Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 125 of 410
Found at i:37644576 original size:141 final size:136
Alignment explanation
Indices: 37644288--37644595 Score: 332
Period size: 141 Copynumber: 2.2 Consensus size: 136
37644278 TTGCCAATGC
* * * * *
37644288 CATGTCCCAGACATGGTTTTACACTGGCTCTCATATATGTGTGCTGATGCATGCCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTGGCACTC--ATCTCTGTGCCGATGCATGCCCCAGACATGT
* * **
37644353 CTTACACTAGCACAACTCTTAGCCGATGCGTGTCCTAGACATGTCTTACACAGGCTACCTCTGTT
63 CTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGTCTTACACAGGCTA-CTCTAAT
* *
37644418 GAGGCCGATG
127 GAGACCGAAG
* * *
37644428 CATGTCCCATACATGTCTTACTCTGGCACTCATCTCTGTGCCGATGCCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCCGATG-CATGCCCCAGACATGTCT
* * * *
37644493 TACTCTGGCACTCATCTCTGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCAT
65 TACACTAGCA--CAACTCT-TAGCCGATG-CATGTCCCAGACAT-GTCTTACACAGGCTACTC-T
*
37644556 AATGTGACCGAAG
124 AATGAGACCGAAG
37644569 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
37644596 GCACAAATCA
Statistics
Matches: 140, Mismatches: 21, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
137 12 0.09
138 25 0.18
139 14 0.10
140 29 0.21
141 47 0.34
142 13 0.09
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (136 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCCGATGCATGCCCCAGACATGTCTT
ACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGTCTTACACAGGCTACTCTAATGAGA
CCGAAG
Found at i:37645888 original size:47 final size:47
Alignment explanation
Indices: 37645818--37645937 Score: 177
Period size: 47 Copynumber: 2.6 Consensus size: 47
37645808 GGTTGTTACA
* *
37645818 GTCTTACATGATATCCTTATCTTAGTAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTGTCTTAGTAAATGCCATGTTCCAAACATG
** * **
37645865 GTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCTGAACATG
1 GTCTTACATGGTATCCTTGTCTTAGTAAATGCCATGTTCCAAACATG
37645912 GTCTTACATGGTATCCTTGTCTTAGT
1 GTCTTACATGGTATCCTTGTCTTAGT
37645938 TCCAATGCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTGTCTTAGTAAATGCCATGTTCCAAACATG
Found at i:37649171 original size:34 final size:34
Alignment explanation
Indices: 37649122--37649189 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
37649112 TCTGTTGCAT
*
37649122 TATTGATATTATTACTA-TAATGGGCTAAGGCCCA
1 TATTGATACTATTACTACT-ATGGGCTAAGGCCCA
*
37649156 TATTGATACTGTTACTACTATGGGCTAAGGCCCA
1 TATTGATACTATTACTACTATGGGCTAAGGCCCA
37649190 CACTAATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (34 bp):
TATTGATACTATTACTACTATGGGCTAAGGCCCA
Found at i:37649199 original size:34 final size:34
Alignment explanation
Indices: 37649133--37649200 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
37649123 ATTGATATTA
* * *
37649133 TTACTATAATGGGCTAAGGCCCATATTGATACTG
1 TTACTATAATGGGCTAAGGCCCACACTAATACTG
37649167 TTACTACT-ATGGGCTAAGGCCCACACTAATACTG
1 TTACTA-TAATGGGCTAAGGCCCACACTAATACTG
37649201 GACTGCCACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (34 bp):
TTACTATAATGGGCTAAGGCCCACACTAATACTG
Found at i:37650587 original size:66 final size:68
Alignment explanation
Indices: 37650511--37650697 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
37650501 TAGTACCACT
*
37650511 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
37650573 CACG
65 CACG
37650577 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
37650642 ATCACG
63 ATCACG
37650648 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
37650698 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:37650622 original size:71 final size:71
Alignment explanation
Indices: 37650534--37650697 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
37650524 CGATTTGTCT
37650534 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
37650599 CTTTCA
66 CTTTCA
37650605 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
37650670 CTTTCA
66 CTTTCA
37650676 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
37650698 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:37650735 original size:71 final size:70
Alignment explanation
Indices: 37650534--37650731 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
37650524 CGATTTGTCT
* * *
37650534 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
37650599 CTTTCA
65 CTTTCA
* * *
37650605 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
37650670 CTTTCA
65 CTTTCA
* *
37650676 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
37650732 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:37658156 original size:66 final size:68
Alignment explanation
Indices: 37658080--37658266 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
37658070 TAGTACCACT
*
37658080 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
37658142 CACG
65 CACG
37658146 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
37658211 ATCACG
63 ATCACG
37658217 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
37658267 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:37658191 original size:71 final size:71
Alignment explanation
Indices: 37658103--37658266 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
37658093 CGATTTGTCT
37658103 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
37658168 CTTTCA
66 CTTTCA
37658174 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
37658239 CTTTCA
66 CTTTCA
37658245 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
37658267 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:37658304 original size:71 final size:70
Alignment explanation
Indices: 37658103--37658300 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
37658093 CGATTTGTCT
* * *
37658103 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
37658168 CTTTCA
65 CTTTCA
* * *
37658174 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
37658239 CTTTCA
65 CTTTCA
* *
37658245 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
37658301 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:37664680 original size:28 final size:28
Alignment explanation
Indices: 37664649--37664707 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
37664639 ATGTAGACAC
37664649 ATAGATACAAATTCATACATTTAGATTT
1 ATAGATACAAATTCATACATTTAGATTT
* * * *
37664677 ATAGATGCAGATTTATAGATTTAGATTT
1 ATAGATACAAATTCATACATTTAGATTT
37664705 ATA
1 ATA
37664708 AATGTGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (28 bp):
ATAGATACAAATTCATACATTTAGATTT
Found at i:37664690 original size:14 final size:14
Alignment explanation
Indices: 37664671--37664773 Score: 91
Period size: 14 Copynumber: 7.4 Consensus size: 14
37664661 TCATACATTT
37664671 AGATTTATAGATGC
1 AGATTTATAGATGC
**
37664685 AGATTTATAGATTT
1 AGATTTATAGATGC
* *
37664699 AGATTTATAAATGT
1 AGATTTATAGATGC
*
37664713 GGATTTATAGATGC
1 AGATTTATAGATGC
* *
37664727 -GAATTAATAGATAC
1 AG-ATTTATAGATGC
*
37664741 AGATTCATAGATGC
1 AGATTTATAGATGC
* * *
37664755 AAATTTACAAATGC
1 AGATTTATAGATGC
37664769 AGATT
1 AGATT
37664774 CATACATGTG
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
13 1 0.01
14 69 0.97
15 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (14 bp):
AGATTTATAGATGC
Found at i:37664695 original size:42 final size:42
Alignment explanation
Indices: 37664649--37664749 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
37664639 ATGTAGACAC
* * * *
37664649 ATAGATACAAATTCATACATTTAGATTTATAGATGC-AGATTT
1 ATAGATACAGATTCATAAATGTAGATTTATAGATGCGA-ATTA
** * *
37664691 ATAGATTTAGATTTATAAATGTGGATTTATAGATGCGAATTA
1 ATAGATACAGATTCATAAATGTAGATTTATAGATGCGAATTA
37664733 ATAGATACAGATTCATA
1 ATAGATACAGATTCATA
37664750 GATGCAAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (42 bp):
ATAGATACAGATTCATAAATGTAGATTTATAGATGCGAATTA
Found at i:37666644 original size:29 final size:29
Alignment explanation
Indices: 37666611--37666742 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
37666601 GTGACGAGAT
*
37666611 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
37666640 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
37666669 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
37666698 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
37666727 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
37666743 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:37674464 original size:29 final size:29
Alignment explanation
Indices: 37674431--37674562 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
37674421 GTGACGAGAT
*
37674431 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
37674460 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
37674489 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
37674518 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
37674547 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
37674563 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:37677061 original size:31 final size:31
Alignment explanation
Indices: 37677025--37677086 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
37677015 AAATATGGAT
* *
37677025 ATTAAGCATAGAGAAAGGGAGAGGTTTTTTC
1 ATTAAGCATAGAGAAAAGGAGAAGTTTTTTC
*
37677056 ATTAAGCATAGAGAAAAGGAGAATTTTTTTC
