226 TTTTCGTT-ATTTTCCCTTTTCTTC
1 TTTTCGTTCATTTTCACTTTTCTTC
6256250 CCTCATCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTCGTTCATTTTCACTTTTCTTC
Found at i:6259602 original size:17 final size:18
Alignment explanation
Indices: 6259571--6259605 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6259561 ATAAATTATT
6259571 AAAAAATTCATAAAAATA
1 AAAAAATTCATAAAAATA
*
6259589 AAAAAATTTA-AAAAATA
1 AAAAAATTCATAAAAATA
6259606 GAGAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATTCATAAAAATA
Found at i:6259932 original size:23 final size:24
Alignment explanation
Indices: 6259876--6259924 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
6259866 ATTATAAAGG
*
6259876 AATA-AGAAAGAA-AAAGAGAGGA
1 AATATAGAAAAAATAAAGAGAGGA
6259898 AATATAGAAAAAATAAAGAGA-GA
1 AATATAGAAAAAATAAAGAGAGGA
6259921 AATA
1 AATA
6259925 ATGTAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 13 0.54
24 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.10
Consensus pattern (24 bp):
AATATAGAAAAAATAAAGAGAGGA
Found at i:6261459 original size:15 final size:16
Alignment explanation
Indices: 6261441--6261472 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6261431 ATTAGGATTT
6261441 ACACACCTA-GGGTTC
1 ACACACCTAGGGGTTC
6261456 ACACACCTAGGGGTTC
1 ACACACCTAGGGGTTC
6261472 A
1 A
6261473 TATGGATGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (16 bp):
ACACACCTAGGGGTTC
Found at i:6261714 original size:22 final size:23
Alignment explanation
Indices: 6261686--6261728 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6261676 TGATGTAAGG
6261686 TTCACATAA-TAAACAAGTATGT
1 TTCACATAACTAAACAAGTATGT
*
6261708 TTCACATAACTAAACATGTAT
1 TTCACATAACTAAACAAGTAT
6261729 AATTCGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (23 bp):
TTCACATAACTAAACAAGTATGT
Found at i:6261738 original size:23 final size:22
Alignment explanation
Indices: 6261686--6261738 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
6261676 TGATGTAAGG
**
6261686 TTCACATAATAAACAAGTATGT
1 TTCACATAATAAACAAGTATAA
*
6261708 TTCACATAACTAAACATGTATAA
1 TTCACATAA-TAAACAAGTATAA
*
6261731 TTCGCATA
1 TTCACATA
6261739 CTATATAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (22 bp):
TTCACATAATAAACAAGTATAA
Found at i:6261937 original size:23 final size:23
Alignment explanation
Indices: 6261910--6261982 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
6261900 TATTTCTATG
6261910 GGGTTTGTATTATAATTCTTATA
1 GGGTTTGTATTATAATTCTTATA
* * *
6261933 GGGTTTGCATGT-TATTTCCTATA
1 GGGTTTGTAT-TATAATTCTTATA
* * * *
6261956 -GGTTTGTATAACAATTCTAATG
1 GGGTTTGTATTATAATTCTTATA
6261978 GGGTT
1 GGGTT
6261983 CACCTATATT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
22 14 0.38
23 22 0.59
24 1 0.03
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.47
Consensus pattern (23 bp):
GGGTTTGTATTATAATTCTTATA
Found at i:6262500 original size:24 final size:25
Alignment explanation
Indices: 6262450--6262502 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
6262440 AAGTTCATGC
6262450 TTGACAACTTTTAACAAAAAATGTT
1 TTGACAACTTTTAACAAAAAATGTT
*
6262475 TTGACAACTTTTAAC-AAAAATTTT
1 TTGACAACTTTTAACAAAAAATGTT
6262499 TTGA
1 TTGA
6262503 AGGCATACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (25 bp):
TTGACAACTTTTAACAAAAAATGTT
Found at i:6264707 original size:50 final size:51
Alignment explanation
Indices: 6264626--6264730 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 51
