Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 132 of 230
Found at i:38491885 original size:30 final size:29
Alignment explanation
Indices: 38491849--38491957 Score: 128
Period size: 30 Copynumber: 3.7 Consensus size: 29
38491839 TTTCCGTAAG
38491849 GAAGCCTTTGTGGCGATCTCTGTAAAAAAA
1 GAAGCCTTTGTGGCGATCTCTGT-AAAAAA
** *
38491879 GAAGCCTTTGTGTTGATCTCTGTTAAAAA
1 GAAGCCTTTGTGGCGATCTCTGTAAAAAA
** *
38491908 GAAAGGTTTTGTAGCGATCTCTGTTAAAAAA
1 G-AAGCCTTTGTGGCGATCTCTG-TAAAAAA
*
38491939 GAAGCCTTTGTGGCAATCT
1 GAAGCCTTTGTGGCGATCT
38491958 TTTTCAAAGG
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 6 0.09
30 51 0.80
31 7 0.11
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (29 bp):
GAAGCCTTTGTGGCGATCTCTGTAAAAAA
Found at i:38494963 original size:38 final size:39
Alignment explanation
Indices: 38494915--38494992 Score: 115
Period size: 37 Copynumber: 2.0 Consensus size: 39
38494905 TAAACATTAA
*
38494915 AAAATTATTTTAAAAATAAAAAAATAAAAAA-ATAT-TTT
1 AAAAGTATTTT-AAAATAAAAAAATAAAAAATATATATTT
*
38494953 AAAAGTATTTTAAAATTAAAAAATAAAAAATATATATTT
1 AAAAGTATTTTAAAATAAAAAAATAAAAAATATATATTT
38494992 A
1 A
38494993 TTATATTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 18 0.50
38 14 0.39
39 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (39 bp):
AAAAGTATTTTAAAATAAAAAAATAAAAAATATATATTT
Found at i:38503186 original size:47 final size:47
Alignment explanation
Indices: 38503120--38503592 Score: 750
Period size: 47 Copynumber: 10.1 Consensus size: 47
38503110 GAAATGATAG
* *
38503120 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38503167 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38503214 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38503261 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38503308 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAATGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38503355 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38503402 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38503449 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38503496 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * * *
38503542 CAGGGCCGAGTGGCCAACGTGATGGATGCGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38503589 TAAG
1 TAAG
38503593 TCCCGAAGGG
Statistics
Matches: 404, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 0.10
47 364 0.90
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38503766 original size:37 final size:37
Alignment explanation
Indices: 38503710--38503788 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38503700 CCGAGCTCTA
* *
38503710 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
38503747 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38503784 AAGAC
1 AAGAC
38503789 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38505689 original size:43 final size:43
Alignment explanation
Indices: 38505641--38505786 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
38505631 TTGGTTTTCA
38505641 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38505684 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
38505727 GCACTAAGTGTGCGGGCAATAAGTGTTCACAGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38505770 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38505787 TTGAAATGCA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38505803 original size:29 final size:29
Alignment explanation
Indices: 38505768--38505841 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
38505758 GTTGTGAGAT
* *
38505768 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
38505797 TGGCACTAAGTGTTCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
38505826 TGGCACTAAATGTGCG
1 TGGCACTAAGTGTGCG
38505842 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38506275 original size:40 final size:40
Alignment explanation
Indices: 38506152--38506347 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
38506142 TCGAATGATG
** *
38506152 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
38506192 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
38506232 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
38506272 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
38506312 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
38506348 CGTGTATTTG
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.85
41 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:38506288 original size:80 final size:81
Alignment explanation
Indices: 38506152--38506348 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 81
38506142 TCGAATGATG
**
38506152 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
38506214 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** * *
38506232 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
* *
38506296 TCGTGCTAGTGATATA
66 TCGTGCGAGTGATAAA
* * * *
38506312 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
38506349 GTGTATTTGG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 73 0.74
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:38509992 original size:47 final size:47
Alignment explanation
Indices: 38509926--38510398 Score: 759
Period size: 47 Copynumber: 10.1 Consensus size: 47
38509916 GAAATGATAG
*
38509926 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38509973 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38510020 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38510067 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38510114 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAATGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38510161 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38510208 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38510255 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38510302 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * * *
38510348 CAGGGCCGAGTGGCCAACGTGATGGATGCGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38510395 TAAG
1 TAAG
38510399 TCCCGAAGGG
Statistics
Matches: 405, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 0.10
47 365 0.90
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38510573 original size:37 final size:37
Alignment explanation
Indices: 38510517--38510595 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38510507 CCGAGCTCTA
* *
38510517 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
38510554 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38510591 AAGAC
1 AAGAC
38510596 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38513683 original size:29 final size:30
Alignment explanation
Indices: 38513641--38513705 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
38513631 TTAATGCCAA
38513641 GAATGGTGTCGAATAGATTCCTGAAGATT-
1 GAATGGTGTCGAATAGATTCCTGAAGATTG
*
38513670 GAATGGTGTCGAATAGATTCTTGAAGATTG
1 GAATGGTGTCGAATAGATTCCTGAAGATTG
38513700 GAATGG
1 GAATGG
38513706 CTGAAAATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (30 bp):
GAATGGTGTCGAATAGATTCCTGAAGATTG
Found at i:38515154 original size:33 final size:34
Alignment explanation
Indices: 38515103--38515177 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
38515093 AGATTTAAAC
38515103 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
38515137 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
38515170 AATTTAAT
1 AAATTAAT
38515178 AAACTAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:38518414 original size:18 final size:18
Alignment explanation
Indices: 38518391--38518429 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38518381 CTCTTTTTGC
38518391 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
38518409 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
38518427 TCT
1 TCT
38518430 GTCTTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:38521202 original size:20 final size:20
Alignment explanation
Indices: 38521177--38521218 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
38521167 CCTTACAGAG
38521177 AATGAGATTCTATCTTAGTT
1 AATGAGATTCTATCTTAGTT
38521197 AATGAGATTCTATCTTAGTT
1 AATGAGATTCTATCTTAGTT
38521217 AA
1 AA
38521219 CCGCATCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (20 bp):
AATGAGATTCTATCTTAGTT
Found at i:38526138 original size:41 final size:40
Alignment explanation
Indices: 38526076--38526199 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 40
38526066 GTACGGGATA
*
38526076 TACTTTGGCTTCTCCAATGATGCACTTATGTGCCAGTATAT
1 TACTTTGGTTTCTCC-ATGATGCACTTATGTGCCAGTATAT
*
38526117 TACTTTGGTTTGTCCAGTGATGCACTTATGTGCCAGTATAT
1 TACTTTGGTTTCTCCA-TGATGCACTTATGTGCCAGTATAT
* ** * *
38526158 TA-TTCTGGTTCTTTTGATGATGCCCTTATGTGCCAATATAT
1 TACTT-TGGTT-TCTCCATGATGCACTTATGTGCCAGTATAT
38526199 T
1 T
38526200 TGCTTTGATG
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 3 0.04
41 67 0.92
42 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (40 bp):
TACTTTGGTTTCTCCATGATGCACTTATGTGCCAGTATAT
Found at i:38531374 original size:25 final size:25
Alignment explanation
Indices: 38531333--38531398 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
38531323 ATCTCGACCC
* * *
38531333 ACAACTCGTGTAAGCAATTACAGCT
1 ACAACTTGTGTGAGCAATAACAGCT
* * *
38531358 ACAGCTTGTGTGAGCAATAATAGTT
1 ACAACTTGTGTGAGCAATAACAGCT
38531383 ACAACTTGTGTGAGCA
1 ACAACTTGTGTGAGCA
38531399 TCGTTCTAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (25 bp):
ACAACTTGTGTGAGCAATAACAGCT
Found at i:38531500 original size:13 final size:13
Alignment explanation
Indices: 38531484--38531613 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
38531474 AATGTCAAAC
*
38531484 GAAATGTTTATAT
1 GAAATGGTTATAT
**
38531497 GAAATGGTTACCT
1 GAAATGGTTATAT
38531510 GAAATGGTTATAT