1 ATTAAGCATAGAGAAAAGGAGAAGTTTTTTC
37677087 TTTCTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (31 bp):
ATTAAGCATAGAGAAAAGGAGAAGTTTTTTC
Found at i:37677941 original size:27 final size:27
Alignment explanation
Indices: 37677902--37677957 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
37677892 TCATGAAAAG
* *
37677902 AAGCGTTTGTGGCGAATCACAAAAGAA
1 AAGCCTTTCTGGCGAATCACAAAAGAA
**
37677929 AAGCCTTTCTGGCGAATCATGAAAGAA
1 AAGCCTTTCTGGCGAATCACAAAAGAA
37677956 AA
1 AA
37677958 ACTTTTACGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (27 bp):
AAGCCTTTCTGGCGAATCACAAAAGAA
Found at i:37679182 original size:28 final size:29
Alignment explanation
Indices: 37679150--37679233 Score: 73
Period size: 33 Copynumber: 2.8 Consensus size: 29
37679140 ATGGTGCATG
* *
37679150 CAGTAACAGTCTGGGCCTGAGCCT-TATT
1 CAGTAACAGTCTGGGCCTAAGCCTCTATA
*
37679178 CAGTATCAGTACAGTCTGGGCCTTAG-CTCTATA
1 CAG--T-A--ACAGTCTGGGCCTAAGCCTCTATA
*
37679211 CAGTAACAGTGTGGGCCTAAGCC
1 CAGTAACAGTCTGGGCCTAAGCC
37679234 CAATATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
28 17 0.38
29 1 0.02
30 2 0.04
31 2 0.04
32 2 0.04
33 21 0.47
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (29 bp):
CAGTAACAGTCTGGGCCTAAGCCTCTATA
Found at i:37679215 original size:33 final size:34
Alignment explanation
Indices: 37679150--37679220 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
37679140 ATGGTGCATG
* *
37679150 CAGTAACAGTCTGGGCCTGAGCCTTATTCAGTAT
1 CAGTAACAGTCTGGGCCTGAGCCTTATACAGTAA
*
37679184 CAGT-ACAGTCTGGGCCTTAG-CTCTATACAGTAA
1 CAGTAACAGTCTGGGCCTGAGCCT-TATACAGTAA
37679217 CAGT
1 CAGT
37679221 GTGGGCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 2 0.06
33 27 0.82
34 4 0.12
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTGAGCCTTATACAGTAA
Found at i:37679243 original size:28 final size:28
Alignment explanation
Indices: 37679184--37679248 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
37679174 TATTCAGTAT
* * *
37679184 CAGT-ACAGTCTGGGCCTTAGCTCTATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
*
37679211 CAGTAACAGTGTGGGCCTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
* *
37679239 TAGTATCAGT
1 CAGTAACAGT
37679249 ATAGTGTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCAATA
Found at i:37685650 original size:40 final size:40
Alignment explanation
Indices: 37685584--37685787 Score: 177
Period size: 40 Copynumber: 5.2 Consensus size: 40
37685574 GGGCTAAGTC
* * *
37685584 CCGAAGGCTTTTATGCTAGTGACTATATCCGAACTAAGAT
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGAT
* ** * **
37685624 CCGAAGGCATTTGTGCGAGTTG-CTATAAACGGGCTAAGGC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGACTAAGAT
*
37685664 CCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAG-T
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGAT
* * *
37685703 CCCGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGA-
1 -CCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGAT
* * **
37685743 CCTGAAGGC-CTTGTGCGAGTGGTTATATCCGG-CTAA-AT
1 CC-GAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGAT
37685781 CCCGAAG
1 -CCGAAG
37685788 ATACTTGGGT
Statistics
Matches: 132, Mismatches: 25, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
37 1 0.01
38 8 0.06
39 22 0.17
40 99 0.75
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGAT
Found at i:37685737 original size:80 final size:79
Alignment explanation
Indices: 37685568--37685787 Score: 239
Period size: 80 Copynumber: 2.8 Consensus size: 79
37685558 TATTCGAATG
* * *
37685568 ATATACGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGAACTAAGAT-CCGAAGGC
1 ATATACGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGACTAAG-TCCCGAAGGC
* *
37685632 ATTTGTGCGAGTTGCT
64 ATTTATGCGAGTTGCC
* * *
37685648 ATAAACGGGCTAAGGCCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
1 ATATACGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGACTAAGTCCCGAAGGCA
*
37685713 TTTATGCTAG-TGACC
65 TTTATGCGAGTTG-CC
* * * * ** *
37685728 ATATCCGGGCTAAGACCTGAAGGCCTTGTGCGAGTGGTTATATCCGG-CTAAATCCCGAAG
1 ATATACGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGACTAAGTCCCGAAG
37685788 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.10
79 21 0.18
80 86 0.72
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATACGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGACTAAGTCCCGAAGGCAT
TTATGCGAGTTGCC
Found at i:37687284 original size:27 final size:27
Alignment explanation
Indices: 37687253--37687632 Score: 332
Period size: 27 Copynumber: 14.4 Consensus size: 27
37687243 GGGCATAATC
* * * *
37687253 ATCATTTTACCATATAGGGGTATTACT
1 ATCATTTTACCCTACAGGGGCATTACG
37687280 ATCATTTTACCCTACAGGGGCATTACG
1 ATCATTTTACCCTACAGGGGCATTACG
* * * ** **
37687307 GTCATTCTACCCTACAAGGATATTGTG
1 ATCATTTTACCCTACAGGGGCATTACG
* *
37687334 GTCATTTTACCCTATA-GGG------G
1 ATCATTTTACCCTACAGGGGCATTACG
* * *
37687354 --CATTTTATCCTACAGGGGTATTATG
1 ATCATTTTACCCTACAGGGGCATTACG
* *
37687379 ATCATTTTACCCTATAGGGGTATTACG
1 ATCATTTTACCCTACAGGGGCATTACG
* *
37687406 GTCATTTTACCCTATAGGGGCATTACG
1 ATCATTTTACCCTACAGGGGCATTACG
* * * *
37687433 GTCATTTTACCTTACAGGGGTATCACG
1 ATCATTTTACCCTACAGGGGCATTACG
* * **
37687460 GTCATTTTACCCCATTGGGGCATTACG
1 ATCATTTTACCCTACAGGGGCATTACG
* *
37687487 ATCATTTTACCGTACA-GGGTATTACG
1 ATCATTTTACCCTACAGGGGCATTACG
* * * *
37687513 GTTATTTTACCCTACAAGGGCATTAGG
1 ATCATTTTACCCTACAGGGGCATTACG
*
37687540 ATCATTTTACCCTACAAGGGCATTACG
1 ATCATTTTACCCTACAGGGGCATTACG
* *
37687567 GTCATTTTACCCTACAGGGGTATTAC-
1 ATCATTTTACCCTACAGGGGCATTACG
*
37687593 AGTCATTTTACTCTACAGGGGCATTACG
1 A-TCATTTTACCCTACAGGGGCATTACG
37687621 ATCATTTTACCC
1 ATCATTTTACCC
37687633 ATTCTGGGGT
Statistics
Matches: 289, Mismatches: 52, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
18 12 0.04
19 3 0.01
20 1 0.00
25 1 0.00
26 24 0.08
27 247 0.85
28 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
ATCATTTTACCCTACAGGGGCATTACG
Found at i:37687301 original size:54 final size:54
Alignment explanation
Indices: 37687254--37687632 Score: 375
Period size: 54 Copynumber: 7.2 Consensus size: 54
37687244 GGCATAATCA
* * *
37687254 TCATTTTACCATATAGGGGTATTACTATCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
* * * ** * *
37687308 TCATTCTACCCTACAAGGATATTGTGGTCATTTTACCCTATA--GG------GG
1 TCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
* * * *
37687354 -CATTTTATCCTACAGGGGTATTATGATCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
* * * * * *
37687407 TCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATCACGG
1 TCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
* ** * * *
37687461 TCATTTTACCCCATTGGGGCATTACGATCATTTTACCGTACA-GGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
* * * * *
37687514 TTATTTTACCCTACAAGGGCATTAGGATCATTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
* *
37687568 TCATTTTACCCTACAGGGGTATTAC-AGTCATTTTACTCTACAGGGGCATTACGA
1 TCATTTTACCCTACAGGGGTATTACGA-TCATTTTACCCTACAGGGGCATTACGG
37687622 TCATTTTACCC
1 TCATTTTACCC
37687633 ATTCTGGGGT
Statistics
Matches: 270, Mismatches: 44, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
45 35 0.13
46 2 0.01
47 2 0.01
52 2 0.01
53 48 0.18
54 181 0.67
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (54 bp):
TCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
Found at i:37687359 original size:18 final size:18
Alignment explanation
Indices: 37687336--37687371 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37687326 ATATTGTGGT
*
37687336 CATTTTACCCTATAGGGG
1 CATTTTACCCTACAGGGG
*
37687354 CATTTTATCCTACAGGGG
1 CATTTTACCCTACAGGGG
37687372 TATTATGATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (18 bp):
CATTTTACCCTACAGGGG
Found at i:37687409 original size:72 final size:72
Alignment explanation
Indices: 37687282--37687429 Score: 206
Period size: 72 Copynumber: 2.1 Consensus size: 72
37687272 GTATTACTAT
* **
37687282 CATTTTACCCTACAGGGGCATTACGGTCATTCTACCCTACAAGGATATTGTGGTCATTTTACCCT
1 CATTTTACCCTACAGGGGCATTACGATCATTCTACCCTACAAGGATATTACGGTCATTTTACCCT
37687347 ATAGGGG
66 ATAGGGG
* * * * * * *
37687354 CATTTTATCCTACAGGGGTATTATGATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCT
1 CATTTTACCCTACAGGGGCATTACGATCATTCTACCCTACAAGGATATTACGGTCATTTTACCCT
37687419 ATAGGGG
66 ATAGGGG
37687426 CATT
1 CATT
37687430 ACGGTCATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (72 bp):
CATTTTACCCTACAGGGGCATTACGATCATTCTACCCTACAAGGATATTACGGTCATTTTACCCT
ATAGGGG
Found at i:37687563 original size:134 final size:134
Alignment explanation
Indices: 37687354--37687631 Score: 380
Period size: 134 Copynumber: 2.1 Consensus size: 134
37687344 CCTATAGGGG
* * * *
37687354 CATTTTATCCTACAGGGGTATTATGATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCT
1 CATTTTA-CCTACAGGGGTATTACGATCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCT
* * * * **
37687419 ATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATCACGGTCATTTTACCCCATTGGGGCATT
65 ACAAGGGCATTACGGTCATTTTACCCTACAGGGGTATCACAGTCATTTTACCCCACAGGGGCATT
37687484 ACGAT
130 ACGAT
* *
37687489 CATTTTACCGTACA-GGGTATTACGGTTATTTTACCCTACAAGGGCATTA-GGATCATTTTACCC
