Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 130 of 145
Found at i:43641365 original size:150 final size:150
Alignment explanation
Indices: 43641145--43641446 Score: 514
Period size: 150 Copynumber: 2.0 Consensus size: 150
43641135 GATTCTCTAG
*
43641145 AGCTCTTAAGAAAGCTACTTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
1 AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
* * ** *
43641210 GAGCTTCTATAGTTGATGTTGAAGATGACAAAATTTGTTGCACATTTTGCCGCAGCATTGGTTGA
66 AAGCTTCCATAAATGATGTTGAAGATGACAAAATTTGTTACACATTTTGCCGCAGCATTGGTTGA
*
43641275 CTGTATCCAGGTGGTACACC
131 CTGTATCCAGATGGTACACC
43641295 AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
1 AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
**
43641360 AAGCTTCCATAAATGATGTTGAAGATGACAAGCTTTGTTACACATTTTGCCGCAGCATTGGTTGA
66 AAGCTTCCATAAATGATGTTGAAGATGACAAAATTTGTTACACATTTTGCCGCAGCATTGGTTGA
*
43641425 TTGTATCCAGATGGTACACC
131 CTGTATCCAGATGGTACACC
43641445 AG
1 AG
43641447 TCACATTCTG
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
150 142 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (150 bp):
AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
AAGCTTCCATAAATGATGTTGAAGATGACAAAATTTGTTACACATTTTGCCGCAGCATTGGTTGA
CTGTATCCAGATGGTACACC
Found at i:43644540 original size:30 final size:30
Alignment explanation
Indices: 43644506--43644581 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
43644496 TGGTTGATAC
* * * **
43644506 ATCCCTTTTCGTAATTCGATAATCGAAGTT
1 ATCCCTTTTCATAATTCGACAACCGAACCT
* *
43644536 ATCCCTTTTCATAGTTCGACAGCCGAACCT
1 ATCCCTTTTCATAATTCGACAACCGAACCT
43644566 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
43644582 TGATGGTTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCGAACCT
Found at i:43644600 original size:30 final size:30
Alignment explanation
Indices: 43644566--43644755 Score: 138
Period size: 30 Copynumber: 6.4 Consensus size: 30
43644556 AGCCGAACCT
*
43644566 ATCCCTTTTCATAATTTGATGGTTGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
43644596 ATCCCTTTTCATTATTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * * *
43644626 ATACCTTTTCATAATTTGATAGCCG-AAGCT
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* * ** **
43644656 ATCCCTTTTAATAGA-TCGATATTC-AAAGCC
1 ATCCCTTTTCATA-ATTTGATGGTCGTCA-CC
* *
43644686 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * *
43644716 ATCCCTATTC-T-TTGTTGATGGTCATCACC
1 ATCCCTTTTCATAAT-TTGATGGTCGTCACC
43644745 ATCCCTTTTCA
1 ATCCCTTTTCA
43644756 CAATCAATAG
Statistics
Matches: 126, Mismatches: 27, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
28 1 0.01
29 24 0.19
30 99 0.79
31 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:43644658 original size:90 final size:90
Alignment explanation
Indices: 43644539--43644717 Score: 220
Period size: 90 Copynumber: 2.0 Consensus size: 90
43644529 CGAAGTTATC
* * * * ***
43644539 CCTTTTCATAGTTCGACAGCCGAACCTATCCCTTTTCATA-ATTTGATGGTTGTCA-CCATCCCT
1 CCTTTTCATAATTCGACAGCCGAACCTATCCCTTTTAATAGA-TCGAT-ATTCAAAGCCATCCCT
43644602 TTTCATTA-TTCGATGGTCGTCACCATA
64 TTTCA-TAGTTCGATGGTCGTCACCATA
* * *
43644629 CCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTAATAGATCGATATTCAAAGCCATCCCTTT
1 CCTTTTCATAATTCGACAGCCGAACCTATCCCTTTTAATAGATCGATATTCAAAGCCATCCCTTT
43644694 TCATAGTTCGATGGTCGTCACCAT
66 TCATAGTTCGATGGTCGTCACCAT
43644718 CCCTATTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
89 5 0.07
90 70 0.92
91 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (90 bp):
CCTTTTCATAATTCGACAGCCGAACCTATCCCTTTTAATAGATCGATATTCAAAGCCATCCCTTT
TCATAGTTCGATGGTCGTCACCATA
Found at i:43644743 original size:29 final size:30
Alignment explanation
Indices: 43644684--43644755 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
43644674 ATATTCAAAG
* *
43644684 CCATCCCTTTTCATAGTTCGATGGTCGTCA
1 CCATCCCTATTCATAGTTCGATGGTCATCA
* *
43644714 CCATCCCTATTCTTTGTT-GATGGTCATCA
1 CCATCCCTATTCATAGTTCGATGGTCATCA
*
43644743 CCATCCCTTTTCA
1 CCATCCCTATTCA
43644756 CAATCAATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.17, C:0.32, G:0.12, T:0.39
Consensus pattern (30 bp):
CCATCCCTATTCATAGTTCGATGGTCATCA
Found at i:43644777 original size:29 final size:29
Alignment explanation
Indices: 43644745--43644813 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
43644735 GGTCATCACC
* *
43644745 ATCCCTTTTCACAATCAATAGCCGAAGCT
1 ATCCCTTTTCACAATCAATAGCCAAAACT
* ** * *
43644774 ATCCCTTTCCGTATTCGATAGCCAAAACT
1 ATCCCTTTTCACAATCAATAGCCAAAACT
43644803 ATCCCTTTTCA
1 ATCCCTTTTCA
43644814 TTCGTCGATG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (29 bp):
ATCCCTTTTCACAATCAATAGCCAAAACT
Found at i:43651201 original size:79 final size:80
Alignment explanation
Indices: 43651082--43651245 Score: 303
Period size: 79 Copynumber: 2.1 Consensus size: 80
43651072 TAAAACATGT
43651082 ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATT-TA
1 ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATTGTA
43651146 CCATTTGTTTTACCA
66 CCATTTGTTTTACCA
*
43651161 ACCAATATAAACACAAATTGGTCAATTGTTAAACTCATACTTAACCAAGTTTATACCATATTGTA
1 ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATTGTA
*
43651226 CCATTTGTTTTACTA
66 CCATTTGTTTTACCA
43651241 ACCAA
1 ACCAA
43651246 AAACATACCA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 61 0.74
80 21 0.26
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.35
Consensus pattern (80 bp):
ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATTGTA
CCATTTGTTTTACCA
Found at i:43651971 original size:30 final size:30
Alignment explanation
Indices: 43651931--43652028 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 30
43651921 ATGTTGATAC
* * *
43651931 ATCCTTTTTCATAATTTGATAATCGAAGTT
1 ATCCCTTTTCATAATTTGATAACCGAAGCT
* * * *
43651961 ATCCCTTTTCATAGTTCGACAGCCGAAGCT
1 ATCCCTTTTCATAATTTGATAACCGAAGCT
*
43651991 ATCCCTTTTCATAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTTGATAACCGAAGCT
*
43652021 ATCTCTTT
1 ATCCCTTT
43652029 CCACAGATCG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACCGAAGCT
Found at i:43652048 original size:60 final size:60
Alignment explanation
Indices: 43651930--43652062 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
43651920 GATGTTGATA
* * * * * *
43651930 CATCCTTTTTCATAATTTGATAATCGAAGTTATCCCTTTTCATAGTTCGACAGCCGAAGC
1 CATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTCCACAGATCGACAGCCGAAGC
* * * * *
43651990 TATCCCTTTTCATAATTTGATAGCCGAAGCTATCTCTTTCCACAGATCGATAGTCGAAGC
1 CATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTCCACAGATCGACAGCCGAAGC
43652050 CATCCCTTTTCAT
1 CATCCCTTTTCAT
43652063 TGTTCGATGG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (60 bp):
CATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTCCACAGATCGACAGCCGAAGC
Found at i:43652070 original size:30 final size:30
Alignment explanation
Indices: 43651961--43652070 Score: 121
Period size: 30 Copynumber: 3.7 Consensus size: 30
43651951 AATCGAAGTT
* *
43651961 ATCCCTTTTCATAGTTCGACAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* * *
43651991 ATCCCTTTTCATAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* * * * *
43652021 ATCTCTTTCCACAGATCGATAGTCGAAGCC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
*
43652051 ATCCCTTTTCATTGTTCGAT
1 ATCCCTTTTCATAGTTCGAT
43652071 GGTCATCACC
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCC
Found at i:43652121 original size:29 final size:29
Alignment explanation
Indices: 43652049--43652117 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 29
43652039 ATAGTCGAAG
43652049 CCATCCCTTTTCATTGTTCGATGGTCATCA
1 CCAT-CCTTTTCATTGTTCGATGGTCATCA
*
43652079 CCATACCTTTTCATTGTT-GATGGTTATCA
1 CCAT-CCTTTTCATTGTTCGATGGTCATCA
43652108 CCATCCTTTT
1 CCATCCTTTT
43652118 TCATCATCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 6 0.16
29 14 0.38
30 17 0.46
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.43
Consensus pattern (29 bp):
CCATCCTTTTCATTGTTCGATGGTCATCA
Found at i:43652142 original size:29 final size:29
Alignment explanation
Indices: 43652110--43652179 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
43652100 GGTTATCACC
*
43652110 ATCCTTTTTCAT-CATCGATAGCTGAAGCT
1 ATCCCTTTTCATAC-TCGATAGCTGAAGCT
*
43652139 ATCCCTTTTCGTACTCGATAGCTGAAGCT
1 ATCCCTTTTCATACTCGATAGCTGAAGCT
43652168 ATCCCTTTTCAT
1 ATCCCTTTTCAT
43652180 TTGTCGATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATACTCGATAGCTGAAGCT
Found at i:43662782 original size:25 final size:25
Alignment explanation
Indices: 43662728--43662782 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
43662718 AAGCATTAAA
*
43662728 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
43662753 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
43662777 TATTAA
1 T-TTAA
43662783 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:43668672 original size:15 final size:15
Alignment explanation
Indices: 43668652--43668685 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
43668642 TTTCTCGTTT
43668652 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
*
43668667 TTTTCATTTATTTCC
1 TTTTCATTTATTTAC
43668682 TTTT
1 TTTT
43668686 TTATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:43678177 original size:29 final size:29
Alignment explanation
Indices: 43677992--43678175 Score: 188
Period size: 29 Copynumber: 6.3 Consensus size: 29
43677982 AAAGAAAGCT
* * **
43677992 TTTGTGGGTATCTCTGATTAAAAAGATTTC
1 TTTGTGGCTATCTCT-ATTAAAAGGATGCC
* ** * * *
43678022 TTTATGGAAATCTCTGGTTAAAAGGATACA
1 TTTGTGGCTATCTCT-ATTAAAAGGATGCC
*
43678052 TTTGTGGCTATCTCTATTAAAAGGACGCC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
* * * *
43678081 TTTGTGGCTATCTTTGTTAAAAGGAAGTC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
* *
43678110 TTTGTGGCTATCTTTATTAAAAGGAAGCC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
*
43678139 TTTGTGGCAATCTCTATTAAAAGGATGCC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
43678168 TTTGTGGC
1 TTTGTGGC
43678176 AAGACTCTAG
Statistics
Matches: 130, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 96 0.74
30 34 0.26
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (29 bp):
TTTGTGGCTATCTCTATTAAAAGGATGCC
Found at i:43680197 original size:29 final size:29
Alignment explanation
Indices: 43680012--43680195 Score: 188
Period size: 29 Copynumber: 6.3 Consensus size: 29
43680002 AAAGAAAGCT
* * **
43680012 TTTGTGGGTATCTCTGATTAAAAAGATTTC
1 TTTGTGGCTATCTCT-ATTAAAAGGATGCC
* ** * * *
43680042 TTTATGGAAATCTCTGGTTAAAAGGATACA
1 TTTGTGGCTATCTCT-ATTAAAAGGATGCC
*
43680072 TTTGTGGCTATCTCTATTAAAAGGACGCC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
* * * *
43680101 TTTGTGGCTATCTTTGTTAAAAGGAAGTC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
* *
43680130 TTTGTGGCTATCTTTATTAAAAGGAAGCC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
*
43680159 TTTGTGGCAATCTCTATTAAAAGGATGCC
1 TTTGTGGCTATCTCTATTAAAAGGATGCC
43680188 TTTGTGGC
1 TTTGTGGC
43680196 AAGACTCTAG
Statistics
Matches: 130, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 96 0.74