1 GAAATGGTTATAT
*
38531523 -AAATAAGTTATAT
1 GAAAT-GGTTATAT
* * *
38531536 AGAAATTGATATAC
1 -GAAATGGTTATAT
** * *
38531550 GGGATGATTTTAT
1 GAAATGGTTATAT
*
38531563 G-AATCGGTTATAAA
1 GAAAT-GGTTAT-AT
*
38531577 GAAATAGTTATAT
1 GAAATGGTTATAT
* * *
38531590 GAAGTGTTTTTAT
1 GAAATGGTTATAT
*
38531603 GAAATGCTTAT
1 GAAATGGTTAT
38531614 TTGGATATAG
Statistics
Matches: 82, Mismatches: 29, Indels: 12
0.67 0.24 0.10
Matches are distributed among these distances:
12 6 0.07
13 57 0.70
14 12 0.15
15 7 0.09
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:38537777 original size:85 final size:85
Alignment explanation
Indices: 38537634--38537807 Score: 330
Period size: 85 Copynumber: 2.0 Consensus size: 85
38537624 TGTTATCAGA
38537634 AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
1 AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
38537699 GTTTTAAATATGATTTTAGC
66 GTTTTAAATATGATTTTAGC
* *
38537719 AATACATTGATTTGAGATGTTAGAATGGTCAATTGATTTGTGCTGAATCTACTAAGCCTGGTTGT
1 AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
38537784 GTTTTAAATATGATTTTAGC
66 GTTTTAAATATGATTTTAGC
38537804 AATA
1 AATA
38537808 TCCGCACAAA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (85 bp):
AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
GTTTTAAATATGATTTTAGC
Found at i:38538793 original size:26 final size:27
Alignment explanation
Indices: 38538738--38538794 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
38538728 AGGTTTTTAG
*
38538738 TTTATCGATAACTGAATATTTTATTAA
1 TTTATCGATAAATGAATATTTTATTAA
*
38538765 TTTATCGATAAATTAATA-TTTATTAA
1 TTTATCGATAAATGAATATTTTATTAA
38538791 TTTA
1 TTTA
38538795 GAGAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (27 bp):
TTTATCGATAAATGAATATTTTATTAA
Found at i:38544287 original size:22 final size:24
Alignment explanation
Indices: 38544238--38544287 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
38544228 ATTTCTCTCA
*
38544238 CCCTTTTCAACATATACCTATAAT
1 CCCTTTTCAACATATACCTATAAG
38544262 CCCTTTTGC-ACATATA-C-ATAAG
1 CCCTTTT-CAACATATACCTATAAG
38544284 CCCT
1 CCCT
38544288 CAAAAGGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
23 1 0.04
24 14 0.58
25 1 0.04
ACGTcount: A:0.30, C:0.32, G:0.04, T:0.34
Consensus pattern (24 bp):
CCCTTTTCAACATATACCTATAAG
Found at i:38545667 original size:27 final size:29
Alignment explanation
Indices: 38545610--38545684 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 29
38545600 TATGTACATG
*
38545610 TCATGATACATATTATTATCTTACCATTTCA
1 TCAT-ATACATA-TATCATCTTACCATTTCA
38545641 TCATATACATATATCATC-T-CCATTTCA
1 TCATATACATATATCATCTTACCATTTCA
38545668 --ATATATCAATATATCAT
1 TCATATA-C-ATATATCAT
38545685 GTACCATCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 5 0.12
26 1 0.02
27 17 0.41
28 1 0.02
29 6 0.15
30 7 0.17
31 4 0.10
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.43
Consensus pattern (29 bp):
TCATATACATATATCATCTTACCATTTCA
Found at i:38545888 original size:24 final size:24
Alignment explanation
Indices: 38545854--38545939 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
38545844 GTACATGTAT
*
38545854 GCTCATACGAGCTATAAACGGTAA
1 GCTCCTACGAGCTATAAACGGTAA
* *
38545878 GCTCCTCCGAGCTGAT-AATGGTAA
1 GCTCCTACGAGCT-ATAAACGGTAA
* * *
38545902 GCTTCTTCGAGCTAAATAACGGTAA
1 GCTCCTACGAGCTATA-AACGGTAA
*
38545927 GCTCATACGAGCT
1 GCTCCTACGAGCT
38545940 GAGTATCAGT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
23 1 0.02
24 29 0.59
25 19 0.39
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
GCTCCTACGAGCTATAAACGGTAA
Found at i:38551812 original size:45 final size:45
Alignment explanation
Indices: 38551756--38551843 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
38551746 ACAGATACTC
* *
38551756 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCA
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCA
*
38551801 GGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
38551844 TTGATTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCA
Found at i:38551917 original size:51 final size:50
Alignment explanation
Indices: 38551854--38552040 Score: 232
Period size: 51 Copynumber: 3.7 Consensus size: 50
38551844 TTGATTCACA
* *
38551854 TAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGGTACACG
* * * * * * * *
38551905 TAGTAGCCTGCACATAGCACTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGGTACACG
* *
38551956 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGGTACACG
38552006 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
38552041 CACTTTCACT
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.37
51 67 0.60
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGGTACACG
Found at i:38552029 original size:101 final size:101
Alignment explanation
Indices: 38551852--38552036 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
38551842 GTTTGATTCA
* *
38551852 CATAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
38551917 CATAGCACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGCACTACACACGTGATCGAAACTATCTGGTACG
* *
38551954 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
* *
38552018 CATAGTACTACACATGTGA
65 CATAGCACTACACACGTGA
38552037 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGCACTACACACGTGATCGAAACTATCTGGTACG
Found at i:38554706 original size:23 final size:23
Alignment explanation
Indices: 38554680--38554725 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
38554670 TTTGTCCAAT
*
38554680 AACCACTCTCACATTTCCCTTAC
1 AACCACCCTCACATTTCCCTTAC
38554703 AACCACCCTCACATTTCCCTTAC
1 AACCACCCTCACATTTCCCTTAC
38554726 TTTACCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.46, G:0.00, T:0.28
Consensus pattern (23 bp):
AACCACCCTCACATTTCCCTTAC
Found at i:38554972 original size:19 final size:20
Alignment explanation
Indices: 38554940--38554977 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
38554930 TAAAATTAAA
38554940 TTTTCAAAAATATT-TTTAT
1 TTTTCAAAAATATTGTTTAT
* *
38554959 TTTTCCAAATTATTGTTTA
1 TTTTCAAAAATATTGTTTA
38554978 ATCAATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTCAAAAATATTGTTTAT
Found at i:38555441 original size:13 final size:13
Alignment explanation
Indices: 38555415--38555472 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
38555405 AATGTATAAA
* *
38555415 ATGAAATAGATAT
1 ATGAAATTGTTAT
*
38555428 AAGAAATTGTTAT
1 ATGAAATTGTTAT
* *
38555441 ATGAAATAGATAT
1 ATGAAATTGTTAT
*
38555454 ACGAAATTGTTAT
1 ATGAAATTGTTAT
38555467 ATGAAA
1 ATGAAA
38555473 ATAGATATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.33
Consensus pattern (13 bp):
ATGAAATTGTTAT
Found at i:38555444 original size:26 final size:26
Alignment explanation
Indices: 38555415--38555486 Score: 117
Period size: 26 Copynumber: 2.7 Consensus size: 26
38555405 AATGTATAAA
38555415 ATGAAATAGATATAAGAAATTGTTAT
1 ATGAAATAGATATAAGAAATTGTTAT
*
38555441 ATGAAATAGATATACGAAATTGTTAT
1 ATGAAATAGATATAAGAAATTGTTAT
38555467 ATGAAAATAGATATACAGAA
1 ATG-AAATAGATATA-AGAA
38555487 TGATTTTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 28 0.67
27 11 0.26
28 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (26 bp):
ATGAAATAGATATAAGAAATTGTTAT
Found at i:38555534 original size:40 final size:41
Alignment explanation
Indices: 38555463--38555540 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38555453 TACGAAATTG
38555463 TTATATGAAAATAGATATACAGAATGATTTTAT-AAATCGA
1 TTATATGAAAATAGATATACAGAATGATTTTATGAAATCGA
* * * *
38555503 TTATATGGAAATAGTTATA-TGAAGTGTTTTTATGAAAT
1 TTATATGAAAATAGATATACAGAA-TGATTTTATGAAAT
38555541 GTTTATTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.09
40 25 0.78
41 4 0.12
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (41 bp):
TTATATGAAAATAGATATACAGAATGATTTTATGAAATCGA
Found at i:38555591 original size:13 final size:13
Alignment explanation
Indices: 38555573--38555608 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
38555563 AAAAAGGGAC
*
38555573 ATTTGAAATGAAT
1 ATTTGAAATGAAG
38555586 ATTTGAAATGAAG
1 ATTTGAAATGAAG
*
38555599 ATGTGAAATG
1 ATTTGAAATG
38555609 TTAAATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (13 bp):
ATTTGAAATGAAG
Found at i:38568621 original size:74 final size:74
Alignment explanation
Indices: 38568543--38568699 Score: 167
Period size: 74 Copynumber: 2.1 Consensus size: 74
38568533 CTGTATAACA
* * * * *
38568543 GGAAGCTCATGCAAGCCAATAACGGGTAGC-TCGGAAGAGCCATTAATCAAGAAGCTC-CAGATA
1 GGAAGCTCAAGCAAG-CAATAACGAGAAGCTTCGG-AGAGCCATTAATCAAGAAGCTCACAAAAA
38568606 GCC-ATATATCG
64 GCCTATA-ATCG
* * * * *
38568617 GGAAGTTCAAGCGAGCTATATCGAGAAGCTTCGGAGAGCCATTAATCAGGAAGCTCACAAAAAGC
1 GGAAGCTCAAGCAAGCAATAACGAGAAGCTTCGGAGAGCCATTAATCAAGAAGCTCACAAAAAGC
*
38568682 CTTTAATCG
66 CTATAATCG
38568691 GGAAGCTCA
1 GGAAGCTCA
38568700 CGAAGATTCA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
73 31 0.46
74 35 0.51
75 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (74 bp):
GGAAGCTCAAGCAAGCAATAACGAGAAGCTTCGGAGAGCCATTAATCAAGAAGCTCACAAAAAGC
CTATAATCG
Found at i:38574319 original size:21 final size:19
Alignment explanation
Indices: 38574282--38574356 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
38574272 AATCATATCT
38574282 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
38574301 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
38574322 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
38574341 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
38574357 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:38577865 original size:30 final size:31
Alignment explanation
Indices: 38577831--38577890 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
38577821 AAACCTTTTA
*
38577831 TTTT-CCCTCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCT-AAAACTTTTACTCCCTTCCCAC