1 CATTTTACC-TACAGGGGTATTACGATCATTTTACCCTACAAGGGCATTACGG-TCATTTTACCC
* * *
37687552 TACAAGGGCATTACGGTCATTTTACCCTACAGGGGTATTACAGTCATTTTACTCTACAGGGGCAT
64 TACAAGGGCATTACGGTCATTTTACCCTACAGGGGTATCACAGTCATTTTACCCCACAGGGGCAT
37687617 TACGAT
129 TACGAT
37687623 CATTTTACC
1 CATTTTACC
37687632 CATTCTGGGG
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
133 2 0.02
134 113 0.90
135 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (134 bp):
CATTTTACCTACAGGGGTATTACGATCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTA
CAAGGGCATTACGGTCATTTTACCCTACAGGGGTATCACAGTCATTTTACCCCACAGGGGCATTA
CGAT
Found at i:37687892 original size:18 final size:19
Alignment explanation
Indices: 37687861--37687911 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
37687851 AATCTGTGTG
*
37687861 GGGCCCACA-AGCCTA-TT
1 GGGCCCACATGGCCTATTT
37687878 GGGCCCACATGGCCTATTT
1 GGGCCCACATGGCCTATTT
*
37687897 TGGCCCAACATGGCC
1 GGGCCC-ACATGGCC
37687912 CATAAAGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 7 0.24
20 8 0.28
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (19 bp):
GGGCCCACATGGCCTATTT
Found at i:37688908 original size:12 final size:12
Alignment explanation
Indices: 37688893--37688918 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37688883 GAGAATTATG
37688893 GAGAAGAGAAAA
1 GAGAAGAGAAAA
37688905 GAGAAGAGAAAA
1 GAGAAGAGAAAA
37688917 GA
1 GA
37688919 AAAGCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAGAAGAGAAAA
Found at i:37710278 original size:28 final size:28
Alignment explanation
Indices: 37710187--37710292 Score: 76
Period size: 28 Copynumber: 3.7 Consensus size: 28
37710177 ACTTGTAATA
* *
37710187 GGGCTATGGCCCAGATTGATACTGATAT
1 GGGCTATGGCCCAGATTAATATTGATAT
* *
37710215 AGGCTA-GGCCCA-ATATACTCTGATATTG-TAAG
1 GGGCTATGGCCCAGAT-TA-----ATATTGAT-AT
37710247 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTATGGCCCAGATTAATATTGATAT
*
37710275 GGGCTAAGGCCCAG-TTAA
1 GGGCTATGGCCCAGATTAA
37710293 CTCTGATTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
26 2 0.03
27 11 0.18
28 25 0.41
29 1 0.02
31 1 0.02
32 11 0.18
33 8 0.13
34 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (28 bp):
GGGCTATGGCCCAGATTAATATTGATAT
Found at i:37710321 original size:61 final size:61
Alignment explanation
Indices: 37710148--37710312 Score: 196
Period size: 60 Copynumber: 2.7 Consensus size: 61
37710138 GCGAACTGTG
* * *
37710148 TTGATATGGGC-AAGGCCCAATAAATCTCGA-CTTGTAATAGGGCTATGGCCCAGATTGATA
1 TTGATATGGGCTAAGGCCCAATAACTCT-GATATTGTAATAGGGCTATGGCCCAGATTAATA
* * *
37710208 CTGATATAGGCT-AGGCCCAATATACTCTGATATTGTAA-GGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAAGGCCCAATA-ACTCTGATATTGTAATAGGGCTATGGCCCAGATTAATA
* *
37710268 TTGATATGGGCTAAGGCCCAGTTAACTCTGATTTTG-AATAGGGCT
1 TTGATATGGGCTAAGGCCCA-ATAACTCTGATATTGTAATAGGGCT
37710313 TAAGCCCAGT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
60 53 0.60
61 33 0.38
62 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (61 bp):
TTGATATGGGCTAAGGCCCAATAACTCTGATATTGTAATAGGGCTATGGCCCAGATTAATA
Found at i:37720837 original size:40 final size:40
Alignment explanation
Indices: 37720778--37720908 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
37720768 CGGGACTTTA
* * *
37720778 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
37720818 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
37720858 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
37720898 CCCGGATATAA
1 CCCGGATATAA
37720909 ATTTCAGCAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:37720923 original size:40 final size:40
Alignment explanation
Indices: 37720795--37720945 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
37720785 ATCACGATTT
* * * *
37720795 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
37720835 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
37720875 GCACAATTGCCTTCGGGTCTTAACCCGGATATAAAT-TTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACT-A
* * *
37720915 GCATAATTGTCTT-GGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
37720946 CATTCAATTT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 19 0.20
40 75 0.78
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:37728873 original size:39 final size:40
Alignment explanation
Indices: 37728700--37728877 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
37728690 CCAAGGCCAA
* * * * * * *
37728700 CGGGACTTAACCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
37728740 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
37728780 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
37728820 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
37728859 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
37728878 CATTCAATTT
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 31 0.26
40 85 0.72
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:37729996 original size:40 final size:40
Alignment explanation
Indices: 37729869--37729997 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
37729859 NATGCTGGAA
* *
37729869 TTATATCCGGGTTAAGACCCGAAGGCAATTT-TGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTTGTGCGAGTGG
* * * ***
37729909 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
37729949 TTCTATCCGGGCTAAGACCTGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
37729989 TTATATCCG
1 TTATATCCG
37729998 ATTATTTCCG
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 4 0.06
40 66 0.94
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:37739424 original size:40 final size:40
Alignment explanation
Indices: 37739356--37739535 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
37739346 ACCAAGTACT
* * *
37739356 TTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATGCC
1 TTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATGCC
* *
37739395 TTCGGGATTTATCCCGGTTATAGTAACTCGCACAAATGCC
1 TTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCC
* * * *
37739435 TTTGGGACTTAGCCCAGATATAGTAACCCGCACAAATGCC
1 TTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCC
37739475 TTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCC
1 TTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCC
37739515 TTCGGGACTTAGCCCGGTTAT
1 TTCGGGACTTAGCCCGGTTAT
37739536 CATCCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 11 0.09
40 114 0.91
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCC
Found at i:37742640 original size:20 final size:19
Alignment explanation
Indices: 37742617--37742656 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
37742607 TCGCACTACA
*
37742617 GTGCCCCTGTTTGCACATTT
1 GTGCCCCTGTCTGCAC-TTT
*
37742637 GTGCCCTTGTCTGCACTTT
1 GTGCCCCTGTCTGCACTTT
37742656 G
1 G
37742657 GTACCTCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.07, C:0.30, G:0.23, T:0.40
Consensus pattern (19 bp):
GTGCCCCTGTCTGCACTTT
Found at i:37748866 original size:17 final size:18
Alignment explanation
Indices: 37748846--37748890 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
37748836 CTCAAGTTTA
37748846 GTGAGCTCGCAG-TGC-TG
1 GTGAGCTCGCAGAT-CTTG
37748863 GTGAGCTCGC-GATCTTG
1 GTGAGCTCGCAGATCTTG
37748880 GTGAGCTCGCA
1 GTGAGCTCGCA
37748891 CTTTTCTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.13, C:0.24, G:0.38, T:0.24
Consensus pattern (18 bp):
GTGAGCTCGCAGATCTTG
Found at i:37753522 original size:23 final size:23
Alignment explanation
Indices: 37753496--37753544 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
37753486 AAGAATTGAG
37753496 TTAAATCTATCTTAAGCAAGCAA
1 TTAAATCTATCTTAAGCAAGCAA
37753519 TTAAATCTATCTTAAGCAAGCAA
1 TTAAATCTATCTTAAGCAAGCAA
37753542 TTA
1 TTA
37753545 TTCCTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (23 bp):
TTAAATCTATCTTAAGCAAGCAA
Found at i:37755595 original size:48 final size:48
Alignment explanation
Indices: 37755537--37756057 Score: 925
Period size: 48 Copynumber: 10.9 Consensus size: 48
37755527 ATATACACAC
* *
37755537 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37755585 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37755633 ATCTCATAGATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37755681 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37755729 ATCTCATAGATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
37755777 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
37755825 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
37755873 ATCTCATATATATTTCACATTAGCCATTCGCCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
37755921 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACCT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
37755969 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
37756017 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
37756058 CACATATATA
Statistics
Matches: 456, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 456 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:37759749 original size:14 final size:14
Alignment explanation
Indices: 37759728--37759768 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37759718 CTTACCTAAT
37759728 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