30 34 0.26
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (29 bp):
TTTGTGGCTATCTCTATTAAAAGGATGCC
Found at i:43681520 original size:25 final size:26
Alignment explanation
Indices: 43681489--43681544 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
43681479 AAGATGGTTT
*
43681489 TTCTTTCT-A-CTCAACGTTCTAGTTC
1 TTCTTTCTAACCTAAACGTTCTA-TTC
*
43681514 TTCTTTCTAACCTAAATGTTCTATTC
1 TTCTTTCTAACCTAAACGTTCTATTC
43681540 TTCTT
1 TTCTT
43681545 CATTAAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 9 0.33
27 10 0.37
ACGTcount: A:0.18, C:0.25, G:0.05, T:0.52
Consensus pattern (26 bp):
TTCTTTCTAACCTAAACGTTCTATTC
Found at i:43682560 original size:50 final size:50
Alignment explanation
Indices: 43682480--43682604 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 50
43682470 TTTATGTGGT
* *
43682480 GCCTATGTGGCATATAATTTGGAAAGCCTTTGTGGCGAGATACCTAAAAG
1 GCCTATGTGGTATATAATTTGGAAAACCTTTGTGGCGAGATACCTAAAAG
* * * * ** *
43682530 GCCTATGTGGTATATTATTTGGAAAACCTTTGTGTCTAGTTTTCTGAAAG
1 GCCTATGTGGTATATAATTTGGAAAACCTTTGTGGCGAGATACCTAAAAG
*
43682580 GCCTATGTGGTGTATAATTTGGAAA
1 GCCTATGTGGTATATAATTTGGAAA
43682605 GCCTAAGTGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (50 bp):
GCCTATGTGGTATATAATTTGGAAAACCTTTGTGGCGAGATACCTAAAAG
Found at i:43685222 original size:16 final size:17
Alignment explanation
Indices: 43685201--43685234 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
43685191 ATGAACATAA
*
43685201 TTTTATAT-TAATTTAT
1 TTTTATATATAAATTAT
43685217 TTTTATATATAAATTAT
1 TTTTATATATAAATTAT
43685234 T
1 T
43685235 CATTTCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATATATAAATTAT
Found at i:43688786 original size:27 final size:27
Alignment explanation
Indices: 43688746--43688799 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
43688736 TCGAGGCAGA
* *
43688746 CGGCCCAACCAAATGTTGCCCAATAGC
1 CGGCCCAACCAAATGCTACCCAATAGC
*
43688773 CGGCCCAACTAAATGCTACCCAATAGC
1 CGGCCCAACCAAATGCTACCCAATAGC
43688800 AGTCCTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.37, G:0.17, T:0.15
Consensus pattern (27 bp):
CGGCCCAACCAAATGCTACCCAATAGC
Found at i:43691134 original size:17 final size:17
Alignment explanation
Indices: 43691101--43691134 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43691091 TAAAAAATTC
* *
43691101 ATTAAAATTTAATAAAA
1 ATTAAAATTAAAAAAAA
43691118 ATTAAAATTAAAAAAAA
1 ATTAAAATTAAAAAAAA
43691135 CTTTAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAATTAAAAAAAA
Found at i:43696831 original size:17 final size:17
Alignment explanation
Indices: 43696819--43696852 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43696809 GGAAAAAAGG
43696819 AAAAGAAAAAAAAAGAA
1 AAAAGAAAAAAAAAGAA
*
43696836 AAAAGAAAAAGAAAGAA
1 AAAAGAAAAAAAAAGAA
43696853 TAAGAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGAA
Found at i:43698231 original size:44 final size:44
Alignment explanation
Indices: 43698182--43698389 Score: 258
Period size: 44 Copynumber: 5.0 Consensus size: 44
43698172 CGATGACCCT
*
43698182 AGTCCTATCTCCCTGGTCAGCAATGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* *
43698226 AGTCCTATCTCCCTGGTCAGTAGTGGAATAGTTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
*
43698270 AATCCTATCTCCCTGGTCAGCAGTGGAATA-G--G-----TG-A
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* *
43698305 A-TCCTATCT-CCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * *
43698347 AGTCCTATCTCCCTGGTTAGCAGTGGAATAGGTTCAAGATTGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGT
43698390 GAATCTTACT
Statistics
Matches: 144, Mismatches: 9, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
33 19 0.13
34 9 0.06
35 2 0.01
36 3 0.02
41 3 0.02
42 1 0.01
43 8 0.06
44 99 0.69
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
Found at i:43698323 original size:33 final size:34
Alignment explanation
Indices: 43698270--43698335 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
43698260 GAAAATTGTA
43698270 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
43698304 AATCCTATCT-CCTGGTCAGCAGTGGAATAGGT
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGT
43698336 TGAAGATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 22 0.69
34 10 0.31
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (34 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
Found at i:43698356 original size:77 final size:78
Alignment explanation
Indices: 43698228--43698379 Score: 243
Period size: 77 Copynumber: 2.0 Consensus size: 78
43698218 AAATTGTAAG
* *
43698228 TCCTATCTCCCTGGTCAGTAGTGGAATAGTTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
43698293 TGGAATAGGTGAA
66 TGGAATAGGTGAA
* * * *
43698306 TCCTATCT-CCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTTAGCAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
43698370 TGGAATAGGT
66 TGGAATAGGT
43698380 TCAAGATTGT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
77 60 0.88
78 8 0.12
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (78 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
TGGAATAGGTGAA
Found at i:43698969 original size:101 final size:101
Alignment explanation
Indices: 43698706--43699208 Score: 816
Period size: 101 Copynumber: 5.0 Consensus size: 101
43698696 ACAGTGGAGC
* * * *
43698706 AGATTAAAGCCGC-AACGACGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCT-CG
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
* *
43698769 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
66 ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
*
43698805 AGATTGAAGCCGC-AACGACGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
43698869 ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
66 ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
* *
43698905 AGATTGAAGCCGGAAACGGCAAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
43698970 ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
66 ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
* *
43699006 AGATTGAAGCCGCAAACGGTGGATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
43699071 ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
66 ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
* * *
43699107 AGATTAAAGCCGCAAACGGTGAATTTTACTTCCCTGGCGGTGT-GTGGAACAGGTTGAAGCTACG
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
* * *
43699171 ACGGCGAATCTTGTTTCCCCAACATTACAATTTAAAA
66 ACAGCGAATCTCGTTTCCCCAACATTGCAA-TTAAAA
43699208 A
1 A
43699209 ACTAAAGATG
Statistics
Matches: 383, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
99 58 0.15
100 95 0.25
101 230 0.60
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (101 bp):
AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
Found at i:43699010 original size:50 final size:50
Alignment explanation
Indices: 43698756--43699116 Score: 145
Period size: 50 Copynumber: 7.2 Consensus size: 50
43698746 GTAGTGGAAC
* *
43698756 AGATTGAAGCT-CGACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
** * * *** *** ** * * ** *
43698805 AGATTGAAGCCGCAAC-GACGAATTTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACGACAG-CGAATCTCGTTTCCCCAACATTGCAATTAAAA
43698855 AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
* * * *** *** ** * * ** *
43698905 AGATTGAAGC--CGGAAACGGCAAATTTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTAC-G--ACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
43698956 AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
** * * * * * *** *** ** * * ** *
43699006 AGATTGAAGCCGCAAACGGTGGATTTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTAC-GACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
43699057 AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
*
43699107 AGATTAAAGC
1 AGATTGAAGC
43699117 CGCAAACGGT
Statistics
Matches: 197, Mismatches: 106, Indels: 17
0.62 0.33 0.05
Matches are distributed among these distances:
48 1 0.01
49 12 0.06
50 121 0.61
51 61 0.31
52 1 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACGACAGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
Found at i:43699827 original size:19 final size:19
Alignment explanation
Indices: 43699803--43699860 Score: 89
Period size: 19 Copynumber: 3.0 Consensus size: 19
43699793 AATCTTCAAG
43699803 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAAATAT
* *
43699822 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAAATAT
43699841 GATATGCAATCTTAGAATAT
1 GATATGCAATCTTA-AATAT
43699861 ATGATTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 30 0.88
20 4 0.12
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAAATAT
Found at i:43699847 original size:38 final size:41
Alignment explanation
Indices: 43699803--43699879 Score: 115
Period size: 38 Copynumber: 1.9 Consensus size: 41
43699793 AATCTTCAAG
43699803 GATATGCAATCTT-AA-ATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAATATATGATTATGTAATCTTAGATAT
*
43699841 GATATGCAATCTTAGAATATATGATTTTGTAATCTTAGA
1 GATATGCAATCTTA-AATATATGATTATGTAATCTTAGA
43699880 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
40 2 0.06
41 6 0.18
42 13 0.38
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (41 bp):
GATATGCAATCTTAAATATATGATTATGTAATCTTAGATAT
Found at i:43700126 original size:23 final size:23
Alignment explanation
Indices: 43700082--43700126 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
43700072 TCTTATTTTG
* *
43700082 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
43700105 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
43700127 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:43712531 original size:11 final size:11
Alignment explanation
Indices: 43712503--43712538 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
43712493 TGCAACCGGA
*
43712503 GGTACAACAGG
1 GGTACAATAGG
43712514 TGGTACAATAGG
1 -GGTACAATAGG
43712526 GGTACAATAGG
1 GGTACAATAGG
43712537 GG
1 GG
43712539 GGAGGTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.33, C:0.11, G:0.39, T:0.17
Consensus pattern (11 bp):
GGTACAATAGG
Found at i:43717464 original size:9 final size:9
Alignment explanation
Indices: 43717435--43717465 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43717425 TGAATTTCAC
43717435 AATTCGAAT
1 AATTCGAAT
*
43717444 AACTCGAAT
1 AATTCGAAT
43717453 AATTCGAAT
1 AATTCGAAT
43717462 AATT
1 AATT
43717466 TAAATAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:43717588 original size:19 final size:19
Alignment explanation
Indices: 43717553--43717677 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 19
43717543 AAAATTTCAA
*
43717553 AAAAATT-AAATTGAATTTC
1 AAAAATTCAAAAT-AATTTC
*
43717572 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTC
*
43717591 TAAAATTCAAAAT-ATTT-
1 AAAAATTCAAAATAATTTC
**
43717608 -ATCA--CATAAA-AATTTC
1 AAAAATTCA-AAATAATTTC
*
43717624 AAAAAAATT-AAATTGAATTTC
1 --AAAAATTCAAAAT-AATTTC
*
43717645 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTC
*
43717664 TAAAATTCAAAATA
1 AAAAATTCAAAATA
43717678 TTTATAAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
14 2 0.02
15 7 0.08
