Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 153 of 328
Found at i:44763288 original size:80 final size:80
Alignment explanation
Indices: 44763110--44763297 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
44763100 TTCGAATGAT
* *
44763110 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
44763175 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
44763190 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
44763251 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
44763271 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
44763298 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:44771259 original size:40 final size:40
Alignment explanation
Indices: 44771180--44771337 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
44771170 TTCGAATGAT
* * * *
44771180 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
44771220 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
44771260 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
44771300 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
44771338 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:44771358 original size:80 final size:80
Alignment explanation
Indices: 44771180--44771367 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
44771170 TTCGAATGAT
* *
44771180 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
44771245 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
44771260 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
44771321 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
44771341 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
44771368 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:44774595 original size:28 final size:27
Alignment explanation
Indices: 44774507--44774596 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
44774497 GTGACAGAGT
* *
44774507 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** * *
44774536 CACCAGAACAGAT-ATACGCGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
44774563 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
44774591 CACCAG
1 CACCAG
44774597 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 22 0.45
28 20 0.41
29 7 0.14
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:44778263 original size:29 final size:29
Alignment explanation
Indices: 44778230--44778361 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
44778220 GTGACGAGAT
44778230 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
44778259 TGGCACTAAGTGTGCATGCTGGGAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
44778288 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
44778317 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
44778346 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44778362 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44785146 original size:40 final size:39
Alignment explanation
Indices: 44784981--44785164 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44784971 AAATTGAATG
* * *
44784981 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44785021 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44785061 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44785101 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44785140 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44785165 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44785189 original size:80 final size:81
Alignment explanation
Indices: 44785021--44785209 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44785011 GCTGGAAATT
* * * *
44785021 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44785086 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44785102 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44785165 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44785181 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44785210 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44787629 original size:16 final size:17
Alignment explanation
Indices: 44787608--44787648 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
44787598 TCTTAAACCA
* *
44787608 AAATTTTAAG-TAAGTC
1 AAATTTTAAGAAAAGAC
44787624 AAA-TTTAAGAAAAGAC
1 AAATTTTAAGAAAAGAC
44787640 AAATTTTAA
1 AAATTTTAA
44787649 CCGAGCTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.32
Consensus pattern (17 bp):
AAATTTTAAGAAAAGAC
Found at i:44795341 original size:50 final size:50
Alignment explanation
Indices: 44795274--44795374 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
44795264 AGGAATAAGA
*
44795274 AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTTGAAGAAGCT
1 AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAAGAAGCT
*
44795324 AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAATAAGCT
1 AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAAGAAGCT
44795374 A
1 A