37759742 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
37759756 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
37759769 CAAGTAGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:37765365 original size:24 final size:25
Alignment explanation
Indices: 37765316--37765372 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
37765306 TATAATGTGT
* *
37765316 ATTGAATTGGTTCATTTGGTTGCAA
1 ATTGAATTGGTTCATTGGGGTGCAA
37765341 ATTGAATT-GTTCATATGGGGT-CAA
1 ATTGAATTGGTTCAT-TGGGGTGCAA
37765365 ATTTGAAT
1 A-TTGAAT
37765373 GTATTAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (25 bp):
ATTGAATTGGTTCATTGGGGTGCAA
Found at i:37767178 original size:38 final size:38
Alignment explanation
Indices: 37767119--37767249 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
37767109 TTTCAAATTA
* *
37767119 ACATGTATAACCGTGGCATATCCAGTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* *
37767157 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* **
37767198 GAATCGATATATGTAACTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
37767242 ACATGTAT
1 ACATGTAT
37767250 CAATTTGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
38 33 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 26 0.35
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:37767284 original size:48 final size:48
Alignment explanation
Indices: 37767170--37767292 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 48
37767160 TGTTTAACCA
*
37767170 TGGTATATCCACTTAGCACCACGTTA-ATGAATCGATATATGTAACTG
1 TGGTATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACTG
* * * *
37767217 TGGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTGTAA-TCG
1 TGGTATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACT-G
* *
37767265 TGGTATATTCGCTTAGCACCACGTTACA
1 TGGTATATCCACTTAGCACCACGTTACA
37767293 CATATAACCG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 26 0.39
48 40 0.61
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (48 bp):
TGGTATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACTG
Found at i:37770544 original size:40 final size:40
Alignment explanation
Indices: 37770417--37770546 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
37770407 ATGCTGGAAA
* *
37770417 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
37770457 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
37770497 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
37770537 TTATATCCGG
1 TTATATCCGG
37770547 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:37779106 original size:28 final size:28
Alignment explanation
Indices: 37779056--37779135 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 28
37779046 TGCATCTTCG
* *
37779056 ATATCTCGTACACTAAGTGCCATACTCA
1 ATATCTCGCACACTAAGTTCCATACTCA
* * * *
37779084 ATATCTCGCACACCAAATTCCATTCTTA
1 ATATCTCGCACACTAAGTTCCATACTCA
* *
37779112 ATATTTTGCACACTAAGTTCCATA
1 ATATCTCGCACACTAAGTTCCATA
37779136 TACATATATA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (28 bp):
ATATCTCGCACACTAAGTTCCATACTCA
Found at i:37782751 original size:42 final size:42
Alignment explanation
Indices: 37782705--37782785 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
37782695 TTGATTTCGC
37782705 ATCCTAGACACGGTCTTACACGAAATCTCATATCGAAGCCAT
1 ATCCTAGACACGGTCTTACACGAAATCTCATATCGAAGCCAT
* * *
37782747 ATCCTAGATATGGTCTTACACGTAATCTCATATCGAAGC
1 ATCCTAGACACGGTCTTACACGAAATCTCATATCGAAGC
37782786 TGATGTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (42 bp):
ATCCTAGACACGGTCTTACACGAAATCTCATATCGAAGCCAT
Found at i:37782822 original size:24 final size:24
Alignment explanation
Indices: 37782795--37782872 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
37782785 CTGATGTCAT
37782795 ATCTCAGATATGGTCTAACACAAG
1 ATCTCAGATATGGTCTAACACAAG
* * *
37782819 ATCTCATATA-GATGCTGATGC-CAA-
1 ATCTCAGATATGGT-CT-A-ACACAAG
* *
37782843 ATCCCAGATATGGTCTTACACAAG
1 ATCTCAGATATGGTCTAACACAAG
37782867 ATCTCA
1 ATCTCA
37782873 TATCGATGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 26 0.67
25 6 0.15
26 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (24 bp):
ATCTCAGATATGGTCTAACACAAG
Found at i:37782929 original size:48 final size:48
Alignment explanation
Indices: 37782742--37782929 Score: 279
Period size: 48 Copynumber: 3.9 Consensus size: 48
37782732 TCATATCGAA
* * *
37782742 GCCATATCCTAGATATGGTCTTACACGTA-ATCTCATATCGAAGCTGAT
1 GCCATATCCCAGATATGGTCTTACAC-AAGATCTCATATCGATGCTGAT
* * * *
37782790 GTCATATCTCAGATATGGTCTAACACAAGATCTCATATAGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
*
37782838 GCCAAATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
*
37782886 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATTGATGC
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGC
37782930 CATGTCCCAG
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 1 0.01
48 124 0.99
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
Found at i:37782946 original size:42 final size:45
Alignment explanation
Indices: 37782716--37782953 Score: 215
Period size: 48 Copynumber: 5.2 Consensus size: 45
37782706 TCCTAGACAC
* *
37782716 GGTCTTACACGAA-ATCTC-AT-ATC-GAAGCCATATCCTAGATAT
1 GGTCTTACAC-AAGATCTCAATCATCTGATGCCATATCCCAGATAT
* * * *
37782758 GGTCTTACACGTA-ATCTCATATCGAAGCTGATGTCATATCTCAGATAT
1 GGTCTTACAC-AAGATCTCA-ATC--ATCTGATGCCATATCCCAGATAT
* * *
37782806 GGTCTAACACAAGATCTCATATAGATGCTGATGCCAAATCCCAGATAT
1 GGTCTTACACAAGATCTCA-AT-CAT-CTGATGCCATATCCCAGATAT
37782854 GGTCTTACACAAGATCTCATATCGATGCTGATGCCATATCCCAGATAT
1 GGTCTTACACAAGATCTCA-ATC-AT-CTGATGCCATATCCCAGATAT
*
37782902 GGTCTTACACAAGATCTC-AT-AT-TGATGCCATGTCCCAG-TCAT
1 GGTCTTACACAAGATCTCAATCATCTGATGCCATATCCCAGAT-AT
37782944 GGTCTTACAC
1 GGTCTTACAC
37782954 GCTATTACGA
Statistics
Matches: 168, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 44 0.26
44 4 0.02
46 2 0.01
47 4 0.02
48 113 0.67
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
GGTCTTACACAAGATCTCAATCATCTGATGCCATATCCCAGATAT
Found at i:37783856 original size:27 final size:26
Alignment explanation
Indices: 37783808--37783859 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
37783798 GCGAGGCTGC
*
37783808 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
37783834 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
37783860 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37786277 original size:30 final size:30
Alignment explanation
Indices: 37786241--37786309 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
37786231 ACTTCGACTT
*
37786241 CCAAAAATCCCGTGTCCGATAGCTGACGAG
1 CCAAAAATCCCGAGTCCGATAGCTGACGAG
37786271 CCAAAAATCCCGAGTCCGATAGCTGACGAG
1 CCAAAAATCCCGAGTCCGATAGCTGACGAG
37786301 CCAAAAATC
1 CCAAAAATC
37786310 TATAAAACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.14
Consensus pattern (30 bp):
CCAAAAATCCCGAGTCCGATAGCTGACGAG
Found at i:37786787 original size:80 final size:80
Alignment explanation
Indices: 37786675--37786867 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
37786665 GGATATAGCG
* * * * * * *
37786675 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
37786740 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * * *
37786755 ACTCGCACGAATGCCTTTGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
37786820 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
37786835 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
37786868 ACACCATTCG
Statistics
Matches: 92, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
80 66 0.72
81 26 0.28
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:37786867 original size:41 final size:40
Alignment explanation
Indices: 37786689--37786868 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
37786679 GCTCGATTGT
* * * *
37786689 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* * *
37786729 CTTCGGGAATTAGCCCGGATTTAATAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
37786769 CTTTGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
37786809 CTTCGGGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
37786850 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
37786869 CACCATTCGA
Statistics
Matches: 113, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 84 0.74
41 28 0.25
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:37792269 original size:15 final size:13
Alignment explanation
Indices: 37792246--37792284 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
37792236 TTCAATTAAT
37792246 ATTTTATATGAATTA
1 ATTTTATAT--ATTA
*
37792261 ATTTCATATATTA
1 ATTTTATATATTA
37792274 ATTTTATATAT
1 ATTTTATATAT
37792285 GTACAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 14 0.64
15 8 0.36
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (13 bp):
ATTTTATATATTA
Found at i:37794565 original size:12 final size:14
Alignment explanation
Indices: 37794550--37794581 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37794540 GTGAGAACAC
37794550 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
37794562 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
37794576 ATGTGT
1 ATGTGT
37794582 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:37794667 original size:50 final size:50