16 2 0.02
18 4 0.05
19 53 0.64
20 9 0.11
21 6 0.07
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTC
Found at i:43717622 original size:73 final size:74
Alignment explanation
Indices: 43717535--43717682 Score: 289
Period size: 73 Copynumber: 2.0 Consensus size: 74
43717525 TTGGTCTTTC
43717535 TCACAATAAAAATTTCAAAAAAATTAAATTGAATTTCAAAAATTCAAAATAATTTTTAAAATTCA
1 TCACAATAAAAATTTCAAAAAAATTAAATTGAATTTCAAAAATTCAAAATAATTTTTAAAATTCA
43717600 AAATATTTA
66 AAATATTTA
43717609 TCAC-ATAAAAATTTCAAAAAAATTAAATTGAATTTCAAAAATTCAAAATAATTTTTAAAATTCA
1 TCACAATAAAAATTTCAAAAAAATTAAATTGAATTTCAAAAATTCAAAATAATTTTTAAAATTCA
43717673 AAATATTTA
66 AAATATTTA
43717682 T
1 T
43717683 AAAAATTTCA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 70 0.95
74 4 0.05
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (74 bp):
TCACAATAAAAATTTCAAAAAAATTAAATTGAATTTCAAAAATTCAAAATAATTTTTAAAATTCA
AAATATTTA
Found at i:43719329 original size:192 final size:192
Alignment explanation
Indices: 43718996--43719375 Score: 724
Period size: 192 Copynumber: 2.0 Consensus size: 192
43718986 TATAAATATT
43718996 ACACCATGTTTCTTTTGTTGTTGGAGGATTTTAAGGTAGCAAATATATTCAACTAGATTTTGCCC
1 ACACCATGTTTCTTTTGTTGTTGGAGGATTTTAAGGTAGCAAATATATTCAACTAGATTTTGCCC
43719061 CTCTATCGTATCTCTATAAGTACTTGTTAGGATTTTGTACCCTTTGTATGATTGTCTTCAATGAT
66 CTCTATCGTATCTCTATAAGTACTTGTTAGGATTTTGTACCCTTTGTATGATTGTCTTCAATGAT
43719126 TTTTTGAATGAAAAAGCAAAATGAATAAGTAAATATTAGATCATTGATTACCTAAAGGCAAA
131 TTTTTGAATGAAAAAGCAAAATGAATAAGTAAATATTAGATCATTGATTACCTAAAGGCAAA
* *
43719188 ACACCTTGTTTCTTTTGTTTTTGGAGGATTTTAAGGTAGCAAATATATTCAACTAGATTTTGCCC
1 ACACCATGTTTCTTTTGTTGTTGGAGGATTTTAAGGTAGCAAATATATTCAACTAGATTTTGCCC
43719253 CTCTATCGTATCTCTATAAGTACTTGTTAGGATTTTGTACCCTTTGTATGATTGTCTTCAATGAT
66 CTCTATCGTATCTCTATAAGTACTTGTTAGGATTTTGTACCCTTTGTATGATTGTCTTCAATGAT
* *
43719318 TTTTTGAATGAAAAATCAAAATGAATAAGTAAATATTAGCTCATTGATTACCTAAAGG
131 TTTTTGAATGAAAAAGCAAAATGAATAAGTAAATATTAGATCATTGATTACCTAAAGG
43719376 TTTGCCTAAT
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 184 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.40
Consensus pattern (192 bp):
ACACCATGTTTCTTTTGTTGTTGGAGGATTTTAAGGTAGCAAATATATTCAACTAGATTTTGCCC
CTCTATCGTATCTCTATAAGTACTTGTTAGGATTTTGTACCCTTTGTATGATTGTCTTCAATGAT
TTTTTGAATGAAAAAGCAAAATGAATAAGTAAATATTAGATCATTGATTACCTAAAGGCAAA
Found at i:43721620 original size:41 final size:41
Alignment explanation
Indices: 43721549--43721743 Score: 239
Period size: 41 Copynumber: 4.8 Consensus size: 41
43721539 GTGATACTCG
* * * * * *
43721549 GGCTTTGTTCCTAGCAGGCTTTATGTCGGTGAACTATAACA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATATCA
* *
43721590 GGGTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATATCA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATATCA
*
43721631 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATATCA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATATCA
* * *
43721672 GGCTTTATGCCTAGCAGGCTTCGTGCCAGTGAATCATATCTA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATATC-A
* * *
43721714 -GCTTTGTGCCTAGAAGGCTTTATGCCGGTG
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTG
43721744 TATTTTAATA
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 134 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.31
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATATCA
Found at i:43721686 original size:82 final size:83
Alignment explanation
Indices: 43721549--43721745 Score: 263
Period size: 82 Copynumber: 2.4 Consensus size: 83
43721539 GTGATACTCG
* * * * *
43721549 GGCTTTGTTCCTAGCAGGCTTTATGTCGGTGAACTATAACAGGGTTTATGCCTAGCAGGCTTCAT
1 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTACCATAACAGGCTTTATGCCTAGCAGGCTTCAT
* *
43721614 GCCGGTGTACCATATC-A
66 GCCAGTGAACCATATCTA
* * * *
43721631 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTTATGCCTAGCAGGCTTCGT
1 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTACCATAACAGGCTTTATGCCTAGCAGGCTTCAT
*
43721696 GCCAGTGAATCATATCTA
66 GCCAGTGAACCATATCTA
*
43721714 -GCTTTGTGCCTAGAAGGCTTTATGCCGGTGTA
1 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTA
43721746 TTTTAATAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
82 98 0.99
83 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (83 bp):
GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTACCATAACAGGCTTTATGCCTAGCAGGCTTCAT
GCCAGTGAACCATATCTA
Found at i:43721759 original size:82 final size:82
Alignment explanation
Indices: 43721549--43721780 Score: 254
Period size: 82 Copynumber: 2.8 Consensus size: 82
43721539 GTGATACTCG
* * * * *
43721549 GGCTTTGTTCCTAGCAGGCTTTATGTCGGTGAACTATAACAGGGTTTATGCCTAGCAGGCTTCAT
1 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTACTATAATAGGCTTTATGCCTAGCAGGCTTCAT
* *
43721614 GCCGGTGTACCATATCA
66 GCCAGTGAACCATATCA
* * * *
43721631 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCAT-ATCAGGCTTTATGCCTAGCAGGCTTCG
1 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTACTATAAT-AGGCTTTATGCCTAGCAGGCTTCA
*
43721695 TGCCAGTGAATCATATCTA
65 TGCCAGTGAACCATATC-A
* * * * * *
43721714 -GCTTTGTGCCTAGAAGGCTTTATGCCGGTGTATTTTAATAAGCTTTATACCTCA-CAGGCTTTA
1 GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTACTATAATAGGCTTTATGCCT-AGCAGGCTTCA
43721777 TGCC
65 TGCC
43721781 GATGTGGTAT
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
81 1 0.01
82 119 0.96
83 4 0.03
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.33
Consensus pattern (82 bp):
GGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTACTATAATAGGCTTTATGCCTAGCAGGCTTCAT
GCCAGTGAACCATATCA
Found at i:43726255 original size:40 final size:40
Alignment explanation
Indices: 43726196--43726333 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 40
43726186 CCAATTTATG
* * *
43726196 GACAAGCCACCAGTGATGCAGATAAACTGCCAGTAGTACA
1 GACAAGCTACCAGTAATGCAGATAAACTGCCAGTAGTGCA
* *
43726236 GACAAGCTACCAGTAATGCAGATAAATTGCCAGCAGTGCA
1 GACAAGCTACCAGTAATGCAGATAAACTGCCAGTAGTGCA
* ** * * * *
43726276 GACAAGTTGTCAATAATGCAAATAAACTGCCAATAATGCA
1 GACAAGCTACCAGTAATGCAGATAAACTGCCAGTAGTGCA
* *
43726316 GATAAGCTGCCAGTAATG
1 GACAAGCTACCAGTAATG
43726334 TTGTAACACC
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (40 bp):
GACAAGCTACCAGTAATGCAGATAAACTGCCAGTAGTGCA
Found at i:43726333 original size:20 final size:20
Alignment explanation
Indices: 43726205--43726333 Score: 105
Period size: 20 Copynumber: 6.5 Consensus size: 20
43726195 GGACAAGCCA
*
43726205 CCAGTGATGCAGATAAACTG
1 CCAGTAATGCAGATAAACTG
* * * * *
43726225 CCAGTAGTACAGACAAGCTA
1 CCAGTAATGCAGATAAACTG
*
43726245 CCAGTAATGCAGATAAATTG
1 CCAGTAATGCAGATAAACTG
* * * **
43726265 CCAGCAGTGCAGACAAGTTG
1 CCAGTAATGCAGATAAACTG
* * *
43726285 TCAATAATGCAAATAAACTG
1 CCAGTAATGCAGATAAACTG
* *
43726305 CCAATAATGCAGATAAGCTG
1 CCAGTAATGCAGATAAACTG
43726325 CCAGTAATG
1 CCAGTAATG
43726334 TTGTAACACC
Statistics
Matches: 81, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
CCAGTAATGCAGATAAACTG
Found at i:43727161 original size:22 final size:22
Alignment explanation
Indices: 43727136--43727182 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
43727126 CTAAGAGTCG
* * * *
43727136 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAACTACAAGCCA
43727158 TAAACAGAATAACTACAAGCCA
1 TAAACAGAATAACTACAAGCCA
43727180 TAA
1 TAA
43727183 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAACTACAAGCCA
Found at i:43727236 original size:32 final size:32
Alignment explanation
Indices: 43727188--43727376 Score: 168
Period size: 32 Copynumber: 5.9 Consensus size: 32
43727178 CATAAGTACA
* * * * *
43727188 GTAATGTGATTGGCACAGAGCCATCAGTAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
*
43727220 GTGATATGATCGGCACACAA-CCATCAGTAATG
1 GTAATATGATCGGCACA-AAGCCATCAGTAATG
* * * ***
43727252 GTAACATGATCAGCACAAAGCCTTCAGTAGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
* *
43727284 GTGATATGATCGACGCAC-AA-CCATTAGTAATG
1 GTAATATGATCG--GCACAAAGCCATCAGTAATG
* *
43727316 GTAATATGATCGGTACAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAATG
* *
43727348 GTACTATGATCGACACAAAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTA
43727377 GCATCACAGT
Statistics
Matches: 123, Mismatches: 28, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
30 3 0.02
31 4 0.03
32 109 0.89
33 3 0.02
34 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAATG
Found at i:43727303 original size:64 final size:64
Alignment explanation
Indices: 43727200--43727376 Score: 223
Period size: 64 Copynumber: 2.8 Consensus size: 64
43727190 AATGTGATTG
* * *
43727200 GCACAGAGCCATCAGTAGTAGTGATATGATCGGCACACAACCATCAGTAATGGTAACATGATCA
1 GCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAATGGTAACATGATCA
* * * * *
43727264 GCACAAAGCCTTCAGTAGCAGTGATATGATCGACGCACAACCATTAGTAATGGTAATATGATCG
1 GCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAATGGTAACATGATCA
* * *
43727328 GTACAAAGCCATCAGTAACGGT-ACTATGATCGACACA-AAGCCATCAGTA
1 GCACAAAGCCATCAGTAGCAGTGA-TATGATCGACACACAA-CCATCAGTA
43727377 GCATCACAGT
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
63 3 0.03
64 94 0.97
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (64 bp):
GCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAATGGTAACATGATCA
Found at i:43727578 original size:24 final size:23
Alignment explanation
Indices: 43727551--43727632 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
43727541 CCATGCTCAG
*
43727551 AATCAGCCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
*
43727575 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAGACA
* *
43727599 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
* *
43727622 AAACAATCATT
1 AATCAGTCATT
43727633 TGACTTCGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 19 0.38
24 27 0.54
25 4 0.08
ACGTcount: A:0.48, C:0.27, G:0.07, T:0.18
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:43727785 original size:54 final size:54
Alignment explanation
Indices: 43727682--43727864 Score: 176
Period size: 54 Copynumber: 3.4 Consensus size: 54
43727672 CATGACAATT
* * * ** *
43727682 ATTTTACTCTACAGGGGTATTATGGTTATGTTACCCTACTGGGGCATTACGGTC
1 ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTACAAGGGTATTACGGTC
* * *
43727736 ATTTTACCCTACAGGGGCATTATAGTCATTTTACCCTACAAGGGTATTACGATC
1 ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTACAAGGGTATTACGGTC
* * *
43727790 ATATTACCC-ATC-GAGGGTATT-TCGGTCATTTTACCC-ATCGAGGGTATTTCGGTC
1 ATTTTACCCTA-CAG-GGGTATTAT-GGTCATTTTACCCTA-CAAGGGTATTACGGTC
* *
43727844 ATTTTACCTTTCAGGGGTATT
1 ATTTTACCCTACAGGGGTATT
43727865 TTTGTCTAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
53 4 0.04
54 100 0.95
55 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (54 bp):
ATTTTACCCTACAGGGGTATTATGGTCATTTTACCCTACAAGGGTATTACGGTC
Found at i:43727861 original size:27 final size:27
Alignment explanation
Indices: 43727682--43727865 Score: 133
Period size: 27 Copynumber: 6.8 Consensus size: 27
43727672 CATGACAATT
* * *
43727682 ATTTTACTCTACAGGGGTATTAT-GGTT
1 ATTTTACCCTTCAGGGGTATT-TCGGTC
* * * * *