6264616 AATCTTAAAA
** * *
6264626 GATTTTCAATTAAATCTCTAATTTCTAAAAAGTGCTCCA-TTAACATTATT
1 GATTTTCAACCAAATCCCTAAATTCTAAAAAGTGCTCCATTTAACATTATT
* * *
6264676 GATTTTCAACCAAATCCCTAAATTCTCAAAAGTGCTCCATTTAATATTGTT
1 GATTTTCAACCAAATCCCTAAATTCTAAAAAGTGCTCCATTTAACATTATT
6264727 GATT
1 GATT
6264731 AAGATTCCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 34 0.72
51 13 0.28
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (51 bp):
GATTTTCAACCAAATCCCTAAATTCTAAAAAGTGCTCCATTTAACATTATT
Found at i:6264805 original size:78 final size:76
Alignment explanation
Indices: 6264676--6264958 Score: 349
Period size: 78 Copynumber: 3.7 Consensus size: 76
6264666 TAACATTATT
*
6264676 GATTTTCAACCAAATCCCTAAATTCTCAAAAGTGCTCCATTTAATATTGTTGATTAAGATTCCCA
1 GATTTTCAACCAAAT-CCTAAATTCTCAAAAGTGCTCCATTTAACATTGTTGATTAAGATTCCCA
*
6264741 ATCGTATCTTAAA
65 ATC-AATCTTAAA
* * **
6264754 GATTTTTAACCAAATACCTAAATTCTCAAAAGTGCTCCATTTAACATTGTTGATTAAAATTTGCA
1 GATTTTCAACCAAAT-CCTAAATTCTCAAAAGTGCTCCATTTAACATTGTTGATTAAGATTCCCA
6264819 ATCAAATCTTAAA
65 ATC-AATCTTAAA
* ** * * *
6264832 GATTTTCGACC----CCTAAATTCTCAAAAGTAATCCATTTAACATTTTTTTATTAAGATTCTCA
1 GATTTTCAACCAAATCCTAAATTCTCAAAAGTGCTCCATTTAACA-TTGTTGATTAAGATTCCCA
6264893 ATCAATTCTTAAA
65 ATCAA-TCTTAAA
* *
6264906 GATTTTCAACCAAATTCTTAAATTCTCAAAACTGCTCCATTTAACATTGTTGA
1 GATTTTCAACCAAA-TCCTAAATTCTCAAAAGTGCTCCATTTAACATTGTTGA
6264959 CTAAAATCAA
Statistics
Matches: 174, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
73 30 0.17
74 34 0.20
78 84 0.48
79 26 0.15
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.37
Consensus pattern (76 bp):
GATTTTCAACCAAATCCTAAATTCTCAAAAGTGCTCCATTTAACATTGTTGATTAAGATTCCCAA
TCAATCTTAAA
Found at i:6264907 original size:21 final size:21
Alignment explanation
Indices: 6264881--6264934 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
6264871 CATTTTTTTA
*
6264881 TTAAGATTCTCAATC-AATTC
1 TTAAGATTCTCAACCAAATTC
*
6264901 TTAAAGATTTTCAACCAAATTC
1 TT-AAGATTCTCAACCAAATTC
6264923 TTAA-ATTCTCAA
1 TTAAGATTCTCAA
6264935 AACTGCTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 13 0.45
22 7 0.24
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (21 bp):
TTAAGATTCTCAACCAAATTC
Found at i:6277135 original size:21 final size:21
Alignment explanation
Indices: 6277111--6277152 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6277101 TTTTCCTAAG
*
6277111 ATATGAATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
*
6277132 ATATGAATTGTATTAAATTGA
1 ATATGAATTGGATTAAATTGA
6277153 GCTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:6277760 original size:25 final size:25
Alignment explanation
Indices: 6277701--6277762 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
6277691 TGGCTCACAT
* *
6277701 GAGCTTCCCATTATATGGCTCGAAA
1 GAGCTTCCCGTTATATAGCTCGAAA
*
6277726 GAGCTTCCCGTTATATAGTTCGAAA
1 GAGCTTCCCGTTATATAGCTCGAAA
6277751 GAGCTTCCCGTT
1 GAGCTTCCCGTT
6277763 TACATGTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCGAAA
Found at i:6279965 original size:21 final size:22
Alignment explanation
Indices: 6279935--6279975 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6279925 GCCGTGGGGC
6279935 TAAGGTACATGCCCGTGTGACT
1 TAAGGTACATGCCCGTGTGACT
**
6279957 TAAGG-ACATGGTCGTGTGA
1 TAAGGTACATGCCCGTGTGA
6279976 TCCAGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (22 bp):
TAAGGTACATGCCCGTGTGACT
