Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 200 of 325
Found at i:62571848 original size:20 final size:20
Alignment explanation
Indices: 62571782--62571848 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
62571772 ATTTTGATAA
*
62571782 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62571802 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62571822 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62571842 ACATGAT
1 ACATGAT
62571849 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62571924 original size:24 final size:24
Alignment explanation
Indices: 62571897--62572065 Score: 234
Period size: 24 Copynumber: 7.0 Consensus size: 24
62571887 GGAAGAAGTG
62571897 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
62571921 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
62571945 AAAAAGAGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
62571968 CTAAAAGGGCTTATGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
*
62571993 TAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
62572017 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
62572041 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
62572066 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
24 122 0.92
25 11 0.08
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:62573996 original size:43 final size:42
Alignment explanation
Indices: 62573943--62574090 Score: 152
Period size: 43 Copynumber: 3.5 Consensus size: 42
62573933 TATCCCAAAT
* * * *
62573943 ATGGTCTTACATGTTATCACATATCGACGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCA-ATATCGATGCCAATGTCCCAGAC
* * * *
62573986 AGGGTCTTACACGAAATCGAATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATC-AATATCGATGCCAATGTCCCAGAC
* * *
62574029 ATGGTCTTACACGTATTCAAAATGCAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAATAT-CGATGCCAATGTCCCAGAC
* *
62574072 ATGGTATTACATGTAATCA
1 ATGGTCTTACACGTAATCA
62574091 CATTTCGGTA
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 3 0.04
43 81 0.95
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCAATATCGATGCCAATGTCCCAGAC
Found at i:62575684 original size:93 final size:93
Alignment explanation
Indices: 62575572--62575744 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
62575562 CGCCCATAAG
* * *
62575572 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
62575637 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
62575665 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
62575730 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
62575745 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:62575740 original size:46 final size:46
Alignment explanation
Indices: 62575565--62575740 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
62575555 TGTAACCCGC
* *
62575565 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
62575611 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
62575661 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
62575704 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
62575741 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:62575759 original size:46 final size:45
Alignment explanation
Indices: 62575616--62575759 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
62575606 CGCATCCATA
* * *
62575616 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
62575664 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
62575709 AGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
62575755 AGTGA
1 AGTGA
62575760 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.47
47 30 0.39
48 5 0.07
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:62578465 original size:46 final size:46
Alignment explanation
Indices: 62578413--62578513 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
62578403 AACCAATCTA
* *
62578413 ATTCACAATTCAAACACATAGGCCCAATTCTAATTTCAACAACCAC
1 ATTCACAATTCAAACACATAGACCCAATTCCAATTTCAACAACCAC
* * *
62578459 ATTCACAATTCAAACACATATACTCAATTCCAATTTGAACAACCAC
1 ATTCACAATTCAAACACATAGACCCAATTCCAATTTCAACAACCAC
62578505 ATTCACAAT
1 ATTCACAAT
62578514 AACTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.26
Consensus pattern (46 bp):
ATTCACAATTCAAACACATAGACCCAATTCCAATTTCAACAACCAC
Found at i:62595460 original size:48 final size:48
Alignment explanation
Indices: 62595399--62595521 Score: 149
Period size: 48 Copynumber: 2.6 Consensus size: 48
62595389 TACAATATAA
* * * * *
62595399 TGACAATTTGCATATCCTTTGAAAAGATAGTTCACATATACATTACAT
1 TGACAGTTCGCATATCCTTTGAAAAGATAATTCACACATACATTACAG
* *
62595447 TGATAGTTCGCATA-CTTTTTGAAAAGATAATTCACACATACATTACAG
1 TGACAGTTCGCATATC-CTTTGAAAAGATAATTCACACATACATTACAG
* *
62595495 TGACAGTTCACATATTCTTTGAAAAGA
1 TGACAGTTCGCATATCCTTTGAAAAGA
62595522 GCTCTCACAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 1 0.02
48 61 0.98
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (48 bp):
TGACAGTTCGCATATCCTTTGAAAAGATAATTCACACATACATTACAG
Found at i:62598238 original size:43 final size:43
Alignment explanation
Indices: 62598190--62598293 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
62598180 GATTAACGAG
* *
62598190 ATGTGATTATGTGTAAGACCATGTCGGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGTCGGGGAAATTGACATCATT
* **
62598233 ATGTGATTATGTGTAAGACCATGTCTGGGAAATTGACATTGTT
1 ATGTGATTATGTGTAAGACCATGTCGGGGAAATTGACATCATT
*
62598276 ATTTGATT-TCGTGTAAGA
1 ATGTGATTAT-GTGTAAGA
62598294 ACATAGCTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.37
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCGGGGAAATTGACATCATT
Found at i:62600130 original size:47 final size:46
Alignment explanation
Indices: 62600065--62600322 Score: 256
Period size: 47 Copynumber: 5.5 Consensus size: 46
62600055 GTGCCAATGC
*
62600065 CATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAAGCCGATG
* *
62600111 CCATGTCCCAGACATGGTCTTACACTAGCT-ATCATCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTC-AAGCCGATG
* * * * * * *
62600159 CATGTCTCAGACATGTCTTACACTGACTTA-CGTTTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCATCATCTC-AAGCCGATG
*
62600205 CATGTCCCAGACATGTCTTACACTGGCTC-TCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GCCGATG
* * ***
62600251 CCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCATCAT-CTCAAGCCGATG
62600299 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
62600323 AGCCAACAAT
Statistics
Matches: 179, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 72 0.40
47 73 0.41
48 32 0.18
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGCCGATG
Found at i:62600205 original size:46 final size:46
Alignment explanation
Indices: 62600065--62600322 Score: 238
Period size: 46 Copynumber: 5.5 Consensus size: 46
62600055 GTGCCAATGC
* * * *
62600065 CATGTCCCAGACATGGTCTTACACTGG--CTCATATCTCAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTATC-GAGGCCGATG
* * * *
62600111 CCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTATCG-AGGCCGATG
* * * *
62600159 CATGTCTCAGACATGTCTTACACTGACT-TACGTTTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CGTATCGAGGCCGATG
* * *
62600205 CATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCGTATCGAGGCCGATG
* * *
62600251 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCGT-ATCGAGGCCGATG
62600299 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
62600323 AGCCAACAAT
Statistics
Matches: 178, Mismatches: 24, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 71 0.40
47 66 0.37
48 31 0.17
49 8 0.04
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCGTATCGAGGCCGATG
Found at i:62600317 original size:140 final size:140
Alignment explanation
Indices: 62600065--62600322 Score: 396
Period size: 140 Copynumber: 1.8 Consensus size: 140
62600055 GTGCCAATGC
* *
62600065 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGCCGATGCCATGTCCCAAACATGGTC
* *
62600130 TTACACTAGCTATCATCTCGTAGCCGATGCATGTCTCAGACATGTCTTACACTGACTTACGTTTC
66 TTACACTAGCTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTTTC
62600195 GAGGCTGATG
131 GAGGCTGATG
*
62600205 CATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTCTCAATGCCGATGCCATGTCCCAAACATGG
1 CATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAAACATGG
* * *
62600268 TCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 TCTTACACTAGCTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
62600323 AGCCAACAAT
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
138 1 0.01
139 21 0.20
140 84 0.79
141 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGCCGATGCCATGTCCCAAACATGGTC
TTACACTAGCTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTTTC
GAGGCTGATG
Found at i:62601688 original size:19 final size:20
Alignment explanation
Indices: 62601664--62601701 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62601654 TAATTAGATT
62601664 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
62601683 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
62601702 TGTAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:62601904 original size:13 final size:14
Alignment explanation
Indices: 62601878--62601918 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
62601868 TATTTAAGAA
*
62601878 ATAATAATTATAAT
1 ATAATAAATATAAT
*
62601892 -TATTAAATATAAT
1 ATAATAAATATAAT
62601905 ATAATAAA-ATAAT
1 ATAATAAATATAAT
62601918 A
1 A
62601919 GCTAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAATAAATATAAT
Found at i:62603933 original size:22 final size:22
Alignment explanation
Indices: 62603892--62603964 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
62603882 GCGCTCCACA
*
62603892 GGCGAGTCACATC-AGCCACACG
1 GGCGTGTCACA-CAAGCCACACG
* * *
62603914 GGCGTTTCATACAAGTCACACG
1 GGCGTGTCACACAAGCCACACG
*
62603936 GGCGTGTGACACAAGCCACACG
1 GGCGTGTCACACAAGCCACACG