43727709 ATGTTACCCTACTGGGGCATTACGGTC
1 ATTTTACCCTTCAGGGGTATTTCGGTC
* * *
43727736 ATTTTACCCTACAGGGGCATTAT-AGTC
1 ATTTTACCCTTCAGGGGTATT-TCGGTC
* * * *
43727763 ATTTTACCCTACAAGGGTATTACGATC
1 ATTTTACCCTTCAGGGGTATTTCGGTC
* *
43727790 ATATTACCCATC-GAGGGTATTTCGGTC
1 ATTTTACCCTTCAG-GGGTATTTCGGTC
*
43727817 ATTTTACCCATC-GAGGGTATTTCGGTC
1 ATTTTACCCTTCAG-GGGTATTTCGGTC
*
43727844 ATTTTACCTTTCAGGGGTATTT
1 ATTTTACCCTTCAGGGGTATTT
43727866 TTGTCTAGAT
Statistics
Matches: 128, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
27 127 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTTTACCCTTCAGGGGTATTTCGGTC
Found at i:43730250 original size:14 final size:15
Alignment explanation
Indices: 43730225--43730253 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43730215 TATAAAAAAC
43730225 ACAAATTTAAATAAA
1 ACAAATTTAAATAAA
43730240 ACAAA-TTAAATAAA
1 ACAAATTTAAATAAA
43730254 TATTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
ACAAATTTAAATAAA
Found at i:43730708 original size:20 final size:20
Alignment explanation
Indices: 43730683--43730731 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
43730673 AGGAGCTTTT
*
43730683 AAATCAATTTGAATAAAATC
1 AAATCAAATTGAATAAAATC
* *
43730703 AAATCAAATTGATTAGAATC
1 AAATCAAATTGAATAAAATC
43730723 AAATCAAAT
1 AAATCAAAT
43730732 CAAGATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATCAAATTGAATAAAATC
Found at i:43730711 original size:25 final size:25
Alignment explanation
Indices: 43730683--43730734 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
43730673 AGGAGCTTTT
*
43730683 AAATCAATTTGAATAAAATCAAATC
1 AAATCAATTAGAATAAAATCAAATC
** *
43730708 AAATTGATTAGAATCAAATCAAATC
1 AAATCAATTAGAATAAAATCAAATC
43730733 AA
1 AA
43730735 GATATTTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.27
Consensus pattern (25 bp):
AAATCAATTAGAATAAAATCAAATC
Found at i:43735532 original size:162 final size:163
Alignment explanation
Indices: 43735253--43735603 Score: 372
Period size: 162 Copynumber: 2.1 Consensus size: 163
43735243 AATTCTGAAA
* * * **
43735253 CAAAATCAGAATCAATTCTGTTGACCGGCAGGATCAAATCTGAAAATAAAATTATTTAATTAAAT
1 CAAAAT-AGAATAAAATCTGTTGACCGGCAGAATCAAATCTGAAAATAAAATTATACAATTAAAT
* * * * * * * *
43735318 CTTGTTTGGAAAAAAAATGAAAATTGAATAAATTTTGTTAAGTGGAGGGAATAAA-TCCTAAA-A
65 CTCGTTTGGAAAAAAAATCAAAATGGAATAAAATCTGTTAAG-CGAGGGAATAAACCCCGAAATA
* * *
43735381 AAATTATTCATTTAATTAT-TGTTTGGAAACAAAAT
129 AAATTATTCAATTAATTATAT-TTTGAAAAAAAAAT
* * * *
43735416 CAAAATAGAATAAAATATGTTGAGCGGCGAGAAT-AAATCT-AGAAATAGAATTATACAATTAAT
1 CAAAATAGAATAAAATCTGTTGACCGGC-AGAATCAAATCTGA-AAATAAAATTATACAATTAAA
*
43735479 TCTCGTTTGGAAACAAAATCAAAATGGAATAAAATCTGTTGAA-CGACGGGAATAAACCCCGAAA
64 TCTCGTTTGGAAAAAAAATCAAAATGGAATAAAATCTGTT-AAGCGA-GGGAATAAACCCCGAAA
* *
43735543 TAGAATTATTCAATTAGTTATCATTTTGAAAAAAAAAT
127 TAAAATTATTCAATTAATTAT-ATTTTGAAAAAAAAAT
*
43735581 CAAAATGGAATAAAATCTGTTGA
1 CAAAATAGAATAAAATCTGTTGA
43735604 ACGGAAGGAA
Statistics
Matches: 155, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
161 3 0.02
162 84 0.54
163 17 0.11
164 17 0.11
165 33 0.21
166 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (163 bp):
CAAAATAGAATAAAATCTGTTGACCGGCAGAATCAAATCTGAAAATAAAATTATACAATTAAATC
TCGTTTGGAAAAAAAATCAAAATGGAATAAAATCTGTTAAGCGAGGGAATAAACCCCGAAATAAA
ATTATTCAATTAATTATATTTTGAAAAAAAAAT
Found at i:43735625 original size:83 final size:82
Alignment explanation
Indices: 43735269--43735641 Score: 319
Period size: 82 Copynumber: 4.5 Consensus size: 82
43735259 CAGAATCAAT
* * * * * * * *
43735269 TCTGTTGACCGGCAGG-ATCAAATCT-GAAAATAAAATTATTTAATTAAATCTTGTTTGGAAAAA
1 TCTGTTGAACGGAAGGAAT-AAATCTCG-AAATAGAATTATTCAATTAATTATCGTTTGGAAACA
* * *
43735332 AAATGAAAATTGAATAAAT
64 AAATCAAAATGGAATAAAA
* * * * * * *
43735351 TTTGTT-AAGTGGAGGGAATAAATC-CTAAA-AAAATTATTCATTTAATTATTGTTTGGAAACAA
1 TCTGTTGAA-CGGAAGGAATAAATCTCGAAATAGAATTATTCAATTAATTATCGTTTGGAAACAA
*
43735413 AATCAAAATAGAATAAAA
65 AATCAAAATGGAATAAAA
* * * * * *
43735431 TATGTTGAGCGG-CGAGAATAAATCTAGAAATAGAATTATACAATTAATTCTCGTTTGGAAACAA
1 TCTGTTGAACGGAAG-GAATAAATCTCGAAATAGAATTATTCAATTAATTATCGTTTGGAAACAA
43735495 AATCAAAATGGAATAAAA
65 AATCAAAATGGAATAAAA
* * * * * * *
43735513 TCTGTTGAAC-GACGGGAATAAACCCCGAAATAGAATTATTCAATTAGTTATCATTTTGAAAAAA
1 TCTGTTGAACGGA-AGGAATAAATCTCGAAATAGAATTATTCAATTAATTATC-GTTTGGAAACA
43735577 AAATCAAAATGGAATAAAA
64 AAATCAAAATGGAATAAAA
* * *
43735596 TCTGTTGAACGGAAGGAATAAGTCTCGAAACAGATTTTATTCAATT
1 TCTGTTGAACGGAAGGAATAAATCTCGAAATAGA-ATTATTCAATT
43735642 TTATTTTTTT
Statistics
Matches: 235, Mismatches: 44, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
79 1 0.00
80 59 0.25
81 9 0.04
82 98 0.42
83 56 0.24
84 12 0.05
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.30
Consensus pattern (82 bp):
TCTGTTGAACGGAAGGAATAAATCTCGAAATAGAATTATTCAATTAATTATCGTTTGGAAACAAA
ATCAAAATGGAATAAAA
Found at i:43735828 original size:16 final size:13
Alignment explanation
Indices: 43735772--43735822 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
43735762 GCGAACAAAT
43735772 ATAA-ATATAAATA
1 ATAATATATAAA-A
*
43735785 ATTATAT-TAAAA
1 ATAATATATAAAA
*
43735797 ATAATATCTAAAA
1 ATAATATATAAAA
43735810 ATAATAATATAAA
1 ATAAT-ATATAAA
43735823 CAAATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 7 0.22
13 17 0.53
14 8 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATATATAAAA
Found at i:43737979 original size:82 final size:82
Alignment explanation
Indices: 43737877--43738206 Score: 387
Period size: 82 Copynumber: 4.0 Consensus size: 82
43737867 ACAATTTCTT
* * * *
43737877 AATTAAGTCTTGTTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATC
1 AATTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATATGTTGAACGGCGAGAATAAATC
*
43737942 CTGAAACAGAATTATTC
66 CTGAAATAGAATTATTC
* *
43737959 ATTTAATTATTGTTTAGAAACAAAATCAAAATAGAATAAAATATGTTGAACGGCGAGAATAAAT-
1 AATTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATATGTTGAACGGCGAGAATAAATC
*
43738023 CTCGAAATAGAATTATAC
66 CT-GAAATAGAATTATTC
* * * *
43738041 AATTAATTATCGTTTGGAAACAAAATCAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATC
1 AATTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATATGTTGAACGGCGAGAATAAATC
*
43738106 CCGAAATAGAATTATTC
66 CTGAAATAGAATTATTC
* ** * * * * * * *
43738123 AATTAATTCTCATTTTGAAAAAAAAT-AAAATGGAACAAAATCTGTTGAATGG-AAGGAATAAAT
1 AATTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATATGTTGAACGGCGA-GAATAAAT
* *
43738186 CCCGAAATAGATTTTATTC
65 CCTGAAATAGA-ATTATTC
43738205 AA
1 AA
43738207 ATTTATTTTT
Statistics
Matches: 219, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
81 45 0.21
82 173 0.79
83 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (82 bp):
AATTAATTATTGTTTGGAAACAAAATCAAAATAGAATAAAATATGTTGAACGGCGAGAATAAATC
CTGAAATAGAATTATTC
Found at i:43738080 original size:164 final size:163
Alignment explanation
Indices: 43737888--43738196 Score: 431
Period size: 164 Copynumber: 1.9 Consensus size: 163
43737878 ATTAAGTCTT
*
43737888 GTTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCTGAAACAGAA
1 GTTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCCGAAACAGAA
* ** * * *
43737953 TTATTCATTTAATTATTGTTTAGAAACAAAATCAAAATAGAATAAAATATGTTGAACGG-CGAGA
66 TTATTCAATTAATTATCATTTAGAAAAAAAAT-AAAATAGAACAAAATATGTTGAACGGAAG-GA
*
43738017 ATAAATCTCGAAATAGAATTATACAATTAATTATC
129 ATAAATCCCGAAATAGAATTATACAATTAATTATC
* * * * *
43738052 GTTTGGAAACAAAATCAAAATGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAATAGAA
1 GTTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCCGAAACAGAA
* * * * *
43738117 TTATTCAATTAATTCTCATTTTGAAAAAAAATAAAATGGAACAAAATCTGTTGAATGGAAGGAAT
66 TTATTCAATTAATTATCATTTAGAAAAAAAATAAAATAGAACAAAATATGTTGAACGGAAGGAAT
43738182 AAATCCCGAAATAGA
131 AAATCCCGAAATAGA
43738197 TTTTATTCAA
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
163 40 0.32
164 86 0.68
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.27
Consensus pattern (163 bp):
GTTTGGAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGAGAATAAATCCCGAAACAGAA
TTATTCAATTAATTATCATTTAGAAAAAAAATAAAATAGAACAAAATATGTTGAACGGAAGGAAT
AAATCCCGAAATAGAATTATACAATTAATTATC
Found at i:43738369 original size:12 final size:13
Alignment explanation
Indices: 43738334--43738387 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
43738324 GTTAGCGAAC
43738334 AAATATAA-ATAT
1 AAATATAATATAT
43738346 AAATA-AATATATT
1 AAATATAATATA-T
*
43738359 AAATATAATATCT
1 AAATATAATATAT
*
43738372 AAA-AAAATAATAT
1 AAATATAAT-ATAT
43738385 AAA
1 AAA
43738388 CAAATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
11 2 0.06
12 12 0.34
13 16 0.46
14 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATAATATAT
Found at i:43739283 original size:20 final size:20
Alignment explanation
Indices: 43739260--43739300 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
43739250 TTAAATAAAT
43739260 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATCAAA
*
43739280 TTGATTGAAATCAAATCAAA
1 TTGATTAAAATCAAATCAAA
43739300 T
1 T
43739301 CAAGATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATCAAATCAAA
Found at i:43756564 original size:25 final size:26
Alignment explanation
Indices: 43756536--43756609 Score: 116
Period size: 25 Copynumber: 2.9 Consensus size: 26
43756526 CTGAAGATCC
*
43756536 GTATGCTCTCACGAGCTATAAATCT-
1 GTATGCTCTCTCGAGCTATAAATCTA
*
43756561 GTATGCTTTCTCGAGCTATAAAT-TA
1 GTATGCTCTCTCGAGCTATAAATCTA
43756586 GTATGCTCTCTCGAGCTATAAATC
1 GTATGCTCTCTCGAGCTATAAATC
43756610 GATAACCCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.02
25 43 0.98
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (26 bp):
GTATGCTCTCTCGAGCTATAAATCTA
Found at i:43764517 original size:11 final size:11
Alignment explanation
Indices: 43764503--43764527 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43764493 AATAAGCATG
43764503 TAATATGAAAT
1 TAATATGAAAT
43764514 TAATATGAAAT
1 TAATATGAAAT
43764525 TAA
1 TAA
43764528 AGCTTGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (11 bp):
TAATATGAAAT
Found at i:43766977 original size:35 final size:35
Alignment explanation
Indices: 43766927--43766994 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
43766917 AGTCCACTTG
* *
43766927 AATGACTATTTGGGAACTTCAATTGTCAAAGCTTC
1 AATGACTATTCGGGAACTCCAATTGTCAAAGCTTC
*
43766962 AATGACTGTTCGGGAACTCCAATTGTCAAAGCT
1 AATGACTATTCGGGAACTCCAATTGTCAAAGCT
43766995 AATCAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (35 bp):
AATGACTATTCGGGAACTCCAATTGTCAAAGCTTC
Found at i:43775383 original size:115 final size:115
Alignment explanation
Indices: 43775176--43775405 Score: 388
Period size: 115 Copynumber: 2.0 Consensus size: 115
43775166 CCCAAAATAA
* * *
43775176 ACTTTAATGTTTATATTAAATAATTTTCTCATCCCAGTTTTACCTCCGTTTACTTTTCATCAATC
1 ACTTCAATGTTTATATTAAATAATTTTCTCATCCCAATTTTACCTCCGTTTACTTTTCATCAACC
*
43775241 ATGTAATACCAATGAAAGGATATCATTTACCCATGACTCGGGCTATGAAT
66 ATGTAATACCAATGAAAGGATATCATTTACCCATGACTCGGACTATGAAT
*
43775291 ACTTCAATGTTTATATTAAATAATTTTCTCATCCCAATTTTACCTCTGTTTACTTTTCATCAACC