44795375 CGTGGGAACC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (50 bp):
AAATTTCATTGGTGAAAGTCTTATGGCATCGACACGGGGTCGAAGAAGCT
Found at i:44796669 original size:43 final size:43
Alignment explanation
Indices: 44796591--44796692 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
44796581 ATTGAGATGT
* * * *
44796591 GATTACATGTAAGACCCTGTGTGAGACAGTGGCATTG-TATTAC
1 GATTACGTGTAAGACCATGTGTGAGACAGTAGCATTGTTAAT-C
44796634 GATTACGTGTAAGACCATGTGTG-GAACA-TCAGCATTGTTAATC
1 GATTACGTGTAAGACCATGTGTGAG-ACAGT-AGCATTGTTAATC
44796677 GACTT-CGTGTAAGACC
1 GA-TTACGTGTAAGACC
44796693 CTATATGGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.04
43 44 0.86
44 5 0.10
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTGTGAGACAGTAGCATTGTTAATC
Found at i:44805963 original size:19 final size:19
Alignment explanation
Indices: 44805938--44805986 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
44805928 ACATAAAAAT
44805938 AAAATAAAAACTAATCAAA-
1 AAAATAAAAA-TAATCAAAC
* *
44805957 GAAATAAATAATAATGAAAC
1 AAAATAAA-AATAATCAAAC
44805977 AAAATAAAAA
1 AAAATAAAAA
44805987 AGGATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (19 bp):
AAAATAAAAATAATCAAAC
Found at i:44806157 original size:13 final size:13
Alignment explanation
Indices: 44806141--44806180 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
44806131 AAAAAGAAAG
44806141 AGAAAGAAAGGGA
1 AGAAAGAAAGGGA
*
44806154 AGAAAG-GAGGGA
1 AGAAAGAAAGGGA
44806166 GAGAAAGAAAGGGA
1 -AGAAAGAAAGGGA
44806180 A
1 A
44806181 AGGGGGAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 13 0.57
14 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGGGA
Found at i:44812200 original size:29 final size:30
Alignment explanation
Indices: 44812158--44812245 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
44812148 TTTGAATCAC
* * *
44812158 AATTAGAATTTCATGTTTATAATTGCACCA
1 AATTAGAAATTCATGTATACAATTGCACCA
*
44812188 AATTA-AAATTCATGTATACAATTGCACATTA
1 AATTAGAAATTCATGTATACAATTGCAC--CA
* *
44812219 AATCA-AAGTTCATGTATACAATTGCAC
1 AATTAGAAATTCATGTATACAATTGCAC
44812246 ATTAAATTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.38
30 5 0.10
31 26 0.52
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (30 bp):
AATTAGAAATTCATGTATACAATTGCACCA
Found at i:44812234 original size:31 final size:31
Alignment explanation
Indices: 44812187--44812267 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
44812177 TAATTGCACC
*
44812187 AAATTAAAATTCATGTATACAATTGCACATT
1 AAATTAAAGTTCATGTATACAATTGCACATT
*
44812218 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATTAAAGTTCATGTATACAATTGCACATT
*
44812249 AAATTAAAGTTCATATATA
1 AAATTAAAGTTCATGTATA
44812268 ATTTTGAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (31 bp):
AAATTAAAGTTCATGTATACAATTGCACATT
Found at i:44812350 original size:50 final size:50
Alignment explanation
Indices: 44812294--44812396 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
44812284 CTTAAAATTA
*
44812294 ATATGATATTTTTTAAAATTAATTTTCAAGTCAGACAATTTGCCCAATGG
1 ATATGATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
44812344 ATATGATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
1 ATATGATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
44812394 ATA
1 ATA
44812397 ATTAAACTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (50 bp):
ATATGATATTTTTTAAAATTAATTTTCAAGTCAGACAATTGGCCCAATGG
Found at i:44812799 original size:17 final size:17
Alignment explanation
Indices: 44812779--44812876 Score: 62
Period size: 17 Copynumber: 5.8 Consensus size: 17
44812769 ATTTTAATAG
44812779 ATTTAATATTTAGT-TTA
1 ATTTAATATTTA-TATTA
* *
44812796 ATTTAATACTTATCTTA
1 ATTTAATATTTATATTA
44812813 A--TAATATTT-TATTA
1 ATTTAATATTTATATTA
*
44812827 ATTTAATATTAAAGTGATTA
1 ATTTAATATT-TA-T-ATTA
** *
44812847 CCTTAATA-TTAAATTTA
1 ATTTAATATTTATA-TTA
44812864 ATTTAATATTTAT
1 ATTTAATATTTAT
44812877 CTTATAGATA
Statistics
Matches: 61, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
14 5 0.08
15 7 0.11
16 9 0.15
17 24 0.39
18 4 0.07
19 2 0.03
20 10 0.16
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAATATTTATATTA
Found at i:44812915 original size:61 final size:58
Alignment explanation
Indices: 44812849--44812964 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
44812839 AGTGATTACC
* *
44812849 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAAAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAAT
* *
44812910 TTAATATTAAATTTCATCTAATATTTATCTTGATAACTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
44812965 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAAT
Found at i:44819933 original size:28 final size:28
Alignment explanation
Indices: 44819895--44819964 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
44819885 TGGTTATACA
*
44819895 TATATTATATATATGCATGACTTTATCT
1 TATATAATATATATGCATGACTTTATCT
* *
44819923 TATATAATATATATGCATGGCTTTATTT