*
38577861 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
38577891 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:38580566 original size:21 final size:21
Alignment explanation
Indices: 38580542--38580584 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38580532 ACTTGGGCGT
38580542 TTATATTTTTATTTTCATTGC
1 TTATATTTTTATTTTCATTGC
38580563 TTATATTTTTATTTTCATTGC
1 TTATATTTTTATTTTCATTGC
38580584 T
1 T
38580585 ATCACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (21 bp):
TTATATTTTTATTTTCATTGC
Found at i:38581960 original size:22 final size:21
Alignment explanation
Indices: 38581931--38582000 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
38581921 AATCACAATC
38581931 ATTTTTAATCAAGGGTTATTT
1 ATTTTTAATCAAGGGTTATTT
* * *
38581952 ATTTATTAAATC---TG-TAATA
1 ATTT-TT-AATCAAGGGTTATTT
38581971 ATTTTTAATCAAGGGTTATTT
1 ATTTTTAATCAAGGGTTATTT
38581992 ATTTATTAA
1 ATTT-TTAA
38582001 ATCTGTACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
17 4 0.11
18 2 0.06
19 7 0.19
20 2 0.06
21 11 0.31
22 6 0.17
23 4 0.11
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.51
Consensus pattern (21 bp):
ATTTTTAATCAAGGGTTATTT
Found at i:38581980 original size:40 final size:40
Alignment explanation
Indices: 38581931--38582007 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
38581921 AATCACAATC
38581931 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTAATA
1 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTAATA
38581971 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTA
1 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTA
38582008 CTAACACGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (40 bp):
ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTAATA
Found at i:38582269 original size:18 final size:18
Alignment explanation
Indices: 38582246--38582281 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38582236 ATAAAAGAGG
38582246 GTATGAAGTAAGTTTCCA
1 GTATGAAGTAAGTTTCCA
38582264 GTATGAAGTAAGTTTCCA
1 GTATGAAGTAAGTTTCCA
38582282 AAACTTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (18 bp):
GTATGAAGTAAGTTTCCA
Found at i:38588393 original size:27 final size:27
Alignment explanation
Indices: 38588362--38588539 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38588352 TAAATTGTAC
38588362 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38588389 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38588415 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38588443 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38588471 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38588498 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38588525 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38588540 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38588476 original size:82 final size:81
Alignment explanation
Indices: 38588363--38588518 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38588353 AAATTGTACA
* *
38588363 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38588427 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38588444 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38588509 TGCGAGTTGA
65 TGCGAATTGA
38588519 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38588530 original size:82 final size:81
Alignment explanation
Indices: 38588359--38588539 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
38588349 GATTAAATTG
* *
38588359 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
38588424 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
38588440 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
38588504 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
38588522 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38588540 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38591978 original size:29 final size:31
Alignment explanation
Indices: 38591923--38591990 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
38591913 CGACCATTAG
** *
38591923 AAAGGGATAGTTTCGGCTGTCAAAAT-ATGA
1 AAAGGGATAGCCTCAGCTGTCAAAATAATGA
38591953 AAAGGGATAGCCTCAGCTGTC-AAATAATGA
1 AAAGGGATAGCCTCAGCTGTCAAAATAATGA
38591983 AAAGGGAT
1 AAAGGGAT
38591991 TGTGACGACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGGATAGCCTCAGCTGTCAAAATAATGA
Found at i:38592018 original size:29 final size:29
Alignment explanation
Indices: 38591978--38592140 Score: 125
Period size: 29 Copynumber: 5.5 Consensus size: 29
38591968 GCTGTCAAAT
*
38591978 AATGAAAAGGGATTGTGACGACCATCAAC
1 AATGAAAAGGGATAGTGACGACCATCAAC
* *
38592007 AATGAAAAGGGATGGTAACGACCATCGAAC
1 AATGAAAAGGGATAGTGACGACCATC-AAC
* * * *
38592037 TATGAAAATGGG-TAGCT-TCGGCTATCAA-
1 AATGAAAA-GGGATAG-TGACGACCATCAAC
* * *
38592065 ATTATGAAAAGGAATGGTGACGACCATTAAC
1 A--ATGAAAAGGGATAGTGACGACCATCAAC
* * * *
38592096 TATGAAAAAGGATAGTGACAACCATCAAA
1 AATGAAAAGGGATAGTGACGACCATCAAC
38592125 ATATGAAAAGGGATAG
1 A-ATGAAAAGGGATAG
38592141 CTTCGGCTAT
Statistics
Matches: 102, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
29 51 0.50
30 47 0.46
31 4 0.04
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (29 bp):
AATGAAAAGGGATAGTGACGACCATCAAC
Found at i:38592044 original size:30 final size:30
Alignment explanation
Indices: 38591979--38592182 Score: 148
Period size: 30 Copynumber: 6.9 Consensus size: 30
38591969 CTGTCAAATA
* *
38591979 ATGAAAAGGGATTGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCGAACT
*
38592008 ATGAAAAGGGATGGTAACGACCATCGAACT
1 ATGAAAAGGGATGGTGACGACCATCGAACT
* * * * * *
38592038 ATGAAAATGGG-TAGCT-TCGGCTATCAAATT
1 ATGAAAA-GGGAT-GGTGACGACCATCGAACT
* *
38592068 ATGAAAAGGAATGGTGACGACCAT-TAACT
1 ATGAAAAGGGATGGTGACGACCATCGAACT
* * * * *
38592097 ATGAAAAAGGATAGTGACAACCATCAAAAT
1 ATGAAAAGGGATGGTGACGACCATCGAACT
* * * * *
38592127 ATGAAAAGGGATAGCT-TCGGCTATCGAATT
1 ATGAAAAGGGAT-GGTGACGACCATCGAACT
*
38592157 ATGAAAAGGGATGGTGACAACCATCG
1 ATGAAAAGGGATGGTGACGACCATCG
38592183 TGATTTTACT
Statistics
Matches: 131, Mismatches: 36, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
29 52 0.40
30 73 0.56
31 6 0.05
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCGAACT
Found at i:38592074 original size:89 final size:89
Alignment explanation
Indices: 38591942--38592181 Score: 320
Period size: 89 Copynumber: 2.7 Consensus size: 89
38591932 GTTTCGGCTG
* * * * *
38591942 TCAAAATATGAAAAGGGATAGCCTCAGCTGTCAAATAATGAAAAGGGATTGTGACGACCATCAAC
1 TCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAC
* * *
38592007 AATGAAAAGGGATGGTAACGACCA
66 AATGAAAAAGGATAGTAACAACCA
* * * *
38592031 TCGAACTATGAAAATGGG-TAGCTTCGGCTATCAAATTATGAAAAGGAATGGTGACGACCATTAA
1 TCAAAATATGAAAA-GGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAA
* *
38592095 CTATGAAAAAGGATAGTGACAACCA
65 CAATGAAAAAGGATAGTAACAACCA
* *
38592120 TCAAAATATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACAACCATC
1 TCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC
38592182 GTGATTTTAC
Statistics
Matches: 129, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
88 3 0.02
89 123 0.95
90 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (89 bp):
TCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAC
AATGAAAAAGGATAGTAACAACCA
Found at i:38597482 original size:40 final size:40
Alignment explanation
Indices: 38597431--38597895 Score: 752
Period size: 40 Copynumber: 11.6 Consensus size: 40
38597421 CATTTGAATG
38597431 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
38597471 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
38597511 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
38597551 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
38597591 ATATCCGGGCTAAGACCTGAAGGAATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
38597631 ATATCCGGGCTAAGACCCGAAGGTATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
38597671 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
38597711 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
38597751 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
38597791 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
38597831 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
38597871 ATACCCGGGTTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
38597896 ATTGAGCTTG
Statistics
Matches: 396, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 393 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:38600438 original size:29 final size:30
Alignment explanation
Indices: 38600403--38600600 Score: 140
Period size: 30 Copynumber: 6.6 Consensus size: 30
38600393 GCTTTAGCTG
* *
38600403 TCAAAATATGAAAAGAGATAGCTTCGACTC
1 TCAAATTATGAAAAGGGATAGCTTCGACTC
* *
38600433 TCAAATTATGAAAAGGGATAGCTTCGGCTG
1 TCAAATTATGAAAAGGGATAGCTTCGACTC
* *
38600463 TCAAATTATGAAATGGGATAGCTTC-AGCTA
1 TCAAATTATGAAAAGGGATAGCTTCGA-CTC
* * **
38600493 TCAAATTATGGAAAGGGAT-GGTGAAGAC-C
1 TCAAATTATGAAAAGGGATAGCT-TCGACTC
* *
38600522 ATCAACA--ATGAAAAGGGAT-GGTGACGAC-C
1 -TCAA-ATTATGAAAAGGGATAGCT-TCGACTC
* * * * *
38600551 ATCGAACTATGAAAAGAGATAGCTTCGGCTA
1 -TCAAATTATGAAAAGGGATAGCTTCGACTC
38600582 TCAAATTATGAAAAGGGAT
1 TCAAATTATGAAAAGGGAT
38600601 GGTGACGACC
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.01
29 26 0.19
30 104 0.77
31 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
TCAAATTATGAAAAGGGATAGCTTCGACTC
Found at i:38600475 original size:60 final size:60
Alignment explanation
Indices: 38600399--38600511 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
38600389 GATTGCTTTA
*
38600399 GCTGTCAAAATATGAAAAGAGATAGCTTC-GACTCTCAAATTATGAAAAGGGATAGCTTCG
1 GCTGTCAAAATATGAAAAGAGATAGCTTCAG-CTATCAAATTATGAAAAGGGATAGCTTCG
* * * *