62603958 GGCGTGT
1 GGCGTGT
62603965 GGTACTATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 1 0.02
22 41 0.98
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.15
Consensus pattern (22 bp):
GGCGTGTCACACAAGCCACACG
Found at i:62603965 original size:22 final size:22
Alignment explanation
Indices: 62603905--62603965 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
62603895 GAGTCACATC
* * *
62603905 AGCCACACGGGCGTTTCATACA
1 AGCCACACGGGCGTGTGACACA
*
62603927 AGTCACACGGGCGTGTGACACA
1 AGCCACACGGGCGTGTGACACA
62603949 AGCCACACGGGCGTGTG
1 AGCCACACGGGCGTGTG
62603966 GTACTATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.31, T:0.15
Consensus pattern (22 bp):
AGCCACACGGGCGTGTGACACA
Found at i:62605443 original size:92 final size:91
Alignment explanation
Indices: 62605316--62605484 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 91
62605306 GCCCATAAGT
* *
62605316 GAACTCGGACCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTC-ACTCAAC
62605381 GAGCTCAGATGCCTAGTTACATCTCTC
65 GAGCTCAGATGCCTAGTTACATCTCTC
* *
62605408 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCACTCAAC
1 GAACTCGGAC-CAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCACTCAAC
* *
62605472 GAGTTCGGATGCC
65 GAGCTCAGATGCC
62605485 CAAACATCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
91 21 0.30
92 49 0.70
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCACTCAACG
AGCTCAGATGCCTAGTTACATCTCTC
Found at i:62605472 original size:45 final size:46
Alignment explanation
Indices: 62605308--62605480 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
62605298 TGTAACCTGC
* * *
62605308 CCATAAGTGAACTCGGAC-CAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
62605353 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
62605399 ACATCTCTCGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
62605445 CCATAAGTGAACTCGGACTC-ACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
62605481 TGCCCAAACA
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 40 0.39
46 47 0.46
47 6 0.06
48 5 0.05
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:62608890 original size:93 final size:93
Alignment explanation
Indices: 62608762--62608933 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
62608752 ACCCATAAGT
* * *
62608762 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62608827 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
*
62608855 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
62608920 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
62608934 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:62608929 original size:46 final size:46
Alignment explanation
Indices: 62608754--62608929 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
62608744 TGTAACCCAC
* * *
62608754 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
62608800 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
62608846 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
62608893 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
62608930 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 30 0.28
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:62608948 original size:46 final size:46
Alignment explanation
Indices: 62608805--62608948 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
62608795 CGCATCCATA
* * *
62608805 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
62608854 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
62608898 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
62608944 AGTGA
1 AGTGA
62608949 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
44 8 0.11
46 33 0.44
47 30 0.40
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:62612012 original size:53 final size:55
Alignment explanation
Indices: 62611937--62612111 Score: 288
Period size: 53 Copynumber: 3.3 Consensus size: 55
62611927 TAAATTGTAC
62611937 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
*
62611992 AGCA-TAA-TGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAG-TGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
*
62612044 AGCACTAAGTGTGCGAGTTTGATTA--TAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
*
62612097 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62612112 GACTTAATAT
Statistics
Matches: 113, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
52 31 0.27
53 60 0.53
54 18 0.16
55 4 0.04
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
Found at i:62612018 original size:26 final size:27
Alignment explanation
Indices: 62611937--62612111 Score: 270
Period size: 26 Copynumber: 6.6 Consensus size: 27
62611927 TAAATTGTAC
62611937 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
62611965 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
62611992 AGCA-TAA-TGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
62612018 AGCACTAAGTGTGCGAG-TGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
62612044 AGCACTAAGTGTGCGAGTTTGATTA--T
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
62612070 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
62612097 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62612112 GACTTAATAT
Statistics
Matches: 139, Mismatches: 1, Indels: 15
0.90 0.01 0.10
Matches are distributed among these distances:
25 15 0.11
26 61 0.44
27 32 0.23
28 31 0.22
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:62612052 original size:79 final size:80
Alignment explanation
Indices: 62611937--62612111 Score: 268
Period size: 79 Copynumber: 2.2 Consensus size: 80
62611927 TAAATTGTAC
62611937 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATGTAGCA-TAA-
1 AGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGTGTGCGAGTTTGATTA--TAGCACTAAG
*
62611999 TGTGCGAGCTTGATTATGT
63 TGTGCGAG-TTGATTATAT
62612018 AGCACTAAGTGTGCGAG-TGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAGCACTAAGTGT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAGCACTAAGTGT
62612082 GCGAGTTGATTATAT
66 GCGAGTTGATTATAT
*
62612097 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62612112 GACTTAATAT
Statistics
Matches: 89, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
78 5 0.06
79 52 0.58
80 15 0.17
81 17 0.19
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (80 bp):
AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAGCACTAAGTGT
GCGAGTTGATTATAT
Found at i:62620158 original size:28 final size:28
Alignment explanation
Indices: 62620118--62620299 Score: 312
Period size: 28 Copynumber: 6.5 Consensus size: 28
62620108 TAAATTGTAC
62620118 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
62620146 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
62620174 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
62620202 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
62620230 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
62620258 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
62620285 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62620300 GACTTAATAT
Statistics
Matches: 150, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 126 0.84
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:62629003 original size:40 final size:40
Alignment explanation
Indices: 62628946--62629075 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62628936 CTAACGGGGT
* *
62628946 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGC
* *
62628986 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGC
* *
62629026 TAAGTCCCAAAGGCATTTGTGCTAGTGACCACA-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGC
*
62629066 TAAGACCCGA
1 TAAGTCCCGA
62629076 CGGCCTTGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.03
40 74 0.96
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGC
Found at i:62631042 original size:25 final size:25
Alignment explanation
Indices: 62630995--62631042 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
62630985 TTATAATATG
* * *
62630995 AAAATGACCGTTTTGCCCCTAGGTT
1 AAAATGACCATTATACCCCTAGGTT
*
62631020 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
62631043 GTTTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTT
Found at i:62631108 original size:20 final size:20
Alignment explanation
Indices: 62631079--62631125 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
62631069 ATTTTGATAA
*
62631079 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
62631099 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62631119 ACATGAT
1 ACATGAT
62631126 GTGTTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62631227 original size:23 final size:24
Alignment explanation
Indices: 62631176--62631317 Score: 220
Period size: 24 Copynumber: 6.0 Consensus size: 24
62631166 AGGAAGTGTA
62631176 AAAAGGGCTTATGTCCCC-GTTATT
1 AAAAGGGCTTATG-CCCCAGTTATT
62631200 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
62631224 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
62631247 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
62631271 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
62631294 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
62631318 ATGATAAAGA
Statistics
Matches: 112, Mismatches: 1, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
23 46 0.41
24 58 0.52
25 8 0.07
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:62631246 original size:47 final size:48
Alignment explanation
Indices: 62631176--62631317 Score: 220
Period size: 47 Copynumber: 3.0 Consensus size: 48
62631166 AGGAAGTGTA
62631176 AAAAGGGCTTATGTCCCC-GTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATG-CCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
62631224 -AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
62631271 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
