Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 171 of 362
Found at i:56572546 original size:30 final size:28
Alignment explanation
Indices: 56572462--56572553 Score: 98
Period size: 30 Copynumber: 3.2 Consensus size: 28
56572452 CTTCTCTCTT
56572462 TTTTCTTTTTTCCTTTTTTTTCTTTTTTT-
1 TTTTCTTTTTT--TTTTTTTTCTTTTTTTA
* *
56572491 TTTGT-TTTTTTTGTTTTTTGTTTTTTTA
1 TTT-TCTTTTTTTTTTTTTTCTTTTTTTA
*
56572519 TTTTCTGTTTGTTTTTTTTTTCTTTTTTGA
1 TTTTCT-TTT-TTTTTTTTTTCTTTTTTTA
56572549 TTTTC
1 TTTTC
56572554 AAAACCTCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
27 15 0.28
28 4 0.08
29 12 0.23
30 22 0.42
ACGTcount: A:0.02, C:0.08, G:0.07, T:0.84
Consensus pattern (28 bp):
TTTTCTTTTTTTTTTTTTTCTTTTTTTA
Found at i:56583430 original size:21 final size:22
Alignment explanation
Indices: 56583397--56583440 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56583387 ATAAGATAAT
*
56583397 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
56583419 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
56583440 A
1 A
56583441 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:56583538 original size:12 final size:12
Alignment explanation
Indices: 56583523--56583547 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56583513 AAATATAAAG
56583523 AAAATAATTAAT
1 AAAATAATTAAT
56583535 AAAATAATTAAT
1 AAAATAATTAAT
56583547 A
1 A
56583548 TCAATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATTAAT
Found at i:56583809 original size:25 final size:25
Alignment explanation
Indices: 56583693--56583811 Score: 79
Period size: 24 Copynumber: 4.8 Consensus size: 25
56583683 TGATAAAAAC
*
56583693 ATAATATAATAAATA-ATAAGTAAT
1 ATAATATAAAAAATATATAAGTAAT
* ** *
56583717 GAT-ATGTGTTAAAATATAT-ATTAAT
1 -ATAATAT-AAAAAATATATAAGTAAT
* *
56583742 ATGATAATAGAAAAATAT-GAAGTAAT
1 ATAAT-ATA-AAAAATATATAAGTAAT
*
56583768 ATAATATAATAAA-ATATAAGTAA-
1 ATAATATAAAAAATATATAAGTAAT
56583791 ATAATTATAAAAAATATATAA
1 ATAA-TATAAAAAATATATAA
56583812 TACGTATATT
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
23 6 0.08
24 23 0.32
25 23 0.32
26 19 0.27
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.34
Consensus pattern (25 bp):
ATAATATAAAAAATATATAAGTAAT
Found at i:56590093 original size:34 final size:33
Alignment explanation
Indices: 56590047--56590116 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
56590037 TTAGTCGCAA
*
56590047 TATCATGTGGGCCTTAACCCAA-TACAGTATCAG
1 TATCATGTGGGCCTTAACCCAACT-CAGTAACAG
*
56590080 TATCAGTGTGGGCCTTAGCCCAACTCAGTAACAG
1 TATCA-TGTGGGCCTTAACCCAACTCAGTAACAG
56590114 TAT
1 TAT
56590117 TAGAAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 5 0.15
34 27 0.82
35 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (33 bp):
TATCATGTGGGCCTTAACCCAACTCAGTAACAG
Found at i:56593103 original size:46 final size:47
Alignment explanation
Indices: 56592970--56593299 Score: 522
Period size: 47 Copynumber: 7.1 Consensus size: 47
56592960 GAAATGATAG
*
56592970 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56593017 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56593064 TAAGGCCTAATGGCCGAT-TGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56593110 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56593156 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56593203 TAAGGCCTAATAGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
56593249 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56593296 TAAG
1 TAAG
56593300 TCCCGAAGGG
Statistics
Matches: 266, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 131 0.49
47 135 0.51
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56593130 original size:93 final size:94
Alignment explanation
Indices: 56592970--56593299 Score: 522
Period size: 93 Copynumber: 3.5 Consensus size: 94
56592960 GAAATGATAG
*
56592970 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
56593035 GTGATGAATGTGAAAGTGTATATGTGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
56593064 TAAGGCCTAATGGCCGAT-TGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
56593128 GTGATGAATGTGAAAGTGTATATATGT-A
66 GTGATGAATGTGAAAGTGTATATATGTGA
*
56593156 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
56593221 GTG-TGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
56593249 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56593300 TCCCGAAGGG
Statistics
Matches: 222, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
92 42 0.19
93 162 0.73
94 18 0.08
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56593474 original size:37 final size:37
Alignment explanation
Indices: 56593418--56593496 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56593408 CCGAGCTCTA
* * *
56593418 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56593455 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56593492 AAGAC
1 AAGAC
56593497 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56616473 original size:42 final size:43
Alignment explanation
Indices: 56616372--56616476 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 43
56616362 TGCGATTTCA
* *
56616372 TGTAAGACCATGTCTAGGACATTGGCATCAATTTGAGATTAACG
1 TGTAAGACCATGTCTGGGACATCGGCATCAATTT-AGATTAACG
*
56616416 TGTAAGACCATGTCTGGGACATCGGCATCATATTT-GA-TATCG
1 TGTAAGACCATGTCTGGGACATCGGCATCA-ATTTAGATTAACG
*
56616458 TGTAAGACCCTGTCTGGGA
1 TGTAAGACCATGTCTGGGA
56616477 TGTTGGCATT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 22 0.39
43 2 0.04
44 28 0.50
45 4 0.07
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCAATTTAGATTAACG
Found at i:56616485 original size:42 final size:43
Alignment explanation
Indices: 56616372--56616485 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 43
56616362 TGCGATTTCA
*
56616372 TGTAAGACCATGTCTAGGACATTGGCATCAATTTGAGATTAACG
1 TGTAAGACCATGTCTGGGACATTGGCATCAATTT-AGATTAACG
* *
56616416 TGTAAGACCATGTCTGGGACATCGGCATCATATTT-GA-TATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCA-ATTTAGATTAACG
* **
56616458 TGTAAGACCCTGTCTGGGATGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
56616486 TATACGAGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 28 0.45
43 2 0.03
44 28 0.45
45 4 0.06
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCAATTTAGATTAACG
Found at i:56623335 original size:64 final size:64
Alignment explanation
Indices: 56623185--56623437 Score: 190
Period size: 68 Copynumber: 3.9 Consensus size: 64
56623175 ATACATATAG
* ** * ** * * *
56623185 TATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA
56623249 TTA
63 -TA
* * *
56623252 TTATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 -TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
56623317 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGATACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
56623382 TA
63 TA
* * * *
56623384 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
56623438 CGAACTATAT
Statistics
Matches: 148, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 25 0.17
65 2 0.01
66 23 0.16
67 32 0.22
68 46 0.31
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:56624457 original size:15 final size:16
Alignment explanation
Indices: 56624439--56624468 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56624429 ATAGAAACTA
56624439 TGGTAT-ATGAAATAT
1 TGGTATAATGAAATAT
56624454 TGGTATAATGAAATA
1 TGGTATAATGAAATA
56624469 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
TGGTATAATGAAATAT
Found at i:56625902 original size:15 final size:16
Alignment explanation
Indices: 56625872--56625904 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
56625862 AGCTTAAAGG
56625872 TCAGATTCAAGAGTTA
1 TCAGATTCAAGAGTTA
*
56625888 TCAGA-TCAAGGGTTA
1 TCAGATTCAAGAGTTA
56625903 TC
1 TC
56625905 CGCCCTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (16 bp):
TCAGATTCAAGAGTTA
Found at i:56633643 original size:27 final size:27
Alignment explanation
Indices: 56633613--56633667 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56633603 AGCTGTCAAA
*
56633613 AATAGTAAATGTGGCAAAGCCACCAGT
1 AATAGTAAATGTGACAAAGCCACCAGT
* * *
56633640 AATAGTGAATGTGACATAGTCACCAGT
1 AATAGTAAATGTGACAAAGCCACCAGT
56633667 A
1 A
56633668 CAGTACTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (27 bp):
AATAGTAAATGTGACAAAGCCACCAGT
Found at i:56633838 original size:27 final size:27
Alignment explanation
Indices: 56633808--56634241 Score: 463
Period size: 27 Copynumber: 15.7 Consensus size: 27
56633798 AGGCACAATC
* *
56633808 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
56633835 GTCATTTTACCCTATAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
56633862 GTTATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
56633889 ATCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
56633916 ATCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
56633943 GTCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
56633970 ATTATTTTACCCTACAGAAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
56633997 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
56634024 GTCATTTTACCCTACAGGGGCAGTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
56634051 ATCATTTTACCCTACATGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
56634078 GTCATTTTACCCTACAGGGGTATTACGGGCATTACG
1 GTCATTTTACCCTACA---G------GGGCATTACG
*
56634114 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
56634141 GTCATTTTACCCTATAAGGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
56634168 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
56634195 ATCACTTTACCCTATAGGGACATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
56634222 GTCAATTTACCTTACAGGGG
1 GTCATTTTACCCTACAGGGG
56634242 TACCCTATAG
Statistics
Matches: 336, Mismatches: 62, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
27 310 0.92
33 1 0.00
36 25 0.07
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:56634119 original size:36 final size:36
Alignment explanation
Indices: 56634072--56634146 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
56634062 CTACATGGGT
56634072 ATTACGGTCATTTTACCCTACAGGGGTATTACGGGC
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGGC
*
56634108 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTC
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGGC
56634144 ATT
1 ATT
56634147 TTACCCTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (36 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGGGC
Found at i:56634140 original size:63 final size:63
Alignment explanation
Indices: 56634041--56634166 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
56634031 TACCCTACAG
* *
56634041 GGGCAGTACGATCATTTTACCCTACATGGGTATTACGGTCATTTTACCCTACAGGGGTATTAC
1 GGGCAGTACGATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGTATTAC
* * *
56634104 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAAGGGTATTAC
1 GGGCAGTACGATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGTATTAC
56634167 AGTCATTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (63 bp):
GGGCAGTACGATCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAAGGGTATTAC
Found at i:56634172 original size:90 final size:90
Alignment explanation
Indices: 56634018--56634194 Score: 291
Period size: 90 Copynumber: 2.0 Consensus size: 90
56634008 CTATAGGGGT
* *
56634018 ATTACGGTCATTTTACCCTACAGGGGCAGTACGATCATTTTACCCTACATGGGTATTACGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGCAGTACGATCATTTTACCCTACAAGGGTATTACAGTCAT
*
56634083 TTTACCCTACAGGGGTATTACGGGC
66 TTTACCCTACAGGGGCATTACGGGC
* * * *
56634108 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAAGGGTATTACAGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGCAGTACGATCATTTTACCCTACAAGGGTATTACAGTCAT
56634173 TTTACCCTACAGGGGCATTACG
66 TTTACCCTACAGGGGCATTACG
56634195 ATCACTTTAC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (90 bp):
ATTACGGTCATTTTACCCTACAGGGGCAGTACGATCATTTTACCCTACAAGGGTATTACAGTCAT
TTTACCCTACAGGGGCATTACGGGC
Found at i:56634225 original size:144 final size:146
Alignment explanation
Indices: 56633963--56634299 Score: 464
Period size: 144 Copynumber: 2.3 Consensus size: 146
56633953 CCTACAGGGA
* * ** * * *
56633963 CATTACGATTATTTTACCCTACAGAAGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTCA
1 CATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAAGGGTATTACAGTCA
* * *
56634028 TTTTACCCTACAGGGGCAGTACGATCATTTTACCCTACATGGGTATTACGGTCATTTTACCCTAC
66 TTTTACCCTACAGGGGCAGTACGATCACTTTACCCTACATGGGCATTACGGTCAATTTACCCTAC
56634093 AGGGGTA-T-TACGGG
131 AGGGGTACTATACGGG
56634107 CATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAAGGGTATTACAGTCA
1 CATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAAGGGTATTACAGTCA
* * * *
56634172 TTTTACCCTACAGGGGCATTACGATCACTTTACCCTATA-GGGACATTATGGTCAATTTACCTTA
66 TTTTACCCTACAGGGGCAGTACGATCACTTTACCCTACATGGG-CATTACGGTCAATTTACCCTA
*
56634236 CAGGGGTACCCTATAGGGG
130 CAGGGGTA--CTATACGGG
* * *
56634255 TATTACAGTCATTTTACCCTACAGGGGTATTACAGTCATTTTACC
1 CATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
56634300 TATTTTGGGG
Statistics
Matches: 170, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
143 3 0.02
144 119 0.70
147 1 0.01
148 47 0.28
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (146 bp):
CATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAAGGGTATTACAGTCA
TTTTACCCTACAGGGGCAGTACGATCACTTTACCCTACATGGGCATTACGGTCAATTTACCCTAC
AGGGGTACTATACGGG
Found at i:56634271 original size:40 final size:40
Alignment explanation
Indices: 56634202--56634283 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
56634192 ACGATCACTT
** *
56634202 TACCCTATAGGGACATTATGGTCAATTTACCTTACAGGGG
1 TACCCTATAGGGACATTACAGTCAATTTACCCTACAGGGG
** *
56634242 TACCCTATAGGGGTATTACAGTCATTTTACCCTACAGGGG
1 TACCCTATAGGGACATTACAGTCAATTTACCCTACAGGGG
56634282 TA
1 TA
56634284 TTACAGTCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (40 bp):
TACCCTATAGGGACATTACAGTCAATTTACCCTACAGGGG
Found at i:56634274 original size:27 final size:27
Alignment explanation
Indices: 56634242--56634299 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
56634232 CTTACAGGGG
*
56634242 TACCCTATAGGGGTATTACAGTCATTT
1 TACCCTACAGGGGTATTACAGTCATTT
56634269 TACCCTACAGGGGTATTACAGTCATTT
1 TACCCTACAGGGGTATTACAGTCATTT
56634296 TACC
1 TACC
56634300 TATTTTGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
TACCCTACAGGGGTATTACAGTCATTT
Found at i:56634298 original size:67 final size:67
Alignment explanation
Indices: 56634175--56634300 Score: 155
Period size: 67 Copynumber: 1.9 Consensus size: 67
56634165 ACAGTCATTT
* **
56634175 TACCCTACAGGGGCATTACGATCACTTTACCCTATAGGGACATTATGGTCAATTTACCTTACAGG
1 TACCCTACAGGGGCATTACGATCACTTTACCCTACAGGGACATTACAGTCAATTTACCTTACAGG
56634240 GG
66 GG
* * * ** *
56634242 TACCCTATAGGGGTATTAC-AGTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCT
1 TACCCTACAGGGGCATTACGA-TCACTTTACCCTACAGGGACATTACAGTCAATTTACCT
56634301 ATTTTGGGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 1 0.02
67 48 0.98
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (67 bp):
TACCCTACAGGGGCATTACGATCACTTTACCCTACAGGGACATTACAGTCAATTTACCTTACAGG
GG
Found at i:56635621 original size:12 final size:12
Alignment explanation
Indices: 56635604--56635629 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56635594 GGGAATTATG
56635604 GAGAAGAGAAAA
1 GAGAAGAGAAAA
56635616 GAGAAGAGAAAA
1 GAGAAGAGAAAA
56635628 GA
1 GA
56635630 AATGCTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAGAAGAGAAAA
Found at i:56641404 original size:27 final size:26
Alignment explanation
Indices: 56641387--56641456 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
56641377 ATATTAAGTC
56641387 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
56641414 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
56641442 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
56641457 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:56641450 original size:28 final size:28
Alignment explanation
Indices: 56641387--56641484 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
56641377 ATATTAAGTC
*
56641387 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56641414 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56641442 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56641471 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56641485 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56649688 original size:27 final size:26
Alignment explanation
Indices: 56649671--56649740 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
56649661 ATATTAAGTC
56649671 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
56649698 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
56649726 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
56649741 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:56649734 original size:28 final size:28
Alignment explanation
Indices: 56649671--56649768 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
56649661 ATATTAAGTC
*
56649671 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56649698 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56649726 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56649755 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56649769 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56650232 original size:12 final size:12
Alignment explanation
Indices: 56650215--56650241 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56650205 TGGGCATACT
56650215 TATGTATATATA
1 TATGTATATATA
56650227 TATGTATATATA
1 TATGTATATATA
56650239 TAT
1 TAT
56650242 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:56652351 original size:40 final size:41
Alignment explanation
Indices: 56652292--56652443 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
56652282 CATTTGAATG
* * *
56652292 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
56652332 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
56652372 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
56652412 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
56652444 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:56652455 original size:80 final size:80
Alignment explanation
Indices: 56652292--56652463 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
56652282 CATTTGAATG
* * * * *
56652292 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
56652357 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
56652372 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
56652436 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
56652452 ATATCC-GGCTAA
1 ATATCCGGGCTAA
56652464 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:56660434 original size:40 final size:41