1 ACTTCAATGTTTATATTAAATAATTTTCTCATCCCAATTTTACCTCCGTTTACTTTTCATCAACC
* * *
43775356 ATGTAATGCCAATGAGAGGATATCATTTACCCATGACTTGGACTATGAAT
66 ATGTAATACCAATGAAAGGATATCATTTACCCATGACTCGGACTATGAAT
43775406 TCCACTATTG
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 107 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (115 bp):
ACTTCAATGTTTATATTAAATAATTTTCTCATCCCAATTTTACCTCCGTTTACTTTTCATCAACC
ATGTAATACCAATGAAAGGATATCATTTACCCATGACTCGGACTATGAAT
Found at i:43781311 original size:25 final size:25
Alignment explanation
Indices: 43781283--43781355 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
43781273 TCTTGTACAT
43781283 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGTGAATCG
*
43781308 GTATGCTC-TCACGAGTTGTGAATCG
1 GTATGCTCAT-ACGAGCTGTGAATCG
* * *
43781333 GTAAGCTTATACGAGCTGAGAAT
1 GTATGCTCATACGAGCTGTGAAT
43781356 TAGTAAGCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTGAATCG
Found at i:43789488 original size:14 final size:15
Alignment explanation
Indices: 43789464--43789492 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43789454 AGCGGGTGTA
43789464 TGTGTGTTAGAAGAT
1 TGTGTGTTAGAAGAT
43789479 TGTG-GTTAGAAGAT
1 TGTGTGTTAGAAGAT
43789493 GTCTTTTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (15 bp):
TGTGTGTTAGAAGAT
Found at i:43790294 original size:14 final size:14
Alignment explanation
Indices: 43790275--43790301 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43790265 TCTTCCCTTC
43790275 CTCATTTCACACAA
1 CTCATTTCACACAA
43790289 CTCATTTCACACA
1 CTCATTTCACACA
43790302 CATCTCTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (14 bp):
CTCATTTCACACAA
Found at i:43792215 original size:9 final size:9
Alignment explanation
Indices: 43792201--43792252 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
43792191 TTCATATCCT
43792201 TCTCTCAAC
1 TCTCTCAAC
**
43792210 TCTCTCAGT
1 TCTCTCAAC
43792219 TCTCTCAAAC
1 TCTCTC-AAC
* *
43792229 CCTCTCAAG
1 TCTCTCAAC
*
43792238 TCTCTCAAG
1 TCTCTCAAC
43792247 TCTCTC
1 TCTCTC
43792253 GTTTTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
9 29 0.83
10 6 0.17
ACGTcount: A:0.19, C:0.40, G:0.06, T:0.35
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:43792235 original size:19 final size:20
Alignment explanation
Indices: 43792200--43792245 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
43792190 ATTCATATCC
*
43792200 TTCTCTC-AACTCTCTC-AG
1 TTCTCTCAAACCCTCTCAAG
43792218 TTCTCTCAAACCCTCTCAAG
1 TTCTCTCAAACCCTCTCAAG
43792238 -TCTCTCAA
1 TTCTCTCAA
43792246 GTCTCTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 7 0.28
19 16 0.64
20 2 0.08
ACGTcount: A:0.22, C:0.39, G:0.04, T:0.35
Consensus pattern (20 bp):
TTCTCTCAAACCCTCTCAAG
Found at i:43792297 original size:15 final size:16
Alignment explanation
Indices: 43792270--43792300 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43792260 ATAATATTCG
43792270 ATATTTTTATTTAAAA
1 ATATTTTTATTTAAAA
43792286 ATATTTTT-TTTAAAA
1 ATATTTTTATTTAAAA
43792301 TTATCTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATTTTTATTTAAAA
Found at i:43803101 original size:101 final size:102
Alignment explanation
Indices: 43802973--43803157 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
43802963 AAAGTGATGG
* * *
43802973 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTA-CTAGA-A-TGATAGGTCGCATGTGTAG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGTATC-AGACAGTGAT-GGTCACATGTGTAG
43803035 TACAATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
64 TACAATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
* *
43803074 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGACAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCAGACAGTGATGGTCACATGTGTAGTA
*
43803139 CTATGTGCAGGCTACTATG
66 CAATGTGCAGGCTACTATG
43803158 TGAATCGGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
101 36 0.48
102 35 0.47
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCAGACAGTGATGGTCACATGTGTAGTA
CAATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Found at i:43803165 original size:51 final size:51
Alignment explanation
Indices: 43802964--43803165 Score: 186
Period size: 51 Copynumber: 4.0 Consensus size: 51
43802954 GTGAAAGTGA
* * *
43802964 AAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTA-CTAG
1 AAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAATC-GG
* * *
43803014 AA-TGATAGGTCGCATGTGTAGTACAATGTGCAGGCTACTA--TGCATACCGG
1 AAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTG-A-ATCGG
* * * * *
43803064 ATAGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGG
1 A-AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAATCGG
*
43803115 ACAGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAATCGG
1 A-AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAATCGG
43803166 TATCATTAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
48 2 0.02
49 4 0.03
50 36 0.29
51 77 0.63
52 1 0.01
53 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
AAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAATCGG
Found at i:43803402 original size:16 final size:16
Alignment explanation
Indices: 43803383--43803414 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43803373 AGATTGAAAG
*
43803383 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
43803399 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
43803415 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:43808743 original size:30 final size:30
Alignment explanation
Indices: 43808686--43808745 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43808676 GCCTTTTGAA
* *
43808686 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
43808716 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
43808746 TAAAACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:43832846 original size:27 final size:27
Alignment explanation
Indices: 43832808--43832863 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
43832798 AAGTAGAGAG
*
43832808 TAGTTTGATACTAACTTGATGTGTGTC
1 TAGTTTGATACTAACTTAATGTGTGTC
43832835 TAGTTTGATACTAACTTAATGTGTGTC
1 TAGTTTGATACTAACTTAATGTGTGTC
43832862 TA
1 TA
43832864 TGTTATCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.45
Consensus pattern (27 bp):
TAGTTTGATACTAACTTAATGTGTGTC
Found at i:43841441 original size:14 final size:14
Alignment explanation
Indices: 43841422--43841452 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
43841412 GAATTAGCTG
43841422 CTCACTCACTCTCT
1 CTCACTCACTCTCT
43841436 CTCACTCACTCTCT
1 CTCACTCACTCTCT
43841450 CTC
1 CTC
43841453 TCTCTCTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.52, G:0.00, T:0.35
Consensus pattern (14 bp):
CTCACTCACTCTCT
Found at i:43841445 original size:18 final size:18
Alignment explanation
Indices: 43841422--43841456 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43841412 GAATTAGCTG
43841422 CTCACTCACTCTCTCTCA
1 CTCACTCACTCTCTCTCA
*
43841440 CTCACTCTCTCTCTCTC
1 CTCACTCACTCTCTCTC
43841457 TCTCTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (18 bp):
CTCACTCACTCTCTCTCA
Found at i:43844259 original size:29 final size:29
Alignment explanation
Indices: 43844187--43844279 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
43844177 CACTCTCTCA
* *
43844187 GTTCTGACATGGCACTTCAGTG-TCGCTCT
1 GTTCTGACATGGCACTTGAGTGCT-ACTCT
* * *
43844216 GTTCTGA-TTAAGCACTTGAGTGCTATTCT
1 GTTCTGACAT-GGCACTTGAGTGCTACTCT
43844245 GTTCTGACATGGCACTCTG-GTGCTACTCT
1 GTTCTGACATGGCACT-TGAGTGCTACTCT
43844274 GTTCTG
1 GTTCTG
43844280 TTATTGCACT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.02
29 47 0.90
30 4 0.08
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (29 bp):
GTTCTGACATGGCACTTGAGTGCTACTCT
Found at i:43844288 original size:29 final size:29
Alignment explanation
Indices: 43844212--43844290 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
43844202 TTCAGTGTCG
43844212 CTCTGTTCTGATTA-AGCACTTGAGTGCTA
1 CTCTGTTCTG-TTATAGCACTTGAGTGCTA
* ** *
43844241 TTCTGTTCTGACATGGCACTCTG-GTGCTA
1 CTCTGTTCTGTTATAGCACT-TGAGTGCTA
*
43844270 CTCTGTTCTGTTATTGCACTT
1 CTCTGTTCTGTTATAGCACTT
43844291 CGGTGCATCC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
28 2 0.05
29 36 0.90
30 2 0.05
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (29 bp):
CTCTGTTCTGTTATAGCACTTGAGTGCTA
Found at i:43848172 original size:15 final size:15
Alignment explanation
Indices: 43848128--43848179 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
43848118 AGTAAATAAG
43848128 AAAATAAAATAAAAAT
1 AAAA-AAAATAAAAAT
* * * *
43848144 TAAAGAGATGAAAAT
1 AAAAAAAATAAAAAT
43848159 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
43848174 AAAAAA
1 AAAAAA
43848180 CTCATTTGCA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
15 25 0.89
16 3 0.11
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:43849300 original size:13 final size:14
Alignment explanation
Indices: 43849284--43849312 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43849274 AGATTTTTGT
43849284 TTAGGG-TTTAGGG
1 TTAGGGTTTTAGGG
43849297 TTAGGGTTTTAGGG
1 TTAGGGTTTTAGGG
43849311 TT
1 TT
43849313 TTTAGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTTAGGG
Found at i:43849562 original size:96 final size:94
Alignment explanation
Indices: 43849355--43849752 Score: 483
Period size: 96 Copynumber: 4.2 Consensus size: 94
43849345 TAAATAAGGG
* * * * *
43849355 ATTAGGGTTTAGAGTTTCTTAATTAAATTAATTAAAAAATTTT-AAAATTAGATTAGGGTTTCGT
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATT-AAAAATTTTAAAAATTAGATTAGGGTTTAGT
* *** * *
43849419 GTTTATAATTTTTAAAGAAAAAATCAATTAA
65 GTTAAGGGTTTTT-AAGGAAAAATCAAATAA
* * * *
43849450 ATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAAAAAAATTTTAAAAATCAAATTAAGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATT--AAAAATTTTAAAAATTAGATTAGGGTTTAG
43849515 TGTTAAGGGTTTTTAAGGAAAAATCAAATAA
64 TGTTAAGGGTTTTTAAGGAAAAATCAAATAA
* * * *
43849546 ACTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTTAACAAAATTAGATTAGGGTTTAGT
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTA-AAAATTAGATTAGGGTTTAGT
*
43849611 GTTAAGGGTTTTTAAGGAAAAATTAAATAA
65 GTTAAGGGTTTTTAAGGAAAAATCAAATAA
* *
43849641 ATTAAGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTT--AAAAATTAGATTAGGGTTTAG
* * * *
43849706 TGTTTAGCGTTTTTAAAGAAAACTCAAATAA
64 TGTTAAGGGTTTTTAAGGAAAAATCAAATAA
*
43849737 ATTAGGGTTTGGGGTT
1 ATTAGGGTTTAGGGTT
43849753 TAGGGTTACT
Statistics
Matches: 263, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
94 8 0.03
95 113 0.43
96 115 0.44
97 27 0.10
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTAAAAATTAGATTAGGGTTTAGTG
TTAAGGGTTTTTAAGGAAAAATCAAATAA
Found at i:43849652 original size:43 final size:43
Alignment explanation
Indices: 43849496--43849657 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 43
43849486 AAAATTTTAA
* *
43849496 AAATCAAATTAAGGTTTAGTGTTAAGGGTTTTTAAGGAAAAATC
1 AAAT-AAATTAAGGTTTAGGGTTAAGGGTTTTTAAGGAAAAATT
* * * * * ** *
43849540 AAATAAACTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTT
1 AAATAAATTAAGGTTTAGGGTTA--AGGGT-TTTTAAGGA-AAAATT