62631318 ATGATAAAGA
Statistics
Matches: 89, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
46 4 0.04
47 65 0.73
48 20 0.22
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:62631571 original size:30 final size:31
Alignment explanation
Indices: 62631511--62631573 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
62631501 CATTTACAGT
62631511 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
62631542 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
62631572 AA
1 AA
62631574 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:62637616 original size:47 final size:45
Alignment explanation
Indices: 62637458--62637724 Score: 206
Period size: 47 Copynumber: 5.7 Consensus size: 45
62637448 GATATATTGT
* *
62637458 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATACGCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTC-TGT-C-AG-GC
* * *
62637508 TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GC
1 CGATGCATGTCCCAGACATGTCTTACACT-G-GCATCTCTGTCAGGC
* * *
62637552 CGATGCGTGTCCTAGACACGTCTTACACTGGCTATCTCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCTGTC-AGGC
* * *
62637599 CGATGCATGTCCCAGACATGTCTTACACTGGCA-CTTATCTCTATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATC-TCTGTC-AGGC
* *
62637645 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT-ATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC-TCTGTCA-GGC
*
62637693 TGATGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
62637725 GCACAAATCA
Statistics
Matches: 181, Mismatches: 22, Indels: 32
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.03
44 28 0.15
45 1 0.01
46 26 0.14
47 60 0.33
48 30 0.17
49 18 0.10
50 8 0.04
51 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATCTCTGTCAGGC
Found at i:62637711 original size:94 final size:91
Alignment explanation
Indices: 62637458--62637724 Score: 319
Period size: 94 Copynumber: 2.9 Consensus size: 91
62637448 GATATATTGT
*
62637458 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA---G-GCTGATGCATGTCCCA
*
62637522 GACATGTCTTACACTAGCACAACTCTTAGC
62 GACATGTCTTACACTGGCACAACTCTTAGC
* * * * *
62637552 CGATG-CGTGTCCTAGACA-CGTCTTACACTGGCTATC-TCTGTCGAGGCCGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--AGGCTGATGCATGTCCCAG
*
62637614 ACATGTCTTACACTGGCACTTA-TCTCTATGC
63 ACATGTCTTACACTGGCAC-AACTCT-TA-GC
*
62637645 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA-GGCTGATGCATGTCCCAGAC
62637710 ATGTCTTACACTGGC
65 ATGTCTTACACTGGC
62637725 GCACAAATCA
Statistics
Matches: 148, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
91 38 0.26
92 20 0.14
93 19 0.13
94 50 0.34
95 20 0.14
96 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (91 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTAGGCTGATGCATGTCCCAGACA
TGTCTTACACTGGCACAACTCTTAGC
Found at i:62646831 original size:29 final size:29
Alignment explanation
Indices: 62646798--62646855 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
62646788 TTATCTGAGG
62646798 AGGAAGGATTTAAGTTGAGACCATCTCTT
1 AGGAAGGATTTAAGTTGAGACCATCTCTT
62646827 AGGAAGGATTTAAGTTGAGACCATCTCTT
1 AGGAAGGATTTAAGTTGAGACCATCTCTT
62646856 TGGATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (29 bp):
AGGAAGGATTTAAGTTGAGACCATCTCTT
Found at i:62647830 original size:43 final size:43
Alignment explanation
Indices: 62647683--62647851 Score: 182
Period size: 45 Copynumber: 3.9 Consensus size: 43
62647673 ATAACAAACA
* ** *
62647683 TTATCTCTCTGAAGTTGCAGTAGG-GTGGGTTGAAGTAGTAAGTC
1 TTATCTCCCTGAAGTTGCAGT-GGAGCAGGTTGAAGTAGCAA-TC
* * * **
62647727 TTCTCTCCCTGAAGTTACAGTGAAGCAGACTGAAGATAGCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TAGCA-ATC
62647772 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCA-CAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGT-AGCAATC
*
62647815 TTATCTCCCTGAAGTTGCAGTGGAGCA-GTTGCAGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAG
62647852 AGCATATTAA
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 31 0.30
44 28 0.27
45 37 0.35
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAGCAATC
Found at i:62650294 original size:19 final size:20
Alignment explanation
Indices: 62650270--62650307 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62650260 TAATTAGATT
62650270 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
62650289 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
62650308 TGTAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:62652531 original size:22 final size:22
Alignment explanation
Indices: 62652505--62652554 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
62652495 CCCTCCACAG
62652505 GCGTGTCACATC-AGCCACACGA
1 GCGTGTCACA-CAAGCCACACGA
* *
62652527 GCGTGTCACACAAGCCACATGG
1 GCGTGTCACACAAGCCACACGA
62652549 GCGTGT
1 GCGTGT
62652555 GGTACTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (22 bp):
GCGTGTCACACAAGCCACACGA
Found at i:62656448 original size:24 final size:24
Alignment explanation
Indices: 62656408--62656469 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
62656398 ACAAGCTGCT
*
62656408 TGTTGTGGTCAAA-CCACTTAAATA-
1 TGTTGTGG-AAAAGCCAC-TAAATAG
*
62656432 TGTTGTGGAAAAGCCACTCAATAG
1 TGTTGTGGAAAAGCCACTAAATAG
62656456 TGTTGTGGAAAAGC
1 TGTTGTGGAAAAGC
62656470 GATTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 8 0.24
24 26 0.76
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (24 bp):
TGTTGTGGAAAAGCCACTAAATAG
Found at i:62657586 original size:41 final size:41
Alignment explanation
Indices: 62657121--62657606 Score: 582
Period size: 41 Copynumber: 11.9 Consensus size: 41
62657111 AGTCGAGAAA
* * *
62657121 TAGCGGCGTTTTCGAAAAAACGCCGCCAAAAGTCTGAGAAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
62657162 TAGCGGCGTTTTT-CAAGAAACGCCACAAAAAGTCTGAGAAT
1 TAGCGGCGTTTTTGGAA-AAACGCCGCCAAAAGTCTGAGCAT
* * **
62657203 TCGCGGCATTTTTCCAAAAACGCC-CCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
62657243 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * * *
62657284 TAGCGGCGTTTTTAGAAAAATGCCGCCAAAGGTATGAGCGT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
62657325 TAGCGGCGTTTTT-TACCAAAACGCCGCCAAAGGTCTGAGCAT
1 TAGCGGCGTTTTTGGA--AAAACGCCGCCAAAAGTCTGAGCAT
** **
62657367 TAGCGGCGTTTTTATAAAAACGCCGCCAAAAGTCTGAATAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
62657408 TAGCGGCGTTTTTGGGAAAACACCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
62657449 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
62657490 TAGCGGCGTTTTTGGGAAAACGCCACCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
*
62657531 TAGCGGCGTTTTTGGAAAAACGCCGCAAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * * *
62657572 TAGCGGCATTTTTGGAGAATCGCCGCTAAACGTCT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCT
62657607 TTTTTGAATT
Statistics
Matches: 400, Mismatches: 39, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
40 38 0.09
41 322 0.81
42 38 0.09
43 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:62657770 original size:7 final size:7
Alignment explanation
Indices: 62657760--62657785 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62657750 TGGGTTTGAG
62657760 GTTTAGT
1 GTTTAGT
62657767 GTTTAGT
1 GTTTAGT
62657774 GTTTAGT
1 GTTTAGT
62657781 GTTTA
1 GTTTA
62657786 TGATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTAGT
Found at i:62658950 original size:22 final size:22
Alignment explanation
Indices: 62658925--62658979 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
62658915 TATCTAGAAT
62658925 TTAGGGTTTAAT-GTTTATAAGG
1 TTAGGGTTTAATGGTTTA-AAGG
* *
62658947 TTAGGGGTTT-ATGGTTTAGAGT
1 TTA-GGGTTTAATGGTTTAAAGG
62658969 TTAGGGTTTAA
1 TTAGGGTTTAA
62658980 GATTTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 6 0.21
22 11 0.39
23 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTAATGGTTTAAAGG
Found at i:62658962 original size:7 final size:7
Alignment explanation
Indices: 62658951--62658996 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
62658941 ATAAGGTTAG
62658951 GGGTTTA
1 GGGTTTA
*
62658958 TGGTTTA
1 GGGTTTA
*
62658965 GAGTTTA
1 GGGTTTA
62658972 GGGTTTA
1 GGGTTTA
* *
62658979 AGATTTA
1 GGGTTTA
62658986 GGGTTTA
1 GGGTTTA
62658993 GGGT
1 GGGT
62658997 CTGATTTTGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:62658977 original size:21 final size:21
Alignment explanation
Indices: 62658919--62658996 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
62658909 ATTTAGTATC
*
62658919 TAGAATTTAGGGTTTAAT-GTT
1 TAGAGTTTAGGGTTT-ATGGTT
* *
62658940 TATAAGGTTAGGGGTTTATGGTT
1 TA-GAGTTTA-GGGTTTATGGTT
* *
62658963 TAGAGTTTAGGGTTTAAGATT
1 TAGAGTTTAGGGTTTATGGTT
*
62658984 TAGGGTTTAGGGT
1 TAGAGTTTAGGGT
62658997 CTGATTTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 24 0.52
22 11 0.24
23 11 0.24
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
TAGAGTTTAGGGTTTATGGTT
Found at i:62660423 original size:24 final size:26
Alignment explanation
Indices: 62660396--62660450 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
62660386 AATTTTTTTA
*
62660396 ATTAAT-CGAAATTTTT-TATCTAAT
1 ATTAATCCGAAATTTTTATATATAAT
* *
62660420 ATT-ATCCTAAATTTTTATATATTAT
1 ATTAATCCGAAATTTTTATATATAAT
62660445 ATTAAT
1 ATTAAT
62660451 TTAATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 9 0.36
26 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTAATCCGAAATTTTTATATATAAT
Found at i:62662413 original size:9 final size:9
Alignment explanation
Indices: 62662350--62662486 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
62662340 ATTGATCATT
*
62662350 ACTTAAATA
1 ACTTACATA
*
62662359 AGTTACATA
1 ACTTACATA
* **
62662368 ACTCATGTA
1 ACTTACATA
62662377 ACTTACATA
1 ACTTACATA
*
62662386 ATTTACATAACA
1 ACTTACAT---A
*
62662398 ACCTACATA
1 ACTTACATA