Alignment explanation
Indices: 56660375--56660526 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
56660365 CATTTGAATG
* * *
56660375 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
56660415 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
56660455 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
56660495 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
56660527 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:56660538 original size:80 final size:80
Alignment explanation
Indices: 56660375--56660546 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
56660365 CATTTGAATG
* * * * *
56660375 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
56660440 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
56660455 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
56660519 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
56660535 ATATCC-GGCTAA
1 ATATCCGGGCTAA
56660547 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:56663196 original size:27 final size:27
Alignment explanation
Indices: 56663166--56663240 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
56663156 CTAAATTGAC
*
56663166 AAAATGACTATTTTTCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
* *
56663193 AAAATGACTGTTTTGCCCTTAAGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
56663220 AAAATGACTATTTTGCCCTTA
1 AAAATGACTATTTTGCCCTTA
56663241 CGTGTTAGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATGTGGT
Found at i:56663256 original size:27 final size:27
Alignment explanation
Indices: 56663166--56663260 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 27
56663156 CTAAATTGAC
* * *
56663166 AAAATGACTATTTTTCCCTTATGTGGT
1 AAAATAACTATTTTGCCCTTAAGTGGT
* *
56663193 AAAATGACTGTTTTGCCCTTAAGTGGT
1 AAAATAACTATTTTGCCCTTAAGTGGT
* * *
56663220 AAAATGACTATTTTGCCCTTACGTGTT
1 AAAATAACTATTTTGCCCTTAAGTGGT
**
56663247 AGGATAACTATTTT
1 AAAATAACTATTTT
56663261 TCCCCTATGC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (27 bp):
AAAATAACTATTTTGCCCTTAAGTGGT
Found at i:56675230 original size:21 final size:21
Alignment explanation
Indices: 56675187--56675232 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
56675177 GTTTTTCATG
* *
56675187 CAAGAAGCTTCCAGGGACGTT
1 CAAGAAGCTTCCAAGGAAGTT
56675208 CAAGAAGCTT-CAAGGAAGTTT
1 CAAGAAGCTTCCAAGGAAG-TT
56675229 CAAG
1 CAAG
56675233 GCAATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (21 bp):
CAAGAAGCTTCCAAGGAAGTT
Found at i:56681076 original size:35 final size:33
Alignment explanation
Indices: 56681015--56681080 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 33
56681005 AGAAAGAATT
56681015 TGAAAGAAAAAAAAGGAATGAAAGAAAAAGAGTG
1 TGAAAGAAAAAAAAGGAATG-AAGAAAAAGAGTG
56681049 TGAAAGAGAGAAAAAAGAGAATG-AGAAAAAGA
1 TGAAAGA-A-AAAAAAG-GAATGAAGAAAAAGA
56681081 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
34 7 0.24
35 10 0.34
36 7 0.24
37 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.27, T:0.08
Consensus pattern (33 bp):
TGAAAGAAAAAAAAGGAATGAAGAAAAAGAGTG
Found at i:56683699 original size:21 final size:21
Alignment explanation
Indices: 56683656--56683701 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
56683646 GTTTTTCATG
* *
56683656 CAAGAAGCTTCTAGGGACGTT
1 CAAGAAGCTTCTAAGGAAGTT
56683677 CAAGAAGCTTC-AAGGAAGTTT
1 CAAGAAGCTTCTAAGGAAG-TT
56683698 CAAG
1 CAAG
56683702 GCAATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (21 bp):
CAAGAAGCTTCTAAGGAAGTT
Found at i:56685507 original size:140 final size:139
Alignment explanation
Indices: 56685296--56685857 Score: 821
Period size: 138 Copynumber: 4.1 Consensus size: 139
56685286 GCGAACATAG
* * *
56685296 ATAT-ATTTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 ATATAATTAAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
* * * *
56685360 TAATATAAATAGTTATATTAACTAATTTC-GTTCAAAATATAAAATG-CATGGAAAGTAATATTC
66 TAATATAAATAATTATATTAATTAATTTCAG-TCAAAATAT-AAATGACATGGAAATTAATATTA
*
56685423 TTTTGGAACGA
129 TTTTGGAAAGA
56685434 ATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTA
1 ATATAATTAA-ATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTA
* * *
56685499 TTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAGGACATGGAAATCAATATTAT
65 TTAATATAAATAATTATATTAATTAATTTCAGTCAAAATATAAATGACATGGAAATTAATATTAT
56685564 TTTGGAAAGA
130 TTTGGAAAGA
**
56685574 ATATAATT-AATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
1 ATATAATTAAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
* ** *
56685638 TAATATAAATAGTTATATTAATTAATTTCAGTCAAAATATATTTGGCATGGAAATTAATATTATT
66 TAATATAAATAATTATATTAATTAATTTCAGTCAAAATATAAATGACATGGAAATTAATATTATT
56685703 TTGGAAAGA
131 TTGGAAAGA
* * * *
56685712 ATAT-ATTTAATATATGAATTTTATTCATAAAAAAATATTAATTGTATATATTTTACTAAATTTA
1 ATATAATTAAATATATGAATTTGATTCAT-ACAAAATATTAATTGTATATATTTTACCAAATTTA
* * *
56685776 TTAATATAAATAATTATATTAATTAATTTC-GATCAAAATATAAAAGACATGAAAATTAATATTC
65 TTAATATAAATAATTATATTAATTAATTTCAG-TCAAAATATAAATGACATGGAAATTAATATTA
56685840 TTTTGGAAAGA
129 TTTTGGAAAGA
56685851 ATATAAT
1 ATATAAT
56685858 ATAATCCTAT
Statistics
Matches: 386, Mismatches: 30, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
137 3 0.01
138 148 0.38
139 112 0.29
140 122 0.32
141 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (139 bp):
ATATAATTAAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTAT
TAATATAAATAATTATATTAATTAATTTCAGTCAAAATATAAATGACATGGAAATTAATATTATT
TTGGAAAGA
Found at i:56685536 original size:67 final size:67
Alignment explanation
Indices: 56685465--56685816 Score: 163
Period size: 67 Copynumber: 5.1 Consensus size: 67
56685455 TTGATTCATA
*
56685465 CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCA
1 CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAATTATATTAATTAATTTCA
56685530 GT
66 GT
* * * **** * * *
56685532 CAAAATA-TAA-AGGACAT-GGAAATCAATATTATTTTGGAA-AGAATATAATTAATATATGAAT
1 CAAAATATTAATTGTATATATTTTACCAA-ATT-TATT--AATATAA-ATAATT-ATAT-T-AA-
*
56685593 TTGA-TTCA-T
57 TTAATTTCAGT
** *
56685602 ACAAAATATTAATTGTATATATTTTACTGAATTTATTAATATAAATAGTTATATTAATTAATTTC
1 -CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAATTATATTAATTAATTTC
56685667 AGT
65 AGT
* * ** ** * * * *
56685670 CAAAATA-TATTTGGCATGGAAATTA--ATATTATTTTGGAA-AGAATATATTTAATATATGAAT
1 CAAAATATTAATT-GTATATATTTTACCAAATT-TATT--AATATAA-ATAATT-ATAT-T-AAT
*
56685731 T-TTATTCA-T
58 TAAT-TTCAGT
* *
56685740 AAAAAAATATTAATTGTATATATTTTACTAAATTTATTAATATAAATAATTATATTAATTAATTT
1 --CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAATTATATTAATTAATTT
56685805 C-GAT
64 CAG-T
56685809 CAAAATAT
1 CAAAATAT
56685817 AAAAGACATG
Statistics
Matches: 200, Mismatches: 51, Indels: 68
0.63 0.16 0.21
Matches are distributed among these distances:
64 4 0.02
65 10 0.05
66 16 0.08
67 40 0.20
68 23 0.12
69 15 0.08
70 16 0.08
71 31 0.16
72 25 0.12
73 14 0.07
74 6 0.03
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (67 bp):
CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAATTATATTAATTAATTTCA
GT
Found at i:56689101 original size:40 final size:40
Alignment explanation
Indices: 56689057--56689203 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
56689047 TACTTGCTCC
56689057 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
*
56689097 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
* * ** *
56689137 AATGCCTTCGGGACTTAGCCCAG-AATTAGTCGCTAGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACA
56689177 AATGCCTTCGGGACTTAGCCCGGTTAT
1 AATGCCTTCGGGACTTAGCCCGGTTAT
56689204 CATCCGAATA
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 95 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
Found at i:56689155 original size:80 final size:80
Alignment explanation
Indices: 56689023--56689199 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
56689013 ACCCAAGCAT
* * * * * **
56689023 CTTCGGGATTTAG-CCGAATATAGCTACTTGCTCCAATGCCTTCGGGACTTAGCCC-GGTTATAG
1 CTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCAGAAT-TAG
*
56689086 TAACTCGCACAAATGC
65 TAACTAGCACAAATGC
56689102 CTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAG
1 CTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAG
**
56689166 TCGCTAGCACAAATGC
65 TAACTAGCACAAATGC
56689182 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
56689200 TTATCATCCG
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 13 0.15
80 70 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGT
AACTAGCACAAATGC
Found at i:56693736 original size:23 final size:22
Alignment explanation
Indices: 56693684--56693736 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
56693674 TCCACGTCTT
*
56693684 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
56693706 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
56693729 TTTCTTTT
1 TTTCTTTT
56693737 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:56696289 original size:27 final size:27
Alignment explanation
Indices: 56696249--56696551 Score: 277
Period size: 27 Copynumber: 11.2 Consensus size: 27
56696239 ACTCGTATCA
*
56696249 CCCTGGTTTGTAAAAGTACCAAAATAC
1 CCCTGGTTTGTAAAATTACCAAAATAC
* *
56696276 CCTTGGTTTATAAAATTACCAAAATAC
1 CCCTGGTTTGTAAAATTACCAAAATAC
* *
56696303 CCCTAGTTTGTGAAATTACCAAAATAC
1 CCCTGGTTTGTAAAATTACCAAAATAC
* *
56696330 CCCTGATTTGTGAAATTACCAAAATA-
1 CCCTGGTTTGTAAAATTACCAAAATAC
* **