1 TATATAATATATATGCATGACTTTATCT
* *
44819951 TACATAGTATATAT
1 TATATAATATATAT
44819965 TAATGGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (28 bp):
TATATAATATATATGCATGACTTTATCT
Found at i:44820362 original size:36 final size:35
Alignment explanation
Indices: 44820275--44820385 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 35
44820265 AGCCAATTAT
* **
44820275 ATTT-GTGTATTGTATTATATTGTGAACCATGTTA
1 ATTTGGTGAATTGTATTATATTGTGAACTGTGTTA
* *
44820309 ACTTGGTGAATTATATTATTATTGTGAACTGTGTTA
1 ATTTGGTGAATTGTATTA-TATTGTGAACTGTGTTA
* * **
44820345 ATTTGGT-ACTCTGTATTAATATGGTGAACTGCATTA
1 ATTTGGTGAAT-TGTATT-ATATTGTGAACTGTGTTA
44820381 ATTTG
1 ATTTG
44820386 TCAAATTGTG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
34 3 0.05
35 13 0.21
36 45 0.73
37 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (35 bp):
ATTTGGTGAATTGTATTATATTGTGAACTGTGTTA
Found at i:44821133 original size:12 final size:13
Alignment explanation
Indices: 44821097--44821134 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
44821087 AAATATTTGA
44821097 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
44821110 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
44821124 CTTG-TCTTAAT
1 CTTGTTCTTAAT
44821135 ATTCCAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:44821228 original size:23 final size:23
Alignment explanation
Indices: 44821202--44821247 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44821192 CTAAGAGTAA
44821202 ATTTGTCATAATTAAGCGAAGTT
1 ATTTGTCATAATTAAGCGAAGTT
44821225 ATTTGTCATAATTAAGCGAAGTT
1 ATTTGTCATAATTAAGCGAAGTT
44821248 GATTGCACGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (23 bp):
ATTTGTCATAATTAAGCGAAGTT
Found at i:44826206 original size:4 final size:4
Alignment explanation
Indices: 44826197--44828340 Score: 2973
Period size: 4 Copynumber: 537.2 Consensus size: 4
44826187 AATAATAATA
44826197 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
44826245 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44826293 ACAT ACA- AGCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
** * * ** *
44826341 GTAT ACAT ACAT GCAT ACAT ACAT GCAT GTAT ACAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
44826389 GCAT ACAT ACAT ACAT GCAT ACAT ACAT GCAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44826437 ACAT GA-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * **
44826485 ACAT ACAT GCAT GCAT ACAT ACAT ACAT GCAT ACAT GTAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
44826533 GCAT ACAT GCAT ACAT GCAT ACAT ACAT GCAT ACAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
44826581 ACCT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-A-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
44826627 AAAT A-AT A-AT A-AT A-AT AACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT
** *
44826672 ACAT ACAT ACAT ACAT ACAT ACAT ACAT GTAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
44826720 ACAT ACAT GCAT ACAT ACAT CCAT GCAT ACAT ACAT CCAT ACAT CCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * *
44826768 CCAT CCAT CCAT CCAT CCAT CCAT CCAT CCAT CCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44826816 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
44826864 ACAT ACAT ACAT ACAT ACAT ACAT CCAT GCAT ACAT ACAT ACAT CCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
44826912 GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
44826960 ACAT GCAT ACAT ATAT CCAT GCAT ACAT ACAT CCAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
44827008 ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
44827056 ACAT ACAA ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44827104 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
44827152 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT CCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
44827200 GCAT GCAT ACAT CCAT ACAT GCAT GCAT ACAT CCAT ACAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
44827248 ACAT ACAT ACAT AAAAGT A-AT A-AT A-AT AACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT -ACA-T ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT
44827296 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
44827344 ACAT ACAT GCAT ACAT GCAT ACAT ACAT CCAT GCAT ACAT GCAT CCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
44827392 GCAT ACAT GCAT CCAT GCAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
44827440 GCAT ACAT GCAT -CTAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT
1 ACAT ACAT ACAT AC-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44827488 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
44827536 ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAG ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
44827584 ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT CCAT CCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