Alignment explanation
Indices: 37794547--37794841 Score: 274
Period size: 50 Copynumber: 5.9 Consensus size: 50
37794537 ATTGTGAGAA
* * * *** *
37794547 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* *
37794599 CACGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* ** * * * * * * *
37794649 CGCATGTGTAGTACTAAGTGCAGGCTACTTTGCGTTCCCGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGT
* * *
37794700 CACATGTGTAGTACTAAGTCCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * *
37794750 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTA-CTGA-A-TTATTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA--GGT
* *
37794799 CACATGTGTA-TACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
37794842 CTTCGGTTAC
Statistics
Matches: 193, Mismatches: 44, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.02
48 22 0.11
49 18 0.09
50 77 0.40
51 38 0.20
52 35 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:37795060 original size:16 final size:15
Alignment explanation
Indices: 37795039--37795068 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37795029 GAATGGAGTA
37795039 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
37795055 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
37795069 TAAATTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:37804462 original size:24 final size:24
Alignment explanation
Indices: 37804441--37804488 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37804431 TTCTTTGACA
37804441 TAATCTTTGGATTACTCATTGAAC
1 TAATCTTTGGATTACTCATTGAAC
**
37804465 TTCTCTTTGGATTACTCATTGAAC
1 TAATCTTTGGATTACTCATTGAAC
37804489 ACTTAGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (24 bp):
TAATCTTTGGATTACTCATTGAAC
Found at i:37817898 original size:46 final size:48
Alignment explanation
Indices: 37817776--37817905 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
37817766 TGTAACCCGC
*
37817776 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
37817826 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
37817869 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37817906 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:37817924 original size:46 final size:45
Alignment explanation
Indices: 37817781--37817924 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
37817771 CCCGCCCATA
* *
37817781 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
37817829 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
37817874 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
37817920 AGTGA
1 AGTGA
37817925 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:37822273 original size:93 final size:93
Alignment explanation
Indices: 37822114--37822284 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37822104 TCCAAATTAA
* *
37822114 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
37822179 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
37822207 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
37822272 GAGTTCGGATGCC
66 GAGTTCGGATGCC
37822285 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:37822280 original size:46 final size:46
Alignment explanation
Indices: 37822114--37822280 Score: 214
Period size: 46 Copynumber: 3.6 Consensus size: 46
37822104 TCCAAATTAA
* * *
37822114 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
* * * *
37822160 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCATAAGTG
37822207 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
37822253 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
37822281 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.57
47 32 0.31
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
Found at i:37822299 original size:46 final size:45
Alignment explanation
Indices: 37822156--37822299 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
37822146 CGCATCCATA
* *
37822156 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
37822204 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
37822249 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
37822295 AGTGA
1 AGTGA
37822300 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:37824708 original size:30 final size:30
Alignment explanation
Indices: 37824664--37824752 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
37824654 CAAAGATAAC
37824664 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
37824693 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
37824723 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
37824753 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:37824712 original size:15 final size:15
Alignment explanation
Indices: 37824664--37824743 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
37824654 CAAAGATAAC
*
37824664 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
37824678 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
37824693 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
37824708 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
37824723 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
37824738 AAGAAA
1 AAGAAA
37824744 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37824752 original size:15 final size:15
Alignment explanation
Indices: 37824675--37824752 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
37824665 AGAAAACCGA
37824675 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
37824690 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
37824704 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
37824719 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
37824735 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37824750 ATA
1 ATA
37824753 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37827810 original size:46 final size:48
Alignment explanation
Indices: 37827688--37827817 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
37827678 TGTAACCCGC
*
37827688 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
37827738 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
37827781 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37827818 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:37827836 original size:46 final size:45
Alignment explanation
Indices: 37827693--37827836 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
37827683 CCCGCCCATA
* *
37827693 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
37827741 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
37827786 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
37827832 AGTGA
1 AGTGA
37827837 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:37832184 original size:93 final size:93
Alignment explanation
Indices: 37832025--37832195 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37832015 TCCAAATTAA
* *
37832025 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
37832090 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
37832118 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
37832183 GAGTTCGGATGCC
66 GAGTTCGGATGCC
37832196 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:37832191 original size:46 final size:46
Alignment explanation
Indices: 37832025--37832191 Score: 214
Period size: 46 Copynumber: 3.6 Consensus size: 46
37832015 TCCAAATTAA
* * *
37832025 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
* * * *
37832071 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCATAAGTG
37832118 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
37832164 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
37832192 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.57
47 32 0.31
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTG
Found at i:37832210 original size:46 final size:45
Alignment explanation
Indices: 37832067--37832210 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
37832057 CGCATCCATA
* *
37832067 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
37832115 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
37832160 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
37832206 AGTGA
1 AGTGA
37832211 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:37834615 original size:29 final size:29
Alignment explanation
Indices: 37834576--37834663 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
37834566 CAAAGATAAC
*
37834576 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
37834605 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
37834634 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
37834664 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:37834634 original size:15 final size:15
Alignment explanation
Indices: 37834576--37834654 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
37834566 CAAAGATAAC
*
37834576 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
37834590 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
37834605 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
37834619 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
37834634 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