Found at i:6283117 original size:20 final size:19
Alignment explanation
Indices: 6283088--6283146 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
6283078 ATTTTAAAAT
*
6283088 CAAGTGAAAATAATTTTAAC
1 CAAGTCAAAAT-ATTTTAAC
**
6283108 CAAGTCAAAATATTCCAAC
1 CAAGTCAAAATATTTTAAC
* *
6283127 TAAGTTAAAATCATTTTAAC
1 CAAGTCAAAAT-ATTTTAAC
6283147 ACATCAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (19 bp):
CAAGTCAAAATATTTTAAC
Found at i:6286532 original size:23 final size:23
Alignment explanation
Indices: 6286502--6286546 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
6286492 GGTGGAAAAC
*
6286502 AATATATTTTTGTGCTTGTTGAT
1 AATATATTTTTGTACTTGTTGAT
6286525 AATATATTTTTGTACTTGTTGA
1 AATATATTTTTGTACTTGTTGA
6286547 CGACTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (23 bp):
AATATATTTTTGTACTTGTTGAT
Found at i:6288922 original size:46 final size:44
Alignment explanation
Indices: 6288779--6288922 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
6288769 CCCGCCCATA
*
6288779 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
6288826 CA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGC-CAACCATCT
6288872 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
6288918 AGTGA
1 AGTGA
6288923 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.42
47 29 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:6298946 original size:33 final size:33
Alignment explanation
Indices: 6298904--6298970 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
6298894 GAATTAAAGG
6298904 TAAGTACTTAGATAAAGGGAAAAACCTATGTTT
1 TAAGTACTTAGATAAAGGGAAAAACCTATGTTT
6298937 TAAGTACTTAGATAAAGGGAAAAACCTATGTTT
1 TAAGTACTTAGATAAAGGGAAAAACCTATGTTT
6298970 T
1 T
6298971 CGTGATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (33 bp):
TAAGTACTTAGATAAAGGGAAAAACCTATGTTT
Found at i:6299822 original size:14 final size:13
Alignment explanation
Indices: 6299803--6299836 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
6299793 CTTGTTCTTA
6299803 TTCTTAATTATATG
1 TTCTTAATTAT-TG
6299817 TTCTTAATTATTG
1 TTCTTAATTATTG
6299830 TT-TTAAT
1 TTCTTAAT
6299837 ATTTCAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (13 bp):
TTCTTAATTATTG
Found at i:6302307 original size:19 final size:20
Alignment explanation
Indices: 6302266--6302317 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
6302256 AATCATTTTG
** *
6302266 AAAATATCGATACTTTTATA
1 AAAATATCGATACTCGTAGA
6302286 AAAATATCGATACTCGT-GA
1 AAAATATCGATACTCGTAGA
*
6302305 AAAATATTGATAC
1 AAAATATCGATAC
6302318 CACAAGCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAATATCGATACTCGTAGA
Found at i:6302308 original size:20 final size:19
Alignment explanation
Indices: 6302266--6302317 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
6302256 AATCATTTTG
* *
6302266 AAAATATCGATACTTTTATA
1 AAAATATCGATAC-TGTGTA
6302286 AAAATATCGATACTCGTG-A
1 AAAATATCGATACT-GTGTA
*
6302305 AAAATATTGATAC
1 AAAATATCGATAC
6302318 CACAAGCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (19 bp):
AAAATATCGATACTGTGTA
Found at i:6304383 original size:20 final size:20
Alignment explanation
Indices: 6304358--6304395 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6304348 ACAATTTTAA
6304358 AACCAAGCGAAAATGATTTT
1 AACCAAGCGAAAATGATTTT
**
6304378 AACCAAGTTAAAATGATT
1 AACCAAGCGAAAATGATT
6304396 CCAATCAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