*
43849587 AACA-AAATTAGATTAGGGTTTAGTGTTAAGGGTTTTTAAGGAAAAATT
1 AA-ATAAATT--A--A-GGTTTAGGGTTAAGGGTTTTTAAGGAAAAATT
43849635 AAATAAATTAAGGTTTAGGGTTA
1 AAATAAATTAAGGTTTAGGGTTA
43849658 CTTGAGTAAA
Statistics
Matches: 87, Mismatches: 20, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
43 27 0.31
44 5 0.06
45 3 0.03
46 7 0.08
47 11 0.13
48 13 0.15
49 7 0.08
50 3 0.03
52 11 0.13
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.36
Consensus pattern (43 bp):
AAATAAATTAAGGTTTAGGGTTAAGGGTTTTTAAGGAAAAATT
Found at i:43849673 original size:191 final size:191
Alignment explanation
Indices: 43849398--43849752 Score: 489
Period size: 191 Copynumber: 1.9 Consensus size: 191
43849388 AAAAAATTTT
* * * * *
43849398 AAAATTAGATTAGGGTTTCGTGTTTATAATTTTTAAAGAAAAAATCAATTAAATTAGGGTTTAAG
1 AAAATTAGATTAGGGTTTAGTGTTAAGAATTTTTAAAGAAAAAATCAAATAAATTAAGGTTTAAG
*
43849463 GTTACTTGAGTAAATTAATTAAAAAAATTTT-AAAAATCAAATTAAGGTTTAGTGTTAAGGGTTT
66 GTTACTTGAGTAAATTAATT--AAAAATTTTAAAAAATCAAATTAAGGTTTAGTGTTAAGCGTTT
*
43849527 TTAAGGAAAAATCAAATAAACTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTTAAC
129 TTAAAGAAAAATCAAATAAACTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTTAAC
** * * *
43849590 AAAATTAGATTAGGGTTTAGTGTTAAGGGTTTTT-AAGGAAAAATTAAATAAATTAAGGTTTAGG
1 AAAATTAGATTAGGGTTTAGTGTTAAGAATTTTTAAAGAAAAAATCAAATAAATTAAGGTTTAAG
* * * * *
43849654 GTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTGTTTAGCGTTTT
66 GTTACTTGAGTAAATTAATTAAAAATTTT-AAAAAATCAAATTAAGGTTTAGTGTTAAGCGTTTT
* * *
43849719 TAAAGAAAACTCAAATAAATTAGGGTTTGGGGTT
130 TAAAGAAAAATCAAATAAACTAGGGTTTAGGGTT
43849753 TAGGGTTACT
Statistics
Matches: 141, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
189 8 0.06
191 104 0.74
192 29 0.21
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (191 bp):
AAAATTAGATTAGGGTTTAGTGTTAAGAATTTTTAAAGAAAAAATCAAATAAATTAAGGTTTAAG
GTTACTTGAGTAAATTAATTAAAAATTTTAAAAAATCAAATTAAGGTTTAGTGTTAAGCGTTTTT
AAAGAAAAATCAAATAAACTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTTAAC
Found at i:43853174 original size:34 final size:36
Alignment explanation
Indices: 43853100--43853196 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 36
43853090 ATTTAAAAGA
*
43853100 ATTTCTATTATATTAAA-AATATAAAAGTAATTTTCT
1 ATTT-TATTACATTAAATAATATAAAAGTAATTTTCT
*
43853136 ATTTTATTACATTAAATAATATATAAG-AA-TTTCT
1 ATTTTATTACATTAAATAATATAAAAGTAATTTTCT
*
43853170 ATTTTATTACATCAAATAATATCAAAA
1 ATTTTATTACATTAAATAATAT-AAAA
43853197 TATTCAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
34 26 0.47
35 16 0.29
36 13 0.24
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (36 bp):
ATTTTATTACATTAAATAATATAAAAGTAATTTTCT
Found at i:43853743 original size:30 final size:30
Alignment explanation
Indices: 43853707--43853775 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
43853697 TCGGTTGAAG
*
43853707 TGTTGGGCCGGGTGACTGTGTCAGTGGTGT
1 TGTTGGGCCGGGTGACTGTGTCAGCGGTGT
* * * *
43853737 TGTTGGGCCTGGTGATTGTGTGAGCGTTGT
1 TGTTGGGCCGGGTGACTGTGTCAGCGGTGT
*
43853767 TGATGGGCC
1 TGTTGGGCC
43853776 TACGTCGTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.07, C:0.13, G:0.45, T:0.35
Consensus pattern (30 bp):
TGTTGGGCCGGGTGACTGTGTCAGCGGTGT
Found at i:43854255 original size:7 final size:7
Alignment explanation
Indices: 43854245--43854277 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
43854235 TTATATACAT
43854245 AATACTA
1 AATACTA
43854252 AATACTA
1 AATACTA
43854259 AATACTA
1 AATACTA
43854266 AATACTA
1 AATACTA
43854273 AATAC
1 AATAC
43854278 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:43855405 original size:11 final size:11
Alignment explanation
Indices: 43855391--43855471 Score: 121
Period size: 11 Copynumber: 7.4 Consensus size: 11
43855381 AGCTTTTTTA
43855391 AGAGGAATTTG
1 AGAGGAATTTG
43855402 AGAGGAATTTG
1 AGAGGAATTTG
43855413 AGAGGAATTTG
1 AGAGGAATTTG
43855424 AGAGGAATTTG
1 AGAGGAATTTG
43855435 AGAGGAATTTG
1 AGAGGAATTTG
43855446 AGA-GAATATTG
1 AGAGGAAT-TTG
*
43855457 -GAGAGAAATTG
1 AGAG-GAATTTG
43855468 AGAG
1 AGAG
43855472 AAAGGATTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
10 6 0.09
11 53 0.82
12 6 0.09
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.25
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:43866254 original size:6 final size:6
Alignment explanation
Indices: 43866228--43866314 Score: 52
Period size: 6 Copynumber: 14.5 Consensus size: 6
43866218 AACAAATTAA
* ** * *
43866228 TTTTAT TTTT-T TGTTATT TTTTAT TTTTCAT CCTTAT TTTAAT TTTGAT
1 TTTTAT TTTTAT TTTTA-T TTTTAT TTTT-AT TTTTAT TTTTAT TTTTAT
* * * * *
43866277 TTTGAT TTTGAT TTTGAT TTTGAT TTTGA- TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
43866315 AATAGGTTGT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
5 8 0.12
6 51 0.75
7 9 0.13
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.72
Consensus pattern (6 bp):
TTTTAT
Found at i:43866278 original size:12 final size:12
Alignment explanation
Indices: 43866263--43866314 Score: 88
Period size: 12 Copynumber: 4.4 Consensus size: 12
43866253 TTTCATCCTT
*
43866263 ATTTTAATTTTG
1 ATTTTGATTTTG
43866275 ATTTTGATTTTG
1 ATTTTGATTTTG
43866287 ATTTTGATTTTG
1 ATTTTGATTTTG
43866299 ATTTTGATTTT-
1 ATTTTGATTTTG
43866310 ATTTT
1 ATTTT
43866315 AATAGGTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
11 5 0.13
12 34 0.87
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (12 bp):
ATTTTGATTTTG
Found at i:43866284 original size:18 final size:18
Alignment explanation
Indices: 43866263--43866314 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
43866253 TTTCATCCTT
*
43866263 ATTTTAATTTTGATTTTG
1 ATTTTGATTTTGATTTTG
43866281 ATTTTGATTTTGATTTTG
1 ATTTTGATTTTGATTTTG
43866299 ATTTTGATTTT-ATTTT
1 ATTTTGATTTTGATTTT
43866315 AATAGGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (18 bp):
ATTTTGATTTTGATTTTG
Found at i:43868014 original size:20 final size:20
Alignment explanation
Indices: 43867989--43868037 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
43867979 TGATGGGTTT
43867989 TTTTTATTTAAATACCTTTC
1 TTTTTATTTAAATACCTTTC
* ** **
43868009 TTTTTAGTTAGTTTTCTTTC
1 TTTTTATTTAAATACCTTTC
43868029 TTTTTATTT
1 TTTTTATTT
43868038 TTAGAAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTATTTAAATACCTTTC
Found at i:43868655 original size:18 final size:18
Alignment explanation
Indices: 43868632--43868672 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43868622 TACTTTAATA
*
43868632 GGGTTCGCATGCATACAT
1 GGGTTCACATGCATACAT
* *
43868650 GGGTTCACATTCATATAT
1 GGGTTCACATGCATACAT
43868668 GGGTT
1 GGGTT
43868673 TGCACAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (18 bp):
GGGTTCACATGCATACAT
Found at i:43869431 original size:44 final size:43
Alignment explanation
Indices: 43869365--43869461 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 43
43869355 ACAAACTTGT
*
43869365 CTTATCAGAAGGGCTGATGAACATAAGATACGCTCTCACCCACA
1 CTTATCAGAAGGGCTGACGAACATAA-ATACGCTCTCACCCACA
* * * * *
43869409 CTTATCAGAATGG-TAGACGAACATGAATATGTTCTCGCCCACA
1 CTTATCAGAAGGGCT-GACGAACATAAATACGCTCTCACCCACA
43869452 CTTATCAGAA
1 CTTATCAGAA
43869462 ATTTGTCTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 25 0.54
44 21 0.46
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
CTTATCAGAAGGGCTGACGAACATAAATACGCTCTCACCCACA
Found at i:43874921 original size:27 final size:28
Alignment explanation
Indices: 43874871--43874926 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
43874861 AAAATAAAAA
43874871 TTACCAAAATATTATAAATTTTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTAT
43874899 TTACCAAAATA-TATAAATTTTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTAT
43874926 T
1 T
43874927 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (28 bp):
TTACCAAAATATTATAAATTTTTTTTAT
Found at i:43881916 original size:29 final size:29
Alignment explanation
Indices: 43881851--43882046 Score: 105
Period size: 30 Copynumber: 7.0 Consensus size: 29
43881841 AATAAAATTA
* *
43881851 CCTTT-TTTTCTTTTTTTCCTTC-CTTC-
1 CCTTTCTTTTCTTTCTTTCTTTCTCTTCT
*
43881877 CC--TCTTCTTCTTT-TTTTTTTCTCTTCT
1 CCTTTCTT-TTCTTTCTTTCTTTCTCTTCT
*
43881904 CCTTTCCTTTTCTTTCCTTCTTTCT-TTCT
1 CCTTT-CTTTTCTTTCTTTCTTTCTCTTCT
* *
43881933 --TTT-TTCTTCTCT-TTTCCTTCTCTTCT
1 CCTTTCTT-TTCTTTCTTTCTTTCTCTTCT
* *
43881959 TC-TTC-TTTCTTTCTTTTTTTCTCTTCT
1 CCTTTCTTTTCTTTCTTTCTTTCTCTTCT
* * *
43881986 CCTTTCCCTTTCTTTCCTTCTTTTTCTTTCTT
1 CCTTT-CTTTTCTTTCTTTCTTTCTC-TTC-T
* * *
43882018 CCCTCTCCTTTCTTTCTCTCTTTCT-TTCT
1 -CCTTTCTTTTCTTTCTTTCTTTCTCTTCT
43882047 TTCTTTCCCT
Statistics
Matches: 132, Mismatches: 18, Indels: 37
0.71 0.10 0.20
Matches are distributed among these distances:
24 1 0.01
25 17 0.13
26 26 0.20
27 21 0.16
28 2 0.02
29 13 0.10
30 28 0.21
31 3 0.02
32 17 0.13
33 4 0.03
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (29 bp):
CCTTTCTTTTCTTTCTTTCTTTCTCTTCT
Found at i:43881928 original size:4 final size:4
Alignment explanation
Indices: 43881912--43882053 Score: 98
Period size: 4 Copynumber: 35.0 Consensus size: 4
43881902 CTCCTTTCCT
* *
43881912 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTC CTTC TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC TTTC
* * *
43881961 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCCC TTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC TTTC
* * *
43882008 TTTC TTTC TTCCC TCTCC TTTC TTTC TCTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TT-TC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
43882054 CCTCTCTTTC
Statistics
Matches: 112, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
3 15 0.13
4 75 0.67
5 15 0.13
6 7 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:43881944 original size:44 final size:43
Alignment explanation
Indices: 43881888--43882052 Score: 165
Period size: 38 Copynumber: 4.1 Consensus size: 43
43881878 CTCTTCTTCT
*
43881888 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTC
1 TTTTTTCTTCTCTTCTCCTTT-CTTTTCTTTCCTTCTTTCTTTC
* *
43881932 TTTTTTCTTCTCTTTTCC-TTCTCTTC-TT-CTTCTTTCTTTC
1 TTTTTTCTTCTCTTCTCCTTTCTTTTCTTTCCTTCTTTCTTTC
*
43881972 -TTTTT-TTCTCTTCTCCTTTCCCTTTCTTTCCTTC-TT-TTTC
1 TTTTTTCTTCTCTTCTCCTTT-CTTTTCTTTCCTTCTTTCTTTC
* * *
43882012 ---TTTCTTC-CCTCTCCTTTC-TTTCTCTCTTTCTTTCTTTC
1 TTTTTTCTTCTCTTCTCCTTTCTTTTCTTTCCTTCTTTCTTTC
43882050 TTT
1 TTT
43882053 CCCTCTCTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
36 10 0.10
37 3 0.03
38 26 0.25
39 10 0.10
40 20 0.20
41 6 0.06
42 9 0.09
43 2 0.02
44 16 0.16
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
TTTTTTCTTCTCTTCTCCTTTCTTTTCTTTCCTTCTTTCTTTC
Found at i:43881999 original size:30 final size:30
Alignment explanation
Indices: 43881963--43882064 Score: 109
Period size: 30 Copynumber: 3.3 Consensus size: 30
43881953 TCTTCTTCTT
43881963 CTTTCTTTCTTTTTTTCTCTTC-TCCTTTCC
1 CTTTCTTTCTTTTTTTCT-TTCTTCCTTTCC
*
43881993 CTTTCTTTCCTTCTTTTTCTTTCTTCC-CTCTC
1 CTTTCTTT-CTT-TTTTTCTTTCTTCCTTTC-C
* * *
43882025 CTTTCTTTCTCTCTTTCTTTCTTTCTTTCC
1 CTTTCTTTCTTTTTTTCTTTCTTCCTTTCC
*