37834649 AAGAAA
1 AAGAAA
37834655 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:37834663 original size:15 final size:15
Alignment explanation
Indices: 37834587--37834663 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
37834577 AGAAAACCGA
37834587 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
37834602 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
37834616 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
37834630 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
37834646 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
37834661 ATA
1 ATA
37834664 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:37837721 original size:46 final size:48
Alignment explanation
Indices: 37837599--37837728 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
37837589 TGTAACCCGC
*
37837599 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
37837649 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
37837692 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37837729 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:37837747 original size:46 final size:45
Alignment explanation
Indices: 37837604--37837747 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
37837594 CCCGCCCATA
* *
37837604 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
37837652 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
37837697 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
37837743 AGTGA
1 AGTGA
37837748 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:37842095 original size:21 final size:21
Alignment explanation
Indices: 37842071--37842110 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37842061 ACATGCCTGT
* *
37842071 GTAGAAGGGTGACACGCCCAA
1 GTAGAAAGGCGACACGCCCAA
37842092 GTAGAAAGGCGACACGCCC
1 GTAGAAAGGCGACACGCCC
37842111 GTGTGTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.33, T:0.07
Consensus pattern (21 bp):
GTAGAAAGGCGACACGCCCAA
Found at i:37843401 original size:48 final size:47
Alignment explanation
Indices: 37843320--37843584 Score: 232
Period size: 48 Copynumber: 5.5 Consensus size: 47
37843310 CCGATGCTAA
* * ** *
37843320 ACATGGTCTTACACTGGCTCACTTGTCGAGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCACACAT-AAGTGGTCGATGCCATGTCCCAG
* *
37843368 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCACACATAA-GTGGTCGATGCCATGTCCCAG
* *
37843416 ACATGGTCTTACACTAGCACACACATCAA-T-GCCGATGCCATGTCCCAG
1 ACATGGTCTTACACT-G-GCACACAT-AAGTGGTCGATGCCATGTCCCAG
* * * ** * * * *
37843464 ACATGGTCTTACCCTGGCTCTCATGTTGTGGCCGATACTATGTCCCAA
1 ACATGGTCTTACACTGGCACACAT-AAGTGGTCGATGCCATGTCCCAG
* *
37843512 ACATGGTCTTACACTAGCACACACATCAA-TGCT-GATGCCATGTCCCAG
1 ACATGGTCTTACACT-G-GCACACAT-AAGTGGTCGATGCCATGTCCCAG
*
37843560 ACATGGTCTTACACTGGCACTCATA
1 ACATGGTCTTACACTGGCACACATA
37843585 TCACTCAAAT
Statistics
Matches: 176, Mismatches: 33, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 11 0.06
47 3 0.02
48 144 0.82
49 5 0.03
50 10 0.06
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
ACATGGTCTTACACTGGCACACATAAGTGGTCGATGCCATGTCCCAG
Found at i:37843484 original size:96 final size:96
Alignment explanation
Indices: 37843352--37843584 Score: 376
Period size: 96 Copynumber: 2.4 Consensus size: 96
37843342 TTGTCGAGGT
* * *
37843352 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATACCATGTCCCAAA
37843417 CATGGTCTTACACTAGCACACACATCAATGC
66 CATGGTCTTACACTAGCACACACATCAATGC
* *** *
37843448 CGATGCCATGTCCCAGACATGGTCTTACCCTGGCTCTCATGTTGTGGCCGATACTATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATACCATGTCCCAAA
37843513 CATGGTCTTACACTAGCACACACATCAATGC
66 CATGGTCTTACACTAGCACACACATCAATGC
* *
37843544 TGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
37843585 TCACTCAAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 125 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATACCATGTCCCAAA
CATGGTCTTACACTAGCACACACATCAATGC
Found at i:37849658 original size:25 final size:25
Alignment explanation
Indices: 37849607--37849658 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
37849597 GTTTTATTTT
* *
37849607 ATTAACCTTAATACATAATTTACTAA
1 ATTAACCTTAATA-ATAATTCAATAA
37849633 ATTAACCTTTAAT-ATAATTCAATAA
1 ATTAACC-TTAATAATAATTCAATAA
37849658 A
1 A
37849659 ATCACTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 7 0.30
27 5 0.22
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAACCTTAATAATAATTCAATAA
Found at i:37857746 original size:68 final size:68
Alignment explanation
Indices: 37857601--37857752 Score: 163
Period size: 68 Copynumber: 2.3 Consensus size: 68
37857591 CACCTGGAAC
* * * *
37857601 CACACATGCAACCTAGCTACATC-T-A--TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAG
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAG
37857662 TAT
66 TAT
*
37857665 CACCCATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-C
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGT-CTACATGGTATACA-CAC
*
37857728 CGTAT
64 AGTAT
* * *
37857733 TACACATGTGACCTATCTAC
1 CACACATGCGACCTAGCTAC
37857753 ATACCATCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
64 20 0.28
65 1 0.01
66 1 0.01
68 48 0.67
69 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (68 bp):
CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAG
TAT
Found at i:37859153 original size:31 final size:31
Alignment explanation
Indices: 37859118--37859187 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
37859108 TGCTGGGCTG
37859118 AAGCCTTTTCAGAAATCATATCACTGGGCCA
1 AAGCCTTTTCAGAAATCATATCACTGGGCCA
* * * *
37859149 AAGCCTTTTCATAAATCATTTCACTGGGTCG
1 AAGCCTTTTCAGAAATCATATCACTGGGCCA
37859180 AAGCCTTT
1 AAGCCTTT
37859188 ACTGTAAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (31 bp):
AAGCCTTTTCAGAAATCATATCACTGGGCCA
Found at i:37859258 original size:42 final size:42
Alignment explanation
Indices: 37859211--37859302 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
37859201 TGGCCCATAG
* **
37859211 GCCCATTTCAATATCACATGTAATGTCAATCG-ATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAAT-GAATGTATGCAA
37859253 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
37859295 GCCCATTT
1 GCCCATTT
37859303 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:37859490 original size:26 final size:26
Alignment explanation
Indices: 37859447--37859544 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
37859437 CCTCTTTAAT
37859447 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
37859472 ACCTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
37859498 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
37859524 AACTGGGACATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
37859545 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 9 0.14
26 56 0.86
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:37859520 original size:52 final size:51
Alignment explanation
Indices: 37859447--37859544 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
37859437 CCTCTTTAAT
* *
37859447 AACTGGGGCAAAGCCCTTTTCGGTAACCTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGACATAAGCCCTTTTCAATA
37859498 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGACATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGACATAAGCCCTTTT
37859545 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 10 0.23
52 34 0.77
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGACATAAGCCCTTTTCAATA
Found at i:37860444 original size:26 final size:26
Alignment explanation
Indices: 37860346--37860428 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
37860336 GGGCATATTT
* * *
37860346 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCCTACAGGGCT-TTACG
37860373 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACA-GGGCTTTACG
37860400 GTCACTTTACCCTACAGGGCTTTACG
1 GTCACTTTACCCTACAGGGCTTTACG
37860426 GTC
1 GTC
37860429 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 13 0.25
27 35 0.67
28 4 0.08
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (26 bp):
GTCACTTTACCCTACAGGGCTTTACG
Found at i:37860520 original size:27 final size:27
Alignment explanation
Indices: 37860494--37860745 Score: 143
Period size: 27 Copynumber: 9.3 Consensus size: 27
37860484 ATCTACAAAC
* *
37860494 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
37860521 CAATGGTATTTCTA-TAATTTTTAAAAAGT
1 CAAGGGTATTTC-AGTAA-TTTTATAAA-T
** * *
37860550 CAAGGGTATTTCTTTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
** *
37860577 CAAGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTCAGTAATTTTATAAA-T
* * * * *
37860605 GAA-GGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
** *
37860631 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** * *
37860657 CTAGGGGTATTTTGGTAATTTTACAAAG
1 C-AAGGGTATTTCAGTAATTTTATAAAT
* *
37860685 CAAGGGT-TTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *** * *
37860711 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
37860738 CAAGGGTA
1 CAAGGGTA
37860746 AAATAGTAAT
Statistics
Matches: 181, Mismatches: 35, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
26 24 0.13
27 125 0.69
28 18 0.10
29 14 0.08
