Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 17 of 131
Found at i:5861821 original size:43 final size:43
Alignment explanation
Indices: 5861635--5861834 Score: 140
Period size: 43 Copynumber: 4.6 Consensus size: 43
5861625 TGGCATTACA
* * * * *
5861635 TGATTTCGTATAAGACCATAACTGGGCTA-TGGCATTGATATA
1 TGATTACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATG
** * *
5861677 TGAGTCTTTGTGTAAGACCATATCT-GG-TATATAGCATCGATATATG
1 TGA-T-TACGTGTAAGACCATAGCTGGGCTAT-TGGCATCG--ATATG
* * *
5861723 TGATTACGTGTAAGACCAT-GTCTAGGAC-ATTGACATCGTTATG
1 TGATTACGTGTAAGACCATAG-CT-GGGCTATTGGCATCGATATG
* *
5861766 TAATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATG
1 TGATTACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATG
* * * *
5861809 TGATAACATGTAAGATCATATCTGGG
1 TGATTACGTGTAAGACCATAGCTGGG
5861835 ATATGACATT
Statistics
Matches: 122, Mismatches: 24, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
42 8 0.07
43 59 0.48
44 38 0.31
45 7 0.06
46 10 0.08
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATG
Found at i:5863183 original size:57 final size:57
Alignment explanation
Indices: 5863109--5863224 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
5863099 GTTATTTCAC
*
5863109 TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTGGTTATACTTACAA
1 TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTAGTTATACTTACAA
5863166 TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTAGTTATACTTACAA
1 TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTAGTTATACTTACAA
5863223 TT
1 TT
5863225 GAGATTTGAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (57 bp):
TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTAGTTATACTTACAA
Found at i:5869067 original size:99 final size:100
Alignment explanation
Indices: 5868948--5869146 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 100
5868938 ATAACATCCC
5868948 TTTTTCGAGCCCTCGAGGCCTTAAAAATACTTTAGAAATGATTCGGGACTAAATCAAAAATATTT
1 TTTTTCGAGCCCTCGAGGCCTTAAAAATACTTTAGAAATGATTCGGGACTAAATCAAAAATATTT
5869013 AGAACTTCATGGCAAAAGATAGAAAAATTCATACT
66 AGAACTTCATGGCAAAAGATAGAAAAATTCATACT
5869048 TTTTTCGAG-CCTCGAGGCCTTAAAAATACTTTAGAAATGATTCGGGACTAAATCAAAAATATTT
1 TTTTTCGAGCCCTCGAGGCCTTAAAAATACTTTAGAAATGATTCGGGACTAAATCAAAAATATTT
5869112 AGAACTTCATGGCAAAAGATAGAAAAATTCATACT
66 AGAACTTCATGGCAAAAGATAGAAAAATTCATACT
5869147 ATAGGGGTCA
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 90 0.91
100 9 0.09
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (100 bp):
TTTTTCGAGCCCTCGAGGCCTTAAAAATACTTTAGAAATGATTCGGGACTAAATCAAAAATATTT
AGAACTTCATGGCAAAAGATAGAAAAATTCATACT
Found at i:5871044 original size:29 final size:29
Alignment explanation
Indices: 5870999--5871111 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
5870989 GTGCTAGATG
* * *
5870999 ATGGTTGTAACCGTCCATTTTTATATTCA
1 ATGGTCGTAACCATCCATTTTCATATTCA
* * *
5871028 ATGGTCGAAACCATCCATTTTCATTAATCG
1 ATGGTCGTAACCATCCATTTTCA-TATTCA
* *
5871058 ATGGTCGTCACCATCCCTTTTCATAGTT-A
1 ATGGTCGTAACCATCCATTTTCATA-TTCA
* *
5871087 ATGGTCGTCACCATCCCTTTTCATA
1 ATGGTCGTAACCATCCATTTTCATA
5871112 ATCGATAGTC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
29 46 0.65
30 25 0.35
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
ATGGTCGTAACCATCCATTTTCATATTCA
Found at i:5871064 original size:30 final size:29
Alignment explanation
Indices: 5871028--5871263 Score: 143
Period size: 29 Copynumber: 8.1 Consensus size: 29
5871018 TTTATATTCA
*
5871028 ATGGTCGAAACCATCCATTTTCATTAATCG
1 ATGGTCGAAACCATCCCTTTTCA-TAATCG
** * **
5871058 ATGGTCGTCACCATCCCTTTTCATAGTTA
1 ATGGTCGAAACCATCCCTTTTCATAATCG
**
5871087 ATGGTCGTCACCATCCCTTTTCATAATCG
1 ATGGTCGAAACCATCCCTTTTCATAATCG
* * * * *
5871116 ATAGTCGAAGCTAACCCTTTTCATATTCG
1 ATGGTCGAAACCATCCCTTTTCATAATCG
* * ** * *
5871145 ATAG-CCAAAGTTATCCCTTTTCATATTAG
1 ATGGTCGAAA-CCATCCCTTTTCATAATCG
*** * * *
5871174 ATAACCGAAGCTATCCCTTTTCATATTCG
1 ATGGTCGAAACCATCCCTTTTCATAATCG
* * *
5871203 ATGGTTGTAACCATCCTTTTTCATAATCG
1 ATGGTCGAAACCATCCCTTTTCATAATCG
* * * *
5871232 ATAG-CTGAAGCTATCCCTTTTCATATTCG
1 ATGGTC-GAAACCATCCCTTTTCATAATCG
5871261 ATG
1 ATG
5871264 ATCGCAGATA
Statistics
Matches: 160, Mismatches: 43, Indels: 7
0.76 0.20 0.03
Matches are distributed among these distances:
28 3 0.02
29 134 0.84
30 23 0.14
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (29 bp):
ATGGTCGAAACCATCCCTTTTCATAATCG
Found at i:5871162 original size:29 final size:29
Alignment explanation
Indices: 5871099--5871262 Score: 186
Period size: 29 Copynumber: 5.7 Consensus size: 29
5871089 GGTCGTCACC
* *
5871099 ATCCCTTTTCATAATCGATAGTCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* * *
5871128 AACCCTTTTCATATTCGATAGCCAAAGTT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* *
5871157 ATCCCTTTTCATATTAGATAACCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* ** *
5871186 ATCCCTTTTCATATTCGATGGTTGTAA-CC
1 ATCCCTTTTCATATTCGATAGCCG-AAGCT
* * *
5871215 ATCCTTTTTCATAATCGATAGCTGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
5871244 ATCCCTTTTCATATTCGAT
1 ATCCCTTTTCATATTCGAT
5871263 GATCGCAGAT
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
28 2 0.02
29 106 0.96
30 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCT
Found at i:5871190 original size:87 final size:87
Alignment explanation
Indices: 5871099--5871258 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 87
5871089 GGTCGTCACC
* * *
5871099 ATCCCTTTTCATAATCGATAGTCG-AAGCTAACCCTTTTCATATTCGATAGCCAAAGTTATCCCT
1 ATCCCTTTTCATAATCGATAGTCGTAA-CCAACCCTTTTCATAATCGATAGCCAAAGCTATCCCT
5871163 TTTCATATTAGATAACCGAAGCT
65 TTTCATATTAGATAACCGAAGCT
* * * * * **
5871186 ATCCCTTTTCATATTCGATGGTTGTAACCATCCTTTTTCATAATCGATAGCTGAAGCTATCCCTT
1 ATCCCTTTTCATAATCGATAGTCGTAACCAACCCTTTTCATAATCGATAGCCAAAGCTATCCCTT
5871251 TTCATATT
66 TTCATATT
5871259 CGATGATCGC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
87 60 0.97
88 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (87 bp):
ATCCCTTTTCATAATCGATAGTCGTAACCAACCCTTTTCATAATCGATAGCCAAAGCTATCCCTT
TTCATATTAGATAACCGAAGCT
Found at i:5871263 original size:58 final size:58
Alignment explanation
Indices: 5871016--5871263 Score: 218
Period size: 58 Copynumber: 4.3 Consensus size: 58
5871006 TAACCGTCCA
* * * * * * *
5871016 TTTTTATATTCAATGGTCGAAACCATCCATTTTCATTAATCGAT-GGTCGTCA-CCATCCC
1 TTTTCATATTCGATGGTCGTAACCATCCCTTTTCA-TAATCGATAGCT-G-AAGCTATCCC
* * *
5871075 TTTTCATAGTT-AATGGTCGTCACCATCCCTTTTCATAATCGATAG-TCGAAGCTAACCC
1 TTTTCATA-TTCGATGGTCGTAACCATCCCTTTTCATAATCGATAGCT-GAAGCTATCCC
* ** ** * * * *
5871133 TTTTCATATTCGATAG-CCAAAGTTATCCCTTTTCATATTAGATAACCGAAGCTATCCC
1 TTTTCATATTCGATGGTCGTAA-CCATCCCTTTTCATAATCGATAGCTGAAGCTATCCC
* *
5871191 TTTTCATATTCGATGGTTGTAACCATCCTTTTTCATAATCGATAGCTGAAGCTATCCC
1 TTTTCATATTCGATGGTCGTAACCATCCCTTTTCATAATCGATAGCTGAAGCTATCCC
5871249 TTTTCATATTCGATG
1 TTTTCATATTCGATG
5871264 ATCGCAGATA
Statistics
Matches: 152, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
57 5 0.03
58 114 0.75
59 31 0.20
60 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (58 bp):
TTTTCATATTCGATGGTCGTAACCATCCCTTTTCATAATCGATAGCTGAAGCTATCCC
Found at i:5885920 original size:2 final size:2
Alignment explanation
Indices: 5885913--5885942 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5885903 AAACCTGCAT
5885913 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5885943 AAGGGGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5894020 original size:16 final size:16
Alignment explanation
Indices: 5893982--5894020 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5893972 TGGCAGTAGC
* *
5893982 AAAGAAAGCAAAAACG
1 AAAGAAAGAAAAAACA
*
5893998 AATGAAAGAAAAAACA
1 AAAGAAAGAAAAAACA
5894014 AAAGAAA
1 AAAGAAA
5894021 AGAACTCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAACA
Found at i:5900074 original size:16 final size:16
Alignment explanation
Indices: 5900036--5900074 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5900026 TGGCAGTAGC
* *
5900036 AAAGAAAGCAAAAACG
1 AAAGAAAGAAAAAACA
*
5900052 AATGAAAGAAAAAACA
1 AAAGAAAGAAAAAACA
5900068 AAAGAAA
1 AAAGAAA
5900075 AGAACTCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAAGAAAAAACA
Found at i:5910227 original size:21 final size:21
Alignment explanation
Indices: 5910181--5910228 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
5910171 TTCCCATATT
5910181 TTTTTCTTTTATGTTCTTCTA
1 TTTTTCTTTTATGTTCTTCTA
* * *
5910202 ATTTTCTTTTTTTTTTCTT-TA
1 TTTTTC-TTTTATGTTCTTCTA
5910223 TTTTTC