AACCAAGCGAAAATGATTTT
Found at i:6304404 original size:20 final size:20
Alignment explanation
Indices: 6304367--6304411 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6304357 AAACCAAGCG
**
6304367 AAAATGATTTTAACCAAGTT
1 AAAATGATTCCAACCAAGTT
*
6304387 AAAATGATTCCAATCAAGTT
1 AAAATGATTCCAACCAAGTT
6304407 AAAAT
1 AAAAT
6304412 CATTTTAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAATGATTCCAACCAAGTT
Found at i:6314655 original size:31 final size:31
Alignment explanation
Indices: 6314620--6314684 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
6314610 AAAGAAAAAA
* *
6314620 ACTTAAAT-AAAAGCTTTCAAATAGTTGAATG
1 ACTTAAATGAAAA-CTTTCAAATAATTAAATG
6314651 ACTTAAATGAAAACTTTCAAATAATTAAATG
1 ACTTAAATGAAAACTTTCAAATAATTAAATG
6314682 ACT
1 ACT
6314685 ATTTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCAAATAATTAAATG
Found at i:6315065 original size:31 final size:31
Alignment explanation
Indices: 6315027--6315085 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6315017 AAAAAAAATT
*
6315027 TTAAACTCAAACACCCAGTTTTTGTTTTGAA
1 TTAAACTCAAACACCCAGATTTTGTTTTGAA
* *
6315058 TTAAACTCGAAGACCCAGATTTTGTTTT
1 TTAAACTCAAACACCCAGATTTTGTTTT
6315086 TGTGTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (31 bp):
TTAAACTCAAACACCCAGATTTTGTTTTGAA
Found at i:6321414 original size:23 final size:23
Alignment explanation
Indices: 6321364--6321415 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
6321354 TGGAATTTAG
* *
6321364 TTTTAATATTTTTATTTTTTAGA
1 TTTTAATATTTTTACTTTTCAGA
* * *
6321387 ATTTAATTTTTTTACTTTTCATA
1 TTTTAATATTTTTACTTTTCAGA
6321410 TTTTAA
1 TTTTAA
6321416 AATTCAGGTC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTAATATTTTTACTTTTCAGA
Found at i:6323108 original size:90 final size:90
Alignment explanation
Indices: 6323009--6323180 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 90
6322999 TTACAGTGAA
*
6323009 CAAATTTTTC-AAAAAAAGCAATTAAGTCCTT-TTTTTTTT-CACTCAATT-ATGCACTTGAACT
1 CAAATTTTTCGAAAAAAA-CAATTAAGCCCTTATTTTTTTTGCACTCAATTGAT--ACTTGAACT
6323070 TTCAAAATACATAAAAAAAATAAGCCCT
63 TTCAAAATACATAAAAAAAATAAGCCCT
6323098 CAAACTTTTTCGAAAAAAACAATTAAGCCCTTACTTTTTTTTGCACTCAATTGGATACTTGAACT
1 CAAA-TTTTTCGAAAAAAACAATTAAGCCCTTA-TTTTTTTTGCACTCAATT-GATACTTGAACT
* *
6323163 TTTAAAATACATCAAAAA
63 TTCAAAATACATAAAAAA
6323181 GGCCATCAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
89 4 0.05
90 18 0.25
91 7 0.10
92 8 0.11
93 34 0.47
95 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (90 bp):
CAAATTTTTCGAAAAAAACAATTAAGCCCTTATTTTTTTTGCACTCAATTGATACTTGAACTTTC
AAAATACATAAAAAAAATAAGCCCT
Found at i:6323224 original size:89 final size:90
Alignment explanation
Indices: 6323009--6323228 Score: 215
Period size: 89 Copynumber: 2.5 Consensus size: 90
6322999 TTACAGTGAA
* *
6323009 CAAA-TTTTTC-AAAAAAAGCAATTAAG-TCCT--TTTTTTTTTCACTCAATTATGCACTTGAAC
1 CAAACTTTTTCGAAAAAAA-CAATTAAGCCCCTACTTTTTTTTGCACTCAATTAT-CACTTGAAC
*
6323069 TTTCAAAATACATAAAAAAAATAAGCCCT
64 TTTCAAAATACAT--AAAAAATAAGCCAT
*
6323098 CAAACTTTTTCGAAAAAAACAATTAAGCCCTTACTTTTTTTTGCACTCAATTGGAT-ACTTGAAC
1 CAAACTTTTTCGAAAAAAACAATTAAGCCCCTACTTTTTTTTGCACTCAATT--ATCACTTGAAC
* * *
6323162 TTTTAAAATACAT-CAAAA-AGGCCAT
64 TTTCAAAATACATAAAAAATAAGCCAT
* ** *
6323187 CAAACTTTTT-TACAAAAAGTAATTAAGCCCCTGCTTTTTTTT
1 CAAACTTTTTCGA-AAAAAACAATTAAGCCCCTACTTTTTTTT
6323229 TAACACCTAA
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