62662407 ACTTACATA
1 ACTTACATA
62662416 ACTTACATA
1 ACTTACATA
* *
62662425 ATTTATATA
1 ACTTACATA
*
62662434 ACTCACATA
1 ACTTACATA
* *
62662443 ACGTATATAACA
1 AC-T-TA-CATA
62662455 ACTTACATA
1 ACTTACATA
*
62662464 ACTCACATA
1 ACTTACATA
62662473 ACTTACATA
1 ACTTACATA
62662482 ACTTA
1 ACTTA
62662487 ACTAATACAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 81 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:62662424 original size:57 final size:57
Alignment explanation
Indices: 62662350--62662484 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
62662340 ATTGATCATT
* * * * **
62662350 ACTTAAATAAGTTACATAACTCATGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
* * * *
62662407 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
*
62662464 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
62662485 TAACTAATAC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
Found at i:62668099 original size:21 final size:21
Alignment explanation
Indices: 62668053--62668110 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
62668043 CTAGCTGATG
* *
62668053 CAGCAGAGAGGGAGGCAGCGA
1 CAGCAGCGAGAGAGGCAGCGA
*
62668074 CAGCAGCGAGAGAGGCAGCGG
1 CAGCAGCGAGAGAGGCAGCGA
* *
62668095 TAGCAGCGAAAGAGGC
1 CAGCAGCGAGAGAGGC
62668111 GGAGCAGAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.45, T:0.02
Consensus pattern (21 bp):
CAGCAGCGAGAGAGGCAGCGA
Found at i:62668504 original size:43 final size:44
Alignment explanation
Indices: 62668442--62668555 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
62668432 TGTAAATTTA
* * *
62668442 GCGGCGTTTGTGGGGAAAGCGTCGCT-AAAGGACTCTACTTTTG
1 GCGGCATTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* * *
62668485 GCGGCATTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACTTTTG
1 GCGGCATTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* * *
62668529 GCGGCATTTTTGGTGTAAGCGCCGCTA
1 GCGGCATTTGTGGAGAAAGCGCCGCTA
62668556 TAGGTCTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 22 0.37
44 38 0.63
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.29
Consensus pattern (44 bp):
GCGGCATTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTG
Found at i:62668531 original size:44 final size:42
Alignment explanation
Indices: 62668438--62668834 Score: 244
Period size: 43 Copynumber: 9.2 Consensus size: 42
62668428 AATCTGTAAA
* * * * *
62668438 TTTAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGGACTCTACT
1 TTTAGCGGCATTTGT-GGTAAAGCGCCGCTAAAGGTCTGTACT
*
62668481 TTTGGCGGCATTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGCATTTGTGG-TAAAGCGCCGCT-AAAGGTCTGTACT
* * * * * **
62668525 TTTGGCGGCATTTTTGGTGTAAGCGCCGCTATAGGTCTATAAA
1 TTTAGCGGCATTTGTGGT-AAAGCGCCGCTAAAGGTCTGTACT
** * *
62668568 TTTAGCGGTTTTTTTTGGCTAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGG-CATTTGTGG-TAAAGCGCCGCTAAAGGTCTGTACT
** **** ** * *
62668612 TTTAGCGGCGCCTTGCAAAAAAATGCCGCTAAAGGTCCGCACT
1 TTTAGCGGC-ATTTGTGGTAAAGCGCCGCTAAAGGTCTGTACT
** ** *
62668655 TTTAGCGGTGC-TTTCCCCGG-AAA-CGCCGCTAAAGGTCTACACC
1 TTTAGC-G-GCATTT--GTGGTAAAGCGCCGCTAAAGGTCTGTACT
* * * * *
62668698 TTTAGTGGCGTTTGTGGCTAAAACGCCGCTAAAGGTCTGCACC
1 TTTAGCGGCATTTGTGG-TAAAGCGCCGCTAAAGGTCTGTACT
* *
62668741 TTTAGCGGCATTTTTTGGGT-AAGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGCA-TTTGT-GGTAAAGCGCCGCTAAAGGTCTGTACT
* * * * *
62668784 ATTAGCGGCGTTTATGGTAAAGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGCATTTGTGGTAAAGCGCCGCTAAAGGTCTGTACT
62668826 TTTAGCGGC
1 TTTAGCGGC
62668835 GTTTTTCGTT
Statistics
Matches: 278, Mismatches: 59, Indels: 35
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.01
41 5 0.02
42 42 0.15
43 142 0.51
44 81 0.29
45 6 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCATTTGTGGTAAAGCGCCGCTAAAGGTCTGTACT
Found at i:62668768 original size:43 final size:42
Alignment explanation
Indices: 62668438--62668884 Score: 186
Period size: 43 Copynumber: 10.4 Consensus size: 42
62668428 AATCTGTAAA
* * * * *
62668438 TTTAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGGACT-CTACT
1 TTTAGCGGC-TTTTTTGGGTAAGCGCCGCTAAAGGTCTGC-ACT
* * * * *
62668481 TTTGGCGGCATTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGCTTTTTTGGGT-AAGCGCCGCT-AAAGGTCTGCACT
* * * ** **
62668525 TTTGGCGGCATTTTTGGTGTAAGCGCCGCTATAGGTCTATAAA
1 TTTAGCGGCTTTTTTGG-GTAAGCGCCGCTAAAGGTCTGCACT
* * * *
62668568 TTTAGCGGTTTTTTTTGGCTAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGG-CTTTTTTGGGT-AAGCGCCGCTAAAGGTCTGCACT
*** *** ** *
62668612 TTTAGCGGC-GCCTTGCAAAAAAATGCCGCTAAAGGTCCGCACT
1 TTTAGCGGCTTTTTTG--GGTAAGCGCCGCTAAAGGTCTGCACT
**** * * *
62668655 TTTAGCGGTGCTTTCCCCGG-AAACGCCGCTAAAGGTCTACACC
1 TTTAGC-G-GCTTTTTTGGGTAAGCGCCGCTAAAGGTCTGCACT
* * * * * *
62668698 TTTAGTGGCGTTTGTGGCTAAAACGCCGCTAAAGGTCTGCACC
1 TTTAGCGGCTTTTTTGGGT-AAGCGCCGCTAAAGGTCTGCACT
**
62668741 TTTAGCGGCATTTTTTGGGTAAGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGC-TTTTTTGGGTAAGCGCCGCTAAAGGTCTGCACT
* * * *
62668784 ATTAGCGGCGTTTAT-GGTAAAGCGCCGCTAAAGGTAT-CTACT
1 TTTAGCGGCTTTTTTGGGT-AAGCGCCGCTAAAGGTCTGC-ACT
* * * * * *
62668826 TTTAGCGGCGTTTTTCGTTCAAACGCCGCTAAAAGTGATG-ACT
1 TTTAGCGGCTTTTTTGGGT-AAGCGCCGCTAAAGGT-CTGCACT
*
62668869 TTTAGTGGCATTTTTT
1 TTTAGCGGC-TTTTTT
62668885 TCACATAAAC
Statistics
Matches: 307, Mismatches: 77, Indels: 39
0.73 0.18 0.09
Matches are distributed among these distances:
41 8 0.03
42 45 0.15
43 166 0.54
44 84 0.27
45 3 0.01
46 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCTTTTTTGGGTAAGCGCCGCTAAAGGTCTGCACT
Found at i:62668853 original size:85 final size:86
Alignment explanation
Indices: 62668675--62668858 Score: 223
Period size: 85 Copynumber: 2.2 Consensus size: 86
62668665 CTTTCCCCGG
* * *
62668675 AAACGCCGCTAAAGGTCTACACCTTTAGTGGCGTTTGTGGCTAAAACGCCGCTAAAGGTCTGCAC
1 AAACGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTATGGCTAAAACGCCGCTAAAGGTATGCAC
* *
62668740 CTTTAGCGGCATTTTTTGGGT
66 CTTTAGCGGCAGTTTTTCGGT
* * *
62668761 AAGCGCCGCTAAAGGTCTATA-CTATTAGCGGCGTTTATGG-TAAAGCGCCGCTAAAGGTAT-CT
1 AAACGCCGCTAAAGGTCTACACCT-TTAGCGGCGTTTATGGCTAAAACGCCGCTAAAGGTATGC-
* *
62668823 ACTTTTAGCGGC-GTTTTTCGTT
64 ACCTTTAGCGGCAGTTTTTCGGT
62668845 CAAACGCCGCTAAA
1 -AAACGCCGCTAAA
62668859 AGTGATGACT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
84 8 0.10
85 43 0.51
86 33 0.39
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTATGGCTAAAACGCCGCTAAAGGTATGCAC
CTTTAGCGGCAGTTTTTCGGT
Found at i:62679505 original size:11 final size:10
Alignment explanation
Indices: 62679487--62679549 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 10
62679477 ACAAATCGAA
62679487 ACACCACCAT
1 ACACCACCAT
62679497 ACAACCACCAT
1 AC-ACCACCAT
* *
62679508 ATCGCCACCAC
1 A-CACCACCAT
62679519 ACCACCACCAT
1 A-CACCACCAT
*
62679530 ACGACCACTAT
1 AC-ACCACCAT
62679541 ATCACCACC
1 A-CACCACC
62679550 CTTGCACCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 3 0.07
11 37 0.88
12 2 0.05
ACGTcount: A:0.37, C:0.49, G:0.03, T:0.11
Consensus pattern (10 bp):
ACACCACCAT
Found at i:62679537 original size:22 final size:23
Alignment explanation
Indices: 62679489--62679537 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
62679479 AAATCGAAAC
*
62679489 ACCACCATACAACCACCATATCG
1 ACCACCACACAACCACCATATCG
*
62679512 -CCACCACACCACCACCATA-CG
1 ACCACCACACAACCACCATATCG
62679533 ACCAC
1 ACCAC
62679538 TATATCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.37, C:0.51, G:0.04, T:0.08
Consensus pattern (23 bp):
ACCACCACACAACCACCATATCG
Found at i:62685818 original size:19 final size:19
Alignment explanation
Indices: 62685791--62685836 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
62685781 TACCAAAGTG
*
62685791 GGCCTATTGGCCCATTTTC
1 GGCCCATTGGCCCATTTTC
62685810 GGCCCATTGGCCCATTTTC
1 GGCCCATTGGCCCATTTTC
*
62685829 AGCCCATT
1 GGCCCATT
62685837 AAGCCCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.35, G:0.20, T:0.33
Consensus pattern (19 bp):
GGCCCATTGGCCCATTTTC
Found at i:62686173 original size:26 final size:27
Alignment explanation
Indices: 62686144--62686197 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62686134 TCACACAAGT
*
62686144 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
62686170 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
62686197 T
1 T
62686198 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:62686230 original size:27 final size:27
Alignment explanation
Indices: 62686200--62686396 Score: 216
Period size: 27 Copynumber: 7.3 Consensus size: 27
62686190 GGCAAAATGG
* * * *
62686200 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
62686227 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
62686254 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
62686281 TAATTTTATCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
62686308 TAATTCTA-CTTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
62686334 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * * * *
62686361 TAATTCTACCTTCCAGGAGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
62686388 TAATTCTAC
1 TAATTCTAC
62686397 AACTTATCCA
Statistics
Matches: 143, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.16
27 120 0.84
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:62686245 original size:54 final size:53
Alignment explanation
Indices: 62686197--62686396 Score: 190
Period size: 53 Copynumber: 3.7 Consensus size: 53
62686187 AGGGGCAAAA
* * *
62686197 TGGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGG-AATT
* * *
62686251 TGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTTTATCCTACAGGGGTATT
1 TGGTAATTT-TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGAATT
* * * * *
62686304 TCGGTAATTCTA-CTTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATT