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:37860595 original size:56 final size:55
Alignment explanation
Indices: 37860494--37860651 Score: 160
Period size: 56 Copynumber: 2.9 Consensus size: 55
37860484 ATCTACAAAC
* *
37860494 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAAAAAGT
1 CAAGGGTATTTCAGTAA-TTTGTAAACCAAGGGTATTT-TGGTAATTTTTAAAAAGT
** * * *
37860550 CAAGGGTATTTCTTTAACTTTGTAAATCAAGGGTATTTTGGTAA-TTTTACAAATT
1 CAAGGGTATTTCAGTAA-TTTGTAAACCAAGGGTATTTTGGTAATTTTTAAAAAGT
* * **
37860605 GAA-GGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTT
1 CAAGGGTATTTCAGTAATTT-GTAAACCAAGGGTATTTTGGTAATTTT
37860652 ACAAACTAGG
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
53 3 0.04
54 31 0.36
55 15 0.18
56 36 0.42
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (55 bp):
CAAGGGTATTTCAGTAATTTGTAAACCAAGGGTATTTTGGTAATTTTTAAAAAGT
Found at i:37860636 original size:54 final size:54
Alignment explanation
Indices: 37860577--37860704 Score: 179
Period size: 54 Copynumber: 2.4 Consensus size: 54
37860567 CTTTGTAAAT
*
37860577 CAAGGGTATTTTGGTAATTTTACAAA-TTGAAGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAG-AGGTATTTCGGTAATTTCACAAAC
* * * *
37860631 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAG
1 CAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTCGGTAATTTCACAAAC
*
37860685 CAAGGGT-TTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
37860705 GTAAATCGAG
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 12 0.18
54 53 0.79
55 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTCGGTAATTTCACAAAC
Found at i:37860945 original size:27 final size:27
Alignment explanation
Indices: 37860697--37860935 Score: 289
Period size: 27 Copynumber: 8.9 Consensus size: 27
37860687 AGGGTTTTTA
* *
37860697 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAACG
* * **
37860724 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCGAGGGTAAAACG
* * * *
37860751 GTAATTCTATAAATCGATGGTAAAGCG
1 GTAATTATGTAAATCGAGGGTAAAACG
37860778 GTAATTATGTAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
37860805 ATAATTATGTAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * *
37860832 GTAATTTTGTAAGTCGAGGATAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * *
37860859 ATAATTATGTAAATTGGGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
37860886 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * *
37860913 ATAATTCTGTAAATCGGGGGTAA
1 GTAATTATGTAAATCGAGGGTAA
37860936 TTTGGTAATT
Statistics
Matches: 184, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 184 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCGAGGGTAAAACG
Found at i:37860961 original size:27 final size:27
Alignment explanation
Indices: 37860931--37861029 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
37860921 GTAAATCGGG
* * *
37860931 GGTAATTTGGTAATTTTACAAGTCGAA
1 GGTATTTTAGTAATTTTACAAATCGAA
*
37860958 GGTATTTTAGTAATTTTACAAATCGAG
1 GGTATTTTAGTAATTTTACAAATCGAA
* * *
37860985 GGTATTTTAGTATTTTTACCAA-CTAA
1 GGTATTTTAGTAATTTTACAAATCGAA
* *
37861011 GGGTATTTCAATAATTTTA
1 -GGTATTTTAGTAATTTTA
37861030 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.03
27 58 0.97
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAATCGAA
Found at i:37861483 original size:32 final size:32
Alignment explanation
Indices: 37861442--37861507 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
37861432 AACTTTGTAT
37861442 CCACTCTTATGTTAGCTTCCCGATGTGGGATC
1 CCACTCTTATGTTAGCTTCCCGATGTGGGATC
37861474 CCACTCTTATGTTAGCTTCCCGATGTGGGATC
1 CCACTCTTATGTTAGCTTCCCGATGTGGGATC
37861506 CC
1 CC
37861508 TCCAACATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.30, G:0.21, T:0.33
Consensus pattern (32 bp):
CCACTCTTATGTTAGCTTCCCGATGTGGGATC
Found at i:37863435 original size:18 final size:18
Alignment explanation
Indices: 37863400--37863433 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37863390 TTGGGCCTAG
37863400 ATGGGCTGTGTGGGCCCA
1 ATGGGCTGTGTGGGCCCA
37863418 ATGGGCT-TGTGGGCCC
1 ATGGGCTGTGTGGGCCC
37863434 CACACAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.44, T:0.24
Consensus pattern (18 bp):
ATGGGCTGTGTGGGCCCA
Found at i:37863695 original size:27 final size:27
Alignment explanation
Indices: 37863643--37863713 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
37863633 GGTCATTAAG
*
37863643 ACCCCTGT-TTGTAAAATTACTAAAAT
1 ACCCCTGTAATGTAAAATTACTAAAAT
* *
37863669 ACCCTTGTAATGTAAAATTA-TCGAAAT
1 ACCCCTGTAATGTAAAATTACT-AAAAT
**
37863696 ACCCCTGTAGGGTAAAAT
1 ACCCCTGTAATGTAAAAT
37863714 GACTGTTTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 8 0.22
27 29 0.78
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (27 bp):
ACCCCTGTAATGTAAAATTACTAAAAT
Found at i:37865777 original size:46 final size:47
Alignment explanation
Indices: 37865725--37865819 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
37865715 GTTGAATTTA
* *
37865725 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
37865771 AAGCTTGTTAAATTTGCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
37865818 AA
1 AA
37865820 AGAAAATCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 12 0.27
47 33 0.73
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:37866666 original size:45 final size:45
Alignment explanation
Indices: 37866602--37866724 Score: 192
Period size: 45 Copynumber: 2.7 Consensus size: 45
37866592 CGCACAGTAT
** **
37866602 TATTCGGGCCCTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
37866647 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
* *
37866692 TATTTGGGCTTTAGAGCCTAGCAGGCTATAATG
1 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATG
37866725 TCGGTGAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
Found at i:37871416 original size:29 final size:29
Alignment explanation
Indices: 37871321--37871420 Score: 125
Period size: 27 Copynumber: 3.6 Consensus size: 29
37871311 TACCTATATC
* *
37871321 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTTATA
* *
37871349 TGGCCCATTAGGCCCAAATC--ATCTGTA
1 TGGCCCATTAGGCCCAAATCATATTTATA
*
37871376 TGGCCAATTAGGCCCAAATCATATTTATA
1 TGGCCCATTAGGCCCAAATCATATTTATA
*
37871405 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
37871421 GTCACATTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.38
28 14 0.23
29 23 0.38
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTTATA
Found at i:37871658 original size:9 final size:9
Alignment explanation
Indices: 37871628--37871664 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
37871618 AACTTTCAGC
37871628 TTTTTGGCA
1 TTTTTGGCA
*
37871637 -TTTCGGC-
1 TTTTTGGCA
37871644 TTTTTGGCA
1 TTTTTGGCA
37871653 TTTTTGGCA
1 TTTTTGGCA
37871662 TTT
1 TTT
37871665 CGGCTTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.50
9 12 0.50
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.57
Consensus pattern (9 bp):
TTTTTGGCA
Found at i:37871672 original size:16 final size:16
Alignment explanation
Indices: 37871621--37871655 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
37871611 GTAGCCAAAC
37871621 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
*
37871637 TTTCGGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
37871653 TTT
1 TTT
37871656 TTGGCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTCAGCTTTTTGGCA
Found at i:37878143 original size:27 final size:27
Alignment explanation
Indices: 37878113--37878164 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
37878103 CCTAATTTGA
37878113 TGAAATGACT-ATTATACCCCTATGAGG
1 TGAAATGACTGA-TATACCCCTATGAGG
37878140 TGAAATGACTGATATACCCCTATGA
1 TGAAATGACTGATATACCCCTATGA
37878165 TATGTATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
TGAAATGACTGATATACCCCTATGAGG
Found at i:37890538 original size:28 final size:29
Alignment explanation
Indices: 37890474--37890591 Score: 168
Period size: 28 Copynumber: 4.1 Consensus size: 29
37890464 GAAAGCATGT
37890474 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
37890503 GTATGAATGTGATTTAGG-CTAATGGGAC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
37890531 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
37890560 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
37890588 ATAT
1 ATAT
37890592 ACATGTATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.55
29 35 0.45
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:37891009 original size:2 final size:2
Alignment explanation
Indices: 37891002--37891043 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
37890992 TAATCGTTTC
37891002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37891044 CAAAGTATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37898865 original size:40 final size:40
Alignment explanation
Indices: 37898810--37899017 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
37898800 TGAATGATAC
* * *
37898810 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
37898850 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
37898890 CCGGGTTAAGACCCAAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
37898930 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