88 1 0.01
89 44 0.40
90 18 0.16
91 9 0.08
93 37 0.33
95 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (90 bp):
CAAACTTTTTCGAAAAAAACAATTAAGCCCCTACTTTTTTTTGCACTCAATTATCACTTGAACTT
TCAAAATACATAAAAAATAAGCCAT
Found at i:6323691 original size:21 final size:20
Alignment explanation
Indices: 6323666--6323720 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
6323656 TGGTATGATA
6323666 AATTTTATAATTTTTTTTAC
1 AATTTTATAATTTTTTTTAC
6323686 GAATTTTAT-ATTTTTTTTAC
1 -AATTTTATAATTTTTTTTAC
*
6323706 ATTTTTTATAATTTT
1 A-ATTTTATAATTTT
6323721 CTTACGACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 17 0.55
21 13 0.42
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
AATTTTATAATTTTTTTTAC
Found at i:6323700 original size:20 final size:20
Alignment explanation
Indices: 6323666--6323727 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
6323656 TGGTATGATA
6323666 AATTTTATAATTTTTTTTACG
1 AATTTTAT-ATTTTTTTTACG
6323687 AATTTTATATTTTTTTTAC-
1 AATTTTATATTTTTTTTACG
* * *
6323706 ATTTTTTATAATTTTCTTACG
1 A-ATTTTATATTTTTTTTACG
6323727 A
1 A
6323728 CTTTATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 26 0.72
21 9 0.25
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.63
Consensus pattern (20 bp):
AATTTTATATTTTTTTTACG
Found at i:6323779 original size:19 final size:20
Alignment explanation
Indices: 6323757--6323808 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
6323747 TTTCTATGTA
**
6323757 TTTTATAATTTTTTAC-GCT
1 TTTTATAATTTTTTACAAAT
* *
6323776 TTTTATAAATGTTTACAAAT
1 TTTTATAATTTTTTACAAAT
6323796 TTTTATAATTTTT
1 TTTTATAATTTTT
6323809 ATTAAAATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTTACAAAT
Found at i:6324166 original size:95 final size:90
Alignment explanation
Indices: 6323973--6324250 Score: 309
Period size: 95 Copynumber: 3.1 Consensus size: 90
6323963 TCAAATGATA
** *
6323973 TTTTTGATGCATTTTGGCAATTCAAGTATCCAATTTAGTGAAAAAAAAA-AGTAGGGACTTAAAT
1 TTTTTGATGCATTTTGAAAATTCAAGTATCCAATTGAGTGAAAAAAAAAGAGTAGGG-CTT-AAT
* *
6324037 T-TTTTTTTGTT--TAAA-TTTGAGGCA
64 TCTTTTTTT-TTGAAAAAGTTTGAGGCC
*
6324061 TTTTTTATGCATTTTGAAAATTCAAGTATCCAATTGAGTGTAAAAAAAAAAAGAGTAGAGGCTTA
1 TTTTTGATGCATTTTGAAAATTCAAGTATCCAATTGAGTG---AAAAAAAAAGAGTAG-GGCTTA
6324126 ATTGCTTTTTTTTTGAAAAAGTTTGAGGCC
62 ATT-CTTTTTTTTTGAAAAAGTTTGAGGCC
* * *
6324156 TTTTTGATGCATTTTGAAAATTTAATTACCCAATTGAGTGAAAAAAAAAGAGTAGGGGCTTAATT
1 TTTTTGATGCATTTTGAAAATTCAAGTATCCAATTGAGTGAAAAAAAAAGAGTA-GGGCTTAATT
* * *
6324221 AC--TTTTTTAGAAAAAGTTGGAGGAC
65 -CTTTTTTTTTGAAAAAGTTTGAGGCC
6324246 TTTTT
1 TTTTT
6324251 ATACCCTTAA
Statistics
Matches: 165, Mismatches: 14, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
88 36 0.22
90 25 0.15
91 13 0.08
92 34 0.21
93 10 0.06
94 3 0.02
95 44 0.27
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (90 bp):
TTTTTGATGCATTTTGAAAATTCAAGTATCCAATTGAGTGAAAAAAAAAGAGTAGGGCTTAATTC
TTTTTTTTTGAAAAAGTTTGAGGCC
Found at i:6326309 original size:26 final size:24
Alignment explanation
Indices: 6326264--6326326 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
6326254 CTTTAATTTC
*
6326264 ATATTGTTATTATTAGTATTA-TAAT
1 ATATT-TTATTATTAATATTAGT-AT
6326289 ATTATATTTATTATTAATATTAGTAT
1 A-TAT-TTTATTATTAATATTAGTAT
6326315 ATATTTTATTAT
1 ATATTTTATTAT
6326327 ATATGTACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 8 0.24
25 4 0.12
26 20 0.59