1 TTTTTC
5910229 ATTCTCTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTCTTTTATGTTCTTCTA
Found at i:5914317 original size:21 final size:22
Alignment explanation
Indices: 5914273--5914317 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
5914263 GATATTTTAC
*
5914273 TATTTTTAAATTTAGGTATTGA
1 TATTTTTAAATTTAGGTATCGA
* *
5914295 TATTTTTACATTT-GGTGTCGA
1 TATTTTTAAATTTAGGTATCGA
5914316 TA
1 TA
5914318 CCTAATCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (22 bp):
TATTTTTAAATTTAGGTATCGA
Found at i:5917272 original size:21 final size:21
Alignment explanation
Indices: 5917246--5917289 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
5917236 ATTCCTTAAG
5917246 TAAATTTATTGAGATCACAAA
1 TAAATTTATTGAGATCACAAA
5917267 TAAATTTATTGAGATCACAAA
1 TAAATTTATTGAGATCACAAA
5917288 TA
1 TA
5917290 TCAAATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
TAAATTTATTGAGATCACAAA
Found at i:5922480 original size:43 final size:43
Alignment explanation
Indices: 5922419--5922542 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
5922409 ATTTTCGATA
* * *
5922419 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 TGTGTTTACGAGTAAGACCACGTCTGGGAAGTTGGCATCGACT
*
5922462 TGTGTTTACGAGTAAGACC-CTGTCTGGGATAG-TGGCATCGATT
1 TGTGTTTACGAGTAAGACCAC-GTCTGGGA-AGTTGGCATCGACT
** * *
5922505 TGTGAATAC-ATGTAAGACCACGTCTGGGATGTTTGCAT
1 TGTGTTTACGA-GTAAGACCACGTCTGGGAAGTTGGCAT
5922543 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 3 0.04
43 63 0.93
44 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTGTTTACGAGTAAGACCACGTCTGGGAAGTTGGCATCGACT
Found at i:5925240 original size:33 final size:33
Alignment explanation
Indices: 5925203--5925273 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
5925193 TGAACCAATT
*
5925203 AAAAAA-TCAATAAAATTGGCGGTTGAATCGACC
1 AAAAAACT-AATAAAACTGGCGGTTGAATCGACC
** * *
5925236 AAAAAACTAATTGAACTGGTGGTTGAATCGACT
1 AAAAAACTAATAAAACTGGCGGTTGAATCGACC
5925269 AAAAA
1 AAAAA
5925274 TGATTGAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (33 bp):
AAAAAACTAATAAAACTGGCGGTTGAATCGACC
Found at i:5927120 original size:21 final size:21
Alignment explanation
Indices: 5927072--5927125 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
5927062 ATAAAGTTGT
*
5927072 ATCTTTATAAGATAAAGATAC
1 ATCTTTATAACATAAAGATAC
**
5927093 AAATTTATGAACA-AAAGATAC
1 ATCTTTAT-AACATAAAGATAC
*
5927114 ATCTTTACAACA
1 ATCTTTATAACA
5927126 CAACTATTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 3 0.12
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (21 bp):
ATCTTTATAACATAAAGATAC
Found at i:5930296 original size:18 final size:18
Alignment explanation
Indices: 5930275--5930317 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
5930265 GTTATAGTGC
5930275 TTTTAATCTATTTTTCTA
1 TTTTAATCTATTTTTCTA
** * *
5930293 TTTTAAAGTGTTTTTCTT
1 TTTTAATCTATTTTTCTA
5930311 TTTTAAT
1 TTTTAAT
5930318 TTTTTAATCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTAATCTATTTTTCTA
Found at i:5937145 original size:13 final size:13
Alignment explanation
Indices: 5937127--5937151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5937117 GCTCGATTGT
5937127 AATTATTTTTTAA
1 AATTATTTTTTAA
5937140 AATTATTTTTTA
1 AATTATTTTTTA
5937152 TATAAAAATA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTATTTTTTAA
Found at i:5943674 original size:42 final size:42
Alignment explanation
Indices: 5943612--5943755 Score: 198
Period size: 42 Copynumber: 3.4 Consensus size: 42
5943602 GTTTACTTTT
* *
5943612 CGTTCAGCTTTTTTGAGCTTCTGTTTAACCCTTATGGGTTTC
1 CGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGAGTTTC
** * *
5943654 CACTCAGCTCTTTTGAGCTTCTGTTTAACTCATATGAGTTTC
1 CGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGAGTTTC
* * *
5943696 TGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATAAGTTTC
1 CGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGAGTTTC
*
5943738 CGTTCAGCTCTTATGAGC
1 CGTTCAGCTCTTTTGAGC
5943756 ATATGAGTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (42 bp):
CGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGAGTTTC
Found at i:5943712 original size:21 final size:21
Alignment explanation
Indices: 5943657--5943754 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 21
5943647 GGGTTTCCAC
* *
5943657 TCAGCTCTTTTGAGCTTCTGT
1 TCAGCTCTTATGAGTTTCTGT
* * *
5943678 TTAACTCATATGAGTTTCTGT
1 TCAGCTCTTATGAGTTTCTGT
*
5943699 TCAGCTCTTTTGAGCTTT-TGT
1 TCAGCTCTTATGAG-TTTCTGT
* * * * *
5943720 TTAACCCTTATAAGTTTCCGT
1 TCAGCTCTTATGAGTTTCTGT
5943741 TCAGCTCTTATGAG
1 TCAGCTCTTATGAG
5943755 CATATGAGTT
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 3 0.05
21 50 0.89
22 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
TCAGCTCTTATGAGTTTCTGT
Found at i:5943791 original size:21 final size:21
Alignment explanation
Indices: 5943757--5943880 Score: 106
Period size: 21 Copynumber: 5.9 Consensus size: 21
5943747 CTTATGAGCA
5943757 TATGAGTTTCTGTTCAGCTCT
1 TATGAGTTTCTGTTCAGCTCT
* * * *
5943778 TTTGAGCTTT-TGTTTAACCCT
1 TATGAG-TTTCTGTTCAGCTCT
* *
5943799 TATAAGTTTCCGTTCAGCTCT
1 TATGAGTTTCTGTTCAGCTCT
* * *
5943820 TATGAGCTTCTGTTCAACCCT
1 TATGAGTTTCTGTTCAGCTCT
*
5943841 TATGAGTTTCTGTTTAGCTCT
1 TATGAGTTTCTGTTCAGCTCT
* ** *
5943862 CATGAACTTCTGTTTAGCT
1 TATGAGTTTCTGTTCAGCT
5943881 TTCGAACTTC
Statistics
Matches: 79, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.04
21 73 0.92
22 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (21 bp):
TATGAGTTTCTGTTCAGCTCT
Found at i:5943800 original size:71 final size:71
Alignment explanation
Indices: 5943684--5943826 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
5943674 CTGTTTAACT
5943684 CATATGAGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATAAGTTTCCGTTCAGCTCT
1 CATATGAGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATAAGTTTCCGTTCAGCTCT
5943749 TATGAG
66 TATGAG
5943755 CATATGAGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATAAGTTTCCGTTCAGCTCT
1 CATATGAGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATAAGTTTCCGTTCAGCTCT
5943820 TATGAG
66 TATGAG
5943826 C
1 C
5943827 TTCTGTTCAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (71 bp):
CATATGAGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATAAGTTTCCGTTCAGCTCT
TATGAG
Found at i:5943820 original size:42 final size:42
Alignment explanation
Indices: 5943761--5943875 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
5943751 TGAGCATATG
* * *
5943761 AGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATA
1 AGTTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATA
* *
5943803 AGTTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATG
1 AGTTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATA
* * *
5943845 AGTTTCTGTTTAGCTCTCATGAACTTCTGTT
1 AGTTTCTGTTCAGCTCTTATGAGCTTCTGTT
5943876 TAGCTTTCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.46
Consensus pattern (42 bp):
AGTTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATA
Found at i:5943849 original size:113 final size:113
Alignment explanation
Indices: 5943657--5943866 Score: 312
Period size: 113 Copynumber: 1.9 Consensus size: 113
5943647 GGGTTTCCAC
* * * * * *
5943657 TCAGCTCTTTTGAGCTTCTGTTTAACTCATATGAGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTT
1 TCAGCTCTTTTGAGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTATGAGCTTCTGTTC
*
5943722 AACCCTTATAAGTTTCCGTTCAGCTCTTATGAGCATATGAGTTTCTGT
66 AACCCTTATAAGTTTCCGTTCAGCTCTCATGAGCATATGAGTTTCTGT
* *
5943770 TCAGCTCTTTTGAGCTTTTGTTTAACCCTTATAAGTTTCCGTTCAGCTCTTATGAGCTTCTGTTC
1 TCAGCTCTTTTGAGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTATGAGCTTCTGTTC
* * *
5943835 AACCCTTATGAGTTTCTGTTTAGCTCTCATGA
66 AACCCTTATAAGTTTCCGTTCAGCTCTCATGA
5943867 ACTTCTGTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
113 85 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (113 bp):
TCAGCTCTTTTGAGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTATGAGCTTCTGTTC
AACCCTTATAAGTTTCCGTTCAGCTCTCATGAGCATATGAGTTTCTGT
Found at i:5943889 original size:19 final size:20
Alignment explanation
Indices: 5943848--5943891 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
5943838 CCTTATGAGT
5943848 TTCTGTTTAGCTCTCATGAAC
1 TTCTGTTTAGCTCTCA-GAAC
*
5943869 TTCTGTTTAGCTTTC-GAAC
1 TTCTGTTTAGCTCTCAGAAC
5943888 TTCT
1 TTCT
5943892 ATCAACGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
21 14 0.64
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.48
Consensus pattern (20 bp):
TTCTGTTTAGCTCTCAGAAC