37898970 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
37899010 CC-GGCTAA
1 CCGGGCTAA
37899018 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.03
40 141 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:37903928 original size:9 final size:9
Alignment explanation
Indices: 37903915--37903974 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
37903905 TTTTGATAAA
37903915 CATGATATG
1 CATGATATG
*
37903924 TATGATATG
1 CATGATATG
*
37903933 CACATGACATG
1 --CATGATATG
*
37903944 TATGATATG
1 CATGATATG
37903953 CACATGATATG
1 --CATGATATG
37903964 CATGATATG
1 CATGATATG
37903973 CA
1 CA
37903975 CATGAGATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 26 0.63
11 15 0.37
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (9 bp):
CATGATATG
Found at i:37903939 original size:20 final size:20
Alignment explanation
Indices: 37903914--37903984 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
37903904 ATTTTGATAA
37903914 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
37903934 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
37903954 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
*
37903974 ACATGAGATGT
1 ACATGATATGT
37903985 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:37903961 original size:11 final size:11
Alignment explanation
Indices: 37903925--37903979 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
37903915 CATGATATGT
37903925 ATGATATGCAC
1 ATGATATGCAC
* *
37903936 ATGACATG--T
1 ATGATATGCAC
37903945 ATGATATGCAC
1 ATGATATGCAC
37903956 ATGATATG--C
1 ATGATATGCAC
37903965 ATGATATGCAC
1 ATGATATGCAC
37903976 ATGA
1 ATGA
37903980 GATGTTCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:37904061 original size:23 final size:23
Alignment explanation
Indices: 37904031--37904196 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
37904021 AGGAAGTGCA
37904031 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
37904054 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
37904077 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
37904101 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
37904124 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
37904148 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
37904171 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
37904194 AAA
1 AAA
37904197 AGAGGCAAGG
Statistics
Matches: 132, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 90 0.68
24 42 0.32
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:37904122 original size:47 final size:47
Alignment explanation
Indices: 37904031--37904198 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
37904021 AGGAAGTGCA
*
37904031 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
37904077 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
37904124 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
37904171 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
37904199 AGGCAAGGCC
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 22 0.19
47 93 0.81
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:37904142 original size:70 final size:71
Alignment explanation
Indices: 37904029--37904196 Score: 277
Period size: 70 Copynumber: 2.4 Consensus size: 71
37904019 GGAGGAAGTG
* * *
37904029 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
37904093 AGTTAT
66 AGTTAT
37904099 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
37904164 AGTTAT
66 AGTTAT
* *
37904170 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
37904197 AGAGGCAAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 71 0.77
71 21 0.23
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:37910884 original size:40 final size:40
Alignment explanation
Indices: 37910829--37911036 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
37910819 TGAATGATAC
* * *
37910829 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
37910869 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
37910909 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
37910949 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
37910989 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
37911029 CC-GGCTAA
1 CCGGGCTAA
37911037 ATTCCGAAGA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 145 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:37915785 original size:27 final size:28
Alignment explanation
Indices: 37915751--37915819 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
37915741 TACTCGATCA
* *
37915751 CGCACACTTAGTGCCATATATTC-AGCT
1 CGCACACTTAGTGCCATATAATCAAACT
*
37915778 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCCATATAATCAAACT
37915806 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37915820 TGTACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATAATCAAACT
Found at i:37917183 original size:18 final size:18
Alignment explanation
Indices: 37917151--37917188 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
37917141 TCCACACCCA
37917151 TTTTTTTTCATCATTATCTT
1 TTTTTTTTCA-CATT-TCTT
37917171 TTTTTTTTC-CATTTCTT
1 TTTTTTTTCACATTTCTT
37917188 T
1 T
37917189 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
20 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCACATTTCTT
Found at i:37923850 original size:93 final size:93
Alignment explanation
Indices: 37923738--37923909 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37923728 CGCCCATAAG
* *
37923738 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37923803 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
37923831 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37923896 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
37923910 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:37923906 original size:46 final size:46
Alignment explanation
Indices: 37923731--37923906 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37923721 TGTAACCCGC
* * *
37923731 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
37923777 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
37923827 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37923870 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37923907 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37932575 original size:41 final size:41
Alignment explanation
Indices: 37932518--37932669 Score: 191
Period size: 41 Copynumber: 3.8 Consensus size: 41
37932508 TCGGGGTTTA
37932518 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* *
37932559 AATCCGAGCTTGGTCTCAAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
37932600 AA-CCAAACCTAGT-TTGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
37932639 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAG
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAG
37932670 TCAGCGCTAA
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
39 21 0.24
40 14 0.16
41 53 0.60
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:37938287 original size:12 final size:12
Alignment explanation
Indices: 37938253--37938288 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
37938243 ATTGACTTGG
*
37938253 GTCACACGACCA
1 GTCACACGCCCA
37938265 GTCACACGCCCA
1 GTCACACGCCCA
*
37938277 GTCACATGCCCA
1 GTCACACGCCCA
37938289 TGTGTCTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.44, G:0.17, T:0.11
Consensus pattern (12 bp):
GTCACACGCCCA
Found at i:37940373 original size:27 final size:27
Alignment explanation
Indices: 37940327--37940378 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
37940317 CCCATACTGA
*
37940327 TAAAATGACTGTTATACCCCTATGAGG
1 TAAAATGACTGATATACCCCTATGAGG
*
37940354 TAAAATGACTGATATGCCCCTATGA
1 TAAAATGACTGATATACCCCTATGA
37940379 TTTGTATGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
TAAAATGACTGATATACCCCTATGAGG
Found at i:37942212 original size:43 final size:42
Alignment explanation
Indices: 37942165--37942263 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
37942155 TCCTAGACGT
* *
37942165 GGTCTTACATGTAATTAAATATCGATG-CCACTATCCCAGACAG
1 GGTCTTACACGTAATCAAATAT-GATGTCCAC-ATCCCAGACAG
* * * *
37942208 GGTCTTACACGAAATCAAATATGATGTCGACGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATGATGTCCACATCCCAGACAG
37942250 GGTCTTACACGTAA
1 GGTCTTACACGTAA
37942264 ATCATAAGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATATGATGTCCACATCCCAGACAG
Found at i:37942266 original size:43 final size:43
Alignment explanation
Indices: 37942146--37942304 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
37942136 AGCTTGTACA
* * * *
37942146 ATGCCAACGTCCTAGACGTGGTCTTACATGT-AATTAAATATCG
1 ATGCC-ACGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
37942189 ATGCCACTATCCCAGACAGGGTCTTACACG-AAATCAAATAT-G
1 ATGCCAC-GTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
37942231 ATGTCGACGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATG-CCACGTCCCAGACATGGTCTTACACGTAAATCA-AATATCG
* **
37942275 ATGCCAACGTCCCAAACCCGGTCTTACACG
1 ATGCC-ACGTCCCAGACATGGTCTTACACG
37942305 AAAACACATG
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
42 26 0.27
43 42 0.44
44 27 0.28
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Done.