56696356 CTCTCGACTTGTAAAATTACCAAAATAC
1 CCCT-GGTTTGTAAAATTACCAAAATAC
* **
56696384 CCTTGGTTTACAAAATTACCAAAATAC
1 CCCTGGTTTGTAAAATTACCAAAATAC
* *
56696411 CCCTAGTTTGTAAAATTACCAGAATAC
1 CCCTGGTTTGTAAAATTACCAAAATAC
* * * *
56696438 CCCTGATTTGTGAAATTACCGAAATAA
1 CCCTGGTTTGTAAAATTACCAAAATAC
* * * ***
56696465 CCTTAGTTTGCAAAATTATTGAAATA-
1 CCCTGGTTTGTAAAATTACCAAAATAC
** *
56696491 CCCTCAATTTGTAAAATTACTAAAATAC
1 CCCT-GGTTTGTAAAATTACCAAAATAC
* ** *
56696519 CCCCGACTTGTAAAATTTACCAAAGTAC
1 CCCTGGTTTGTAAAA-TTACCAAAATAC
56696547 CCCTG
1 CCCTG
56696552 ATTTACAGAA
Statistics
Matches: 224, Mismatches: 47, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
26 6 0.03
27 199 0.89
28 19 0.08
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
CCCTGGTTTGTAAAATTACCAAAATAC
Found at i:56696346 original size:54 final size:54
Alignment explanation
Indices: 56696249--56696555 Score: 305
Period size: 54 Copynumber: 5.7 Consensus size: 54
56696239 ACTCGTATCA
* * * * *
56696249 CCCTGGTTTGTAAAAGTACCAAAATACCCTTGGTTTATAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATAC
* *
56696303 CCCTAGTTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATA-
1 CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATAC
* * * * * **
56696356 CTCTCGACTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATAC
1 CCCTAG-TTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATAC
* * * *
56696411 CCCTAGTTTGTAAAATTACCAGAATACCCCTGATTTGTGAAATTACCGAAATAA
1 CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATAC
* * *** * *
56696465 CCTTAGTTTGCAAAATTATTGAAATA-CCCTCAATTTGTAAAATTACTAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATAC
* * *
56696519 CCC-CGACTTGTAAAATTTACCAAAGTACCCCTGATTT
1 CCCTAG-TTTGTAAAA-TTACCAAAATACCCCTGATTT
56696556 ACAGAATTAC
Statistics
Matches: 200, Mismatches: 47, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
53 9 0.05
54 172 0.86
55 15 0.08
56 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
CCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATAC
Found at i:56696384 original size:81 final size:81
Alignment explanation
Indices: 56696249--56696567 Score: 311
Period size: 81 Copynumber: 3.9 Consensus size: 81
56696239 ACTCGTATCA
* * ** ** * *
56696249 CCCTGGTTTGTAAAAGTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGT
1 CCCTGATTTGTAAAATTACCAAAATACCCCCGACTTGTAAAATTACCAAAATACCCCTAGTTTGC
*
56696314 GAAATTACCAAAATAC
66 AAAATTACCAAAATAC
* * * * * *
56696330 CCCTGATTTGTGAAATTACCAAAATACTCTCGACTTGTAAAATTACCAAAATACCCTTGGTTTAC
1 CCCTGATTTGTAAAATTACCAAAATACCCCCGACTTGTAAAATTACCAAAATACCCCTAGTTTGC
56696395 AAAATTACCAAAATAC
66 AAAATTACCAAAATAC
* * * * * * *
56696411 CCCT-AGTTTGTAAAATTACCAGAATACCCCTGATTTGTGAAATTACCGAAATAACCTTAGTTTG
1 CCCTGA-TTTGTAAAATTACCAAAATACCCCCGACTTGTAAAATTACCAAAATACCCCTAGTTTG
***
56696475 CAAAATTATTGAAATA-
65 CAAAATTACCAAAATAC
* * *
56696491 CCCTCAATTTGTAAAATTACTAAAATACCCCCGACTTGTAAAATTTACCAAAGTACCCCT-GATT
1 CCCT-GATTTGTAAAATTACCAAAATACCCCCGACTTGTAAAA-TTACCAAAATACCCCTAG-TT
* *
56696555 TACAGAATTACCA
63 TGCAAAATTACCA
56696568 TTTTACCCTC
Statistics
Matches: 192, Mismatches: 41, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
80 5 0.03
81 164 0.85
82 23 0.12
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (81 bp):
CCCTGATTTGTAAAATTACCAAAATACCCCCGACTTGTAAAATTACCAAAATACCCCTAGTTTGC
AAAATTACCAAAATAC
Found at i:56696445 original size:108 final size:108
Alignment explanation
Indices: 56696256--56696463 Score: 371
Period size: 108 Copynumber: 1.9 Consensus size: 108
56696246 TCACCCTGGT
* *
56696256 TTGTAAAAGTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTGAAATTA
1 TTGTAAAAGTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
56696321 CCAAAATACCCCTGATTTGTGAAATTACCAAAATACTCTCGAC
66 CCAAAATACCCCTGATTTGTGAAATTACCAAAATACTCTCGAC
*
56696364 TTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTAAAAGTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
* *
56696429 CCAGAATACCCCTGATTTGTGAAATTACCGAAATA
66 CCAAAATACCCCTGATTTGTGAAATTACCAAAATA
56696464 ACCTTAGTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 95 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (108 bp):
TTGTAAAAGTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
CCAAAATACCCCTGATTTGTGAAATTACCAAAATACTCTCGAC
Found at i:56696617 original size:27 final size:27
Alignment explanation
Indices: 56696587--56696753 Score: 172
Period size: 27 Copynumber: 6.2 Consensus size: 27
56696577 CGATTTACAA
*
56696587 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTATAGGGTAG
*
56696614 AATTATTGAAATACCCCTCTAGGGTAG
1 AATTATTGAAATACCCCTATAGGGTAG
* * *
56696641 AATTACTAAAATACCCTTATAGGGTAG
1 AATTATTGAAATACCCCTATAGGGTAG
* * * *
56696668 AATTATCGAAATACCCTTGTAGAGTAG
1 AATTATTGAAATACCCCTATAGGGTAG
* * *
56696695 AATTACTGAAATACCTCTATAGGATAG
1 AATTATTGAAATACCCCTATAGGGTAG
** * * * *
56696722 AATTACCGAGATACCCTTATCGGGTAA
1 AATTATTGAAATACCCCTATAGGGTAG
56696749 AATTA
1 AATTA
56696754 CCATTTTGCC
Statistics
Matches: 116, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
AATTATTGAAATACCCCTATAGGGTAG
Found at i:56696645 original size:54 final size:54
Alignment explanation
Indices: 56696587--56696737 Score: 194
Period size: 54 Copynumber: 2.8 Consensus size: 54
56696577 CGATTTACAA
* * * *
56696587 AATTATTGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTCTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCCTCTAGAGTAG
* * * *
56696641 AATTACTAAAATACCCTTATAGGGTAGAATTATCGAAATACCCTTGTAGAGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCCTCTAGAGTAG
* * * *
56696695 AATTACTGAAATACCTCTATAGGATAGAATTACCGAGATACCC
1 AATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCC
56696738 TTATCGGGTA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCCTCTAGAGTAG
Found at i:56696672 original size:81 final size:81
Alignment explanation
Indices: 56696585--56696753 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 81
56696575 CTCGATTTAC
* * * * * *
56696585 AAAATTATTGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTCTAGGGTAGAATTACTAA
1 AAAATTATCGAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTATAGGATAGAATTACCAA
56696650 AATACCCTTATAGGGT
66 AATACCCTTATAGGGT
* * * *
56696666 AGAATTATCGAAATACCCTTGTAGAGTAGAATTACTGAAATACCTCTATAGGATAGAATTACCGA
1 AAAATTATCGAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTATAGGATAGAATTACCAA
* *
56696731 GATACCCTTATCGGGT
66 AATACCCTTATAGGGT
56696747 AAAATTA
1 AAAATTA
56696754 CCATTTTGCC
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (81 bp):
AAAATTATCGAAATACCCCTGTAGAGTAGAATTACTGAAATACCCCTATAGGATAGAATTACCAA
AATACCCTTATAGGGT
Found at i:56696994 original size:25 final size:25
Alignment explanation
Indices: 56696960--56697029 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
56696950 AGGAAGTGCT
*
56696960 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
56696985 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
56697010 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56697030 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:56697042 original size:24 final size:24
Alignment explanation
Indices: 56696959--56697042 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
56696949 GAGGAAGTGC
*
56696959 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
56696984 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
56697008 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
56697032 TAAAAGAGGCT
1 TAAAAG-GGCT
56697043 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 40 0.75
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:56697053 original size:50 final size:50
Alignment explanation
Indices: 56696960--56697054 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
56696950 AGGAAGTGCT
**
56696960 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
56697010 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
56697055 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:56698360 original size:17 final size:18
Alignment explanation
Indices: 56698328--56698362 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56698318 TCGGGCCAGG
56698328 ATGGGCTAAGTGGGCCCA
1 ATGGGCTAAGTGGGCCCA
*
56698346 ATGGGCT-ATTGGGCCCA
1 ATGGGCTAAGTGGGCCCA
56698363 TAATAGGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (18 bp):
ATGGGCTAAGTGGGCCCA
Found at i:56698463 original size:29 final size:29
Alignment explanation
Indices: 56698419--56698531 Score: 176
Period size: 29 Copynumber: 3.9 Consensus size: 29
56698409 GAAAGCATGT
56698419 ATATGAATGTGATTTGGG-CTAAATGGGCC
1 ATATGAATGTGATTTGGGCCT-AATGGGCC
*
56698448 ACATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
56698477 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
56698506 ATATGAATGAGA-TTAGGCCTAATGGG
1 ATATGAATGTGATTTGGGCCTAATGGG
56698532 TTATATGCAT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
28 13 0.16
29 64 0.81
30 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:56699551 original size:46 final size:46
Alignment explanation
Indices: 56699484--56699576 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
56699474 GTTATTTTTA
56699484 TGCGTTGTAATTATGAGAAGGTGAACATGGGTTTCCTAAATCATAG
1 TGCGTTGTAATTATGAGAAGGTGAACATGGGTTTCCTAAATCATAG
56699530 TGCGTTGTAATTATGAGAAGGTGAACATGGGTTTCCTAAATCATAG
1 TGCGTTGTAATTATGAGAAGGTGAACATGGGTTTCCTAAATCATAG
56699576 T
1 T