Found at i:5947048 original size:20 final size:20
Alignment explanation
Indices: 5947020--5947064 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
5947010 ATATACTACA
5947020 AGAAAGTAAAATGCATTTCT
1 AGAAAGTAAAATGCATTTCT
*
5947040 AGAATGTAAAATGCATTTCT
1 AGAAAGTAAAATGCATTTCT
5947060 AGAAA
1 AGAAA
5947065 AGAAATGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (20 bp):
AGAAAGTAAAATGCATTTCT
Found at i:5947072 original size:19 final size:19
Alignment explanation
Indices: 5947020--5947073 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
5947010 ATATACTACA
5947020 AGAAAGTAAAATGCATTTCT
1 AGAAAG-AAAATGCATTTCT
*
5947040 AGAATGTAAAATGCATTTCT
1 AGAAAG-AAAATGCATTTCT
5947060 AGAAA-AGAAATGCA
1 AGAAAGA-AAATGCA
5947074 ATTGAACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 23 0.74
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (19 bp):
AGAAAGAAAATGCATTTCT
Found at i:5947849 original size:14 final size:14
Alignment explanation
Indices: 5947826--5947865 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
5947816 ACAGAAAAGT
*
5947826 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
5947840 AAATCATTTTACGG
1 AAAACATTTTACAG
5947854 AAAACATTTTAC
1 AAAACATTTTAC
5947866 TGGCTATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:5948473 original size:31 final size:31
Alignment explanation
Indices: 5948438--5948497 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
5948428 ATATCTCAAT
*
5948438 GATTTAAAT-AAAAGCTTTCTAATAATTTAGC
1 GATTTAAATGAAAA-CTTTCGAATAATTTAGC
*
5948469 GATTTAAATGAAAACTTTCGAATAGTTTA
1 GATTTAAATGAAAACTTTCGAATAATTTA
5948498 ATAACCATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (31 bp):
GATTTAAATGAAAACTTTCGAATAATTTAGC
Found at i:5951311 original size:146 final size:147
Alignment explanation
Indices: 5951137--5951430 Score: 581
Period size: 146 Copynumber: 2.0 Consensus size: 147
5951127 TAATTTTAAT
5951137 TAAATTACTTAAAATAATTAATTTTTAAATTATAAACAAACATTTTTTCTTCTTTTACAAATTTT
1 TAAATTACTTAAAATAATTAATTTTTAAATTATAAACAAACATTTTTTCTTCTTTTACAAATTTT
5951202 AATCATTTTTTGTTAATATTTTTTTATTTTTGTGCAACCAATTTTAAAAAATAGTAATTTTTGTA
66 AATCATTTTTTGTTAATATTTTTTTATTTTTGTGCAACCAATTTTAAAAAATAGTAATTTTTGTA
5951267 CAATTTTTTCAATGTCA
131 CAATTTTTTCAATGTCA
5951284 TAAATTACTT-AAATAATTAATTTTTAAATTATAAACAAACATTTTTTCTTCTTTTACAAATTTT
1 TAAATTACTTAAAATAATTAATTTTTAAATTATAAACAAACATTTTTTCTTCTTTTACAAATTTT
5951348 AATCATTTTTTGTTAATATTTTTTTATTTTTGTGCAACCAATTTTAAAAAATAGTAATTTTTGTA
66 AATCATTTTTTGTTAATATTTTTTTATTTTTGTGCAACCAATTTTAAAAAATAGTAATTTTTGTA
5951413 CAATTTTTTCAATGTCA
131 CAATTTTTTCAATGTCA
5951430 T
1 T
5951431 TAATACATAA
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 137 0.93
147 10 0.07
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (147 bp):
TAAATTACTTAAAATAATTAATTTTTAAATTATAAACAAACATTTTTTCTTCTTTTACAAATTTT
AATCATTTTTTGTTAATATTTTTTTATTTTTGTGCAACCAATTTTAAAAAATAGTAATTTTTGTA
CAATTTTTTCAATGTCA
Found at i:5952979 original size:18 final size:19
Alignment explanation
Indices: 5952958--5952995 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
5952948 ATTTTGGCAT
*
5952958 TTTTATAAA-TAGTTTGAA
1 TTTTAAAAATTAGTTTGAA
*
5952976 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTAGTTTGAA
5952995 T
1 T
5952996 CTTTTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATTAGTTTGAA
Found at i:5962226 original size:121 final size:120
Alignment explanation
Indices: 5962043--5962283 Score: 473
Period size: 121 Copynumber: 2.0 Consensus size: 120
5962033 GTGGGTGGGG
5962043 GGGGTGGGGGGGGAGGAGGAATGCGGCCTGGTCCTGGTATGCCCAAGATTCATCTTAGGAGTGCT
1 GGGGTGGGGGGGGAGGAGGAATGCGGCCTGGTCCTGGTATGCCCAAGATTCATCTTAGGAGTGCT
5962108 TACCCTTTGCTTTTCTGTTGTTGCTTGGCCTGTGGTCTCAGTGATGGGACCAATT
66 TACCCTTTGCTTTTCTGTTGTTGCTTGGCCTGTGGTCTCAGTGATGGGACCAATT
5962163 GGGGTGTGGGGGGGAGGAGGAATGCGGCCTGGTCCTGGTATGCCCAAGATTCATCTTAGGAGTGC
1 GGGGTG-GGGGGGGAGGAGGAATGCGGCCTGGTCCTGGTATGCCCAAGATTCATCTTAGGAGTGC
5962228 TTACCCTTTGCTTTTCTGTTGTTGCTTGGCCTGTGGTCTCAGTGATGGGACCAATT
65 TTACCCTTTGCTTTTCTGTTGTTGCTTGGCCTGTGGTCTCAGTGATGGGACCAATT
5962284 TTTCTCCATC
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
120 6 0.05
121 114 0.95
ACGTcount: A:0.14, C:0.19, G:0.36, T:0.31
Consensus pattern (120 bp):
GGGGTGGGGGGGGAGGAGGAATGCGGCCTGGTCCTGGTATGCCCAAGATTCATCTTAGGAGTGCT
TACCCTTTGCTTTTCTGTTGTTGCTTGGCCTGTGGTCTCAGTGATGGGACCAATT
Found at i:5966245 original size:63 final size:63
Alignment explanation
Indices: 5966153--5966322 Score: 223
Period size: 63 Copynumber: 2.7 Consensus size: 63
5966143 ATCACAACAC
** * * * *
5966153 GCACCAATTTATTTTACACTTGCACCACAACACGCGCAATCATTCATTGCACCAACATAGTCA
1 GCACCAATTTATTTTACACAAGCACCACAACATGCACAATCATTCACTGCACCAACACAGTCA
** * *
5966216 GCACCCTTTTATTTTACACAAGCATCACAACATGCACAATCATTCCCTGCACCAACACAGTCA
1 GCACCAATTTATTTTACACAAGCACCACAACATGCACAATCATTCACTGCACCAACACAGTCA
* * *
5966279 TCACCAATTTATTTTACACAAGCACCACAGCATGCTCAATCATT
1 GCACCAATTTATTTTACACAAGCACCACAACATGCACAATCATT
5966323 TCCTACACCG
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (63 bp):
GCACCAATTTATTTTACACAAGCACCACAACATGCACAATCATTCACTGCACCAACACAGTCA
Found at i:5968129 original size:22 final size:21
Alignment explanation
Indices: 5968096--5968137 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
5968086 AAAACCAAAC
*
5968096 AAACAAATAAATAAAATAACG
1 AAACAAACAAATAAAATAACG
5968117 AAACTAAACAAATAAAATAAC
1 AAAC-AAACAAATAAAATAAC
5968138 AACCCAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.71, C:0.12, G:0.02, T:0.14
Consensus pattern (21 bp):
AAACAAACAAATAAAATAACG
Found at i:5969565 original size:20 final size:20
Alignment explanation
Indices: 5969535--5969580 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
5969525 TTAACATTAA
5969535 TAATAATTTTAAT-AGTATCTT
1 TAAT-ATTTTAATAAGTAT-TT
*
5969556 TAATATTTTATTAAGTATTT
1 TAATATTTTAATAAGTATTT
5969576 TAATA
1 TAATA
5969581 ATAAATACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TAATATTTTAATAAGTATTT
Found at i:5971114 original size:31 final size:31
Alignment explanation
Indices: 5971075--5971143 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
5971065 TTACAATTTT
**
5971075 GTCACTAAACTATTTGAAAGTTTTCATTTAA
1 GTCACTAAACTATTCAAAAGTTTTCATTTAA
* *
5971106 GTTACTAAACTATTCAAAAGTTTTTATTTAA
1 GTCACTAAACTATTCAAAAGTTTTCATTTAA
5971137 GTCACTA
1 GTCACTA
5971144 GATTGTCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAGTTTTCATTTAA
Found at i:5984083 original size:22 final size:22
Alignment explanation
Indices: 5984021--5984089 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
5984011 TATGCACTAT
* *
5984021 TAAACAAAGAGCACCAAA-ATGC
1 TAAACAGAGAGCA-CAAATGTGC
*
5984043 TATACAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACAAATGTGC
* *
5984065 TAAACGGAGAGCACTAATGTGC
1 TAAACAGAGAGCACAAATGTGC
5984087 TAA
1 TAA
5984090 TAATAGGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (22 bp):
TAAACAGAGAGCACAAATGTGC
Found at i:5986047 original size:22 final size:23
Alignment explanation
Indices: 5986022--5986065 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
5986012 AATATAATAG
5986022 CAAAATGACAACAAA-ACAACAT
1 CAAAATGACAACAAACACAACAT
* * *
5986044 CAAAGTGGCAGCAAACACAACA
1 CAAAATGACAACAAACACAACA
5986066 GTAAACAGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.57, C:0.25, G:0.11, T:0.07
Consensus pattern (23 bp):
CAAAATGACAACAAACACAACAT
Found at i:5986539 original size:18 final size:17
Alignment explanation
Indices: 5986497--5986548 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
5986487 CGTAATTAAT
* *
5986497 AAATATATATAATATTGC
1 AAAT-TATATTATATTTC
5986515 AAA-TATATTATATTTC
1 AAATTATATTATATTTC
5986531 AAAATTATATTTATATTT
1 -AAATTATA-TTATATTT
5986549 TTTAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 11 0.38
17 3 0.10
18 7 0.24
19 8 0.28
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (17 bp):
AAATTATATTATATTTC
Found at i:5999118 original size:93 final size:94
Alignment explanation
Indices: 5998959--5999144 Score: 293
Period size: 93 Copynumber: 2.0 Consensus size: 94
5998949 AAAAAGCAAG
* * * *
5998959 GCCATTGCAACACTAAAAAAGTAAAAACAAGGTAAAGTCCATAAAAACAAACATTGAAATCAAGG
1 GCCATTGCAACACTAAAAAAGTAAAAACAAGGCAAAGCCCATAAAAACAAACATGGAAAGCAAGG
5999024 GAATAAGTTG-AAAAAAGAAAGCAAGAAT
66 GAATAAGTTGAAAAAAAGAAAGCAAGAAT
* * * *
5999052 GCCATTGCAGCACTAAAGAAGTAAAAACGAGGCAAAGCCCATAAAAACAAATATGGAAAGCAAGG
1 GCCATTGCAACACTAAAAAAGTAAAAACAAGGCAAAGCCCATAAAAACAAACATGGAAAGCAAGG
5999117 GAATAAGTTGAAAAAAAGAAAGCAAGAA
66 GAATAAGTTGAAAAAAAGAAAGCAAGAA