27 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (24 bp):
ATATTTTATTATTAATATTAGTAT
Found at i:6326392 original size:21 final size:22
Alignment explanation
Indices: 6326368--6326417 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
6326358 ATCGTTTCTG
6326368 TTATTATAT-TTATTATTT-TCA
1 TTATTATATATTATT-TTTATCA
6326389 TTATTAT-TATTATTTTTATCA
1 TTATTATATATTATTTTTATCA
6326410 TTATTATA
1 TTATTATA
6326418 CGTATATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTATATATTATTTTTATCA
Found at i:6326398 original size:18 final size:18
Alignment explanation
Indices: 6326377--6326416 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6326367 GTTATTATAT
*
6326377 TTATTATTTTCATTATTA
1 TTATTATTTTCATCATTA
*
6326395 TTATTATTTTTATCATTA
1 TTATTATTTTCATCATTA
6326413 TTAT
1 TTAT
6326417 ACGTATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTATTTTCATCATTA
Found at i:6326407 original size:9 final size:9
Alignment explanation
Indices: 6326368--6326407 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
6326358 ATCGTTTCTG
*
6326368 TTATTATAT
1 TTATTATTT
6326377 TTATTATTT
1 TTATTATTT
* *
6326386 TCATTATTA
1 TTATTATTT
6326395 TTATTATTT
1 TTATTATTT
6326404 TTAT
1 TTAT
6326408 CATTATTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (9 bp):
TTATTATTT
Found at i:6326582 original size:29 final size:30
Alignment explanation
Indices: 6326516--6326588 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
6326506 TTCATAATTT
6326516 TTTTAT-TTATTATTTTAAATACTCTTATA
1 TTTTATATTATTATTTTAAATACTCTTATA
6326545 TTATGTATATTATT-TTTTAAAATA-T-TATATA
1 TT-T-TATATTATTATTTT-AAATACTCT-TATA
6326576 TTTTATA-TATTAT
1 TTTTATATTATTAT
6326589 ATATATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
28 4 0.11
29 7 0.18
30 3 0.08
31 14 0.37
32 10 0.26
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTATATTATTATTTTAAATACTCTTATA
Found at i:6326741 original size:19 final size:17
Alignment explanation
Indices: 6326691--6326741 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
6326681 ATTATACGTG
*
6326691 TATATGATATACTTTTTA
1 TATATCATATA-TTTTTA
6326709 TATATCATATTATTTTATA
1 TATATCATA-TATTTT-TA
6326728 TATATCATTATATT
1 TATATCA-TATATT
6326742 CATACTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 12 0.41
19 15 0.52
20 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATCATATATTTTTA
Found at i:6326971 original size:26 final size:27
Alignment explanation
Indices: 6326933--6327016 Score: 68
Period size: 26 Copynumber: 3.1 Consensus size: 27
6326923 TGTATATATA
* *
6326933 TATT-TTATGTATATAT-CGTTATTTT
1 TATTATTATGTATAAATACATTATTTT
6326958 CTATTATTAT-TATAAATACATTATTTT
1 -TATTATTATGTATAAATACATTATTTT
* * *
6326985 TCTTATTATAT-TAGTAGTACATTATTTT
1 TATTATTATGTATA--AATACATTATTTT
6327013 TATT
1 TATT
6327017 TTCTTGTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 20 0.42
27 13 0.27
28 15 0.31
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (27 bp):
TATTATTATGTATAAATACATTATTTT
Found at i:6326996 original size:28 final size:28
Alignment explanation
Indices: 6326954--6327013 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
6326944 TATATCGTTA
6326954 TTTTCTATTATTATTA-TAAATACATTAT
1 TTTTCTATTATTATTAGT-AATACATTAT
*
6326982 TTTTCTTATTA-TATTAGTAGTACATTAT
1 TTTTC-TATTATTATTAGTAATACATTAT
6327010 TTTT
1 TTTT
6327014 ATTTTCTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTCTATTATTATTAGTAATACATTAT
Done.