1 T-GGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGAATT
* * * * *
62686357 TCGGTAATTCTA-CCTTCCAGGAGTATTTTGGTAATTCTAC
1 T-GGTAATTTTACCCTACAAGG-GTATTTCGATAATTCTAC
62686397 AACTTATCCA
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 60 0.49
54 60 0.49
55 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (53 bp):
TGGTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGAATT
Found at i:62686346 original size:80 final size:79
Alignment explanation
Indices: 62686200--62686396 Score: 223
Period size: 80 Copynumber: 2.4 Consensus size: 79
62686190 GGCAAAATGG
* * * * *** *
62686200 TAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCC
1 TAATTTTA-CCTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCAATAATTCTACCC
62686265 TACAAGGGTATTTCGA
64 TACAAGGGTATTTCGA
*
62686281 TAATTTTATCCTACAGGGGTATTTCGGTAATTCTACTTACAGGGGTATTTCAATAATTCTACCCT
1 TAATTTTA-CCTACAGGGGTATTTCGGTAATTCTACCTACAGGGGTATTTCAATAATTCTACCCT
* *
62686346 ACAGGGGTATTTCGG
65 ACAAGGGTATTTCGA
* * * *
62686361 TAATTCTACCTTCCAGGAGTATTTTGGTAATTCTAC
1 TAATTTTACC-TACAGGGGTATTTCGGTAATTCTAC
62686397 AACTTATCCA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 67 0.68
81 30 0.30
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (79 bp):
TAATTTTACCTACAGGGGTATTTCGGTAATTCTACCTACAGGGGTATTTCAATAATTCTACCCTA
CAAGGGTATTTCGA
Found at i:62689738 original size:79 final size:81
Alignment explanation
Indices: 62689636--62689820 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
62689626 GCTCCTCGTT
* * *
62689636 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCATTC-GGATCTTAACCC
* *
62689699 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
62689716 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCATTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCATTCGGATCTTAACCCGG
* *
62689780 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
62689796 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62689821 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCATTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:62689820 original size:40 final size:40
Alignment explanation
Indices: 62689636--62689820 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
62689626 GCTCCTCGTT
* *
62689636 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
62689676 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
62689716 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
62689755 CAAATGCATTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
62689796 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62689821 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:62693686 original size:40 final size:40
Alignment explanation
Indices: 62693592--62693774 Score: 271
Period size: 40 Copynumber: 4.5 Consensus size: 40
62693582 TATTCGGATG
*
62693592 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--TAGTGACT
62693634 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
62693674 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
62693714 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
62693754 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
62693775 ATACTTGGGT
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
39 13 0.10
40 84 0.64
41 2 0.02
42 32 0.24
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:62701804 original size:40 final size:40
Alignment explanation
Indices: 62701749--62701968 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
62701739 TATTCGGATG
62701749 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
62701789 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
62701832 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
62701872 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
62701912 ATATCCTGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
62701952 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
62701969 AAAGATACTT
Statistics
Matches: 160, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 9 0.06
40 113 0.71
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:62701892 original size:83 final size:80
Alignment explanation
Indices: 62701753--62701968 Score: 285
Period size: 83 Copynumber: 2.7 Consensus size: 80
62701743 CGGATGATAT
* **
62701753 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
62701818 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
62701836 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
62701901 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * *
62701916 CCTGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCC
62701969 AAAGATACTT
Statistics
Matches: 122, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 12 0.10
80 44 0.36
81 2 0.02
83 64 0.52
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:62707389 original size:46 final size:45
Alignment explanation
Indices: 62707330--62707451 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 45
62707320 AACGAGAGCT
* *
62707330 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTACAAGATGT--GCC
* * *
62707376 AGTGTAAGACATGTCTAGGACATGCATC-AACTACAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTACAAGATGTGCC
*
62707420 ACTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
62707452 TACAAATATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 10 0.16
45 15 0.23
46 39 0.61
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGACTACAAGATGTGCC
Found at i:62708262 original size:42 final size:42
Alignment explanation
Indices: 62708216--62708297 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
62708206 GGGTAGACAC
*
62708216 ACGGGCGTGTGTCTAAGCCATGTGTGACACACGGTCTGCCTT
1 ACGGGCGTGTGTCTAAGCCATGTGTGACACACAGTCTGCCTT
*
62708258 ACGGGCGTGTGTCTAGGCCATGTGTGACACACAGTCTGCC
1 ACGGGCGTGTGTCTAAGCCATGTGTGACACACAGTCTGCC
62708298 CTTGCACGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (42 bp):
ACGGGCGTGTGTCTAAGCCATGTGTGACACACAGTCTGCCTT
Found at i:62714186 original size:40 final size:39
Alignment explanation
Indices: 62714121--62714206 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
62714111 TATATAAATA
**
62714121 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * * *
62714161 TGGCCGAAGCTATTTCGAACCGCACACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
62714200 TAGCCGA
1 TAGCCGA
62714207 TAAGCCGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 9 0.24
40 29 0.76
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:62722561 original size:72 final size:72
Alignment explanation
Indices: 62722455--62722622 Score: 214
Period size: 72 Copynumber: 2.3 Consensus size: 72
62722445 GCTTTATCAT
* * * *
62722455 ATAACTGGAGGCCT-AGCCTCTTTATATTACTGGGGAAAAAGCCCTTTTAATAACTGGGGCAAAA
1 ATAACTGG-GGCATAAGCC-CTTTTTATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCAAAA
62722519 GCCCTTTT-
64 GCCCTTTTG
* * * *
62722527 AGTAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATAAG
1 A-TAACTGGGGCATAAGCCCTTTTTATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCAAAAG
62722592 CCCTTTTG
65 CCCTTTTG
*
62722600 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
62722623 GCACTTCATC
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
72 72 0.86
73 12 0.14
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTTATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCAAAAGC
CCTTTTG
Found at i:62722623 original size:24 final size:24
Alignment explanation
Indices: 62722483--62722623 Score: 203
Period size: 24 Copynumber: 5.9 Consensus size: 24
62722473 TCTTTATATT
* * *
62722483 ACTGGGGAAAAAGCCCTTTTAATA
1 ACTGGGGCATAAGCCCTTTTGATA
*
62722507 ACTGGGGCAAAAGCCCTTTT-AGTA
1 ACTGGGGCATAAGCCCTTTTGA-TA
*
62722531 ACTGGGGCATAAGCCCTTTTTATA
1 ACTGGGGCATAAGCCCTTTTGATA
*
62722555 ACTGGGGCATAAGCCCTTTCGATA
1 ACTGGGGCATAAGCCCTTTTGATA
62722579 ACTGGGGCATAAGCCCTTTTGATA
1 ACTGGGGCATAAGCCCTTTTGATA
*
62722603 ACTAGGGCATAAGCCCTTTTG
1 ACTGGGGCATAAGCCCTTTTG
62722624 CACTTCATCC
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 1 0.01
24 107 0.98
25 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
ACTGGGGCATAAGCCCTTTTGATA
Found at i:62722697 original size:20 final size:20
Alignment explanation
Indices: 62722672--62722738 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
62722662 TTATGAATAC
62722672 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
62722692 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
62722712 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
62722732 ACCATGT
1 ATCATGT
62722739 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:62722703 original size:11 final size:11
Alignment explanation
Indices: 62722672--62722727 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
62722662 TTATGAATAC
62722672 ATCATGTGCAT
1 ATCATGTGCAT
*
62722683 ATCA--TACAT
1 ATCATGTGCAT
62722692 ATCATGTGCAT
1 ATCATGTGCAT
*
62722703 ATCA--TACAT
1 ATCATGTGCAT
*
62722712 GTCATGTGCAT
1 ATCATGTGCAT
62722723 ATCAT
1 ATCAT
62722728 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:62722807 original size:25 final size:25
Alignment explanation
Indices: 62722775--62722822 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
62722765 ATATATAAAC
* *
62722775 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
62722800 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
62722823 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:62738726 original size:70 final size:70
Alignment explanation
Indices: 62738613--62738753 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
62738603 ATTTGTTAGG
*
62738613 TAGCTTATTCTTCAGAATAGCTGAGCAGACTGCATTGAGTTCCATATGCGATGTAGCATCTAACT
1 TAGCTTATTCTTCAGAATAGCTGAGCAGACTGCATTGAGTTCCATATGCGATGTAGCATCAAACT
62738678 TTCTT
66 TTCTT
62738683 TAGCTTATTCTTCAGAATAGCTGAGCAGACTGCATTGAGTTCCATATGCGATGTAGCATCAAACT