38600459 GCTGTCAAATTATGAAATGGGATAGCTTCAGCTATCAAATTATGGAAAGGGAT
1 GCTGTCAAAATATGAAAAGAGATAGCTTCAGCTATCAAATTATGAAAAGGGAT
38600512 GGTGAAGACC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 46 0.98
61 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (60 bp):
GCTGTCAAAATATGAAAAGAGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCTTCG
Found at i:38600615 original size:30 final size:30
Alignment explanation
Indices: 38600492--38600624 Score: 137
Period size: 30 Copynumber: 4.5 Consensus size: 30
38600482 AGCTTCAGCT
* * *
38600492 ATCAAATTATGGAAAGGGATGGTGAAGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
*
38600522 ATC-AACAATGAAAAGGGATGGTGACGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
* * * * * *
38600551 ATCGAACTATGAAAAGAGATAGCT-TCGGCT
1 ATCAAACTATGAAAAGGGAT-GGTGACGACC
*
38600581 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
38600611 ATC-AACTATGAAAA
1 ATCAAACTATGAAAA
38600625 TATGAAAAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
29 37 0.45
30 43 0.52
31 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (30 bp):
ATCAAACTATGAAAAGGGATGGTGACGACC
Found at i:38604832 original size:51 final size:52
Alignment explanation
Indices: 38604756--38604895 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 52
38604746 ATGTTCGGTT
38604756 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATA
* ** * *
38604807 CACATAGTAGCCTGTACATAGTACTACACATGCAACC--TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATA
* *
38604857 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
38604896 CACTTTCACT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 4 0.05
50 38 0.50
51 34 0.45
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (52 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATA
Found at i:38604876 original size:50 final size:50
Alignment explanation
Indices: 38604751--38604886 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 50
38604741 CAATGATGTT
* **
38604751 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCAACCA-TACCATC
* * *
38604802 CGATACACATAGTAGCCTGTACATAGTACTACACATGCAACC-TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCAACCATACCA-TC
*
38604852 CGGTACACGTAGTAGCCTGCACATAGTACTACACA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACA
38604887 CGTGACCATC
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 4 0.05
50 34 0.45
51 37 0.49
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGCAACCATACCATC
Found at i:38605029 original size:15 final size:16
Alignment explanation
Indices: 38605003--38605032 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38604993 TTCGGGAATT
38605003 TTTTACTTTTTATCAC
1 TTTTACTTTTTATCAC
38605019 TTTTA-TTTTTATCA
1 TTTTACTTTTTATCA
38605033 ATCAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTACTTTTTATCAC
Found at i:38610472 original size:42 final size:42
Alignment explanation
Indices: 38610413--38610494 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
38610403 ATACGGCCTA
* *
38610413 GCACATGGGCGTGTGAGGCCATTTCGAAGGGTACACGGGCTG
1 GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGCTG
38610455 GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGC
1 GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGC
38610495 ATGTGGCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.21, G:0.39, T:0.18
Consensus pattern (42 bp):
GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGCTG
Found at i:38616183 original size:44 final size:44
Alignment explanation
Indices: 38616135--38616248 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
38616125 TCAATCTACT
* * *
38616135 CCACTGCAACCTCAGGGAGTTAAGATTTGCTTCTTCAGTCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCC
** * * * *
38616179 CCACTGTGACTTCAGGGGGATAAGACTTGTTTTTTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCC
*
38616223 CCGCTGCAACTTCAGGGAGATAAGAC
1 CCACTGCAACTTCAGGGAGATAAGAC
38616249 CCGATGCGAT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCC
Found at i:38616311 original size:43 final size:43
Alignment explanation
Indices: 38616257--38616374 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 43
38616247 ACCCGATGCG
*
38616257 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATTGT-TT-T
1 ATCTGCTCCACTACTACTTAGGGAGATAAGAT-TGATT-TCTTCT
* * * *
38616299 AATCTGCTCCACTGCAACTTGAGAGAGATAGGATTGATTTCTTCT
1 -ATCTGCTCCACTACTACTT-AGGGAGATAAGATTGATTTCTTCT
*
38616344 GTCTGCTCCACTACTACTTAGGGAGATAAGA
1 ATCTGCTCCACTACTACTTAGGGAGATAAGA
38616375 CTTGTAATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
43 28 0.46
44 32 0.52
45 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCACTACTACTTAGGGAGATAAGATTGATTTCTTCT
Found at i:38616585 original size:87 final size:87
Alignment explanation
Indices: 38616428--38616864 Score: 694
Period size: 87 Copynumber: 5.0 Consensus size: 87
38616418 ACTTGTAATA
* ** * *
38616428 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* *
38616493 ACGATGGAGGCAAGGCTTCGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
38616515 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
38616580 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
38616602 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
38616667 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
** * * *
38616689 TTCGATCTGCTTCATTGTTAACGTAGGAAGGCAAGATCTGCTATCTTTAATCAGCTCTACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
38616754 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
38616776 TTCGATTTGCTTCGCTGTTAACGCATGAAGGCGAGATCTGCTATCTTCAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
38616841 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
38616863 TT
1 TT
38616865 TTATCTTCAC
Statistics
Matches: 321, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 321 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:38618096 original size:7 final size:7
Alignment explanation
Indices: 38618080--38618117 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
38618070 ATTTTTACTC
38618080 TTTCATT
1 TTTCATT
*
38618087 TTTTATT
1 TTTCATT
38618094 TTTCA-T
1 TTTCATT
38618100 TTTCATT
1 TTTCATT
*
38618107 TTTCATC
1 TTTCATT
38618114 TTTC
1 TTTC
38618118 TTCTCTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTCATT
Found at i:38618102 original size:13 final size:13
Alignment explanation
Indices: 38618070--38618112 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
38618060 TAGCCTATCT
*
38618070 ATTTTTACTCTTTC
1 ATTTTTA-TTTTTC
38618084 ATTTTTTATTTTTC
1 A-TTTTTATTTTTC
*
38618098 ATTTTCATTTTTC
1 ATTTTTATTTTTC
38618111 AT
1 AT
38618113 CTTTCTTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 13 0.50
14 7 0.27
15 6 0.23
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTTTC
Found at i:38618117 original size:20 final size:20
Alignment explanation
Indices: 38618080--38618117 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38618070 ATTTTTACTC
* *
38618080 TTTCATTTTTTATTTTTCAT
1 TTTCATTTTTCATCTTTCAT
38618100 TTTCATTTTTCATCTTTC
1 TTTCATTTTTCATCTTTC
38618118 TTCTCTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTCATTTTTCATCTTTCAT
Found at i:38618597 original size:43 final size:42
Alignment explanation
Indices: 38618542--38618624 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
38618532 CTCATTTTCA
38618542 TTTTGATCTTGA-TCTTGATTTTTTTCTTTTTTCTT-CTTTTTGT
1 TTTTGATCTTGATTCTTGA--TTTTTC-TTTTTCTTCCTTTTTGT
* *
38618585 TTTTGATTTTGATTTTTGATTTTTCTTTTTCTTCCTTTTT
1 TTTTGATCTTGATTCTTGATTTTTCTTTTTCTTCCTTTTT
38618625 TTGATCTGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
41 8 0.22
42 12 0.33
43 11 0.31
44 5 0.14
ACGTcount: A:0.07, C:0.11, G:0.08, T:0.73
Consensus pattern (42 bp):
TTTTGATCTTGATTCTTGATTTTTCTTTTTCTTCCTTTTTGT
Found at i:38626201 original size:54 final size:54
Alignment explanation
Indices: 38626103--38626301 Score: 292
Period size: 54 Copynumber: 3.7 Consensus size: 54
38626093 ACATGGTAAG
* *
38626103 TGAAGACTATATAGTGTAAGACCTAGTCTGGGATTATAGA-ATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTAT-GACATCATATGGGGAAA
* *
38626157 TGAATACCATATAGTGTAAGACCTAGTCTAGGACTATGACATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACATCATATGGGGAAA
* * * * *
38626211 TGAAGACTATATACTATAAGACCTAGCCTGAGACTATGACATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACATCATATGGGGAAA
*
38626265 TGAAGACCATATAGTGTAAGACCTAGTTTGGGACTAT
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTAT
38626302 TGCGTCATGT
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.02
54 125 0.98
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (54 bp):
TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACATCATATGGGGAAA
Found at i:38626474 original size:29 final size:29
Alignment explanation
Indices: 38626428--38626523 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
38626418 AAGTGATGTA
*
38626428 TTTGTGGCTGAATTTGTTTTATGTAAGCC
1 TTTGTGGCTGAATCTGTTTTATGTAAGCC
* ** *
38626457 TTTGTGGTTGAATCTGTTACATGTGAGCC
1 TTTGTGGCTGAATCTGTTTTATGTAAGCC
* * *
38626486 CTAGTGGCTGAA-CTTTTTATATGTGGAAGCC
1 TTTGTGGCTGAATCTGTTT-TATGT--AAGCC
38626517 TTTGTGG
1 TTTGTGG
38626524 TTGCTCTAGG
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
28 4 0.08
29 37 0.74
31 9 0.18
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.43
Consensus pattern (29 bp):
TTTGTGGCTGAATCTGTTTTATGTAAGCC
Found at i:38626525 original size:60 final size:58
Alignment explanation
Indices: 38626431--38626543 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 58
38626421 TGATGTATTT
*
38626431 GTGGCTGAATTTGTTTTATGTAAGCCTTTGTGGTTGAATCT-GTTACATGTGAGCCCTA
1 GTGGCTGAATTTGTTATATGTAAGCCTTTGTGGTTG-ATCTAGTTACATGTGAGCCCTA
*
38626489 GTGGCTGAACTTT-TTATATGTGGAAGCCTTTGTGGTTGCTCTAGGTTACATGTGA