56699577 TTGTTTTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (46 bp):
TGCGTTGTAATTATGAGAAGGTGAACATGGGTTTCCTAAATCATAG
Found at i:56699877 original size:45 final size:45
Alignment explanation
Indices: 56699803--56699931 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
56699793 TACAGACATC
* * * *
56699803 ATGTCATAGTGTTTTTCAAATATTTTCTTATTCAATTTTGGTATA
1 ATGTCATAGTGTCTTTCAACTATGTTCTTATTCAATTTTAGTATA
* *
56699848 ATGTCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTCCAGTATA
1 ATGTCATAGTGTCTTTCAACTATGTTCTTATTCAATTT-TAGTATA
*
56699893 GT-TCCATAGTGTCTTTCAACTATGTTCTTATTCAATTTT
1 ATGT-CATAGTGTCTTTCAACTATGTTCTTATTCAATTTT
56699932 CAAGCCAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
44 5 0.07
45 63 0.88
46 4 0.06
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (45 bp):
ATGTCATAGTGTCTTTCAACTATGTTCTTATTCAATTTTAGTATA
Found at i:56700165 original size:171 final size:171
Alignment explanation
Indices: 56699880--56700220 Score: 610
Period size: 171 Copynumber: 2.0 Consensus size: 171
56699870 TGGTCTTATT
* * *
56699880 CATTTCCAGTATAGTTCCATAGTGTCTTTCAACTATGTTCTTATTCAATTTTCAAGCCAATTAAC
1 CATTTCCAGTATAGTGCCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
* *
56699945 TTGATATCCACATACATAAATAGATATTAAATTATCAAAACAATAACTAATTAATTTAACCAATT
66 TTGATATCCACATACATAAATAGATATTAAATTATAAAAACAATAACTAATTAATTTAACCAAGT
56700010 TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACAC
131 TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACAC
56700051 CATTTCCAGTATAGTGCCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
1 CATTTCCAGTATAGTGCCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
*
56700116 TTGATCTCCACATACATAAATAGATATTAAATTATAAAAACAATAACTAATTAATTTAACCAAGT
66 TTGATATCCACATACATAAATAGATATTAAATTATAAAAACAATAACTAATTAATTTAACCAAGT
* *
56700181 TATGAACTTACCTAATCCAAAAATGACAATAAACTCAACA
131 TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACA
56700221 ACAATTATTA
Statistics
Matches: 162, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
171 162 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (171 bp):
CATTTCCAGTATAGTGCCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
TTGATATCCACATACATAAATAGATATTAAATTATAAAAACAATAACTAATTAATTTAACCAAGT
TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACAC
Found at i:56702486 original size:27 final size:27
Alignment explanation
Indices: 56702456--56702507 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56702446 ACCCCTAACC
56702456 GATAAAA-GGACTATTATGCCCCTATAT
1 GATAAAATGG-CTATTATGCCCCTATAT
* *
56702483 GATAAAATGGTTGTTATGCCCCTAT
1 GATAAAATGGCTATTATGCCCCTAT
56702508 GAGATGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (27 bp):
GATAAAATGGCTATTATGCCCCTATAT
Found at i:56710761 original size:40 final size:40
Alignment explanation
Indices: 56710677--56710861 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
56710667 TCGAATGATG
* *
56710677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
56710716 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56710757 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
56710796 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56710835 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56710862 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56710813 original size:79 final size:81
Alignment explanation
Indices: 56710677--56710859 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
56710667 TCGAATGATG
* *
56710677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
56710741 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
56710756 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
56710818 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
56710836 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56710860 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:56710883 original size:79 final size:78
Alignment explanation
Indices: 56710678--56710894 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
56710668 CGAATGATGT
* *
56710678 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
56710741 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
56710758 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
56710821 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
56710837 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
56710895 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:56721738 original size:20 final size:20
Alignment explanation
Indices: 56721715--56721752 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56721705 ATTTATTCGC
* *
56721715 GATTTTCAATATTTTGTAAA
1 GATTTTAAAAATTTTGTAAA
56721735 GATTTTAAAAATTTTGTA
1 GATTTTAAAAATTTTGTA
56721753 TTTGGATGTG
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:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (20 bp):
GATTTTAAAAATTTTGTAAA
Found at i:56722403 original size:15 final size:15
Alignment explanation
Indices: 56722383--56722412 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56722373 CAACACTTGT
56722383 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
56722398 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
56722413 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:56724469 original size:39 final size:40
Alignment explanation
Indices: 56724392--56724538 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
56724382 TAGCTCCTCG
* * *
56724392 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
56724432 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
56724471 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
56724511 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
56724539 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:56724549 original size:80 final size:80
Alignment explanation
Indices: 56724438--56724618 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
56724428 CTCATTCAAT
* * *
56724438 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
56724501 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
56724517 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
56724581 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
56724598 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
56724619 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:56724578 original size:40 final size:40
Alignment explanation
Indices: 56724435--56724618 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
56724425 TAACTCATTC
* *
56724435 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
56724475 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
56724515 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
56724555 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
56724596 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56724619 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:56725645 original size:13 final size:13
Alignment explanation
Indices: 56725627--56725651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56725617 GGATGAGCAT
56725627 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
56725640 TTTTTTTTCTTT
1 TTTTTTTTCTTT
56725652 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:56734752 original size:39 final size:39
Alignment explanation
Indices: 56734698--56734821 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
56734688 ATTTGATGTG
*
56734698 TATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGTAGGCTACGTGCTGGAATTA
*
56734737 TATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGTAGGCTACGTGCTGGAATTA
* *
56734776 TATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGTAGGCTACGTGCTGGAATTA
*
56734815 TGTCCGG
1 TATCCGG
56734822 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGTAGGCTACGTGCTGGAATTA
Found at i:56734839 original size:39 final size:39
Alignment explanation
Indices: 56734698--56734855 Score: 192
Period size: 39 Copynumber: 4.1 Consensus size: 39
56734688 ATTTGATGTG
*
56734698 TATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* * *
56734737 TATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
56734776 TATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* * * * * *
56734815 TGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTATTA
1 TATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAATTA
56734854 TA
1 TA
56734856 CTGGGTTTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
38 5 0.05
39 99 0.95
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
Found at i:56737861 original size:53 final size:53
Alignment explanation
Indices: 56737785--56737889 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
56737775 ATAAACTACG
* ** * *
56737785 ATAAGGCAAAGATCCCATGTAAGACCATGCCAATG-CATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACATAAGACAATGCCAA-GACATGGCAATGGTAAGTTC
* *
56737838 ATAAGGCAAGGATACCACATAAGACAATGTCAAGACATGGCAATGGTAAGTT
1 ATAAGGCAAAGATACCACATAAGACAATGCCAAGACATGGCAATGGTAAGTT
56737890 TAAAAAGCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACATAAGACAATGCCAAGACATGGCAATGGTAAGTTC
Found at i:56739812 original size:41 final size:41
Alignment explanation
Indices: 56739767--56739916 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 41
56739757 TGATAAAAAA
* *
56739767 TCGGCTATATATGGCACTTGGTGTGCGAGAATG-GCATAGCT
1 TCGGCTACATATGGCACTTAGTGTGCGAGAATGAG-ATAGCT
*