5999145 AATCTAAAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 67 0.80
94 17 0.20
ACGTcount: A:0.55, C:0.13, G:0.19, T:0.13
Consensus pattern (94 bp):
GCCATTGCAACACTAAAAAAGTAAAAACAAGGCAAAGCCCATAAAAACAAACATGGAAAGCAAGG
GAATAAGTTGAAAAAAAGAAAGCAAGAAT
Found at i:6000128 original size:25 final size:25
Alignment explanation
Indices: 6000097--6000146 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6000087 ATACTCAGCC
6000097 AAAAAATGACTGAACCAAGGGTAAA
1 AAAAAATGACTGAACCAAGGGTAAA
**
6000122 AAAAAATGGTTGAACCAAGGGTAAA
1 AAAAAATGACTGAACCAAGGGTAAA
6000147 TAGATACCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.22, T:0.14
Consensus pattern (25 bp):
AAAAAATGACTGAACCAAGGGTAAA
Found at i:6004785 original size:21 final size:22
Alignment explanation
Indices: 6004761--6004804 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6004751 AAAAAGTCAA
*
6004761 TAAATAAAAATTAT-TAAATAT
1 TAAATAAAAATCATATAAATAT
*
6004782 TAAATTAAAATCATATAAATAT
1 TAAATAAAAATCATATAAATAT
6004804 T
1 T
6004805 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATAAAAATCATATAAATAT
Found at i:6006786 original size:48 final size:48
Alignment explanation
Indices: 6006733--6006828 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
6006723 AAAAAAACCA
* * *
6006733 AAAAAATAAAGGGGGACTCATGACTGATGCTTGCTTCATAAGTGGTTC
1 AAAAAATAAAAGGGGACCCATGACCGATGCTTGCTTCATAAGTGGTTC
*
6006781 AAAAAATAAAAGGGGACCCATGACCGATGTTTGCTTCATAAGTGGTTC
1 AAAAAATAAAAGGGGACCCATGACCGATGCTTGCTTCATAAGTGGTTC
6006829 TTGTATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAAATAAAAGGGGACCCATGACCGATGCTTGCTTCATAAGTGGTTC
Found at i:6008755 original size:73 final size:73
Alignment explanation
Indices: 6008678--6008840 Score: 175
Period size: 73 Copynumber: 2.2 Consensus size: 73
6008668 TGTATAACGA
* * * *
6008678 GAAGCTCATAAGAGCCATA-GTCAGAAAGCTCATGCGAGCCAATAACGGGTAGCTCCGAAGAGCC
1 GAAGCTCAAAAGAGCCATATATCAGAAAGCTCAAGCGAGCC-ATAACAGGTAGCTCCGAAGAGCC
6008742 ATTAATCGG
65 ATTAATCGG
*** * * * * * *
6008751 GAAGCTCCGGATAGCCATATATCGGGAAGTTCAAGTGAGCCATATCAGGTAGCTCCGAAGAGCCA
1 GAAGCTCAAAAGAGCCATATATCAGAAAGCTCAAGCGAGCCATAACAGGTAGCTCCGAAGAGCCA
6008816 TTAATCGG
66 TTAATCGG
*
6008824 GAAACTCACAAAGAGCC
1 GAAGCTCA-AAAGAGCC
6008841 TTTAATCGGG
Statistics
Matches: 71, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
73 51 0.72
74 20 0.28
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (73 bp):
GAAGCTCAAAAGAGCCATATATCAGAAAGCTCAAGCGAGCCATAACAGGTAGCTCCGAAGAGCCA
TTAATCGG
Found at i:6008756 original size:25 final size:25
Alignment explanation
Indices: 6008713--6008868 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
6008703 AAGCTCATGC
* *
6008713 GAGCCAATAA-CGGGTAGCTCCGAA
1 GAGCCATTAATCGGGAAGCTCCGAA
*
6008737 GAGCCATTAATCGGGAAGCTCCGGA
1 GAGCCATTAATCGGGAAGCTCCGAA
* *
6008762 TAGCCA-TATATCGGGAAG-TTC-AA
1 GAGCCATTA-ATCGGGAAGCTCCGAA
* *
6008785 GTGAGCCA-T-ATCAGGTAGCTCCGAA
1 --GAGCCATTAATCGGGAAGCTCCGAA
* *
6008810 GAGCCATTAATCGGGAAACTCACAAA
1 GAGCCATTAATCGGGAAGCTC-CGAA
* *
6008836 GAGCCTTTAATCGGGAAGCTCATGAA
1 GAGCCATTAATCGGGAAGCTC-CGAA
6008862 GAGCCAT
1 GAGCCAT
6008869 ATAACAGGAC
Statistics
Matches: 104, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
23 14 0.13
24 16 0.15
25 43 0.41
26 31 0.30
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCCGAA
Found at i:6008845 original size:26 final size:26
Alignment explanation
Indices: 6008808--6008868 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
6008798 GGTAGCTCCG
6008808 AAGAGCCATTAATCGGGAAACTCACA
1 AAGAGCCATTAATCGGGAAACTCACA
* * **
6008834 AAGAGCCTTTAATCGGGAAGCTCATG
1 AAGAGCCATTAATCGGGAAACTCACA
6008860 AAGAGCCAT
1 AAGAGCCAT
6008869 ATAACAGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
AAGAGCCATTAATCGGGAAACTCACA
Found at i:6014086 original size:21 final size:22
Alignment explanation
Indices: 6014027--6014088 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
6014017 CAGAAGCAGT
* * *
6014027 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTCA
** *
6014049 A-ACGACACACGTGGTGCC-CA
1 ATACGACACATATAGTGCCTCA
6014069 ATACGACACATATAGTGCCT
1 ATACGACACATATAGTGCCT
6014089 GATCGGCAAG
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTCA
Found at i:6016011 original size:24 final size:22
Alignment explanation
Indices: 6015984--6016027 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
6015974 ATTATTCCAC
6015984 CCTTAAAATATTTTCACTATTTGT
1 CCTTAAAAT-TTTTCA-TATTTGT
*
6016008 CCTTTAAATTTTTCATATTT
1 CCTTAAAATTTTTCATATTT
6016028 ACACTTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.55
Consensus pattern (22 bp):
CCTTAAAATTTTTCATATTTGT
Found at i:6017043 original size:27 final size:27
Alignment explanation
Indices: 6017005--6017059 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
6016995 ATAAAATACT
*
6017005 TAAAATGAAATGGGGTTCCTTTGAGAA
1 TAAAATGAAATGGGGTTCCTTTAAGAA
6017032 TAAAATGAAATGGGGTTCCTTTAAGAA
1 TAAAATGAAATGGGGTTCCTTTAAGAA
6017059 T
1 T
6017060 GAACTCGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
TAAAATGAAATGGGGTTCCTTTAAGAA
Found at i:6017590 original size:2 final size:2
Alignment explanation
Indices: 6017583--6017646 Score: 110
Period size: 2 Copynumber: 32.0 Consensus size: 2
6017573 TTTAAGGGCA
*
6017583 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
6017625 AG AG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
6017647 GGAGGGAGGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6021445 original size:16 final size:16
Alignment explanation
Indices: 6021424--6021462 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
6021414 GTTTGGTTCA
*
6021424 CTGTAATGGAATAGAG
1 CTGTAATGGAATAAAG
6021440 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
6021456 CTGTAAT
1 CTGTAAT
6021463 CAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:6021757 original size:22 final size:21
Alignment explanation
Indices: 6021732--6021783 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
6021722 TAGATATTCT
*
6021732 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
6021754 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
6021776 TAAT-TTAA
1 TAATATTAA
6021784 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:6023455 original size:21 final size:21
Alignment explanation
Indices: 6023414--6023455 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6023404 TTCATATAAT
* *
6023414 AATTATATTAAGAATTTATTA
1 AATTATATTAACAATTAATTA
6023435 AATTATATTTAACAA-TAATTA
1 AATTATA-TTAACAATTAATTA
6023456 TGTTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AATTATATTAACAATTAATTA
Found at i:6023663 original size:49 final size:51
Alignment explanation
Indices: 6023597--6023695 Score: 125
Period size: 49 Copynumber: 2.0 Consensus size: 51
6023587 ATTACAACAT
*
6023597 CATTTCATTCAACCAAACACA-AGAA-TACT-ATTACAG-TTCTATTCCATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTT-TATTCCATTC
* *
6023646 CATTCCATTCAATCAAACAATTGAATTACTGATTACAGCTTTATTCCATT
1 CATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTTTATTCCATT
6023696 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
48 1 0.02
49 20 0.47
50 4 0.09
51 16 0.37
52 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (51 bp):
CATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTTTATTCCATTC
Found at i:6023698 original size:16 final size:16
Alignment explanation
Indices: 6023677--6023712 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6023667 TGAATTACTG
* *
6023677 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCA
6023693 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
6023709 ATTA
1 ATTA
6023713 TAGTTAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:6024753 original size:23 final size:22
Alignment explanation
Indices: 6024691--6024757 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
6024681 AGGTATCTAC
*
6024691 AAATCAAATCTCTAAGATTACA
1 AAATCATATCTCTAAGATTACA
6024713 AAATCATATCTCTAAGATTACA
1 AAATCATATCTCTAAGATTACA
6024735 AAATCATATCTTCTAAGATTACA
1 AAATCATATC-TCTAAGATTACA
6024758 TATTATATCT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.31
Consensus pattern (22 bp):
AAATCATATCTCTAAGATTACA
Found at i:6031006 original size:5 final size:5
Alignment explanation
Indices: 6030996--6031047 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
6030986 TTTGACCTCC
6030996 TTAAA TTAAA TT--A TTAAA TTAAAA TT--A TTAAA -TAAA TTAAA TTAAAA
1 TTAAA TTAAA TTAAA TTAAA TT-AAA TTAAA TTAAA TTAAA TTAAA TT-AAA
6031043 TTAAA
1 TTAAA