1 GTGGCTGAA-TTTGTTATATGT--AAGCCTTTGTGGTTGATCTA-GTTACATGTGA
38626544 ATCTTCGTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
58 16 0.33
59 6 0.12
60 15 0.31
61 11 0.23
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (58 bp):
GTGGCTGAATTTGTTATATGTAAGCCTTTGTGGTTGATCTAGTTACATGTGAGCCCTA
Found at i:38630211 original size:16 final size:16
Alignment explanation
Indices: 38630174--38630215 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38630164 TTAATCATAT
*
38630174 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38630190 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38630205 TTAAAATATAT
1 TTAAAATATAT
38630216 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38630222 original size:14 final size:15
Alignment explanation
Indices: 38630183--38630224 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38630173 TTTAAACATA
*
38630183 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38630198 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38630212 A-TATAATTTAATA
1 ATTATAATTAAATA
38630225 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38630316 original size:120 final size:120
Alignment explanation
Indices: 38630177--38630948 Score: 1422
Period size: 120 Copynumber: 6.4 Consensus size: 120
38630167 ATCATATTTA
38630177 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
38630242 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATATATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
38630297 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
38630362 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
38630417 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
38630482 TATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAAGATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
38630537 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
38630602 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAGGATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
38630657 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
38630722 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAACGACACATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
38630777 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
38630842 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
* * *
38630897 GAA-A-AATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
38630949 TAAAATAATT
Statistics
Matches: 636, Mismatches: 15, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
119 45 0.07
120 589 0.93
121 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
Found at i:38630342 original size:14 final size:15
Alignment explanation
Indices: 38630289--38630344 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
38630279 TACTATAAAA
38630289 TATATATTAACATA-AT
1 TATA-ATTAA-ATATAT
*
38630305 TATTATTAAATATAT
1 TATAATTAAATATAT
38630320 TATAATTAAA-ATA-
1 TATAATTAAATATAT
*
38630333 TATAATTTAATA
1 TATAATTAAATA
38630345 AAATTCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.20
15 16 0.46
16 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATTAAATATAT
Found at i:38630462 original size:14 final size:15
Alignment explanation
Indices: 38630413--38630464 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38630403 ATAAAAGATA
38630413 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
38630428 TATTAAATATATTAT
1 AATTAAATATATTAT
38630443 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
38630456 AATTTAATA
1 AATTAAATA
38630465 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:38630582 original size:14 final size:15
Alignment explanation
Indices: 38630533--38630584 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38630523 ATAAAAGATA
38630533 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
38630548 TATTAAATATATTAT
1 AATTAAATATATTAT
38630563 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
38630576 AATTTAATA
1 AATTAAATA
38630585 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:38630702 original size:14 final size:15
Alignment explanation
Indices: 38630653--38630704 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38630643 ATAAAGGATA
38630653 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
38630668 TATTAAATATATTAT
1 AATTAAATATATTAT
38630683 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
38630696 AATTTAATA
1 AATTAAATA
38630705 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:38630822 original size:14 final size:15
Alignment explanation
Indices: 38630774--38630824 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
38630764 TAAACGACAC
*
38630774 ATTAACATA-ATTATT
1 ATTAA-ATATATTATA
38630789 ATTAAATATATTATA
1 ATTAAATATATTATA
38630804 ATTAAA-ATA-TATA
1 ATTAAATATATTATA
*
38630817 ATTTAATA
1 ATTAAATA
38630825 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATATATTATA
Found at i:38631019 original size:26 final size:28
Alignment explanation
Indices: 38630989--38631049 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
38630979 TATGAACTTG
*
38630989 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
38631015 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
38631043 TAAAATT
1 TATAATT
38631050 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:38631040 original size:91 final size:91
Alignment explanation
Indices: 38630945--38631152 Score: 276
Period size: 91 Copynumber: 2.3 Consensus size: 91
38630935 GATTTAATAA
* * *
38630945 AATTT-AAAATAATT-ATAACTAATAAATTATATTATATGAACTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAACTTATACAATTTAAAATAATTAA
*
38631008 TATTACATATAATTTAATAATAATATAT
64 TATTAAATATAATTTAATAATAATATAT
* * * * *
38631036 AATTTCATAAAATTCTTGATAATAAATTTTATTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTATATTATATGAACTTATACAATTTAAAATAATTAATA
*
38631101 TTAAATATAATTTAATAATGATATAT
66 TTAAATATAATTTAATAATAATATAT
* *
38631127 AATTTCATAAAATTCTTAATAATAAA
1 AATTTCAAAAAATTCATAATAATAAA
38631153 ATGTTCTTAT
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
91 99 0.95
92 5 0.05
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (91 bp):
AATTTCAAAAAATTCATAATAATAAATTATATTATATGAACTTATACAATTTAAAATAATTAATA
TTAAATATAATTTAATAATAATATAT
Found at i:38631047 original size:47 final size:46
Alignment explanation
Indices: 38630996--38631139 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 46
38630986 TTGTATAATT
38630996 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* * * *
38631043 TAAAAT--TCT-TGA-TAATA-AATTTTATTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
38631087 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
38631134 TAAAAT
1 TAAAAT
38631140 TCTTAATAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
42 2 0.03
43 9 0.12
44 10 0.14
45 14 0.19
46 12 0.16
47 15 0.20
48 10 0.14
49 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:38631131 original size:44 final size:43
Alignment explanation
Indices: 38630989--38631131 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 43
38630979 TATGAACTTG
* *
38630989 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * * *
38631033 TATAATTTCATAAAATTCTTGATAATAAATTTTA-TTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAATTTA-AT-AATATA
*
38631080 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
38631124 TATAATTT
1 TATAATTT
38631132 CATAAAATTC
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
43 3 0.04
44 34 0.46
45 5 0.07
46 5 0.07
47 24 0.32
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:38631146 original size:47 final size:47
Alignment explanation
Indices: 38631014--38631152 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 47
38631004 TTATTATTAC
* *
38631014 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * * ** *
38631061 ATTTTA-TT-AT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATTTAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
38631105 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
38631152 A
1 A
38631153 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:38632592 original size:11 final size:11
Alignment explanation
Indices: 38632578--38632604 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38632568 AAAAATAAAT
38632578 ACAAAAGTTTC
1 ACAAAAGTTTC
38632589 ACAAAAGTTTC
1 ACAAAAGTTTC
38632600 ACAAA
1 ACAAA
38632605 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:38634201 original size:15 final size:15
Alignment explanation
Indices: 38634181--38634216 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
38634171 ATAATATGTA
38634181 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
38634196 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
38634211 TAATTG
1 TAATTG
38634217 TTGGAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:38641179 original size:18 final size:18
Alignment explanation
Indices: 38641152--38641197 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
38641142 ATGTTTAGTT
38641152 ATTT-ATTTTTTAATTTA
1 ATTTAATTTTTTAATTTA
** *
38641169 ATTTAATTTTTTTGTTTT
1 ATTTAATTTTTTAATTTA
38641187 ATTTAATTTTT
1 ATTTAATTTTT
38641198 CAGGTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTAATTTTTTAATTTA
Found at i:38647812 original size:18 final size:17
Alignment explanation
Indices: 38647765--38647816 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
38647755 AAATTTTAAT
*
38647765 AAAAAATAAAAAATAGA
1 AAAAAATATAAAATAGA
*
38647782 AAAAAATTAATAAAATCGTA
1 AAAAAA-T-ATAAAATAG-A
38647802 AAAAAATATAAAATA
1 AAAAAATATAAAATA
38647817 TTGTAACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
19 8 0.28
20 7 0.24
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAAAATATAAAATAGA
Found at i:38648175 original size:20 final size:21
Alignment explanation