1 TAGCTTATTCTTCAGAATAGCTGAGCAGACTGCATTGAGTTCCATATGCGATGTAGCATCAAACT
62738748 TTCTT
66 TTCTT
62738753 T
1 T
62738754 TATTAGCCAG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (70 bp):
TAGCTTATTCTTCAGAATAGCTGAGCAGACTGCATTGAGTTCCATATGCGATGTAGCATCAAACT
TTCTT
Found at i:62741867 original size:10 final size:10
Alignment explanation
Indices: 62741835--62741868 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
62741825 CATTTTGTCC
62741835 CTTTTTGGCT
1 CTTTTTGGCT
62741845 CGTTTTTGGCT
1 C-TTTTTGGCT
*
62741856 CTTTTTGACT
1 CTTTTTGGCT
62741866 CTT
1 CTT
62741869 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:62745115 original size:47 final size:48
Alignment explanation
Indices: 62745026--62745248 Score: 183
Period size: 47 Copynumber: 4.8 Consensus size: 48
62745016 GGTAAGGTAC
* * *
62745026 TGATGCCATGTCCTAGACACGGTCTTATACTAGCTCATATCTC-AAGT
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCGAAGT
* *
62745073 TGATGCCATGTCCCAGACATGGACTTACACT-GACT-ATCATCTCGTAGT
1 TGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCAT-ATCTCGAAGT
* * *
62745121 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTATGTCTCGAAGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCGAAGT
* * * * * * * *
62745167 CGTTG-CATGTCTCAGACAT-GTCTTACACTAAC-CCTCATCTCCATGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCGAAGT
* * **
62745213 CGATGTCATGTCCCAGACATCATCTTACACTAGCTC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
62745249 TCATAATGTG
Statistics
Matches: 145, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 60 0.41
47 64 0.44
48 19 0.13
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (48 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCGAAGT
Found at i:62745252 original size:48 final size:46
Alignment explanation
Indices: 62745027--62745294 Score: 179
Period size: 46 Copynumber: 5.7 Consensus size: 46
62745017 GTAAGGTACT
* * * **
62745027 GATGCCATGTCCTAGACACGGTCTTATACTAGCTCAT-ATCT-CAAGTT
1 GATG-CATGTCCCAGACA-TGTCTTACACTAGCTC-TCATCTCCAAGCC
* * ** **
62745074 GATGCCATGTCCCAGACATGGACTTACACT-GACTATCATCTCGTAGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCCAAGCC
*
62745122 GATGCATGTCCCAGACATGTCTTACACTAGCT-T-ATGTCTCGAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--TCTCCAAGCC
* * * * *
62745168 GTTGCATGTCTCAGACATGTCTTACACTAACCCTCATCTCCATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCCAAGCC
* * ***
62745214 GATGTCATGTCCCAGACATCATCTTACACTAGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCCAAGCC
* *
62745262 GATGCATGTCTCGGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
62745295 ACACACGAAT
Statistics
Matches: 180, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 73 0.41
47 72 0.40
48 32 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCCAAGCC
Found at i:62748298 original size:33 final size:33
Alignment explanation
Indices: 62748256--62748330 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
62748246 TGAATAACAT
* *
62748256 AGTATCAGTATAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATAC
*
62748289 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGTACAGTCTGGGCCAAAGCCCTATAC
*
62748322 AGTAGCAGT
1 AGTATCAGT
62748331 GTGGGCTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (33 bp):
AGTATCAGTACAGTCTGGGCCAAAGCCCTATAC
Found at i:62748526 original size:27 final size:27
Alignment explanation
Indices: 62748479--62748574 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
62748469 CAATATCGCA
* * *
62748479 GCAAAGCTACCAGAAATAGTAAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* * *
62748506 GCAAAGCCACTAGTATCAGTAATTGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* *
62748533 GCATAGCCACCAGTAACAGTGAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* * *
62748560 ACATAGTCACCAGTA
1 GCAAAGCCACCAGTA
62748575 TAGAACTTCC
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAAATGTG
Found at i:62748745 original size:27 final size:26
Alignment explanation
Indices: 62748715--62748802 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
62748705 GGACATAATC
62748715 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* * *
62748742 GTCACTTTACCCTACAAGGGCATTACG
1 GTCATTTTA-CCTACAGGGGTATTACG
* * * *
62748769 GTCTTTTTACCTATTAGGGGTATTTCA
1 GTCATTTTACCTA-CAGGGGTATTACG
62748796 GTCATTT
1 GTCATTT
62748803 CATCCTATAA
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
26 4 0.08
27 42 0.88
28 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:62749065 original size:27 final size:27
Alignment explanation
Indices: 62748818--62749072 Score: 214
Period size: 27 Copynumber: 9.4 Consensus size: 27
62748808 TATAAAGGTG
* * *
62748818 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * * *
62748845 TTTTAGTAATTTTGCAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*
62748872 TTTCT-ATAATTTT-CGAAAGTCAAGGGTA
1 TTT-TGGTAATTTTAC-AAA-TCAAGGGTA
* * *
62748900 TTTCT-ATAATTTTCCAAATTAAGGGTA
1 TTT-TGGTAATTTTACAAATCAAGGGTA
* * * *
62748927 TTTCGGTACTTTTCCAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*
62748954 TTTTGGTAACTTTACAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
62748981 TTTCGGTAATTTCACAAATC-AGGTGTA
1 TTTTGGTAATTTTACAAATCAAGG-GTA
*
62749008 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
** *
62749035 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*
62749062 TTTTGGAAATT
1 TTTTGGTAATT
62749073 CTACCCTACA
Statistics
Matches: 190, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.03
27 157 0.83
28 27 0.14
29 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:62749084 original size:27 final size:27
Alignment explanation
Indices: 62749054--62749121 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
62749044 TTTTGTAAAC
**
62749054 CAAGGGTATTTTGGAAATTCTACCCTA
1 CAAGGGTATTTCAGAAATTCTACCCTA
* *
62749081 CAAGGGAATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGAAATTCTACCCTA
62749108 C-AGGGATATTTCAG
1 CAAGGG-TATTTCAG
62749122 TAATGCTAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (27 bp):
CAAGGGTATTTCAGAAATTCTACCCTA
Found at i:62749122 original size:27 final size:27
Alignment explanation
Indices: 62749069--62749134 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
62749059 GTATTTTGGA
62749069 AATTCTACCCTACAAGGGAATTTCAGT
1 AATTCTACCCTACAAGGGAATTTCAGT
62749096 AATTCTACCCTAC-AGGGATATTTCAGT
1 AATTCTACCCTACAAGGGA-ATTTCAGT
* *
62749123 AATGCTAGCCTA
1 AATTCTACCCTA
62749135 TAGATATGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGAATTTCAGT
Found at i:62753930 original size:46 final size:46
Alignment explanation
Indices: 62753880--62754147 Score: 228
Period size: 46 Copynumber: 5.8 Consensus size: 46
62753870 TGGTTGAGTT
*
62753880 CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
62753926 CCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
*
62753971 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
62754019 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* * * *
62754064 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTGACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
62754112 CGGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62754148 GCAAGTTACA
Statistics
Matches: 178, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 8 0.04
46 83 0.47
47 52 0.29
48 8 0.04
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:62754038 original size:93 final size:93
Alignment explanation
Indices: 62753879--62754140 Score: 443
Period size: 93 Copynumber: 2.8 Consensus size: 93
62753869 ATGGTTGAGT
* *
62753879 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGTTGA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGTTGA
62753944 GTCCGAGTTCGTGAGATGTAACTAGGCA
66 GTCCGAGTTCGTGAGATGTAACTAGGCA
*
62753972 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGTTGA
*
62754037 GTCTGAGTTCGTGAGATGTAACTAGGCA
66 GTCCGAGTTCGTGAGATGTAACTAGGCA
* * * * *
62754065 TCCGAGCTCGTTGAGTTGAGTCTGAGTTGACTTATGGATGCGAACGCCGGAGCTCATTGAGTTGA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGTTGA
62754130 GTCCGAGTTCG
66 GTCCGAGTTCG
62754141 CTTATGGGCA
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 158 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:62754077 original size:47 final size:47
Alignment explanation
Indices: 62753926--62754092 Score: 191
Period size: 47 Copynumber: 3.6 Consensus size: 47
62753916 ATGCGAATGC
*
62753926 CCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
* * * *
62753973 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
*
62754019 CCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
* *
62754066 CCGAGCTCGTTGAGTTGAGTCTGAGTT
1 CCGAACTCGTTGAGTTGAGTCCGAGTT
62754093 GACTTATGGA
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 26 0.26
47 52 0.52
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
Found at i:62756266 original size:40 final size:40
Alignment explanation
Indices: 62756054--62756259 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
62756044 AACCCAAGTA
* * *
62756054 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
62756093 TCTTCGAGACTTAGCTCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
62756133 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
62756173 CCTTCGGGACTTAGCCTGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
62756213 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
62756253 CCTTCGG
1 CCTTCGG
62756260 ATCTTAGTCC
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 10 0.07
40 138 0.93
41 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:62765167 original size:15 final size:15
Alignment explanation
Indices: 62765131--62765159 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62765121 GAGAAGTTCG
62765131 GATGGTTTTGACACA
1 GATGGTTTTGACACA
62765146 GATGGTTTTGACAC
1 GATGGTTTTGACAC