56739808 TCGGCTACATATGGCACTTAGTGTGCAAGAATGAGATAGCT
1 TCGGCTACATATGGCACTTAGTGTGCGAGAATGAGATAGCT
* *
56739849 TCGGCTACATATGGCACTTAGTGTCCGAGAAATGTGATAGCT
1 TCGGCTACATATGGCACTTAGTGTGCGAG-AATGAGATAGCT
* * ** *
56739891 TCAGTTATGTATGGCACTGAGTGTGC
1 TCGGCTACATATGGCACTTAGTGTGC
56739917 AAGATATCGA
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
41 63 0.66
42 32 0.34
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (41 bp):
TCGGCTACATATGGCACTTAGTGTGCGAGAATGAGATAGCT
Found at i:56739916 original size:83 final size:82
Alignment explanation
Indices: 56739767--56739920 Score: 211
Period size: 83 Copynumber: 1.9 Consensus size: 82
56739757 TGATAAAAAA
* * * * *
56739767 TCGGCTATATATGGCACTTGGTGTGCGAGAATGGCATAGCTTCGGCTACATATGGCACTTAGTGT
1 TCGGCTACATATGGCACTTAGTGTCCGAGAATGGCATAGCTTCAGCTACATATGGCACTGAGTGT
56739832 GCAAGAATGAGATAGCT
66 GCAAGAATGAGATAGCT
* **
56739849 TCGGCTACATATGGCACTTAGTGTCCGAGAAATGTG-ATAGCTTCAGTTATGTATGGCACTGAGT
1 TCGGCTACATATGGCACTTAGTGTCCGAG-AATG-GCATAGCTTCAGCTACATATGGCACTGAGT
56739913 GTGCAAGA
64 GTGCAAGA
56739921 TATCGAGAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
82 26 0.42
83 35 0.56
84 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (82 bp):
TCGGCTACATATGGCACTTAGTGTCCGAGAATGGCATAGCTTCAGCTACATATGGCACTGAGTGT
GCAAGAATGAGATAGCT
Found at i:56744510 original size:19 final size:19
Alignment explanation
Indices: 56744486--56744522 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
56744476 CACTTTTTAA
56744486 ACCACACAAATTTCACATG
1 ACCACACAAATTTCACATG
56744505 ACCACACAAATTTCACAT
1 ACCACACAAATTTCACAT
56744523 CTTTTTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.22
Consensus pattern (19 bp):
ACCACACAAATTTCACATG
Found at i:56745400 original size:30 final size:30
Alignment explanation
Indices: 56745364--56745422 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
56745354 TCAAAAGTTC
56745364 TTCAGGAAACACATGAGGGAACTCACAAAA
1 TTCAGGAAACACATGAGGGAACTCACAAAA
* *
56745394 TTCAGGAAACACATTAGGGTACTCACAAA
1 TTCAGGAAACACATGAGGGAACTCACAAA
56745423 CAACAGGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (30 bp):
TTCAGGAAACACATGAGGGAACTCACAAAA
Found at i:56749593 original size:28 final size:28
Alignment explanation
Indices: 56749562--56749662 Score: 148
Period size: 28 Copynumber: 3.6 Consensus size: 28
56749552 TATTCATTTG
* * **
56749562 GCCCAATCTCATTCATATGGCCTATCGG
1 GCCCAATCACATTCATATGGCCCATCAA
56749590 GCCCAATCACATTCATATGGCCCATCAA
1 GCCCAATCACATTCATATGGCCCATCAA
* *
56749618 GCCCAATCACTTTCATATGGCCCGTCAA
1 GCCCAATCACATTCATATGGCCCATCAA
56749646 GCCCAATCACATTCATA
1 GCCCAATCACATTCATA
56749663 GTCATGCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.25
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCAA
Found at i:56754179 original size:28 final size:28
Alignment explanation
Indices: 56754136--56754206 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
56754126 TTATTCATTT
* *
56754136 TGGCCCATTTAGGCCCAATCTCATTCATA
1 TGGCCCA-TCAGGCCCAATCACATTCATA
* *
56754165 TGGTCTATCAGGCCCAATCACATTCATA
1 TGGCCCATCAGGCCCAATCACATTCATA
56754193 TGGCCCATCAGGCC
1 TGGCCCATCAGGCC
56754207 GAATATGGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
TGGCCCATCAGGCCCAATCACATTCATA
Found at i:56757507 original size:29 final size:28
Alignment explanation
Indices: 56757458--56757517 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
56757448 AAGAAGTTCT
* * *
56757458 TTTGTGGCAATTTTTGTAAAAGGACACC
1 TTTGTGGCAATCTATGTAAAAGGAAACC
56757486 TTTGTGGCAATCTATGTTAAAAGGAAACC
1 TTTGTGGCAATCTATG-TAAAAGGAAACC
56757515 TTT
1 TTT
56757518 ATGGTGATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (28 bp):
TTTGTGGCAATCTATGTAAAAGGAAACC
Found at i:56757527 original size:29 final size:29
Alignment explanation
Indices: 56757474--56757536 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
56757464 GCAATTTTTG
* * *
56757474 TAAAAGGACACCTTTGTGGCAATCTATGT
1 TAAAAGGAAACCTTTATGGCAATCTATAT
** *
56757503 TAAAAGGAAACCTTTATGGTGATCTCTAT
1 TAAAAGGAAACCTTTATGGCAATCTATAT
56757532 TAAAA
1 TAAAA
56757537 CTGCCTTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (29 bp):
TAAAAGGAAACCTTTATGGCAATCTATAT
Found at i:56760075 original size:20 final size:20
Alignment explanation
Indices: 56760050--56760115 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
56760040 AGTATTGGCA
56760050 GCTTGTCTGCAATTCTGGTG
1 GCTTGTCTGCAATTCTGGTG
*** **
56760070 GCTTGTAAAC-ATTACTGGCA
1 GCTTGTCTGCAATT-CTGGTG
* *
56760090 GCTTATCTGCAATACTGGTG
1 GCTTGTCTGCAATTCTGGTG
56760110 GCTTGT
1 GCTTGT
56760116 AAACATTACT
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 3 0.10
20 26 0.84
21 2 0.06
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
GCTTGTCTGCAATTCTGGTG
Found at i:56760090 original size:40 final size:40
Alignment explanation
Indices: 56760045--56760235 Score: 202
Period size: 40 Copynumber: 4.8 Consensus size: 40
56760035 GAGGAAGTAT
* *
56760045 TGGCAGCTTGTCTGCAATTCTGGTGGCTTGTAAACATTAC
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTAAACATTAC
56760085 TGGCAGCTTATCTGCAATACTGGTGGCTTGTAAACATTAC
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTAAACATTAC
* **
56760125 TGGCAGCTTATCTGCAACACTGGTGGCTTGTCCACATTAC
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTAAACATTAC
* * * * * * * ** * *
56760165 TGGAAACTTGTTTGAAAAACTTGTGGCTTGTCCACAATAT
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTAAACATTAC
* * *
56760205 TGGCAGTTTAACTGCAAATACTAGTGGCTTG
1 TGGCAGCTTATCTGC-AATACTGGTGGCTTG
56760236 ACCAAAAATT
Statistics
Matches: 127, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 114 0.90
41 13 0.10
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (40 bp):
TGGCAGCTTATCTGCAATACTGGTGGCTTGTAAACATTAC
Found at i:56760133 original size:20 final size:20
Alignment explanation
Indices: 56760070--56760133 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
56760060 AATTCTGGTG
56760070 GCTTGTAAACATTACTGGCA
1 GCTTGTAAACATTACTGGCA
* *** * **
56760090 GCTTATCTGCAATACTGGTG
1 GCTTGTAAACATTACTGGCA
56760110 GCTTGTAAACATTACTGGCA
1 GCTTGTAAACATTACTGGCA
56760130 GCTT
1 GCTT
56760134 ATCTGCAACA
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (20 bp):
GCTTGTAAACATTACTGGCA
Found at i:56760166 original size:20 final size:20
Alignment explanation
Indices: 56760064--56760167 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 20
56760054 GTCTGCAATT
*
56760064 CTGGTGGCTTGTAAACATTA
1 CTGGTGGCTTGTCAACATTA
** * ** *
56760084 CTGGCAGCTTATCTGCAATA
1 CTGGTGGCTTGTCAACATTA
*
56760104 CTGGTGGCTTGTAAACATTA
1 CTGGTGGCTTGTCAACATTA
** * ** **
56760124 CTGGCAGCTTATCTGCAACA
1 CTGGTGGCTTGTCAACATTA
*
56760144 CTGGTGGCTTGTCCACATTA
1 CTGGTGGCTTGTCAACATTA
56760164 CTGG
1 CTGG
56760168 AAACTTGTTT
Statistics
Matches: 55, Mismatches: 29, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (20 bp):
CTGGTGGCTTGTCAACATTA
Found at i:56767257 original size:10 final size:10
Alignment explanation
Indices: 56767242--56767278 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
56767232 GATGGAAAGA
56767242 AGCTCAAACG
1 AGCTCAAACG
56767252 AGCTCAAACG
1 AGCTCAAACG
* *
56767262 AGCTGAAACA
1 AGCTCAAACG
56767272 AGCTCAA
1 AGCTCAA
56767279 GTGAGCTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.43, C:0.27, G:0.19, T:0.11
Consensus pattern (10 bp):
AGCTCAAACG
Found at i:56769126 original size:18 final size:19
Alignment explanation
Indices: 56769055--56769137 Score: 57
Period size: 18 Copynumber: 4.5 Consensus size: 19
56769045 TCAGACTCAA
*
56769055 TTTCTTTTTCAATTTTCTT
1 TTTCTTTTTCAACTTTCTT
* *
56769074 TTTC-TTCTC-ACATTCTT
1 TTTCTTTTTCAACTTTCTT
** * * *
56769091 TTTCACTCTCGA-TCTCTT
1 TTTCTTTTTCAACTTTCTT
56769109 TTTCTTTTTC-ACTTTCTTT
1 TTTCTTTTTCAACTTTC-TT
56769128 TTTCTTTTTC
1 TTTCTTTTTC
56769138 TTATTCTCTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
17 11 0.22
18 22 0.44
19 17 0.34
ACGTcount: A:0.08, C:0.24, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTCTTTTTCAACTTTCTT
Found at i:56769144 original size:19 final size:20
Alignment explanation
Indices: 56769103--56769176 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 20
56769093 TCACTCTCGA
56769103 TCTCTTTTTCTTTTTCACTT
1 TCTCTTTTTCTTTTTCACTT
*
56769123 TCT-TTTTTCTTTTTC-TTAT
1 TCTCTTTTTCTTTTTCACT-T
56769142 TCTCTTTTTGCTTTCTTTCAC--
1 TCTCTTTTT-C-TT-TTTCACTT
*
56769163 ACTCTTTTTCTTTT
1 TCTCTTTTTCTTTT
56769177 GTTTCTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
18 3 0.07
19 18 0.40
20 9 0.20
21 9 0.20
22 2 0.04
23 4 0.09
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.70
Consensus pattern (20 bp):
TCTCTTTTTCTTTTTCACTT
Found at i:56769156 original size:25 final size:25
Alignment explanation
Indices: 56769105--56769159 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
56769095 ACTCTCGATC
* *
56769105 TCTTTTTCTTTTTCACTTTCTTTTT
1 TCTTTTTCTTATTCACTTTCTTCTT
*
56769130 TCTTTTTCTTATTCTCTTT-TTGCTT
1 TCTTTTTCTTATTCACTTTCTT-CTT
56769155 TCTTT
1 TCTTT
56769160 CACACTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (25 bp):
TCTTTTTCTTATTCACTTTCTTCTT
Found at i:56771164 original size:28 final size:28
Alignment explanation
Indices: 56771122--56771176 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
56771112 TTCATTCATT
*
56771122 CATGTGTACCGTCCAAAGTGAATGTATG
1 CATGTGTACCATCCAAAGTGAATGTATG
*
56771150 CATGTGTGCCATCCAAAGTGAATGTAT