Indices: 38648094--38648180 Score: 83
Period size: 20 Copynumber: 4.3 Consensus size: 21
38648084 TCCTTACGAC
*
38648094 TTTATAAAATTTTATA-ATTT
1 TTTATAAAATTTTACATATTT
* * *
38648114 TTTCT-ATATTTCTATATATTT
1 TTTATAAAATTT-TACATATTT
* *
38648135 TATAAAAAATTTTAC-TATTT
1 TTTATAAAATTTTACATATTT
38648155 TTTATAAAATTTTACAT-TTT
1 TTTATAAAATTTTACATATTT
38648175 TTTATA
1 TTTATA
38648181 TGTTTTTAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
19 5 0.09
20 35 0.65
21 9 0.17
22 5 0.09
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATAAAATTTTACATATTT
Found at i:38653270 original size:522 final size:522
Alignment explanation
Indices: 38652286--38653334 Score: 1983
Period size: 522 Copynumber: 2.0 Consensus size: 522
38652276 GAGGAAAAAG
*
38652286 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTTTGT
1 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTCTGT
38652351 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
66 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
38652416 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGATAATCTTGCATGTGTGGCTTG
131 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGATAATCTTGCATGTGTGGCTTG
*
38652481 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAGTATGAAAAAGATGAATATGCAATAAA
196 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAGTATGAAAAAGAAGAATATGCAATAAA
*
38652546 GCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCGCATGCATGAGTGTGCTTAAAG
261 GCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAAG
*
38652611 TACGATTGTTTTTGCACGATGAGTTTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTTG
326 TACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTTG
*
38652676 AAGTCTATTGCAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGTC
391 AAGTCTATTACAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGTC
*
38652741 TGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAATA
456 CGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAATA
38652806 GT
521 GT
*
38652808 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTGTGAGTACCTTATGAACTTTTTTTTT-TCTGT
1 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTCTGT
*
38652872 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTGATTTGTGAAACAAAACGAAAG
66 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
38652937 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGATAATCTTGCATGTGTGGCTTG
131 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGATAATCTTGCATGTGTGGCTTG
*
38653002 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAAGTATGAAAACGAAGAATATGCAATAA
196 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAG-AAAGTATGAAAAAGAAGAATATGCAATAA
38653067 AGCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAA
260 AGCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAA
38653132 GTACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTT
325 GTACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTT
*
38653197 GAAGTCTATTACAATGAGTCAGTTAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGT
390 GAAGTCTATTACAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGT
38653262 CCGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAAT
455 CCGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAAT
38653327 AGT
520 AGT
*
38653330 ATAAG
1 GTAAG
38653335 ACCTAGTCAT
Statistics
Matches: 515, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
521 168 0.33
522 347 0.67
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (522 bp):
GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTCTGT
TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGATAATCTTGCATGTGTGGCTTG
ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAGTATGAAAAAGAAGAATATGCAATAAA
GCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAAG
TACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTTG
AAGTCTATTACAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGTC
CGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAATA
GT
Found at i:38655112 original size:39 final size:39
Alignment explanation
Indices: 38655058--38655276 Score: 296
Period size: 39 Copynumber: 5.6 Consensus size: 39
38655048 AACATGTTTT
* *
38655058 TGAGTATTGCGATATATGTTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
38655097 TGAGTATTGTGATATATGTTTGAATGTTATGTTATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
38655136 TAAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
38655175 TGA-TAATTATGATATATGCTTAAATTTTATGTGATTATA
1 TGAGT-ATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
38655214 TGAGTATTATGGTATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
38655253 TGTGTAATGTGATATATACTTAAA
1 TGAGTATTGTGATATATGCTTAAA
38655277 AGTGAAAATG
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 159 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:38662715 original size:36 final size:36
Alignment explanation
Indices: 38662662--38662733 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
38662652 GCTCTAGGTT
* **
38662662 AGTTTAAGCTATTGTTGCTATAATTGTCTGCAAAGG
1 AGTTTAAGCTATCGTTGCTATAATCATCTGCAAAGG
*
38662698 AGTTTAAGCTCTCGTTGCTATAATCATCTGCAAAGG
1 AGTTTAAGCTATCGTTGCTATAATCATCTGCAAAGG
38662734 GGAACTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (36 bp):
AGTTTAAGCTATCGTTGCTATAATCATCTGCAAAGG
Found at i:38667462 original size:30 final size:29
Alignment explanation
Indices: 38667426--38667493 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
38667416 CCCTGTTAAG
*
38667426 AAACATTTAGACCCCAAAATTAAAAAATAA
1 AAACATTTAGACCCCAAAACTAAAAAAT-A
*
38667456 AAACATTTAGACCCCAAAACTAAATAATA
1 AAACATTTAGACCCCAAAACTAAAAAATA
38667485 AAACATTTA
1 AAACATTTA
38667494 ACCAAGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.57, C:0.18, G:0.03, T:0.22
Consensus pattern (29 bp):
AAACATTTAGACCCCAAAACTAAAAAATA
Found at i:38672978 original size:50 final size:49
Alignment explanation
Indices: 38672902--38673142 Score: 212
Period size: 50 Copynumber: 4.7 Consensus size: 49
38672892 TTCTGTACTG
* * * * **
38672902 CCAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGCA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG-A
* ** * *
38672952 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG-A
* * * * *
38673002 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGGTT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG-A
** * *
38673052 CCAACACCATGTCCCGGACATGGTCTTACATAGGACCTCTCATAATCTCAGTGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-G-GA
38673106 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 --CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
38673143 TCTCATTCCC
Statistics
Matches: 154, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
50 120 0.78
53 1 0.01
54 1 0.01
55 1 0.01
56 31 0.20
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGA
Found at i:38673027 original size:100 final size:104
Alignment explanation
Indices: 38672913--38673142 Score: 270
Period size: 100 Copynumber: 2.2 Consensus size: 104
38672903 CAATGTCATA
* ** * **
38672913 TCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGCACCCATGCCATGTCCCAGACATGGTCT
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGCACCAACACCATGTCCCAGACATGGTCT
* *
38672978 TACGGGGGACCTCTC-ATCTC-G-G-TGCCAACGCCATG
66 TACAGAGGACCTCTCAATCTCAGTGATGCCAACGCCATG
* * ** *
38673013 TCCCAAACATGGTCTTACATGGGACCTCTCATCTTGGTTCCAACACCATGTCCCGGACATGGTCT
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGCACCAACACCATGTCCCAGACATGGTCT
* *
38673078 TACATAGGACCTCTCATAATCTCAGTGATGCCAATGCCATG
66 TACAGAGGACCTCTC--AATCTCAGTGATGCCAACGCCATG
*
38673119 TCCCAGACATGGTCTTACATGGGA
1 TCCCAAACATGGTCTTACATGGGA
38673143 TCTCATTCCC
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
100 66 0.61
103 5 0.05
104 1 0.01
105 1 0.01
106 35 0.32
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (104 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGCACCAACACCATGTCCCAGACATGGTCT
TACAGAGGACCTCTCAATCTCAGTGATGCCAACGCCATG
Found at i:38674858 original size:33 final size:33
Alignment explanation
Indices: 38674821--38674884 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
38674811 GACATTAGTT
38674821 ATGGAATTTCAAAGGTTAATAGTAAGGTTAAAC
1 ATGGAATTTCAAAGGTTAATAGTAAGGTTAAAC
38674854 ATGGAATTTCAAAGGTTAATAGTAAGGTTAA
1 ATGGAATTTCAAAGGTTAATAGTAAGGTTAA
38674885 TAGTAAGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (33 bp):
ATGGAATTTCAAAGGTTAATAGTAAGGTTAAAC
Found at i:38674882 original size:12 final size:12
Alignment explanation
Indices: 38674865--38674895 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38674855 TGGAATTTCA
38674865 AAGGTTAATAGT
1 AAGGTTAATAGT
38674877 AAGGTTAATAGT
1 AAGGTTAATAGT
38674889 AAGGTTA
1 AAGGTTA
38674896 GTAAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (12 bp):
AAGGTTAATAGT
Found at i:38675953 original size:17 final size:17
Alignment explanation
Indices: 38675931--38675973 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
38675921 ACTGCAAGGG
38675931 TCACACGGCTATGTGAC
1 TCACACGGCTATGTGAC
*
38675948 TCACACGGCTGTGTGAC
1 TCACACGGCTATGTGAC
38675965 TCACACGGC
1 TCACACGGC
38675974 CAAGAGACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.21
Consensus pattern (17 bp):
TCACACGGCTATGTGAC
Found at i:38677434 original size:25 final size:25
Alignment explanation
Indices: 38677385--38677524 Score: 131
Period size: 25 Copynumber: 5.6 Consensus size: 25
38677375 GTACATGTAT
* *
38677385 GCTCATACAAGCTGTA-AACGATAA
1 GCTCATACGAGCTGAATAACGATAA
* *
38677409 GCTCCTTCGAGCTGAATAACGATAA
1 GCTCATACGAGCTGAATAACGATAA
* *
38677434 GCTCCT-CTGAGCTGAATAACGGTAA
1 GCTCATAC-GAGCTGAATAACGATAA
* * *
38677459 GCTTATACGAGCTGAGTATCGATAA
1 GCTCATACGAGCTGAATAACGATAA