6031048 GAATTAAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
3 6 0.15
4 4 0.10
5 20 0.50
6 10 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:6031022 original size:14 final size:13
Alignment explanation
Indices: 6030996--6031034 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
6030986 TTTGACCTCC
6030996 TTAAATTAAATTA
1 TTAAATTAAATTA
6031009 TTAAATTAAAATTA
1 TTAAATT-AAATTA
6031023 TTAAA-TAAATTA
1 TTAAATTAAATTA
6031035 AATTAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.24
13 8 0.32
14 11 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAATTAAATTA
Found at i:6031037 original size:23 final size:22
Alignment explanation
Indices: 6031000--6031045 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
6030990 ACCTCCTTAA
*
6031000 ATTAAATTATTAAATTAAAATT
1 ATTAAATAATTAAATTAAAATT
6031022 ATTAAATAAATTAAATTAAAATT
1 ATTAAAT-AATTAAATTAAAATT
6031045 A
1 A
6031046 AAGAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAAATAATTAAATTAAAATT
Found at i:6032731 original size:26 final size:26
Alignment explanation
Indices: 6032702--6032759 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
6032692 CCTGTTATAT
6032702 GGCTCTTCATGAGCTTCCTAATTAAA
1 GGCTCTTCATGAGCTTCCTAATTAAA
** * *
6032728 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCATGAGCTTCCTAATTAAA
6032754 GGCTCT
1 GGCTCT
6032760 CCGGAGCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTAATTAAA
Found at i:6038580 original size:25 final size:25
Alignment explanation
Indices: 6038552--6038616 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
6038542 CTGTCTTTGA
*
6038552 TAGTATATCCTGAAACTACTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
6038577 TAGTATATACTGAGACTACTATAGA
1 TAGTATATACTGAAACTACTATAGG
6038602 TAG-ACTATACTGAAA
1 TAGTA-TATACTGAAA
6038617 ACACTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:6044597 original size:18 final size:18
Alignment explanation
Indices: 6044576--6044620 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6044566 ACAATTAAAA
6044576 AACGTTTTG-AAATTGAAT
1 AACGTTTTGTAAA-TGAAT
*
6044594 AACGATTTGTAAATGAAT
1 AACGTTTTGTAAATGAAT
*
6044612 AATGTTTTG
1 AACGTTTTG
6044621 GAAACAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (18 bp):
AACGTTTTGTAAATGAAT
Found at i:6045728 original size:24 final size:25
Alignment explanation
Indices: 6045704--6045786 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
6045694 GCATGTAAAC
6045704 GGAAGCTCTTTCGAGCCATATAACG
1 GGAAGCTCTTTCGAGCCATATAACG
* * **
6045729 GGAAACTCATGT-GAGCTGTATAACG
1 GGAAGCTC-TTTCGAGCCATATAACG
* * **
6045754 GGAAGCTCTTACGAGCCATTTATTG
1 GGAAGCTCTTTCGAGCCATATAACG
6045779 GGAAGCTC
1 GGAAGCTC
6045787 AAGAGAACCA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
24 1 0.02
25 41 0.93
26 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (25 bp):
GGAAGCTCTTTCGAGCCATATAACG
Found at i:6045769 original size:25 final size:25
Alignment explanation
Indices: 6045679--6045769 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
6045669 TTCATATTCA
6045679 GGAATGCTCATACGAGCATGTA-AAC-
1 GGAA-GCTCATACGAGC-TGTATAACG
* * **
6045704 GGAAGCTCTTTCGAGCCATATAACG
1 GGAAGCTCATACGAGCTGTATAACG
* **
6045729 GGAAACTCATGTGAGCTGTATAACG
1 GGAAGCTCATACGAGCTGTATAACG
*
6045754 GGAAGCTCTTACGAGC
1 GGAAGCTCATACGAGC
6045770 CATTTATTGG
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
23 2 0.04
24 13 0.26
25 35 0.70
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (25 bp):
GGAAGCTCATACGAGCTGTATAACG
Found at i:6047754 original size:10 final size:11
Alignment explanation
Indices: 6047733--6047761 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
6047723 TTTCTTATTT
6047733 CTATTCTTTAG
1 CTATTCTTTAG
6047744 CTATT-TTTAG
1 CTATTCTTTAG
6047754 CTATTCTT
1 CTATTCTT
6047762 CTCACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.59
Consensus pattern (11 bp):
CTATTCTTTAG
Found at i:6050028 original size:21 final size:22
Alignment explanation
Indices: 6050004--6050044 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6049994 AACGCTTATG
6050004 AAAAG-ATCACTTGGATTTAAA
1 AAAAGTATCACTTGGATTTAAA
* *
6050025 AAAAGTGTCGCTTGGATTTA
1 AAAAGTATCACTTGGATTTA
6050045 TCCATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (22 bp):
AAAAGTATCACTTGGATTTAAA
Found at i:6050191 original size:13 final size:13
Alignment explanation
Indices: 6050173--6050197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6050163 ATTATTTATC
6050173 ATTTAAATATATA
1 ATTTAAATATATA
6050186 ATTTAAATATAT
1 ATTTAAATATAT
6050198 TAATAATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:6050205 original size:24 final size:22
Alignment explanation
Indices: 6050176--6050232 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
6050166 ATTTATCATT
*
6050176 TAAATATATAATTTAAATATATTAA
1 TAAATATATAA--T-AATATATAAA
*
6050201 T-AATATAGAATAATATATAAA
1 TAAATATATAATAATATATAAA
6050222 TAAATATATAA
1 TAAATATATAA
6050233 AGAAAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.36
22 9 0.32
24 8 0.29
25 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAATATATAATAATATATAAA
Found at i:6050228 original size:10 final size:11
Alignment explanation
Indices: 6050176--6050232 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
6050166 ATTTATCATT
6050176 TAAATATATAA
1 TAAATATATAA
6050187 TTTAAATATATTAA
1 --TAAATATA-TAA
*
6050201 T-AATATAGAA
1 TAAATATATAA
6050211 T-AATATATAAA
1 TAAATATAT-AA
6050222 TAAATATATAA
1 TAAATATATAA
6050233 AGAAAATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 9 0.23
11 11 0.28
12 8 0.21
13 8 0.21
14 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATATATAA
Found at i:6053597 original size:6 final size:5
Alignment explanation
Indices: 6053563--6053596 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
6053553 AAAATCTAGG
6053563 TTTTC -TTTC TTTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTT
6053597 TTCTGCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 19 0.70
6 4 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:6054481 original size:3 final size:3
Alignment explanation
Indices: 6054473--6054510 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6054463 TAGGTTTTCT
6054473 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
6054511 GTGAAATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6063974 original size:15 final size:15
Alignment explanation
Indices: 6063938--6063966 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6063928 AAAAAGAAAT
6063938 AGAAAAACGAAGCAA
1 AGAAAAACGAAGCAA
6063953 AGAAAAACGAAGCA
1 AGAAAAACGAAGCA
6063967 GAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.14, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAAACGAAGCAA
Found at i:6063974 original size:16 final size:15
Alignment explanation
Indices: 6063940--6063975 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6063930 AAAGAAATAG
*
6063940 AAAAACGAAGCAAAG
1 AAAAACGAAGCAAAA
6063955 AAAAACGAAGCAGAAA
1 AAAAACGAAGCA-AAA
6063971 AAAAA
1 AAAAA
6063976 AAGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.72, C:0.11, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAACGAAGCAAAA
Found at i:6065071 original size:12 final size:14
Alignment explanation
Indices: 6065054--6065086 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6065044 AATGGGACAG
6065054 TGAATTGA-A-ATA
1 TGAATTGAGACATA
6065066 TGAATTGAGACATA
1 TGAATTGAGACATA
6065080 TGAATTG
1 TGAATTG
6065087 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 1 0.05
14 10 0.53
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.33
Consensus pattern (14 bp):
TGAATTGAGACATA
Found at i:6068839 original size:62 final size:62
Alignment explanation
Indices: 6068757--6068882 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
6068747 AGGTGTTACA
*
6068757 TCTATTCTACTATTTTAACATTGATTGACCTTTATGTAGGTTGCCTCTTTCAGTTACCTCTT
1 TCTATTCTACTATTTTAACATTGATTGACCTTTATGTAGATTGCCTCTTTCAGTTACCTCTT
* * *
6068819 TCTATTTTACTCTTTTAACATTGATTGACCTTTATGTAGATTGCCTCTTTTAGTTACCTCTT
1 TCTATTCTACTATTTTAACATTGATTGACCTTTATGTAGATTGCCTCTTTCAGTTACCTCTT
6068881 TC
1 TC
6068883 CTTACCATCT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (62 bp):
TCTATTCTACTATTTTAACATTGATTGACCTTTATGTAGATTGCCTCTTTCAGTTACCTCTT
Found at i:6081933 original size:19 final size:20
Alignment explanation
Indices: 6081902--6081949 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6081892 ACTTTGGATT
*
6081902 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGAAA
6081920 TTTTAAAAATTATTTTGAAA