1 CATGTGTACCATCCAAAGTGAATGTAT
56771177 CTTTTCAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (28 bp):
CATGTGTACCATCCAAAGTGAATGTATG
Found at i:56771600 original size:10 final size:10
Alignment explanation
Indices: 56771585--56771618 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
56771575 GCTGGAAAGA
56771585 AGCTAAAACG
1 AGCTAAAACG
56771595 AGCTAAAACG
1 AGCTAAAACG
* *
56771605 AGCTGAAACA
1 AGCTAAAACG
56771615 AGCT
1 AGCT
56771619 CAAGTGAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.12
Consensus pattern (10 bp):
AGCTAAAACG
Found at i:56780543 original size:19 final size:20
Alignment explanation
Indices: 56780519--56780556 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56780509 GGTACCACCA
56780519 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56780538 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56780557 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56786313 original size:27 final size:26
Alignment explanation
Indices: 56786294--56786363 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
56786284 ATATTAAGTC
56786294 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
56786321 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
56786349 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
56786364 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:56786357 original size:28 final size:28
Alignment explanation
Indices: 56786294--56786388 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
56786284 ATATTAAGTC
*
56786294 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56786321 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56786349 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56786378 CGCACACTTAG
1 CGCACACTTAG
56786389 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56794536 original size:28 final size:28
Alignment explanation
Indices: 56794473--56794595 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
56794463 ATATTAAGTC
*
56794473 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56794500 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
56794528 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56794556 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56794585 CGCACACTTAG
1 CGCACACTTAG
56794596 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56799601 original size:19 final size:20
Alignment explanation
Indices: 56799577--56799614 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56799567 GGTACCACCA
56799577 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56799596 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56799615 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56800006 original size:46 final size:46
Alignment explanation
Indices: 56799890--56800013 Score: 227
Period size: 46 Copynumber: 2.8 Consensus size: 46
56799880 CCGATAAGTA
56799890 ATAAGTGAACTCGGACTCAACTCAAC-AGTTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
56799935 ATAA--GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
56799979 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56800014 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
43 20 0.26
44 23 0.30
45 4 0.05
46 29 0.38
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
Found at i:56800032 original size:46 final size:45
Alignment explanation
Indices: 56799893--56800032 Score: 144
Period size: 46 Copynumber: 3.1 Consensus size: 45
56799883 ATAAGTAATA
* * *
56799893 AGTGAACTCGGACTCAACTCAAC-AGTTCGGACATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCACCATCC-T
* * * *
56799937 A-AGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCACCATCC-T
*
56799981 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTC-ACCATCCT
56800028 AGTGA
1 AGTGA
56800033 CATGTCACTT
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
43 20 0.24
44 22 0.26
45 1 0.01
46 36 0.42
47 1 0.01
48 5 0.06
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATACTCACCATCCT
Found at i:56800469 original size:30 final size:30
Alignment explanation
Indices: 56800435--56800494 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
56800425 ATTTAATACG
56800435 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
56800465 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
56800495 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:56803775 original size:25 final size:25
Alignment explanation
Indices: 56803728--56803775 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56803718 TTATAACATG
* * *
56803728 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
56803753 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
56803776 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56803964 original size:24 final size:24
Alignment explanation
Indices: 56803887--56803958 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
56803877 GGAGGAAGCG
56803887 CAAAAGGGCTTATGCCTC-AGTTAT
1 CAAAAGGGCTTATGCC-CAAGTTAT
56803911 CAAAAGGGCTTATGCCCCAA-TTAT
1 CAAAAGGGCTTATG-CCCAAGTTAT
* *
56803935 TAAAAGGGCTTTTGCCCAAGTTAT
1 CAAAAGGGCTTATGCCCAAGTTAT
56803959 GGAAAGAGGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.12
24 35 0.81
25 3 0.07
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCAAGTTAT
Found at i:56812275 original size:47 final size:47
Alignment explanation
Indices: 56812216--56812688 Score: 804
Period size: 47 Copynumber: 10.1 Consensus size: 47
56812206 GAAATGATAG
*
56812216 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56812263 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56812310 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56812357 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56812404 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56812451 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56812498 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56812545 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56812592 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
56812638 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56812685 TAAG
1 TAAG
56812689 TCCCGAAGGG
Statistics
Matches: 406, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
46 40 0.10
47 366 0.90
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56812863 original size:37 final size:37
Alignment explanation
Indices: 56812807--56812885 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56812797 CCGAGCTCTA
* * *
56812807 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56812844 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56812881 AAGAC
1 AAGAC
56812886 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56814786 original size:43 final size:43
Alignment explanation
Indices: 56814738--56814883 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
56814728 TTGGTTTTCA
56814738 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
56814781 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
56814824 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
56814867 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
56814884 TTGAAATGCA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:56814900 original size:29 final size:29
Alignment explanation
Indices: 56814865--56814938 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56814855 GTTGTGAGAT
* *
56814865 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56814894 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56814923 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56814939 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56815357 original size:41 final size:41
Alignment explanation
Indices: 56815253--56815349 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
56815243 TCGAATGATG
*
56815253 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTGACCAAA
* * * *
56815293 TCTGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTGAGTGACCAAA
56815333 TCCGGGCTAAGTCCCGA
1 TCCGGGCTAAGTCCCGA
56815350 GGAGCATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.02
40 38 0.81
41 8 0.17
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTGACCAAA
Found at i:56815376 original size:40 final size:40
Alignment explanation
Indices: 56815332--56815408 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
56815322 GAGTTACTAA
** * *
56815332 ATCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAACCCCGAAGAGCAATCATGCTAGTGATAT
* *
56815372 ATCCGTGCTAAACCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAACCCCGAAGAGCAATCATGCTAGTGA
56815409 CGTGTATTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAACCCCGAAGAGCAATCATGCTAGTGATAT
Found at i:56818808 original size:47 final size:47
Alignment explanation
Indices: 56818749--56819315 Score: 938
Period size: 47 Copynumber: 12.1 Consensus size: 47
56818739 GAAATGATAG
*
56818749 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56818796 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56818843 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56818890 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56818937 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