* * *
38677484 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGATAA
* *
38677509 GCTCATAAGACCTGAA
1 GCTCATACGAGCTGAA
38677525 ATCTGTAACC
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.13
25 84 0.86
26 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGATAA
Found at i:38678823 original size:59 final size:57
Alignment explanation
Indices: 38678754--38678942 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
38678744 CTATCAAAAT
38678754 ATGAAAAGGGATAGATTCGACTATCTATTCATGAAAAGGGATGGTGACAACCGTCAATA
1 ATGAAAAGGGATAGATTCGACTATCTATT-ATGAAAAGGGATGGTGA-AACCGTCAATA
* * * * * *
38678813 ATGAAAAGGGAT-GGTGACGACAATCTAAATATGAAAAGGGATAGCTTCGAATATCG--AAT-
1 ATGAAAAGGGATAGAT-TCGACTATCT-ATTATGAAAAGGGAT-G-GT-GAA-ACCGTCAATA
* * * * * *
38678872 ATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGATGACCATCAACA
1 ATGAAAAGGGATAGATTCGACTATC-TATTATGAAAAGGGATGGTGA-AACCGTCAATA
38678931 ATGAAAAGGGAT
1 ATGAAAAGGGAT
38678943 GGTGACGACC
Statistics
Matches: 101, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
56 4 0.04
57 1 0.01
58 5 0.05
59 76 0.75
60 8 0.08
61 2 0.02
62 5 0.05
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (57 bp):
ATGAAAAGGGATAGATTCGACTATCTATTATGAAAAGGGATGGTGAAACCGTCAATA
Found at i:38678882 original size:29 final size:29
Alignment explanation
Indices: 38678840--38678913 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 29
38678830 CGACAATCTA
38678840 AATATGAAAAGGGATAGCTTCGAATATCG
1 AATATGAAAAGGGATAGCTTCGAATATCG
**
38678869 AATATGAAAAGGGATAGCTTCGGCTATCG
1 AATATGAAAAGGGATAGCTTCGAATATCG
38678898 AATTATGAAAAGGGAT
1 AA-TATGAAAAGGGAT
38678914 GGTGATGACC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 29 0.69
30 13 0.31
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (29 bp):
AATATGAAAAGGGATAGCTTCGAATATCG
Found at i:38678944 original size:29 final size:30
Alignment explanation
Indices: 38678901--38679007 Score: 137
Period size: 30 Copynumber: 3.6 Consensus size: 30
38678891 GCTATCGAAT
38678901 TATGAAAAGGGATGGTGATGACCATC-AAC
1 TATGAAAAGGGATGGTGATGACCATCAAAC
* * *
38678930 AATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGATGACCATCAAAC
* * *
38678960 TATGAAAAGGGATAGGT-TTGGCTATCAAAC
1 TATGAAAAGGGAT-GGTGATGACCATCAAAC
38678990 TATGAAAAGGGATGGTGA
1 TATGAAAAGGGATGGTGA
38679008 CAACCATCGT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
29 27 0.41
30 36 0.55
31 3 0.05
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGATGACCATCAAAC
Found at i:38678957 original size:59 final size:60
Alignment explanation
Indices: 38678812--38679016 Score: 186
Period size: 59 Copynumber: 3.5 Consensus size: 60
38678802 AACCGTCAAT
* * * ** *
38678812 AATGAAAAGGGATGGTGACGACAATCTAAATATGAAAAGGGATAGCT-TCGAATATCGAA-
1 AATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGGTAT-GACCATCAAAC
* * * * * *
38678871 TATGAAAAGGGATAGCT-TCGGCTATCGAATTATGAAAAGGGAT-GGTGATGACCATC-AAC
1 AATGAAAAGGGAT-GGTGACGACCATCGAAATATGAAAAGGGATAGGT-ATGACCATCAAAC
* * * *
38678930 AATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAGGTTTGGCTATCAAAC
1 AATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGGTATGACCATCAAAC
* *
38678990 TATGAAAAGGGATGGTGACAACCATCG
1 AATGAAAAGGGATGGTGACGACCATCG
38679017 TGATTTTACT
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
58 6 0.05
59 78 0.66
60 34 0.29
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (60 bp):
AATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGGTATGACCATCAAAC
Found at i:38678964 original size:118 final size:118
Alignment explanation
Indices: 38678745--38679002 Score: 347
Period size: 118 Copynumber: 2.2 Consensus size: 118
38678735 TAACTTTAGC
* *
38678745 TATCAAAATATGAAAAGGGATAGATTCGACTATCTATTCATGAAAAGGGATGGTGACAACCGTCA
1 TATC-AAATATGAAAAGGGATAGATTCGACTATCAATTCATGAAAAGGGATGGTGACAACCATCA
* *
38678810 ATAATGAAAAGGGATGGTGACGACAATCTAAATATGAAAAGGGATAGCTTCGAA
65 ACAATGAAAAGGGATGGTGACGACAATCGAAATATGAAAAGGGATAGCTTCGAA
* * * **
38678864 TATCGAATATGAAAAGGGATAGCTTCGGCTATCGAATT-ATGAAAAGGGATGGTGATGACCATCA
1 TATCAAATATGAAAAGGGATAGATTCGACTATC-AATTCATGAAAAGGGATGGTGACAACCATCA
* * * * **
38678928 ACAATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAGGTTTGGC
65 ACAATGAAAAGGGATGGTGACGACAATCGAAATATGAAAAGGGATAGCTTCGAA
38678982 TATCAAACTATGAAAAGGGAT
1 TATCAAA-TATGAAAAGGGAT
38679003 GGTGACAACC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
118 101 0.83
119 20 0.17
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (118 bp):
TATCAAATATGAAAAGGGATAGATTCGACTATCAATTCATGAAAAGGGATGGTGACAACCATCAA
CAATGAAAAGGGATGGTGACGACAATCGAAATATGAAAAGGGATAGCTTCGAA
Found at i:38679014 original size:89 final size:89
Alignment explanation
Indices: 38678813--38679015 Score: 259
Period size: 89 Copynumber: 2.3 Consensus size: 89
38678803 ACCGTCAATA
* * *
38678813 ATGAAAAGGGATGGTGACGACAATCTAAATATGAAAAGGGATAGCTTCGAATATCGAATATGAAA
1 ATGAAAAGGGATGGTGACGACCATCTAAATATGAAAAGGGATAGCTACGAACATCGAATATGAAA
* *
38678878 AGGGATAGCTTCGGCTATCGAATT
66 AGGGATAGCTTCGGCTATCAAACT
* * *
38678902 ATGAAAAGGGATGGTGATGACCATC-AACA-ATGAAAAGGGAT-GGTGACGACCATCGAACTATG
1 ATGAAAAGGGATGGTGACGACCATCTAA-ATATGAAAAGGGATAGCT-ACGAACATCGAA-TATG
* *
38678964 AAAAGGGATAGGTTTGGCTATCAAACT
63 AAAAGGGATAGCTTCGGCTATCAAACT
*
38678991 ATGAAAAGGGATGGTGACAACCATC
1 ATGAAAAGGGATGGTGACGACCATC
38679016 GTGATTTTAC
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 2 0.02
88 23 0.23
89 74 0.75
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (89 bp):
ATGAAAAGGGATGGTGACGACCATCTAAATATGAAAAGGGATAGCTACGAACATCGAATATGAAA
AGGGATAGCTTCGGCTATCAAACT
Found at i:38681450 original size:8 final size:8
Alignment explanation
Indices: 38681437--38681464 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
38681427 ATAATAAATA
38681437 TTTTTTAT
1 TTTTTTAT
38681445 TTTTTTAT
1 TTTTTTAT
38681453 TTTTTTAT
1 TTTTTTAT
38681461 TTTT
1 TTTT
38681465 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:38681486 original size:12 final size:11
Alignment explanation
Indices: 38681458--38681487 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
38681448 TTTATTTTTT
38681458 TATTTTTAAAA
1 TATTTTTAAAA
38681469 TATTTTTAAAA
1 TATTTTTAAAA
38681480 TACTTTTT
1 TA-TTTTT
38681488 TAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:38681497 original size:9 final size:9
Alignment explanation
Indices: 38681437--38681503 Score: 50
Period size: 8 Copynumber: 7.3 Consensus size: 9
38681427 ATAATAAATA
38681437 TTTTTT-AT
1 TTTTTTAAT
38681445 TTTTTT-AT
1 TTTTTTAAT
38681453 TTTTTT-AT
1 TTTTTTAAT
**
38681461 TTTTAAAAT
1 TTTTTTAAT
*
38681470 ATTTTTAAAAT
1 -TTTTT-TAAT
38681481 ACTTTTTTAAT
1 --TTTTTTAAT
38681492 TTTTTTAAT
1 TTTTTTAAT
38681501 TTT
1 TTT
38681504 AAAATACTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
8 20 0.40
9 14 0.28
10 4 0.08
11 7 0.14
12 5 0.10
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:38681504 original size:28 final size:32
Alignment explanation
Indices: 38681470--38681541 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 32
38681460 TTTTTAAAAT
38681470 ATTTTTAAAATAC-TTTTTTA-ATTT-TTTTA
1 ATTTTTAAAATACTTTTTTTATATTTGTTTTA
*
38681499 A-TTTTAAAATACTTTTTTTATTTTTGTTTTA
1 ATTTTTAAAATACTTTTTTTATATTTGTTTTA
38681530 ATTTTTAAAATA
1 ATTTTTAAAATA
38681542 AAATTTTGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 11 0.29
29 8 0.21
30 3 0.08
31 6 0.16
32 10 0.26
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (32 bp):
ATTTTTAAAATACTTTTTTTATATTTGTTTTA
Found at i:38683331 original size:25 final size:25
Alignment explanation
Indices: 38683297--38683346 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
38683287 ACATGTACGC
* *
38683297 TTGCAGTAAAATTGAGGTTTAAAAA
1 TTGCAGTAAAATCGAGCTTTAAAAA
38683322 TTGCAGTAAAATCGAGCTTTAAAAA
1 TTGCAGTAAAATCGAGCTTTAAAAA
38683347 CTGACATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (25 bp):
TTGCAGTAAAATCGAGCTTTAAAAA
Found at i:38692284 original size:9 final size:9
Alignment explanation
Indices: 38692262--38692321 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
38692252 AATTTTGAAT
*
38692262 TTTTATGAAT
1 TTTTAT-AAA
38692272 TTTTATAAA
1 TTTTATAAA
38692281 TTTTATAAA
1 TTTTATAAA
*
38692290 TATTGATAAA
1 T-TTTATAAA
*
38692300 TATTATAAA
1 TTTTATAAA
38692309 TTATTAT-AA
1 TT-TTATAAA
38692318 TTTT
1 TTTT
38692322 TTATAGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 2 0.05
9 23 0.53
10 18 0.42
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (9 bp):
TTTTATAAA
Found at i:38692286 original size:19 final size:19
Alignment explanation
Indices: 38692262--38692321 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
38692252 AATTTTGAAT
*
38692262 TTTTATGAATTTTTATAAA
1 TTTTATAAATTTTTATAAA
* *
38692281 TTTTATAAATATTGATAAA
1 TTTTATAAATTTTTATAAA
* *
38692300 TATTATAAATTATTAT-AA
1 TTTTATAAATTTTTATAAA
38692318 TTTT
1 TTTT
38692322 TTATAGGTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 5 0.15
19 28 0.85
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTTATAAATTTTTATAAA
Found at i:38692298 original size:10 final size:9
Alignment explanation
Indices: 38692274--38692317 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
38692264 TTATGAATTT
*
38692274 TTATAAATT
1 TTATAAATA
38692283 TTATAAATA
1 TTATAAATA
38692292 TTGATAAATA
1 TT-ATAAATA
38692302 TTATAAATTA
1 TTATAAA-TA
38692312 TTATAA
1 TTATAA
38692318 TTTTTTATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (9 bp):
TTATAAATA
Found at i:38699803 original size:41 final size:40
Alignment explanation
Indices: 38699750--38699853 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 40
38699740 TTTTCAAATC
* * *
38699750 AATGAATAGGTTGAAAAGGATGTT-TCCTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATATTATCC-AAAAAGGATAT-A