1 TTTTAAAAATTATTTTGAAA
*
6081940 TTTTGAAAAT
1 TTTTAAAAAT
6081950 AAAATTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 8 0.31
19 7 0.27
20 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGAAA
Found at i:6084339 original size:134 final size:134
Alignment explanation
Indices: 6084099--6084351 Score: 481
Period size: 134 Copynumber: 1.9 Consensus size: 134
6084089 TTTACCGGAA
6084099 TGGGCCATTTTCCCCTAAATCGCATCCACGTCAGCGCGATGTCAGGGGACGTGCCAGCAAATCGC
1 TGGGCCATTTTCCCCTAAATCGCATCCACGTCAGCGCGATGTCAGGGGACGTGCCAGCAAATCGC
*
6084164 GTTCACGTCAGCGCACTTTACTGACATGGTAGCAAATCGCGTCCTCTGGAGCGCCAATTTTGTTC
66 GTTCACGTCAGCGCACTTTACTGACATGGTAGCAAATCGCGTCCTCTGAAGCGCCAATTTTGTTC
6084229 AACT
131 AACT
6084233 TGGGCCATTTTCCCCTAAATCGCATTCCACGTCAG-GCGATGTCAGGGGACGTGCCAGCAAATCG
1 TGGGCCATTTTCCCCTAAATCGCA-TCCACGTCAGCGCGATGTCAGGGGACGTGCCAGCAAATCG
6084297 CGTTCACGTCAGCGCACTTTACTGACATGGTAGCAAATCGCGTCCTCTGAAGCGC
65 CGTTCACGTCAGCGCACTTTACTGACATGGTAGCAAATCGCGTCCTCTGAAGCGC
6084352 GATTTGTGTC
Statistics
Matches: 117, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
134 107 0.91
135 10 0.09
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.24
Consensus pattern (134 bp):
TGGGCCATTTTCCCCTAAATCGCATCCACGTCAGCGCGATGTCAGGGGACGTGCCAGCAAATCGC
GTTCACGTCAGCGCACTTTACTGACATGGTAGCAAATCGCGTCCTCTGAAGCGCCAATTTTGTTC
AACT
Found at i:6084696 original size:125 final size:127
Alignment explanation
Indices: 6084448--6084707 Score: 328
Period size: 125 Copynumber: 2.1 Consensus size: 127
6084438 ATACCCCCAC
* * *
6084448 TCCTGTTTGAAGCATTTTTTTAAACTATTTACTCAAAAACGTCAACTCGAAATTATTTCTTTCAG
1 TCCTGCTTGAAGCAGTTTTTTAAACTATTTACTCAAAAACGTCAACTCGAAATTATTTCTTCCAG
* * * *
6084513 GACCAACTGTAGCAAAAGCACGTCCACGAGAGCGCAATTTCACAAATTCTTCTCATAAAGCA
66 GACCAACTGTAGCAAAAGCACATACACGAGAGCGCAACTTCACAAAATCTTCTCATAAAGCA
* * * *
6084575 TCCTGCTTGAAGC-GTTTTTTAAACTATTTGCTCAGAAATGTCAAGTCGAAATTATTT-TTCCAG
1 TCCTGCTTGAAGCAGTTTTTTAAACTATTTACTCAAAAACGTCAACTCGAAATTATTTCTTCCAG
** * * * * *
6084638 GACTTACTGTAGCAAAAGCACATACACGTGGGCGCGACTTCA-AAAATCATTCTGATAAATCA
66 GACCAACTGTAGCAAAAGCACATACACGAGAGCGCAACTTCACAAAATC-TTCTCATAAAGCA
6084700 TCCTGCTT
1 TCCTGCTT
6084708 TGATTTTATC
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
124 5 0.04
125 58 0.51
126 39 0.34
127 12 0.11
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (127 bp):
TCCTGCTTGAAGCAGTTTTTTAAACTATTTACTCAAAAACGTCAACTCGAAATTATTTCTTCCAG
GACCAACTGTAGCAAAAGCACATACACGAGAGCGCAACTTCACAAAATCTTCTCATAAAGCA
Found at i:6085651 original size:13 final size:14
Alignment explanation
Indices: 6085633--6085665 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6085623 TTTGTTTAAC
6085633 TGAAAA-TAATTTT
1 TGAAAATTAATTTT
*
6085646 TGAAAATTTATTTT
1 TGAAAATTAATTTT
6085660 TGAAAA
1 TGAAAA
6085666 GTGGATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (14 bp):
TGAAAATTAATTTT
Found at i:6087291 original size:13 final size:13
Alignment explanation
Indices: 6087273--6087298 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6087263 TATGACTATC
6087273 AAGTGTGTAGTTT
1 AAGTGTGTAGTTT
6087286 AAGTGTGTAGTTT
1 AAGTGTGTAGTTT
6087299 TATTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
AAGTGTGTAGTTT
Found at i:6087678 original size:30 final size:31
Alignment explanation
Indices: 6087642--6087702 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
6087632 TCTAAAAAAG
6087642 TAAGTCATTTTATAT-AAAAAAGATTATTTT
1 TAAGTCATTTTATATAAAAAAAGATTATTTT
6087672 TAAGTCATTTTATATAAAAAAAGATTATTTT
1 TAAGTCATTTTATATAAAAAAAGATTATTTT
6087703 CCGTTTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAGTCATTTTATATAAAAAAAGATTATTTT
Found at i:6089039 original size:11 final size:10
Alignment explanation
Indices: 6089013--6089038 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6089003 ACTGACTAGC
6089013 AAAAAAGAAA
1 AAAAAAGAAA
6089023 AAAAAAGAAA
1 AAAAAAGAAA
6089033 AAAAAA
1 AAAAAA
6089039 AAAGCGAAAC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:6089177 original size:12 final size:13
Alignment explanation
Indices: 6089162--6089190 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6089152 ATATATATAT
6089162 TCTTTCTCAT-TC
1 TCTTTCTCATCTC
6089174 TCTTTCTCATCTC
1 TCTTTCTCATCTC
6089187 TCTT
1 TCTT
6089191 CAAATTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.07, C:0.34, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTTCTCATCTC
Found at i:6092269 original size:36 final size:36
Alignment explanation
Indices: 6092180--6092269 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 36
6092170 AAATATTTGC
* * *
6092180 ATTTATATTAAAAACATTTATTATTAAATATTTATA
1 ATTTATAATCAAAATATTTATTATTAAATATTTATA
* *
6092216 ATTTATAATCTATATATTTATTATTAAAATATTT-TA
1 ATTTATAATCAAAATATTTATTATT-AAATATTTATA
6092252 ATATT-TCAA-CAAAATATT
1 AT-TTAT-AATCAAAATATT
6092270 AAGAACGGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
36 32 0.73
37 12 0.27
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (36 bp):
ATTTATAATCAAAATATTTATTATTAAATATTTATA
Found at i:6094438 original size:23 final size:21
Alignment explanation
Indices: 6094412--6094478 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
6094402 TGTCTTTCAC
6094412 AAATTTTAGGGATTTGTTTGGCT
1 AAATTTTAGGGATTTGTTT--CT
* *
6094435 AAATTGTAGGTATTTGTCTTCT
1 AAATTTTAGGGATTTGT-TTCT
*
6094457 ACAAATTTAGGGATTTGTTTCT
1 A-AATTTTAGGGATTTGTTTCT
6094479 CTTTTATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 7 0.19
23 28 0.76
24 2 0.05
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (21 bp):
AAATTTTAGGGATTTGTTTCT
Found at i:6097586 original size:11 final size:11
Alignment explanation
Indices: 6097570--6097618 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
6097560 TATTTTTTAA
6097570 TTTTAAAATAT
1 TTTTAAAATAT
6097581 TTTTAAAATACT
1 TTTTAAAATA-T
* *
6097593 TTTT---TTAA
1 TTTTAAAATAT
6097601 TTTTAAAATAT
1 TTTTAAAATAT
6097612 TTTTAAA
1 TTTTAAA
6097619 CCCGGCTCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
8 4 0.13
9 2 0.07
11 19 0.63
12 5 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:6099036 original size:13 final size:13
Alignment explanation
Indices: 6099020--6099046 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6099010 TATTATACAT
6099020 TTCTATCCTGAAA
1 TTCTATCCTGAAA
6099033 TTCTATCCTGAAA
1 TTCTATCCTGAAA
6099046 T
1 T
6099047 CTGAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (13 bp):
TTCTATCCTGAAA
Found at i:6104473 original size:3 final size:3
Alignment explanation
Indices: 6104460--6104517 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
6104450 AACTTATTTC
* *
6104460 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6104507 ATTA AT- ATA AT
1 A-TA ATA ATA AT
6104518 TTATTATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.88
4 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6106231 original size:58 final size:60
Alignment explanation
Indices: 6106105--6106239 Score: 143
Period size: 58 Copynumber: 2.3 Consensus size: 60
6106095 TGATTATCTT
* * * * * *
6106105 AATATTCAATTTAATTTTATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAACATTATATTAATTTAATA-ATTA
*
6106166 AATATTAAATTTAATCTAATATTTATC-T-T-GATAAGCATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAACATTATATTAATTTAATAATTA
*
6106222 AAGTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
6106240 ATAGTTGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.50
59 1 0.02
60 1 0.02
61 24 0.38
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATCTTGTAGATAAACATTATATTAATTTAATAATTA
Found at i:6107991 original size:84 final size:84
Alignment explanation
Indices: 6107829--6108110 Score: 266
Period size: 84 Copynumber: 3.3 Consensus size: 84
6107819 GCACATCAAT
** * ** * *
6107829 CTAGCACCGTAGTGCATCATCAAATAAACCGAAGGA-AAT-GGACTGTCACCTATAGTGCATCAT
1 CTAGCACCAAAGTGCATCATCGAATAAACCGAA--ACAATCATACTGGCACATA-AGTGCATCAT
* * *
6107892 TGGACAATCCAAAGCAATTATA
63 TGGATAAACCAAAGCAAATATA
* * * ** *
6107914 CTAGCACGCAAAATGCATCATCGGATGAACCG-AATGATCATACTGGTACATAAGTGCATCATTG
1 CTAGCAC-CAAAGTGCATCATCGAATAAACCGAAACAATCATACTGGCACATAAGTGCATCATTG
** **
6107978 GATAAACTGAAGCAACCATA
65 GATAAACCAAAGCAAATATA
*
6107998 CTAGCA-CATAAGTGCATCATCGAATAAACCGAAACAATCATACTGGCACATAAATGCATCATTG
1 CTAGCACCA-AAGTGCATCATCGAATAAACCGAAACAATCATACTGGCACATAAGTGCATCATTG
6108062 GATAAACCAAAGCAAATATA
65 GATAAACCAAAGCAAATATA
* * *
6108082 CTGGCACACATAGTGCATCATCGACTAAA
1 CTAGCAC-CAAAGTGCATCATCGAATAAA
6108111 TCAAAGTATA
Statistics
Matches: 158, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