43882055 CTCTCTTTCT
1 CTTTCTTTCT
43882065 GCCCCCCACC
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
30 30 0.49
31 12 0.20
32 19 0.31
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (30 bp):
CTTTCTTTCTTTTTTTCTTTCTTCCTTTCC
Found at i:43881999 original size:82 final size:79
Alignment explanation
Indices: 43881854--43882052 Score: 250
Period size: 82 Copynumber: 2.5 Consensus size: 79
43881844 AAAATTACCT
*
43881854 TTTTTTCTT-T-TTTTCCTTC-CTTCCCTCTTC-TTCTTT-TTTTTTTCTCTTCTCCTTTCCTTT
1 TTTTTTCTTCTCTTTTCCTTCTCTT--CTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTT
43881914 TCTTTCCTTCTTTCTTTC
64 TCTTTCCTTC-TT-TTTC
43881932 TTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
1 TTTTTTCTTCTCTTTTCCTTCTCTTC-TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
43881997 CTTTCCTTCTTTTTC
65 CTTTCCTTCTTTTTC
* * * *
43882012 TTTCTTCCCTCTCCTTTCTTTCTC-TCT-TTCTTTCTTTCTTT
1 TTT-TTTCTTCTCTTTTCCTTCTCTTCTCTTCTTTCTTTCTTT
43882053 CCCTCTCTTT
Statistics
Matches: 109, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
78 23 0.21
79 3 0.03
80 23 0.21
81 27 0.25
82 33 0.30
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (79 bp):
TTTTTTCTTCTCTTTTCCTTCTCTTCTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTC
TTTCCTTCTTTTTC
Found at i:43882006 original size:48 final size:47
Alignment explanation
Indices: 43881905--43882017 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 47
43881895 TTCTCTTCTC
* * *
43881905 CTTTCCTT-TTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTT
1 CTTTCCTTCTTC-TTCTTTCTTTCTTTCTTTTCTCTTCTCTTTCCCTT
43881952 C--T-CTTCTTCTTCTTTCTTTCTTT-TTTTCTCTTCTCCTTTCCCTTT
1 CTTTCCTTCTTCTTCTTTCTTTCTTTCTTTTCTCTTCT-CTTTCCC-TT
*
43881997 CTTTCCTTCTTTTTCTTTCTT
1 CTTTCCTTCTTCTTCTTTCTT
43882018 CCCTCTCCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
43 10 0.18
44 22 0.39
45 7 0.12
47 2 0.04
48 15 0.27
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (47 bp):
CTTTCCTTCTTCTTCTTTCTTTCTTTCTTTTCTCTTCTCTTTCCCTT
Found at i:43882064 original size:18 final size:17
Alignment explanation
Indices: 43881993--43882064 Score: 74
Period size: 18 Copynumber: 4.1 Consensus size: 17
43881983 TCTCCTTTCC
* *
43881993 CTTTCTTTCCTTCTTTTT
1 CTTTC-TTCCCTCTCTTT
43882011 CTTTCTTCCCTCTCCTTT
1 CTTTCTTCCCTCT-CTTT
* *
43882029 CTTTC-TCTCTTTCTTT
1 CTTTCTTCCCTCTCTTT
43882045 CTTTCTTTCCCTCTCTTT
1 CTTTC-TTCCCTCTCTTT
43882063 CT
1 CT
43882065 GCCCCCCACC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
16 9 0.20
17 12 0.27
18 24 0.53
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTTCTTCCCTCTCTTT
Found at i:43882134 original size:26 final size:26
Alignment explanation
Indices: 43882097--43882155 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
43882087 TATTATTAAC
43882097 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTG-CGCCAATGGTATTGGCACCAT
* *
43882124 TGGTGCGCCAATGGTTTTGGCACCTT
1 TGGTGCGCCAATGGTATTGGCACCAT
43882150 TGGTGC
1 TGGTGC
43882156 CGCTAATCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.31
Consensus pattern (26 bp):
TGGTGCGCCAATGGTATTGGCACCAT
Found at i:43882249 original size:26 final size:25
Alignment explanation
Indices: 43882219--43882285 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
43882209 GGTTTTTTTG
*
43882219 ATATATTTT-AGTAAATAAAAAAATTT
1 ATATATTTTGA-TAAACAAAAAAA-TT
43882245 ATATATTTTGATAAACAAAAAAATT
1 ATATATTTTGATAAACAAAAAAATT
43882270 ATAATATTTTGATAAA
1 AT-ATATTTTGATAAA
43882286 TTTTTATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
25 4 0.11
26 33 0.87
27 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (25 bp):
ATATATTTTGATAAACAAAAAAATT
Found at i:43887143 original size:3 final size:3
Alignment explanation
Indices: 43887135--43887180 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
43887125 CTTAACAAGA
43887135 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
43887181 AAGGGTGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
AGT
Found at i:43888547 original size:52 final size:51
Alignment explanation
Indices: 43888469--43888624 Score: 249
Period size: 52 Copynumber: 3.0 Consensus size: 51
43888459 GGGTTTTAGG
**
43888469 GTTTAGGGTGCAAACTTTTTTAGGGTTTAGGGGTCTCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTC-CGAAAAAAATTATTTC
* *
43888521 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCAAAAAAATTATTTT
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCGAAAAAAATTATTTC
*
43888572 GTTTAGGGTGTAGGCTTTTTTAGGGTTTAGGGGTCCCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGT-CCGAAAAAAATTATTTC
43888624 G
1 G
43888625 AGTTGACGTT
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 47 0.49
52 49 0.51
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (51 bp):
GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCGAAAAAAATTATTTC
Found at i:43888567 original size:51 final size:51
Alignment explanation
Indices: 43888469--43888624 Score: 249
Period size: 51 Copynumber: 3.0 Consensus size: 51
43888459 GGGTTTTAGG
** *
43888469 GTTTAGGGTGCAAACTTTTTTAGGGTTTAGGGGTCTCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTC-CCAAAAAAATTATTTC
*
43888521 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCAAAAAAATTATTTT
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCAAAAAAATTATTTC
*
43888572 GTTTAGGGTGTAGGCTTTTTTAGGGTTTAGGGGTCCCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCC-AAAAAAATTATTTC
43888624 G
1 G
43888625 AGTTGACGTT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 50 0.52
52 47 0.48
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (51 bp):
GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCAAAAAAATTATTTC
Found at i:43888855 original size:125 final size:123
Alignment explanation
Indices: 43888627--43888975 Score: 531
Period size: 125 Copynumber: 2.8 Consensus size: 123
43888617 TTATTTCGAG
**
43888627 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCA-GAGAAGAAATTG
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTG
* *
43888690 TGAAATCGTGCCCTCGTGGACGCCATTTCAGCACAGTTGGTCATGTAAGAAATAATTTTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTC-GCACAGTTGGTCATGTAAGAAATAATTTTTT
43888751 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
* *
43888816 GAAATCACGCCCTCGTGGACGCGATTTCGCAACAGTTGGTCATGTAGGAAATAATTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGC-ACAGTTGGTCATGTAAGAAATAATTTTTT
* * * *
43888876 TTGACGTTTCTGAGCAAATAGTGTAAAATCGTTGATACTAGGATGCTATATGAGAAGAAATTGTA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTG
*
43888941 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGT
66 AAATCGCGCCCTCGTGGACGCGATTTCGC-ACAGT
43888976 AGCAAGTTTG
Statistics
Matches: 208, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
124 96 0.46
125 111 0.53
126 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGCACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:43890304 original size:22 final size:23
Alignment explanation
Indices: 43890276--43890419 Score: 134
Period size: 27 Copynumber: 6.0 Consensus size: 23
43890266 GGGTTTTTAA
**
43890276 TTAAATTATGTTAGGTTAGGGTT
1 TTAAATTAAATTAGGTTAGGGTT
43890299 TT-AATTAAATTATGTTAGGTTAGGGTT
1 TTAAATT-AA--A--TTAGGTTAGGGTT
43890326 TT-AATTAAATTATGTTAGGTTAGGGTT
1 TTAAATT-AA--A--TTAGGTTAGGGTT
*
43890353 TT-AATTAAATTATGTTA-GGTT
1 TTAAATTAAATTAGGTTAGGGTT
43890374 TTAAATTAAATTAGGTTAGGGTT
1 TTAAATTAAATTAGGTTAGGGTT
*
43890397 TAAAATTAAATTAGGTTAGGGTT
1 TTAAATTAAATTAGGTTAGGGTT
43890420 AGGGTTTATA
Statistics
Matches: 109, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.06
22 25 0.23
23 29 0.27
24 1 0.01
26 2 0.02
27 46 0.42
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.47
Consensus pattern (23 bp):
TTAAATTAAATTAGGTTAGGGTT
Found at i:43890387 original size:17 final size:17
Alignment explanation
Indices: 43890357--43890390 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43890347 AGGGTTTTAA
**
43890357 TTAAATTATGTTAGGTT
1 TTAAATTAAATTAGGTT
43890374 TTAAATTAAATTAGGTT
1 TTAAATTAAATTAGGTT
43890391 AGGGTTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (17 bp):
TTAAATTAAATTAGGTT
Found at i:43890480 original size:249 final size:256
Alignment explanation
Indices: 43890130--43890752 Score: 881
Period size: 249 Copynumber: 2.4 Consensus size: 256
43890120 TAGGATTATC
*
43890130 AAATTAGGTTAGGGTTTTAAATTAAATTAGGTTAGGTTTAGGGTTTATATAATTAAATTAAATTG
1 AAATTAGGTTAGGGTTTAAAATTAAATTAGGTTAGGTTTAGGG-TT-TATAATTAAATTAAATTG
*
43890195 GGTTTGGGTTTTTAATTAAATTAAATTAGTTTAGGGTTTAGGCTAATTAAATTAAATTAGGTTAG
64 GGTTTGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGCTAATTAAATTAAATTAGGTTAG
43890260 GGTTTAGGGTTTTTAATTAAATTATGTTAGG-TTAGGG-TTTTAATTAAATTATGTTAGGTTAGG
129 GGTTTAGGGTTTTTAATTAAATTATGTTAGGTTTAGGGTTTTTAATTAAATTATGTTAGGTTAGG
*
43890323 G-TTT-TAATTAAATTATGTTAGGTTAGGGTTT-TAATTAAATT-A-T-G-TTAGG-TT-TTAAA
194 GTTTTATAATTGAATTA-G---GGTTAGGGTTTATAATTAAATTAATTGGTTTAGGTTTATTAAA
43890379 TT
255 TT
*
43890381 AAATTAGGTTAGGGTTTAAAATTAAATTAGGTTAGGGTTAGGGTTTATAATTAAATTAAATTGGG
1 AAATTAGGTTAGGGTTTAAAATTAAATTAGGTTAGGTTTAGGGTTTATAATTAAATTAAATTGGG
43890446 TTTGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGCTAATTAAATTAAATTAGGTTAGGG
66 TTTGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGCTAATTAAATTAAATTAGGTTAGGG
43890511 TTTAGGGTTTTTAATTAAATTATGTTAGGTTTTAGGGTTTTTAATTAAATTATGTTAGGTTAGGG
131 TTTAGGGTTTTTAATTAAATTATGTTAGG-TTTAGGGTTTTTAATTAAATTATGTTAGGTTAGGG
*
43890576 TTTTATAATTGAATTAGGGTTAGGGTTTATAATTAAATTAAATTGGGTTTGGGTTTTAATTAAAT
195 TTTTATAATTGAATTAGGGTTAGGGTTTATAATTAAATT-AATT-GGTTTAGG-TTT-ATTAAAT
43890641 T
256 T
*
43890642 AAATTAGGTTAGGGTTTAGGCTAATTAAATTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAAT
1 AAATTAGGTTAGGG-TT----T-A--AAATTAAATTAGGTTAG-GTTTAGGGTTTATAATTAAAT
** * * **
43890707 TATGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTT
57 TAAATTGGGTTTGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTT
43890753 TATAATTGAA
Statistics
Matches: 334, Mismatches: 13, Indels: 31
0.88 0.03 0.08
Matches are distributed among these distances:
249 113 0.34
250 13 0.04
251 57 0.17
252 27 0.08
253 5 0.01
254 11 0.03
256 1 0.00
257 4 0.01
259 2 0.01
261 21 0.06
262 2 0.01
266 1 0.00
267 1 0.00
269 17 0.05
270 59 0.18
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (256 bp):
AAATTAGGTTAGGGTTTAAAATTAAATTAGGTTAGGTTTAGGGTTTATAATTAAATTAAATTGGG
TTTGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGCTAATTAAATTAAATTAGGTTAGGG
TTTAGGGTTTTTAATTAAATTATGTTAGGTTTAGGGTTTTTAATTAAATTATGTTAGGTTAGGGT
TTTATAATTGAATTAGGGTTAGGGTTTATAATTAAATTAATTGGTTTAGGTTTATTAAATT
Found at i:43890766 original size:24 final size:24
Alignment explanation
Indices: 43890688--43890789 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 24
43890678 AGGTTAGAGT
*
43890688 TTAGGGTTTTTAATTAAATTATGTTAGG
1 TTAGGGTTTATAATTAAATTA-G---GG
*
43890716 TTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTATAATTAAATTA-G---GG
*
43890744 TTAGGGTTTTATAATTGAATTAGGG
1 TTAGGG-TTTATAATTAAATTAGGG
43890769 TTAGGGTTTATAATTAAATTA
1 TTAGGGTTTATAATTAAATTA