62765160 GAATGGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (15 bp):
GATGGTTTTGACACA
Found at i:62766187 original size:40 final size:40
Alignment explanation
Indices: 62766143--62766242 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
62766133 GAAGACAAGT
** * *
62766143 TTCCAGTAATGTGGACAAGCCACCAATATTGTAGATAAAC
1 TTCCAGTAATGCAGACAAGCCACCAATACTGCAGATAAAC
**
62766183 TTCCAAG-AATGCAGACAAGTTACCAATACTGCAGATAAAC
1 TTCC-AGTAATGCAGACAAGCCACCAATACTGCAGATAAAC
* *
62766223 TGCCAGTAACGCAGACAAGC
1 TTCCAGTAATGCAGACAAGC
62766243 TACCGGTATT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.04
40 45 0.92
41 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
TTCCAGTAATGCAGACAAGCCACCAATACTGCAGATAAAC
Found at i:62766553 original size:33 final size:33
Alignment explanation
Indices: 62766507--62766578 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
62766497 TAAATTATGC
62766507 CATA-ATATCACATAACATGAGAATGAGAACAA
1 CATACATATCACATAACATGAGAATGAGAACAA
62766539 CATACATATCACATAACATGAGAATGAGAACAA
1 CATACATATCACATAACATGAGAATGAGAACAA
62766572 CATACAT
1 CATACAT
62766579 TTCAAATGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.19
Consensus pattern (33 bp):
CATACATATCACATAACATGAGAATGAGAACAA
Found at i:62774367 original size:12 final size:12
Alignment explanation
Indices: 62774340--62774379 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
62774330 CAATCCAAAA
62774340 TCCACATTTCATTT
1 TCCA-ATTTCA-TT
*
62774354 TCCATTTTCATT
1 TCCAATTTCATT
62774366 TCCAATTTCATT
1 TCCAATTTCATT
62774378 TC
1 TC
62774380 TTATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 15 0.62
13 5 0.21
14 4 0.17
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (12 bp):
TCCAATTTCATT
Found at i:62782493 original size:12 final size:12
Alignment explanation
Indices: 62782476--62782500 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62782466 CTCAAATGTC
62782476 GGCTCCGGCTCT
1 GGCTCCGGCTCT
62782488 GGCTCCGGCTCT
1 GGCTCCGGCTCT
62782500 G
1 G
62782501 CTTTCTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.36, T:0.24
Consensus pattern (12 bp):
GGCTCCGGCTCT
Found at i:62784100 original size:17 final size:17
Alignment explanation
Indices: 62784078--62784113 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
62784068 AGGAGTCTGC
62784078 AGTGTTGACCAGACAAA
1 AGTGTTGACCAGACAAA
62784095 AGTGTTGACCAGACAAA
1 AGTGTTGACCAGACAAA
62784112 AG
1 AG
62784114 GTGAGCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (17 bp):
AGTGTTGACCAGACAAA
Found at i:62791261 original size:21 final size:20
Alignment explanation
Indices: 62791219--62791262 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
62791209 TTAAGATCAT
*
62791219 AAAATAAACTAAAATTACTG
1 AAAATAAACTAAAATTAATG
62791239 AAAATAAA-TAAACAATTAATG
1 AAAATAAACT-AA-AATTAATG
62791260 AAA
1 AAA
62791263 TCTCAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATAAACTAAAATTAATG
Found at i:62793902 original size:40 final size:40
Alignment explanation
Indices: 62793713--62793938 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
62793703 TTGAATGATG
* * * *
62793713 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
62793753 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62793793 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGA-TATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGT-TACTAAA
62793833 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62793873 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62793914 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62793939 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 1 0.01
40 154 0.93
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62801721 original size:39 final size:38
Alignment explanation
Indices: 62801675--62801818 Score: 150
Period size: 41 Copynumber: 3.6 Consensus size: 38
62801665 ATATCCAGAA
62801675 TAAGATCCGAAGGCATTTTAGTGCGAGATACTAAATCCG-
1 TAAGATCCGAAGGCA-TTT-GTGCGAGATACTAAATCCGC
* *
62801714 TAAGATCCGAAGGCATTTGTGCGACATACTAATTCCGGGC
1 TAAGATCCGAAGGCATTTGTGCGAGATACTAAATCC--GC
* *
62801754 TTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 -TAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATCC--GC
62801795 TAAG-TCCCGAAGGCATTTGTGCGA
1 TAAGAT-CCGAAGGCATTTGTGCGA
62801819 ATTACTATAA
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
37 16 0.17
38 3 0.03
39 16 0.17
40 25 0.27
41 34 0.36
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (38 bp):
TAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGC
Found at i:62801809 original size:40 final size:40
Alignment explanation
Indices: 62801681--62801853 Score: 205
Period size: 40 Copynumber: 4.3 Consensus size: 40
62801671 AGAATAAGAT
62801681 CCGAAGGCATTTTAGTGCGAGATACTAAATCC--G-TAAGAT-
1 CCGAAGGCA-TTT-GTGCGAGATACTAAATCCGGGTTAAG-TC
* *
62801720 CCGAAGGCATTTGTGCGACATACTAATTCCGGGCTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGG-TTAAGTC
*
62801761 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* *
62801801 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGGTTAAGTC
62801841 CCGAAGGCATTTG
1 CCGAAGGCATTTG
62801854 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
37 16 0.13
38 3 0.03
39 10 0.08
40 54 0.45
41 36 0.30
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:62801818 original size:81 final size:77
Alignment explanation
Indices: 62801681--62801853 Score: 217
Period size: 81 Copynumber: 2.2 Consensus size: 77
62801671 AGAATAAGAT
62801681 CCGAAGGCATTTTAGTGCGAGATACTAAATCCGTAAGATCCGAAGGCATTTGTGCGACA-TACTA
1 CCGAAGGCA-TTT-GTGCGAGATACTAAATCCGTAAGATCCGAAGGCATTTGTGCGA-ATTACTA
*
62801745 -ATTCCGGGCTTAAGTC
63 TA-ACCGGGC-TAAGTC
*
62801761 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAATTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCC--G-TAAGAT-CCGAAGGCATTTGTGCGAATTACT
*
62801825 ATAACCGGGCTATGTC
62 ATAACCGGGCTAAGTC
62801841 CCGAAGGCATTTG
1 CCGAAGGCATTTG
62801854 AACGAGGAGC
Statistics
Matches: 84, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
78 17 0.20
79 3 0.04
80 30 0.36
81 33 0.39
82 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGTAAGATCCGAAGGCATTTGTGCGAATTACTATAA
CCGGGCTAAGTC
Found at i:62801867 original size:40 final size:39
Alignment explanation
Indices: 62801632--62801853 Score: 156
Period size: 40 Copynumber: 5.6 Consensus size: 39
62801622 TGATGTCGCT
* * * *
62801632 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACCG
**
62801672 GAATAAGAT-CCGAAGGCATTTTAGTGCGAGATACTA-AATCC-
1 GGCTAAG-TCCCGAAGGCA-TTT-GTGCGAG-TACTATAA-CCG
* *
62801713 -G-TAAGAT-CCGAAGGCATTTGTGCGACATACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGA-GTACTATA-ACCG
62801751 GGCTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGC-TAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-CCG
* *
62801792 GGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAACCG
*
62801832 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
62801854 AACGAGGAGC
Statistics
Matches: 151, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
37 14 0.09
38 3 0.02
39 16 0.11
40 65 0.43
41 38 0.25
42 10 0.07
43 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAACCG
Found at i:62804063 original size:45 final size:45
Alignment explanation
Indices: 62803973--62804267 Score: 389
Period size: 45 Copynumber: 6.6 Consensus size: 45
62803963 CTGGCATTTT
* * * * *
62803973 GCCTGCTAGGCTC-GAGGCCCGATTA-TCATTTCACCGACATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATAATA
* *
62804017 GCCTGCTAGGCTCGAAA-GCCCAAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGGCATAATA
* * *
62804062 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGACATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATAATA
* * * *
62804107 GCCTGCTAGGCTCAAAGGCCTGAATAATGTCTCACCGGCATAACA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATAATA
* *
62804152 GCCTACTAGGCTCAAAGGCCCGAATAGTGTCTCACCGGCATAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATAATA
*
62804197 GCCTGCTAGGCTCAAAGGCCCGAATAGTGTCTCACCGGCATAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATAATA
*
62804242 GCCTACTAGGCTCAAAGGCCCGAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA
62804268 TAATACCAGC
Statistics
Matches: 225, Mismatches: 22, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
44 16 0.07
45 207 0.92
46 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATAATA
Found at i:62804316 original size:38 final size:38
Alignment explanation
Indices: 62804260--62804345 Score: 136
Period size: 38 Copynumber: 2.3 Consensus size: 38
62804250 GGCTCAAAGG
* * *
62804260 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
62804298 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
62804336 CCCGGATATA
1 CCCGGATATA
62804346 CATCAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:62812976 original size:68 final size:66
Alignment explanation
Indices: 62812904--62813075 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
62812894 CATCATGTGT
* * * *
62812904 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
62812967 TGTAG
62 TGTAG
** * *
62812972 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
62813037 AG
65 AG
* * * *
62813039 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
62813076 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:62813009 original size:64 final size:64
Alignment explanation
Indices: 62812928--62813111 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
62812918 AGACATTATG
* * *
62812928 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
62812992 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
62813057 AA
63 AA
* * *
62813059 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
62813112 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:62819497 original size:15 final size:15