82 2 0.01
83 20 0.13
84 83 0.53
85 33 0.21
86 20 0.13
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (84 bp):
CTAGCACCAAAGTGCATCATCGAATAAACCGAAACAATCATACTGGCACATAAGTGCATCATTGG
ATAAACCAAAGCAAATATA
Found at i:6107998 original size:42 final size:42
Alignment explanation
Indices: 6107882--6108102 Score: 187
Period size: 42 Copynumber: 5.2 Consensus size: 42
6107872 TGTCACCTAT
* * * ** *
6107882 AGTGCATCATTGGACAATCCAAAGCAATTATACTAGCACGCA-A
1 AGTGCATCATTGGATAAACCGAAGCAAACATACTGGCA--CATA
* * * * *
6107925 AATGCATCATCGGATGAACCGAATG--ATCATACTGGTACATA
1 AGTGCATCATTGGATAAACCGAA-GCAAACATACTGGCACATA
* * *
6107966 AGTGCATCATTGGATAAACTGAAGCAACCATACTAGCACATA
1 AGTGCATCATTGGATAAACCGAAGCAAACATACTGGCACATA
* * * *
6108008 AGTGCATCATCGAATAAACCGAAACAATCATACTGGCACATA
1 AGTGCATCATTGGATAAACCGAAGCAAACATACTGGCACATA
* * * *
6108050 AATGCATCATTGGATAAACCAAAGCAAATATACTGGCACACA
1 AGTGCATCATTGGATAAACCGAAGCAAACATACTGGCACATA
6108092 TAGTGCATCAT
1 -AGTGCATCAT
6108103 CGACTAAATC
Statistics
Matches: 142, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
40 3 0.02
41 20 0.14
42 92 0.65
43 26 0.18
44 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (42 bp):
AGTGCATCATTGGATAAACCGAAGCAAACATACTGGCACATA
Found at i:6109047 original size:13 final size:13
Alignment explanation
Indices: 6109025--6109064 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
6109015 TAATTTTCGA
6109025 TTTCAAGTCCAAT
1 TTTCAAGTCCAAT
*
6109038 TTTTAAGTCCAAT
1 TTTCAAGTCCAAT
*
6109051 TTTCAAGTTCAAT
1 TTTCAAGTCCAAT
6109064 T
1 T
6109065 ACCCATTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.45
Consensus pattern (13 bp):
TTTCAAGTCCAAT
Found at i:6109826 original size:25 final size:24
Alignment explanation
Indices: 6109798--6109844 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
6109788 TATAGTTCAA
6109798 ATCA-CAATCCTATCATTCTCAATTC
1 ATCATCAATCC-ATCATT-TCAATTC
*
6109823 ATCATCAATTCATCATTTCAAT
1 ATCATCAATCCATCATTTCAAT
6109845 ACAATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (24 bp):
ATCATCAATCCATCATTTCAATTC
Found at i:6112647 original size:24 final size:24
Alignment explanation
Indices: 6112603--6112648 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6112593 ATGGTTTTTT
*
6112603 AAATAATTATTAATTTTTTAAAAA
1 AAATAATTATTAATTTCTTAAAAA
*
6112627 AAATATATTTTTAA-TTCTTAAA
1 AAATA-ATTATTAATTTCTTAAA
6112649 TAGGCACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATAATTATTAATTTCTTAAAAA
Found at i:6112930 original size:28 final size:30
Alignment explanation
Indices: 6112847--6112933 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 30
6112837 ACCAATTAAT
* * *
6112847 TAATTTTTTTA-AA-ATAAAAATATTGAAAA
1 TAATTTTTTTAGAATTTATAAA-ATTAAAAA
* **
6112876 TAATTTTTTTATAATTTATAATTTTAAAAA
1 TAATTTTTTTAGAATTTATAAAATTAAAAA
*
6112906 T-ATTTTTTT-GAATTTTTAAAATTAAAAA
1 TAATTTTTTTAGAATTTATAAAATTAAAAA
6112934 ATTAAAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 15 0.32
29 19 0.40
30 9 0.19
31 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
TAATTTTTTTAGAATTTATAAAATTAAAAA
Found at i:6122170 original size:31 final size:31
Alignment explanation
Indices: 6122135--6122193 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
6122125 AACAATCCGA
*
6122135 TGACTTAAATAAAATTTTTTGAATAGTTTCG
1 TGACTTAAATAAAATTTTTCGAATAGTTTCG
6122166 TGACTTAAATAAAATTTTTCGAATAGTT
1 TGACTTAAATAAAATTTTTCGAATAGTT
6122194 AAATGATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (31 bp):
TGACTTAAATAAAATTTTTCGAATAGTTTCG
Found at i:6126197 original size:20 final size:20
Alignment explanation
Indices: 6126153--6126220 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
6126143 GCCCTATGGG
6126153 AAAAGCACAGCAAAG-GAAAA
1 AAAAGCACAGCAAAGTG-AAA
*
6126173 AAAAGTACAGCAAAGTGAAA
1 AAAAGCACAGCAAAGTGAAA
* * * *
6126193 AAAAGGAGAGCAAAATTAAA
1 AAAAGCACAGCAAAGTGAAA
6126213 AAAAGCAC
1 AAAAGCAC
6126221 TGCCAATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 39 0.98
21 1 0.03
ACGTcount: A:0.63, C:0.12, G:0.19, T:0.06
Consensus pattern (20 bp):
AAAAGCACAGCAAAGTGAAA
Found at i:6126414 original size:27 final size:26
Alignment explanation
Indices: 6126311--6126420 Score: 127
Period size: 26 Copynumber: 4.2 Consensus size: 26
6126301 TTTAAAATTT
6126311 AAAATTAAAAA-AGTGAAAAAGCGGGG
1 AAAATTAAAAATAGTGAAAAAG-GGGG
* * *
6126337 -AAATTAAAAATATTGCAAAAGGGGA
1 AAAATTAAAAATAGTGAAAAAGGGGG
*
6126362 AAAATTAAAAATAATGGAAAAA-GGGG
1 AAAATTAAAAATAGT-GAAAAAGGGGG
6126388 AAAATTAAAAATAGTGAAAGAAGGGGG
1 AAAATTAAAAATAGTGAAA-AAGGGGG
*
6126415 GAAATT
1 AAAATT
6126421 TTAAAATGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
25 17 0.24
26 40 0.56
27 14 0.20
ACGTcount: A:0.57, C:0.02, G:0.25, T:0.16
Consensus pattern (26 bp):
AAAATTAAAAATAGTGAAAAAGGGGG
Found at i:6126565 original size:23 final size:24
Alignment explanation
Indices: 6126524--6126579 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
6126514 AAACCGTTAA
6126524 AAAAATAAAAAGAGGGAAAAA-AAG
1 AAAAA-AAAAAGAGGGAAAAAGAAG
*
6126548 TAAAAAAAAAA-AGTGAAAAAGAAG
1 -AAAAAAAAAAGAGGGAAAAAGAAG
6126572 AAAAAAAA
1 AAAAAAAA
6126580 TTGAAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 16 0.55
24 8 0.28
25 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (24 bp):
AAAAAAAAAAGAGGGAAAAAGAAG
Found at i:6126566 original size:21 final size:20
Alignment explanation
Indices: 6126542--6126586 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6126532 AAAGAGGGAA
6126542 AAAAAGTAAAAAAAAAAAGTG
1 AAAAAG-AAAAAAAAAAAGTG
* *
6126563 AAAAAGAAGAAAAAAAATTG
1 AAAAAGAAAAAAAAAAAGTG
6126583 AAAA
1 AAAA
6126587 TGATGATTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (20 bp):
AAAAAGAAAAAAAAAAAGTG
Found at i:6126665 original size:28 final size:28
Alignment explanation
Indices: 6126599--6126660 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
6126589 ATGATTGGTG
* *
6126599 AAAATAAGGAAGGTGAAAAAAAAGAACA
1 AAAATAAGGAAGGTAAAAAAAAAAAACA
*
6126627 AAAATAAGGAAGGTAAAAAAAGAAAAAGA
1 AAAATAAGGAAGGTAAAAAAA-AAAAACA
6126656 AAAAT
1 AAAAT
6126661 CGGAATATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 20 0.67
29 10 0.33
ACGTcount: A:0.71, C:0.02, G:0.19, T:0.08
Consensus pattern (28 bp):
AAAATAAGGAAGGTAAAAAAAAAAAACA
Found at i:6127657 original size:33 final size:31
Alignment explanation
Indices: 6127612--6127695 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 31
6127602 TTTTGTGAGA
*
6127612 TTAA-TAAGAATTTTCAAAAAAATTTAAAACAGT
1 TTAATTAA-AATTTTCAAAAAAAATT-AAA-AGT
6127645 TTAATTAAAATTTT-AAAAAAAATTAAAAGT
1 TTAATTAAAATTTTCAAAAAAAATTAAAAGT
* *
6127675 TATAATGAGAATTTTCAAAAA
1 T-TAATTAAAATTTTCAAAAA
6127696 TTTGAGGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
30 4 0.09
31 14 0.31
32 14 0.31
33 10 0.22
34 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (31 bp):
TTAATTAAAATTTTCAAAAAAAATTAAAAGT
Found at i:6128595 original size:34 final size:34
Alignment explanation
Indices: 6128552--6128618 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
6128542 TTTATTCACT
6128552 TGTGTCTTGATCCGTAGAAATCTCTAAACTATGA
1 TGTGTCTTGATCCGTAGAAATCTCTAAACTATGA
*
6128586 TGTGTCTTGATCCGTAGAAATCTCTAAATTATG
1 TGTGTCTTGATCCGTAGAAATCTCTAAACTATG
6128619 TTAATATCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (34 bp):
TGTGTCTTGATCCGTAGAAATCTCTAAACTATGA
Found at i:6134938 original size:27 final size:27
Alignment explanation
Indices: 6134907--6134962 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
6134897 TTATTGTTAA
6134907 TTTTGTTATTATTTTAAAGACATTTGT
1 TTTTGTTATTATTTTAAAGACATTTGT
* *
6134934 TTTTGTTATTATTTTAGAGGCATTTGT
1 TTTTGTTATTATTTTAAAGACATTTGT
6134961 TT
1 TT
6134963 GTTAAGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.14, T:0.61
Consensus pattern (27 bp):
TTTTGTTATTATTTTAAAGACATTTGT
Found at i:6138669 original size:21 final size:21
Alignment explanation
Indices: 6138627--6138670 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6138617 TAATAAAATA
*
6138627 TATTATATATTATTTTTATAG
1 TATTATATATTATATTTATAG
6138648 TATTATATATTATGATTT-TAG
1 TATTATATATTAT-ATTTATAG
6138669 TA
1 TA
6138671 AATTCATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TATTATATATTATATTTATAG
Found at i:6138712 original size:17 final size:18
Alignment explanation
Indices: 6138687--6138731 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
6138677 TATAAGAATA
*
6138687 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
6138704 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
6138722 ATTAAATTAT