43890790 AAATGATAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
24 14 0.20
25 8 0.12
28 34 0.49
29 13 0.19
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (24 bp):
TTAGGGTTTATAATTAAATTAGGG
Found at i:43890878 original size:35 final size:36
Alignment explanation
Indices: 43890838--43890913 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
43890828 GGTTTTAGGC
43890838 TAATTAAATTAAATTAGGTTAGAG-TTTAGGGTTTT
1 TAATTAAATTAAATTAGGTTAGAGTTTTAGGGTTTT
** * *
43890873 TAATTAAATTATGTTAGGTTAGGGTTTTTGGGTTTT
1 TAATTAAATTAAATTAGGTTAGAGTTTTAGGGTTTT
43890909 TAATT
1 TAATT
43890914 TATGTTAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 21 0.58
36 15 0.42
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (36 bp):
TAATTAAATTAAATTAGGTTAGAGTTTTAGGGTTTT
Found at i:43890887 original size:175 final size:174
Alignment explanation
Indices: 43890412--43890901 Score: 757
Period size: 175 Copynumber: 2.8 Consensus size: 174
43890402 TTAAATTAGG
* * ** * **
43890412 TTAGGGTTAGGGTTTATAATTAAATTAAATTGGGTTTGGGTTTTTAATTAAATTAAATTAGGTTA
1 TTAGGGTTAGGGTTTATAATTAAATTAAAATGGATAAGGG-TTTGAAGCAAATTAAATTAGGTTA
*
43890477 GGGTTTAGGCTAATTAAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTATGTTAGGTT
65 GGGTTTAGGCTAATTAAATTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGG--
*
43890542 TTAGGGTTTTTAATTAAATTATGTTAGGTTAGGGTTTTATAATTGAA
128 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTATAATTGAA
* * ** * **
43890589 TTAGGGTTAGGGTTTATAATTAAATTAAATTGGGTTTGGGTTTTAATTAAATTAAATTAGGTTAG
1 TTAGGGTTAGGGTTTATAATTAAATTAAAATGGATAAGGGTTTGAAGCAAATTAAATTAGGTTAG
43890654 GGTTTAGGCTAATTAAATTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGGTTA
66 GGTTTAGGCTAATTAAATTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGGTTA
43890719 GGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTATAATTGAA
131 GGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTATAATTGAA
**
43890763 TTAGGGTTAGGGTTTATAATTAAATTAAAAT-GATAAAGGGTTTGGCGGCAAATTAAATTAGGTT
1 TTAGGGTTAGGGTTTATAATTAAATTAAAATGGAT-AAGGGTTT-GAAGCAAATTAAATTAGGTT
*
43890827 AGGTTTTAGGCTAATTAAATTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGGT
64 AGGGTTTAGGCTAATTAAATTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGGT
43890892 TAGGGTTTTT
129 TAGGGTTTTT
43890902 GGGTTTTTAA
Statistics
Matches: 299, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
173 2 0.01
174 82 0.27
175 89 0.30
176 86 0.29
177 40 0.13
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.44
Consensus pattern (174 bp):
TTAGGGTTAGGGTTTATAATTAAATTAAAATGGATAAGGGTTTGAAGCAAATTAAATTAGGTTAG
GGTTTAGGCTAATTAAATTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGGTTA
GGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTATAATTGAA
Found at i:43890980 original size:59 final size:61
Alignment explanation
Indices: 43890374--43891001 Score: 203
Period size: 59 Copynumber: 10.6 Consensus size: 61
43890364 ATGTTAGGTT
** *
43890374 TTAAATTAAATTAG-GTTA-GGGTTTAAAATTAAATTAGGTTAGGGTTAGGG--TTT--ATAA
1 TTAAATTAGGTTAGAGTTAGGGGTTTTAAA-TAAATTAGGTTA-GGTTAGGGTTTTTGAATAA
** * * * * ** **
43890431 TTAAATTAAATT-GGGTTTGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGCTAATTAAA
1 TTAAATTAGGTTAGAGTTAGGGGTTTTAAATAAATTAGGTTAGGTTAGGGTTTTTG--AA-T-AA
* * * *
43890495 TTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTATGTTAGGTTTTAGGG-TTTT---TAA
1 TTAAATTAGGTTAGAG-TTAGGGGTTTTAAATAAATTAGGTTAGG--TTAGGGTTTTTGAATAA
* *
43890555 TTAAATTATGTTAG-GTTA-GGGTTTT--AT-AATT-GAATTAGGGTTAGGG--TTT--ATAA
1 TTAAATTAGGTTAGAGTTAGGGGTTTTAAATAAATTAG-GTTA-GGTTAGGGTTTTTGAATAA
** * * * ** **
43890608 TTAAATTAAATT-GGGTT-TGGGTTTTAATTAAATTAAATTAGGTTAGGGTTTAGGCTAATTAAA
1 TTAAATTAGGTTAGAGTTAGGGGTTTTAAATAAATTAGGTTAGGTTAGGGTTTTTG--AA-T-AA
* * *
43890671 TTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGGTTAGGG-TTTT---TAA
1 TTAAATTAGGTTAGAG-TTAGGGGTTTTAAATAAATTAGGTTAGGTTAGGGTTTTTGAATAA
* *
43890729 TTAAATTAGGTTAG-GTTA-GGGTTTT--AT-AATT-GAATTAGGGTTAGGGTTTAT-AATTAAA
1 TTAAATTAGGTTAGAGTTAGGGGTTTTAAATAAATTAG-GTTA-GGTTAGGGTTTTTGAA-T-AA
* * * * * * * **
43890787 TTAAAAT-GATAAAGGGTTTGGCGG---CAAATTAAATTAGGTTAGGTTTTAGGCTAATT--A-A
1 TTAAATTAGGT-TAGAGTTAGG-GGTTTTAAA-TAAATTAGGTTAGG--TTAGGGTTTTTGAATA
43890845 A
61 A
* * * ** **
43890846 TTAAATTAGGTTAGAGTTTAGGGTTTTTAATTAAATTATGTTAGGTTAGGGTTTTTGGGTTT
1 TTAAATTAGGTTAGAG-TTAGGGGTTTTAAATAAATTAGGTTAGGTTAGGGTTTTTGAATAA
* *
43890908 TTAATTTATGTTAG-G-TAGGGGTTTTAAATAAATTAGGTTAGGTTAGGGTTTTAT-AATAA
1 TTAAATTAGGTTAGAGTTAGGGGTTTTAAATAAATTAGGTTAGGTTAGGGTTTT-TGAATAA
* * *
43890967 TTGAATTAGGTTAGTGTTA-GGGTTTATAATTAAAT
1 TTAAATTAGGTTAGAGTTAGGGGTTT-TAAATAAAT
43891002 CAAATAATAT
Statistics
Matches: 429, Mismatches: 78, Indels: 124
0.68 0.12 0.20
Matches are distributed among these distances:
52 11 0.03
53 38 0.09
54 10 0.02
55 18 0.04
56 20 0.05
57 36 0.08
58 37 0.09
59 71 0.17
60 31 0.07
61 31 0.07
62 24 0.06
63 21 0.05
64 14 0.03
65 7 0.02
66 52 0.12
67 2 0.00
68 6 0.01
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (61 bp):
TTAAATTAGGTTAGAGTTAGGGGTTTTAAATAAATTAGGTTAGGTTAGGGTTTTTGAATAA
Found at i:43893391 original size:8 final size:9
Alignment explanation
Indices: 43893371--43893421 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
43893361 GCCATTGTTG
43893371 AAAATATTA
1 AAAATATTA
43893380 AAAATATTA
1 AAAATATTA
*
43893389 AAATTATTTTA
1 AAA--ATATTA
*
43893400 AAAA-AATA
1 AAAATATTA
*
43893408 AAAATATTT
1 AAAATATTA
43893417 AAAAT
1 AAAAT
43893422 TTTCTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 6 0.18
9 20 0.59
11 8 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATATTA
Found at i:43893409 original size:19 final size:19
Alignment explanation
Indices: 43893371--43893420 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
43893361 GCCATTGTTG
*
43893371 AAAATA-TTAAAAATATTA
1 AAAATATTTAAAAATAATA
*
43893389 AAATTATTTTAAAAA-AATA
1 AAAATA-TTTAAAAATAATA
43893408 AAAATATTTAAAA
1 AAAATATTTAAAA
43893421 TTTTCTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.44
19 8 0.30
20 7 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATTTAAAAATAATA
Found at i:43893411 original size:28 final size:29
Alignment explanation
Indices: 43893378--43893435 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
43893368 TTGAAAATAT
43893378 TAAAAATA-TTAAAATTATT-TTAAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAAA
43893406 TAAAAATATTTAAAATTTTCTTAAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAAA
43893435 T
1 T
43893436 GAAATTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAAATATTTAAAATTTTCTTAAAAAAA
Found at i:43893544 original size:52 final size:51
Alignment explanation
Indices: 43893466--43893571 Score: 140
Period size: 52 Copynumber: 2.1 Consensus size: 51
43893456 ATTTAATATG
* * * *
43893466 GAGTTTAGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTCGA
1 GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
* * *
43893517 GAGTTTAAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGACTTTGA
1 GAGTTT-AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
43893569 GAG
1 GAG
43893572 AATTTTTGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 6 0.13
52 41 0.87
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (51 bp):
GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
Found at i:43893551 original size:22 final size:22
Alignment explanation
Indices: 43893524--43893592 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
43893514 CGAGAGTTTA
*
43893524 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
**
43893546 AGAGAATTTTTGAAGGACTTTG
1 AGAGAATTTTTGAAGGAAATTG
*
43893568 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
43893590 AGA
1 AGA
43893593 TAGGATTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:43896162 original size:21 final size:21
Alignment explanation
Indices: 43896138--43896317 Score: 94
Period size: 21 Copynumber: 8.6 Consensus size: 21
43896128 GCTTGCTTTT
*
43896138 AGTTTAGCTCTTATGAGCTTC
1 AGTTTAACTCTTATGAGCTTC
* *
43896159 AG-TTAACTCATATGAGTTTC
1 AGTTTAACTCTTATGAGCTTC
* * * * *
43896179 AGTTTAACCCTTCTGGGTTTT
1 AGTTTAACTCTTATGAGCTTC
* * *
43896200 AGTTCAGCTCTTTTGAGCTTC
1 AGTTTAACTCTTATGAGCTTC
* * * *
43896221 AGTTTAACCCTAATGGGTTTC
1 AGTTTAACTCTTATGAGCTTC
* * * *
43896242 AGTTTAGCTTTTCTGATCTTC
1 AGTTTAACTCTTATGAGCTTC
* * * *
43896263 AGATTAACCCTTATGGGTTTC
1 AGTTTAACTCTTATGAGCTTC
* * *
43896284 CGTTTAGCTCCTATGAGCTTCC
1 AGTTTAACTCTTATGAGCTT-C
*
43896306 A-TTTAACCCTTA
1 AGTTTAACTCTTA
43896318 CGGGTTTCTG
Statistics
Matches: 108, Mismatches: 49, Indels: 4
0.67 0.30 0.02
Matches are distributed among these distances:
20 17 0.16
21 90 0.83
22 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (21 bp):
AGTTTAACTCTTATGAGCTTC
Found at i:43896223 original size:42 final size:42
Alignment explanation
Indices: 43896171--43896333 Score: 186
Period size: 42 Copynumber: 3.9 Consensus size: 42
43896161 TTAACTCATA
* * * *
43896171 TGAGTTTCAGTTTAACCCTTCTGGGTTTTAGTTCAGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTTAGCTCTTT
*
43896213 TGAGCTTCAGTTTAACCCTAATGGGTTTCAGTTTAGCT-TTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTTAGCTCTTT
* * * * *
43896254 CTGATCTTCAGATTAACCCTTATGGGTTTCCGTTTAGCTCCTA
1 -TGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTTAGCTCTTT
* *
43896297 TGAGCTTCCA-TTTAACCCTTACGGGTTTCTGTTTAGC
1 TGAGCTT-CAGTTTAACCCTTATGGGTTTCAGTTTAGC
43896334 ACTTATGTAC
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.03
42 97 0.94
43 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.43
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTTAGCTCTTT
Found at i:43896280 original size:84 final size:84
Alignment explanation
Indices: 43896176--43896333 Score: 210
Period size: 84 Copynumber: 1.9 Consensus size: 84
43896166 TCATATGAGT
* * * * * *
43896176 TTCAGTTTAACCCTTCTGGGTTTTAGTTCAGCTCTTTTGAGCTT-CAGTTTAACCCTAATGGGTT
1 TTCAGATTAACCCTTATGGGTTTCAGTTCAGCTCCTATGAGCTTCCA-TTTAACCCTAACGGGTT
43896240 TCAGTTTAGCTTTTCTGATC
65 TCAGTTTAGCTTTTCTGATC
* * *
43896260 TTCAGATTAACCCTTATGGGTTTCCGTTTAGCTCCTATGAGCTTCCATTTAACCCTTACGGGTTT
1 TTCAGATTAACCCTTATGGGTTTCAGTTCAGCTCCTATGAGCTTCCATTTAACCCTAACGGGTTT
*
43896325 CTGTTTAGC
66 CAGTTTAGC
43896334 ACTTATGTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 61 0.97
85 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (84 bp):
TTCAGATTAACCCTTATGGGTTTCAGTTCAGCTCCTATGAGCTTCCATTTAACCCTAACGGGTTT
CAGTTTAGCTTTTCTGATC
Found at i:43905328 original size:19 final size:19
Alignment explanation
Indices: 43905294--43905365 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
43905284 ATCTTCAAAG
43905294 GATATGC-ATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
43905312 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
*
43905331 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43905350 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
43905366 AGATATGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 7 0.14
19 42 0.86
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Done.