Alignment explanation
Indices: 62819461--62819491 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62819451 TTACCATTCC
62819461 TTGTTTAACCAACTT
1 TTGTTTAACCAACTT
62819476 TTGTTTAACCAACTT
1 TTGTTTAACCAACTT
62819491 T
1 T
62819492 CTTTTAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (15 bp):
TTGTTTAACCAACTT
Found at i:62829383 original size:27 final size:27
Alignment explanation
Indices: 62829345--62829410 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
62829335 AGCGTCCTGA
*
62829345 TGGCTATGCCACA-ATTATCTGATCTGG
1 TGGCTCTGCCACATA-TATCTGATCTGG
*
62829372 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCACATATATCTGATCTGG
62829399 TGGCTCTGCCAC
1 TGGCTCTGCCAC
62829411 GATCAACTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (27 bp):
TGGCTCTGCCACATATATCTGATCTGG
Found at i:62830613 original size:19 final size:20
Alignment explanation
Indices: 62830579--62830616 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62830569 TACTATAGCC
*
62830579 ATTTAAGTTGTCCTTAGCTT
1 ATTTAACTTGTCCTTAGCTT
62830599 ATTTAACTTGT-CTTAGCT
1 ATTTAACTTGTCCTTAGCT
62830617 CCTACAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (20 bp):
ATTTAACTTGTCCTTAGCTT
Found at i:62842731 original size:41 final size:42
Alignment explanation
Indices: 62842638--62842769 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 42
62842628 CTATGTGTAA
* ** * *
62842638 GCCGTGTGTCTCACATTGTTTGCCTACACGCCCGTGTGCCAT
1 GCCGTGTATCTCACACAGTTTGCCTACATGCCCGTGTGCCAG
* *
62842680 TCCGTATATCTCACAC-GATTTGCCTACATGCCC-TGTGCCAG
1 GCCGTGTATCTCACACAG-TTTGCCTACATGCCCGTGTGCCAG
* * * * *
62842721 GCTGTGTATCTCGCACAGTCTGCCCACATGCCCGTGTGCTAG
1 GCCGTGTATCTCACACAGTTTGCCTACATGCCCGTGTGCCAG
62842763 GCCGTGT
1 GCCGTGT
62842770 GGACTCAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
41 33 0.45
42 40 0.55
ACGTcount: A:0.14, C:0.33, G:0.23, T:0.29
Consensus pattern (42 bp):
GCCGTGTATCTCACACAGTTTGCCTACATGCCCGTGTGCCAG
Found at i:62843859 original size:27 final size:27
Alignment explanation
Indices: 62843815--62843883 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
62843805 AATAGGGTTT
*
62843815 TCAATTCACATTTCAAT---TTCCAAA
1 TCAATACACATTTCAATCAATTCCAAA
*
62843839 T-AATATCA-ATTTCAATCAATTCCAAT
1 TCAATA-CACATTTCAATCAATTCCAAA
62843865 TCAATACACATTTCAATCA
1 TCAATACACATTTCAATCA
62843884 TTCTCATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 11 0.30
24 3 0.08
26 9 0.24
27 14 0.38
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (27 bp):
TCAATACACATTTCAATCAATTCCAAA
Found at i:62844154 original size:18 final size:18
Alignment explanation
Indices: 62844131--62844173 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
62844121 AAACTTTTAT
62844131 CTAAATTCCAATTTAGTC
1 CTAAATTCCAATTTAGTC
*
62844149 CTAAATTCTAATTTAGTC
1 CTAAATTCCAATTTAGTC
62844167 CTAAATT
1 CTAAATT
62844174 TTAGCTGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (18 bp):
CTAAATTCCAATTTAGTC
Found at i:62844613 original size:13 final size:12
Alignment explanation
Indices: 62844551--62844614 Score: 58
Period size: 13 Copynumber: 5.1 Consensus size: 12
62844541 AATTTCTCTT
62844551 TCTTTTTCTTTC
1 TCTTTTTCTTTC
*
62844563 CCTTTTTCTTTC
1 TCTTTTTCTTTC
*
62844575 T-TTCTTTCCCTTC
1 TCTT-TTT-CTTTC
*
62844588 TCTGTTTCATTTC
1 TCTTTTTC-TTTC
62844601 TCTTATTTCTTTC
1 TCTT-TTTCTTTC
62844614 T
1 T
62844615 TTTCATTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.05
12 15 0.37
13 19 0.46
14 5 0.12
ACGTcount: A:0.03, C:0.28, G:0.02, T:0.67
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:62844614 original size:26 final size:24
Alignment explanation
Indices: 62844543--62844614 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 24
62844533 TAAACCCTAA
* *
62844543 TTTCTCTT-TCTTTTTCTTTCCCTT
1 TTTCT-TTCTCTTTTTCTTTCTCTG
*
62844567 TTTCTTTCT-TTCTTTCCCTTCTCTG
1 TTTCTTTCTCTT-TTT-CTTTCTCTG
62844592 TTTCATTTCTCTTATTTCTTTCT
1 TTTC-TTTCTCTT-TTTCTTTCT
62844615 TTTCATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
23 4 0.11
24 9 0.24
25 10 0.26
26 10 0.26
27 5 0.13
ACGTcount: A:0.03, C:0.28, G:0.01, T:0.68
Consensus pattern (24 bp):
TTTCTTTCTCTTTTTCTTTCTCTG
Found at i:62844818 original size:5 final size:5
Alignment explanation
Indices: 62844653--62844802 Score: 257
Period size: 5 Copynumber: 29.4 Consensus size: 5
62844643 TATTTTATGT
62844653 TAATAA TAATA TAATA TAATA TAATA TAATA T-ATA TATATA TAATATA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TA-ATA T-A-ATA
62844701 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
62844751 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
62844801 TA
1 TA
62844803 TTTTACTTAT
Statistics
Matches: 141, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.03
5 122 0.87
6 9 0.06
7 6 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:62844827 original size:27 final size:26
Alignment explanation
Indices: 62844784--62844841 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
62844774 TATAATATAA
* *
62844784 TATAATATAATATAATATATT-TTACT
1 TATATTATAATAAAATA-ATTATTACT
62844810 TATATTATAAGTAAAATAATTATTACT
1 TATATTATAA-TAAAATAATTATTACT
*
62844837 AATAT
1 TATAT
62844842 ATGTATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
TATATTATAATAAAATAATTATTACT
Found at i:62861412 original size:82 final size:81
Alignment explanation
Indices: 62861296--62861451 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
62861286 AAATTGTACA
* * * *
62861296 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
62861360 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
62861377 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
62861442 TGCGAGTTGA
65 TGCGAATTGA
62861452 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62861419 original size:55 final size:52
Alignment explanation
Indices: 62861295--62861448 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
62861285 TAAATTGTAC
* *
62861295 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
62861348 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
62861403 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
62861449 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:62861453 original size:27 final size:27
Alignment explanation
Indices: 62861296--62861451 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
62861286 AAATTGTACA
*
62861296 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
62861323 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
62861350 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
62861377 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
62861405 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
62861432 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
62861452 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:62861462 original size:27 final size:27
Alignment explanation
Indices: 62861288--62861472 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
62861278 GCGGGATTAA
*
62861288 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
62861315 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
62861342 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
62861369 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
62861397 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
62861424 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
62861451 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
62861473 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:62861463 original size:82 final size:81
Alignment explanation
Indices: 62861288--62861472 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
62861278 GCGGGATTAA
* * * *
62861288 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
62861353 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
62861369 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
62861433 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
62861451 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
62861473 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:62881496 original size:20 final size:21
Alignment explanation
Indices: 62881471--62881522 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
62881461 TCACTTTTCC
*
62881471 CACGCCCGTGTGGTACT-TCA
1 CACGCCCGTGTGGTACTAACA
* *
62881491 CACGCCTGTGT-GTCCTAACA
1 CACGCCCGTGTGGTACTAACA
62881511 CACGCCCGTGTG
1 CACGCCCGTGTG
62881523 CCTTGCCCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.23
Consensus pattern (21 bp):
CACGCCCGTGTGGTACTAACA
Found at i:62888252 original size:23 final size:23
Alignment explanation
Indices: 62888226--62888271 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
62888216 TTCAAATGTA
*
62888226 TGTTCTTAATTGT-AATATAATTT
1 TGTTATTAATTGTGAA-ATAATTT
*
62888249 TGTTATTCATTGTGAAATAATTT
1 TGTTATTAATTGTGAAATAATTT
62888272 ATGGAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
TGTTATTAATTGTGAAATAATTT
Found at i:62891988 original size:17 final size:16
Alignment explanation
Indices: 62891956--62891989 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
62891946 TCAATATGAG
*
62891956 AATATATAAATTTAAT
1 AATATATAAATATAAT
62891972 AATATATCAAATATAAT
1 AATATAT-AAATATAAT
62891989 A
1 A
62891990 GCCATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATATAAATATAAT
Found at i:62892046 original size:36 final size:36
Alignment explanation
Indices: 62892004--62892074 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
62891994 TAAGAAAGAA
62892004 AGGATAATATTACTTGCAACAAAAAATAATAATTCG
1 AGGATAATATTACTTGCAACAAAAAATAATAATTCG
*
62892040 AGGATAATATTACTTGCAACAAATAATAATAATTC
1 AGGATAATATTACTTGCAACAAAAAATAATAATTC
62892075 CAACATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (36 bp):
AGGATAATATTACTTGCAACAAAAAATAATAATTCG
Done.