1 ATTAAATTAT
6138732 GTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:6138821 original size:118 final size:118
Alignment explanation
Indices: 6138617--6138833 Score: 334
Period size: 118 Copynumber: 1.8 Consensus size: 118
6138607 GGTTTAAAAA
* *
6138617 TAATAAAATATATTATATATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
1 TAATAAAATATATTATAAATTATATTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
*
6138682 GAATAATTATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATGTT
66 GAATAATTATATTAACAATTTTATTAAATTATATATTTTTATTAAATTATGTT
*
6138735 TAATAATAAT-TATTTTAAATTATATTT-TAGTATTATATATTATGATTTTATTAGTAAATTCAT
1 TAATAA-AATATATTATAAATTATATTTATAGTATTATATATTATGA--TT-TTAGTAAATTCAT
6138798 ATAAGAAT-ATT-TATTAACAATTTTATTAAATTATAT
62 ATAAGAATAATTATATTAACAATTTTATTAAATTATAT
6138834 TTTATAACAG
Statistics
Matches: 91, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
117 18 0.20
118 44 0.48
119 8 0.09
120 21 0.23
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (118 bp):
TAATAAAATATATTATAAATTATATTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
GAATAATTATATTAACAATTTTATTAAATTATATATTTTTATTAAATTATGTT
Found at i:6138833 original size:59 final size:59
Alignment explanation
Indices: 6138653--6138834 Score: 139
Period size: 59 Copynumber: 3.1 Consensus size: 59
6138643 TATAGTATTA
*
6138653 TATATTATGA--TT-TTAGTAAATTCATATAAGAATAATTATATTAAGAATTTTATTAAAT
1 TATATTATGATTTTATTAGTAAATTCATATAAGAAT-ATT-TATTAACAATTTTATTAAAT
* ** * * * * * *
6138711 TATA-TAT--TTTTATTAAATTATGTTTA-ATAATAATTATTT-TAAATTATATTTTAGT-ATT
1 TATATTATGATTTTATT--AGTAAATTCATATAAGAA-TATTTATTAA-CA-ATTTTATTAAAT
6138769 ATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAAT
1 -TATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAAT
6138829 TATATT
1 TATATT
6138835 TTATAACAGT
Statistics
Matches: 91, Mismatches: 18, Indels: 29
0.66 0.13 0.21
Matches are distributed among these distances:
57 8 0.09
58 10 0.11
59 33 0.36
60 24 0.26
61 9 0.10
62 7 0.08
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (59 bp):
TATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAAT
Found at i:6140648 original size:45 final size:45
Alignment explanation
Indices: 6140584--6140764 Score: 362
Period size: 45 Copynumber: 4.0 Consensus size: 45
6140574 ACTTACGGTG
6140584 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
1 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
6140629 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
1 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
6140674 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
1 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
6140719 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
1 AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
6140764 A
1 A
6140765 TGGCTATAAT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (45 bp):
AGCTAAGAACTTGGGTCATCTAAATCAAGACAAGTTTCAAATTCA
Found at i:6144679 original size:12 final size:12
Alignment explanation
Indices: 6144662--6144690 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6144652 ATTTACAATT
6144662 CCATTACTTACA
1 CCATTACTTACA
6144674 CCATTACTTACA
1 CCATTACTTACA
6144686 CCATT
1 CCATT
6144691 TCTTCTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (12 bp):
CCATTACTTACA
Found at i:6146779 original size:18 final size:18
Alignment explanation
Indices: 6146756--6146793 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6146746 GTTTCCCAGG
6146756 TTAGGATTTTTAAGGTTT
1 TTAGGATTTTTAAGGTTT
*
6146774 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAAGGTTT
6146792 TT
1 TT
6146794 GGAGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (18 bp):
TTAGGATTTTTAAGGTTT
Found at i:6146784 original size:10 final size:9
Alignment explanation
Indices: 6146756--6146793 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
6146746 GTTTCCCAGG
6146756 TTAGGATTT
1 TTAGGATTT
6146765 TTAAGG-TTT
1 TT-AGGATTT
6146774 TTAGGATTT
1 TTAGGATTT
*
6146783 TTAGGGTTT
1 TTAGGATTT
6146792 TT
1 TT
6146794 GGAGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 3 0.12
9 20 0.77
10 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (9 bp):
TTAGGATTT
Found at i:6147145 original size:127 final size:126
Alignment explanation
Indices: 6146951--6147355 Score: 620
Period size: 126 Copynumber: 3.2 Consensus size: 126
6146941 GTCTCGGTCA
* *
6146951 CGTGTACGCGCTTTTGCTACAGTAGGTTCT-AGAAAAATAATTTTGAGTTGACGTTTCTGAGCAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGA-AAAAATAATTTTGAGTTGACGTTTCTGAGCAA
*
6147015 ATAGTTTAAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCTT
65 ATAGTTTAAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCT
* * **
6147077 CGTGGATGCGCTTTTGCTACAGTTA-GTCCTGAAAGAAATAATTTCGAGTTGATATTTCTGAGCA
1 CGTGGACGCGCTTTTGCTACAG-TAGGTCCTGAAA-AAATAATTTTGAGTTGACGTTTCTGAGCA
*
6147141 AATAGTTT-AAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCA
64 AATAGTTTAAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCT
*
6147203 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATATTTTTGAGTTGACGTTTCTGAGCAAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAA
* * *
6147268 TAGTATAAAACAACGCTGCAAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCT
66 TAGTTTAAAAAAACGCTTCAAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCT
* *
6147329 CGTGGACGCACTTTCGCTACAGTAGGT
1 CGTGGACGCGCTTTTGCTACAGTAGGT
6147356 AGGGGTGTGC
Statistics
Matches: 254, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
125 34 0.13
126 181 0.71
127 39 0.15
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (126 bp):
CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAA
TAGTTTAAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCT
Found at i:6147623 original size:18 final size:18
Alignment explanation
Indices: 6147597--6147681 Score: 125
Period size: 18 Copynumber: 4.7 Consensus size: 18
6147587 GTAGTGATTC
*
6147597 AATTTGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
6147615 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
6147633 AATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* *
6147651 AATTCGGTTAATTCAGTT
1 AATTCGGTTAATTCGGGT
*
6147669 AATTCTGTTAATT
1 AATTCGGTTAATT
6147682 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:6147669 original size:9 final size:9
Alignment explanation
Indices: 6147597--6147681 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
6147587 GTAGTGATTC
*
6147597 AATTTGGTT
1 AATTCGGTT
*
6147606 AATTCGGGT
1 AATTCGGTT
6147615 AATTCGGTT
1 AATTCGGTT
*
6147624 AATTCGGGT
1 AATTCGGTT
*
6147633 AATTCGGGT
1 AATTCGGTT
*
6147642 AATTCGGGT
1 AATTCGGTT
6147651 AATTCGGTT
1 AATTCGGTT
*
6147660 AATTCAGTT
1 AATTCGGTT
*
6147669 AATTCTGTT
1 AATTCGGTT
6147678 AATT
1 AATT
6147682 TTTAACCAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 69 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:6147860 original size:12 final size:12
Alignment explanation
Indices: 6147843--6147867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6147833 TGTTATTTTG
6147843 GGTCGGTTAACC
1 GGTCGGTTAACC
6147855 GGTCGGTTAACC
1 GGTCGGTTAACC
6147867 G
1 G
6147868 AATGAACATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:6148612 original size:7 final size:7
Alignment explanation
Indices: 6148600--6148631 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
6148590 TTATATAAAT
6148600 AATACTA
1 AATACTA
6148607 AATACTA
1 AATACTA
6148614 AATACTA
1 AATACTA
6148621 AATACTA
1 AATACTA
6148628 AATA
1 AATA
6148632 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:6148802 original size:20 final size:20
Alignment explanation
Indices: 6148777--6148814 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6148767 TTTTATTTTA
6148777 AAAATCTAA-ATAATAATTGT
1 AAAATCTAATATAA-AATTGT
6148797 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
6148815 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:6149825 original size:11 final size:11
Alignment explanation
Indices: 6149811--6149887 Score: 79
Period size: 11 Copynumber: 6.9 Consensus size: 11
6149801 TTAAATATGG
6149811 ATTTGAGAGAA
1 ATTTGAGAGAA
* *
6149822 ATTTGAAAGGA
1 ATTTGAGAGAA
6149833 ATTTGAGAGTAA
1 ATTTGAGAG-AA
6149845 A-TTGAGAGGAA
1 ATTTGAGA-GAA
6149856 ATTT-AGAGGAA
1 ATTTGAGA-GAA
6149867 A-TTGAGAGGAA
1 ATTTGAGA-GAA
6149878 ATTTGAGAGA
1 ATTTGAGAGA
6149888 GGATTAGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 2 0.04
11 44 0.77
12 11 0.19
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Done.