*
38699791 AATGAAAAGGTTGAAAAGGGTATTATCCAAAAAGGATATA
1 AATGAAAAGGTTGAAAAGGATATTATCCAAAAAGGATATA
* *
38699831 AAAGAAAAGGTCGAAAAGGATAT
1 AATGAAAAGGTTGAAAAGGATAT
38699854 CAATGAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
40 21 0.38
41 31 0.56
42 3 0.05
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGAAAAGGTTGAAAAGGATATTATCCAAAAAGGATATA
Found at i:38699850 original size:24 final size:24
Alignment explanation
Indices: 38699818--38699871 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
38699808 GGGTATTATC
38699818 CAAAAAGGATATAAAAGAAAAGGT
1 CAAAAAGGATATAAAAGAAAAGGT
* * * *
38699842 CGAAAAGGATATCAATGAAAATGT
1 CAAAAAGGATATAAAAGAAAAGGT
38699866 CAAAAA
1 CAAAAA
38699872 TGTAACACCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (24 bp):
CAAAAAGGATATAAAAGAAAAGGT
Found at i:38699949 original size:21 final size:21
Alignment explanation
Indices: 38699925--38699991 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
38699915 GAGTATTACT
38699925 ATACAATTTGAACATTAAATC
1 ATACAATTTGAACATTAAATC
* * *
38699946 ATACAA-TT-CATATT-ACT-
1 ATACAATTTGAACATTAAATC
*
38699963 ATAGAATTTGAACATTAAATC
1 ATACAATTTGAACATTAAATC
38699984 ATACAATT
1 ATACAATT
38699992 CATACATTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
17 5 0.15
18 4 0.12
19 8 0.24
20 4 0.12
21 13 0.38
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (21 bp):
ATACAATTTGAACATTAAATC
Found at i:38699971 original size:38 final size:38
Alignment explanation
Indices: 38699918--38699995 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
38699908 GGTTACGGAG
38699918 TATTACTATACAATTTGAACATTAAATCATACAATTCA
1 TATTACTATACAATTTGAACATTAAATCATACAATTCA
*
38699956 TATTACTATAGAATTTGAACATTAAATCATACAATTCA
1 TATTACTATACAATTTGAACATTAAATCATACAATTCA
38699994 TA
1 TA
38699996 CATTGACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (38 bp):
TATTACTATACAATTTGAACATTAAATCATACAATTCA
Found at i:38699998 original size:21 final size:21
Alignment explanation
Indices: 38699936--38699999 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
38699926 TACAATTTGA
38699936 ACATTAAATCATACAATTCAT
1 ACATTAAATCATACAATTCAT
* * *
38699957 --ATT-ACT-ATAGAATTTGA-
1 ACATTAAATCATACAA-TTCAT
38699974 ACATTAAATCATACAATTCAT
1 ACATTAAATCATACAATTCAT
38699995 ACATT
1 ACATT
38700000 GACATAACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
17 5 0.16
18 5 0.16
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (21 bp):
ACATTAAATCATACAATTCAT
Found at i:38714753 original size:19 final size:19
Alignment explanation
Indices: 38714729--38714801 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
38714719 AATCATATCT
38714729 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
38714748 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
38714767 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
38714786 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
38714802 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38714779 original size:38 final size:39
Alignment explanation
Indices: 38714706--38714801 Score: 131
Period size: 38 Copynumber: 2.4 Consensus size: 39
38714696 AAATTAAATC
* *
38714706 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA--TTCTAAAATTGCATATCATA
38714748 TCTAAGATTACATATCATA-TCTAAAATTGCATATCATA
1 TCTAAGATTACATATCATATTCTAAAATTGCATATCATA
*
38714786 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
38714802 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
38 33 0.65
41 7 0.14
42 11 0.22
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (39 bp):
TCTAAGATTACATATCATATTCTAAAATTGCATATCATA
Found at i:38723946 original size:42 final size:41
Alignment explanation
Indices: 38723884--38724062 Score: 166
Period size: 42 Copynumber: 4.3 Consensus size: 41
38723874 CGAAGGCTGC
* * * *
38723884 AATGAAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTA
1 AATGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
38723925 AATGGAAGCTCATAGGAGCTAAAC-GAAAACCCATAAGGGTTA
1 AAT-GAAGCTCAAAAGAGCTAAACAG-AAACCCATAAGGGTTA
* * *
38723967 ATCTGAAGCTCAGAAA-AGCTAAACTGAAACCCATTAGGGTTA
1 A-ATGAAGCTCA-AAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
38724009 AACTGAAGCTCAAAAGAGCTGAACTA-AAACCCAGAAGGGTTA
1 AA-TGAAGCTCAAAAGAGCTAAAC-AGAAACCCATAAGGGTTA
*
38724051 AACTGAAACTCA
1 AA-TGAAGCTCA
38724063 TATGAGTTAA
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
41 7 0.06
42 106 0.91
43 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (41 bp):
AATGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:38724028 original size:84 final size:84
Alignment explanation
Indices: 38723900--38724062 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 84
38723890 GCACATAAGT
* * * *
38723900 GCTAAACAGAAACCCGTAAGGGTTAAATGGAAGCTCATAGGAGCTAAACGAAAACCCATAAGGGT
1 GCTAAACAGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGAGCTAAACGAAAACCCAGAAGGGT
* *
38723965 TAATCTGAAGCTCAGAAAA
66 TAAACTGAAACTCAGAAAA
* * * *
38723984 GCTAAACTGAAACCCATTAGGGTTAAACT-GAAGCTCAAAAGAGCTGAACTAAAACCCAGAAGGG
1 GCTAAACAGAAACCCATAAGGGTTAAA-TGGAAGCTCAAAAGAGCTAAACGAAAACCCAGAAGGG
38724048 TTAAACTGAAACTCA
65 TTAAACTGAAACTCA
38724063 TATGAGTTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 67 0.99
85 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (84 bp):
GCTAAACAGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGAGCTAAACGAAAACCCAGAAGGGT
TAAACTGAAACTCAGAAAA
Found at i:38724033 original size:21 final size:21
Alignment explanation
Indices: 38723893--38724095 Score: 97
Period size: 21 Copynumber: 9.7 Consensus size: 21
38723883 CAATGAAGCA
* * *
38723893 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTAAACTGAAACT
* * * *
38723914 CGTAAGGGTTAAA-TGGAAGCT
1 CATAAGAGCTAAACT-GAAACT
* *
38723935 CATAGGAGCTAAAC-GAAAACC
1 CATAAGAGCTAAACTG-AAACT
* * * *
38723956 CATAAGGGTTAATCTGAAGCT
1 CATAAGAGCTAAACTGAAACT
* * *
38723977 CAGAAAAGCTAAACTGAAACC
1 CATAAGAGCTAAACTGAAACT
* * * *
38723998 CATTAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACTGAAACT
* * * *
38724019 CAAAAGAGCTGAACTAAAACC
1 CATAAGAGCTAAACTGAAACT
* * *
38724040 CAGAAGGGTTAAACTGAAACT
1 CATAAGAGCTAAACTGAAACT
* * *
38724061 CATATGAG-TTAACTGAAGCT
1 CATAAGAGCTAAACTGAAACT
38724081 CATAAGAGCTAAACT
1 CATAAGAGCTAAACT
38724096 AAAAGCAAGC
Statistics
Matches: 124, Mismatches: 53, Indels: 10
0.66 0.28 0.05
Matches are distributed among these distances:
20 18 0.15
21 105 0.85
22 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (21 bp):
CATAAGAGCTAAACTGAAACT
Found at i:38730709 original size:22 final size:22
Alignment explanation
Indices: 38730681--38730725 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38730671 TATTATAACT
*
38730681 TTTTTTTATTTATTAAAATATA
1 TTTTTTTATTTACTAAAATATA
38730703 TTTTTTTATTTACTAAAATATA
1 TTTTTTTATTTACTAAAATATA
38730725 T
1 T
38730726 CAAAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTTATTTACTAAAATATA
Found at i:38730814 original size:27 final size:27
Alignment explanation
Indices: 38730784--38730850 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
38730774 CGCCAATGGG
38730784 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
38730811 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
38730838 ATTGGCGGCACCA
1 ATTGGCGGCACCA
38730851 GTTAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:38730902 original size:4 final size:4
Alignment explanation
Indices: 38730893--38731022 Score: 81
Period size: 4 Copynumber: 31.8 Consensus size: 4
38730883 GAAGGAGAGG
* * * *
38730893 GAAA GAAA GAAA GAGA GAAA GAAA GGAGAG GGAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
* *
38730941 GAAA GAAA GGGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA GAAGA
1 GAAA GAAA --GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAA-A
* *
38730987 GAAG GAAA GGAGAA GAAA -AAA GAAA GAAT GAAA GAA
1 GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAA
38731023 GAAGAAGAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
3 12 0.12
4 63 0.65
5 15 0.15
6 7 0.07
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:38730908 original size:18 final size:18
Alignment explanation
Indices: 38730882--38730949 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
38730872 GGTGGGGGGC
*
38730882 AGAAGGAGAGGGAAAGAA
1 AGAAAGAGAGGGAAAGAA
38730900 AGAAAGAGA--GAAAGAA
1 AGAAAGAGAGGGAAAGAA
38730916 AG---GAGAGGG-AAGAA
1 AGAAAGAGAGGGAAAGAA
* *
38730930 AGAAAAAGAAGGAAAGAA
1 AGAAAGAGAGGGAAAGAA
38730948 AG
1 AG
38730950 GGAAAGGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
13 4 0.10
14 7 0.17
15 1 0.02
16 9 0.22
17 5 0.12
18 15 0.37
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
AGAAAGAGAGGGAAAGAA
Found at i:38730972 original size:40 final size:41
Alignment explanation
Indices: 38730895--38731063 Score: 128
Period size: 40 Copynumber: 4.3 Consensus size: 41
38730885 AGGAGAGGGA
* * * *
38730895 AAGAAAGAAAGAGAGAAA--GAAAGGAG-AG-GGAAGAAAG
1 AAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
38730932 AA-AAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
1 AAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
*
38730972 AAAGAAAGAA-G-AAGAGAA-GGAAAGGAGAAGAAAAAAGAAAG
1 -AAGAAAGAAGGAAAGA-AAGGGAAAGGAGAAGAGAAAA-AAAG
*
38731013 AATGAAAGAAGAAGAAGAAGAGGG-AA-G-GAAG-GAAAAAAAG
1 AA-GAAAGAAGGA-AAGAA-AGGGAAAGGAGAAGAGAAAAAAAG
* *
38731053 AAAAAAAAAGG
1 AAGAAAGAAGG
38731064 TAATTTTATT
Statistics
Matches: 108, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
36 13 0.12
37 2 0.02
38 8 0.07
39 8 0.07
40 36 0.33
41 20 0.19
42 10 0.09
43 2 0.02
44 7 0.06
45 2 0.02
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (41 bp):
AAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
Done.