56818984 TAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56819031 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56819078 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56819125 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56819172 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56819219 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
56819265 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56819312 TAAG
1 TAAG
56819316 TCCCGAAGGG
Statistics
Matches: 495, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 0.08
47 455 0.92
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56819490 original size:37 final size:37
Alignment explanation
Indices: 56819434--56819512 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56819424 CTGAGCTCTA
* *
56819434 AAGACCCGATGACTACGTGTGGGGACTT-TGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGA-TTATGTCCGGGT
*
56819471 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56819508 AAGAC
1 AAGAC
56819513 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.05
37 36 0.95
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56822341 original size:46 final size:46
Alignment explanation
Indices: 56822291--56822466 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
56822281 TGATTGAGCA
56822291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56822337 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56822382 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
56822430 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56822467 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56822447 original size:93 final size:93
Alignment explanation
Indices: 56822288--56822459 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
56822278 GGATGATTGA
*
56822288 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
56822353 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56822381 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
56822445 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
56822460 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56824742 original size:25 final size:25
Alignment explanation
Indices: 56824713--56824760 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
56824703 TTATAACATG
* *
56824713 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
56824738 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
56824761 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56824844 original size:11 final size:11
Alignment explanation
Indices: 56824808--56824863 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
56824798 CATGGTATGT
56824808 ATGATATGCAC
1 ATGATATGCAC
* *
56824819 ATGACATG--T
1 ATGATATGCAC
56824828 ATGATATGCAC
1 ATGATATGCAC
*
56824839 ATGATATG--T
1 ATGATATGCAC
56824848 ATGATATGCAC
1 ATGATATGCAC
56824859 ATGAT
1 ATGAT
56824864 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56824863 original size:20 final size:20
Alignment explanation
Indices: 56824797--56824863 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
56824787 ATTTTGATAA
*
56824797 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
56824817 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
56824837 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56824857 ACATGAT
1 ACATGAT
56824864 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56824965 original size:24 final size:24
Alignment explanation
Indices: 56824912--56824959 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
56824902 GGAGGAAGTG
56824912 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
56824936 CAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
56824960 TGAAAGAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:56831575 original size:70 final size:70
Alignment explanation
Indices: 56831489--56831623 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
56831479 TAGTTTATTA
* * * * *
56831489 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTTGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
56831554 CTTAG
66 CTTAG
56831559 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
56831624 TTATGTGCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:56832461 original size:43 final size:43
Alignment explanation
Indices: 56832398--56832568 Score: 202
Period size: 43 Copynumber: 4.0 Consensus size: 43
56832388 TATCGAAATT
56832398 TGATATACGGGCTT-TGGGCCTAGCAGGCTATAATGCCAGTGAAA
1 TGATAT-CGGGCTTCT-GGCCTAGCAGGCTATAATGCCAGTGAAA
* *
56832442 TGATATCGGGCTTCTGGCCTAGCAGGTTATAATGCCAGTGAGA
1 TGATATCGGGCTTCTGGCCTAGCAGGCTATAATGCCAGTGAAA
* * * * * *
56832485 TAATATTGGGCCTCGGGCCTAGTAGGCTATAATGCCGGTGAAA
1 TGATATCGGGCTTCTGGCCTAGCAGGCTATAATGCCAGTGAAA
* ** *
56832528 TGATATAGGGCTTCAAGCCTAGCAGGCGA-AATGCCAGTGAA
1 TGATATCGGGCTTCTGGCCTAGCAGGCTATAATGCCAGTGAA
56832569 TGAATTCAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 11 0.10
43 90 0.83
44 7 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
TGATATCGGGCTTCTGGCCTAGCAGGCTATAATGCCAGTGAAA
Found at i:56838340 original size:70 final size:70
Alignment explanation
Indices: 56838264--56838398 Score: 207
Period size: 70 Copynumber: 1.9 Consensus size: 70
56838254 TAGTTTATTA
* * * * * *
56838264 CTAATTAATTTGCTGCTGTAATGCTGTAAATTGTTGGCTGTGCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
56838329 CTTAG
66 CTTAG
*
56838334 CTAATTAATATGCTGCTGTAATATTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
56838399 TTATGTGCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:56839922 original size:41 final size:40
Alignment explanation
Indices: 56839851--56840010 Score: 155
Period size: 41 Copynumber: 3.9 Consensus size: 40
56839841 GGGTTTAAAT
* * *
56839851 CCGAGCTTGGTTTTGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGTGCTAATAA
*
56839892 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAACTTAGTTTCGAAGGGCTTT-GAGCCAGTGCTAATAA
* * *
56839932 CCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGT-G-CTAATAA
* * *
56839973 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAACTTAGTTTCGAAGGGC-TTTGAGCCAGTGCTAA
56840011 GAATCGGGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
39 4 0.04
40 37 0.37
41 55 0.56
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAACTTAGTTTCGAAGGGCTTTGAGCCAGTGCTAATAA
Found at i:56840022 original size:41 final size:41
Alignment explanation
Indices: 56839851--56840032 Score: 153
Period size: 41 Copynumber: 4.5 Consensus size: 41
56839841 GGGTTTAAAT
* *
56839851 CCGAGCTTGGTTTTGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCCTTTGAGCCAGTGCTAATAA
* * * *
56839892 CCGAACTTAGTTTCGAAGGG-CTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCCTTT-GAGCCAGTGCTAATAA
* *
56839932 CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCCTTTGAGCCAGT-G-CTAATAA
* *
56839973 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAGAA
1 CCGAGCTTGGTCTCGAAGGGCCTTTGAGCCAGTGCTAATAA
* *
56840014 TCGGGCTTGAGTC-CGAAGG
1 CCGAGCTTG-GTCTCGAAGG
56840033 ATGTTTGTGC
Statistics
Matches: 116, Mismatches: 13, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
39 5 0.04
40 34 0.29
41 69 0.59
42 5 0.04
43 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCCTTTGAGCCAGTGCTAATAA
Found at i:56841657 original size:40 final size:40
Alignment explanation
Indices: 56841575--56841791 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
56841565 AAGCCAAGTA
* * *
56841575 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
56841613 CCTTCGGGACATAGCCCGGATATAGTAACTTGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56841653 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56841693 CCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56841733 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56841773 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56841792 TTATCATCCA
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 131 0.82
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56850680 original size:41 final size:40
Alignment explanation
Indices: 56850610--56850769 Score: 137
Period size: 41 Copynumber: 3.9 Consensus size: 40
56850600 GGGTTTAAAT
* *
56850610 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGTGCTAATAA
* *
56850651 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAATG-TCATAA
1 CCGAACTTAGTTTCGAAGGGCTTT-GAGCCAGTGCTAATAA
* * * *
56850691 CTGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGT-G-CTAATAA
* * * *
56850732 CCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAACTTAGTTTCGAAGGGC-TTTGAGCCAGTGCTAA
56850770 GAATCGGGCT
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
39 4 0.04
40 35 0.37
41 53 0.56
43 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAACTTAGTTTCGAAGGGCTTTGAGCCAGTGCTAATAA
Found at i:56852607 original size:43 final size:43
Alignment explanation
Indices: 56852545--56852695 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 43
56852535 TATCAAAATG
*
56852545 TGATATACGGGCTTTGGGCTTAGCAGGCTATAATGCCGGTGAAA
1 TGATAT-CGGGCTTCGGGCTTAGCAGGCTATAATGCCGGTGAAA
* *
56852589 TGATATCGGGCTTCGGGCTTCGGGCCTAGAAGGCTATAATGCCGGTGAGA
1 TGATATCGGGCTTCGGGC-T------TAGCAGGCTATAATGCCGGTGAAA
* * * * * *
56852639 TAATATTGGGCCTCGGGCCTAGCAGTCTATAATGCTGGTGAAA
1 TGATATCGGGCTTCGGGCTTAGCAGGCTATAATGCCGGTGAAA
56852682 TGATATCGGGCTTC
1 TGATATCGGGCTTC
56852696 AAGCCAAGCA
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
43 42 0.49
44 7 0.08
50 37 0.43
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCTTAGCAGGCTATAATGCCGGTGAAA
Done.