44827632 ACAT ACAT GCAT ATAT ACAT CCAT GCAT ACAT ACAT CCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
44827680 ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT ATAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
44827728 ACAT -CTAT ACAT ATAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT
1 ACAT AC-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
44827776 ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT CCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
44827824 TCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT CCAT ACAT ATAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44827872 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
44827920 ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
44827968 ACAT ACAT ACAT CCAT CCAT CCAT CCAT CCAT CCAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
44828016 ACAT ATAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT AGAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
44828064 ACAT CCAT GCAT ACAT ACAT CCAT GCAT ACAT ACAT ACAT CCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
44828112 ATAT ACAT ACAT CCAT ACAT CCAT ACAT ACAT ACAT ACAT CCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
44828160 ACAT ACAT CCAT GCAT ACAT ATAT ACAT GCAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44828208 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
44828256 ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
44828304 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
44828341 ACAATTTTTG
Statistics
Matches: 1931, Mismatches: 193, Indels: 32
0.90 0.09 0.01
Matches are distributed among these distances:
2 1 0.00
3 24 0.01
4 1894 0.98
5 11 0.01
6 1 0.00
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:44834883 original size:17 final size:19
Alignment explanation
Indices: 44834849--44834892 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
44834839 AATATTTATT
44834849 TAATATTTTACCTAAAATAA
1 TAATATTTTA-CTAAAATAA
44834869 TAATATTTTA-T-AAATAA
1 TAATATTTTACTAAAATAA
44834886 TATATAT
1 TA-ATAT
44834893 ATATAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
20 10 0.43
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATATTTTACTAAAATAA
Found at i:44835928 original size:17 final size:16
Alignment explanation
Indices: 44835904--44835935 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
44835894 TTTTTCAAAA
44835904 ATTTATTTTAATTTTC
1 ATTTATTTTAATTTTC
44835920 ATTTCATTTTAATTTT
1 ATTT-ATTTTAATTTT
44835936 TTTAACCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTATTTTAATTTTC
Found at i:44836549 original size:51 final size:51
Alignment explanation
Indices: 44836485--44836617 Score: 137
Period size: 51 Copynumber: 2.7 Consensus size: 51
44836475 TGGAAACATG
* *
44836485 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * ** * * ** *
44836536 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
*
44836587 ATC---TAAGATATGATATTATATTCTTAGAGAT
1 ATCTTATAAGATATGATATTATAATCTTAGAGAT
44836618 TTGATGGTAG
Statistics
Matches: 64, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
48 21 0.33
51 43 0.67
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:44838468 original size:96 final size:96
Alignment explanation
Indices: 44838302--44838591 Score: 429
Period size: 96 Copynumber: 3.0 Consensus size: 96
44838292 GTGTCCGAGG
* * * * * * *
44838302 AAGTCTGTTATCGATGGGAATGATCGAGTAGATACGGAGCCC-AGGAAGCTTGGTTCGAGCAAGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGG-AGCTTGGTTCGAGCAAGG
*
44838366 GAAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
65 GTAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
44838398 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGGAGTTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGGAGCTTGGTTCGAGCAAGGG
*
44838463 TAAAGCCGAAGCCAAGAGGGCAAAGAGAAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
* * * *
44838494 AAGTCTGTCATCAAAGGAAACGATGGAGCAGACAAGGAGCCTAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGGAGCTTGGTTCGAGCAAGGG
*
44838559 TAAAGCCGAAGCCAAGAGGGCTAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
44838590 AA
1 AA
44838592 AAAGAAGCGA
Statistics
Matches: 176, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 173 0.98
97 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGGAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:44839594 original size:19 final size:19
Alignment explanation
Indices: 44839570--44839662 Score: 62
Period size: 14 Copynumber: 5.3 Consensus size: 19
44839560 TATTATTTTA
44839570 TAAGATTACATATCTTATC
1 TAAGATTACATATCTTATC
* *
44839589 TAAG-----ATATGTAATC
1 TAAGATTACATATCTTATC
44839603 ATAAGATTACATATCTTATC
1 -TAAGATTACATATCTTATC
* *
44839623 TAAG-----ATATGTAATC
1 TAAGATTACATATCTTATC
44839637 ATAAGATTACATATCTTATC
1 -TAAGATTACATATCTTATC
44839657 TAAGAT
1 TAAGAT
44839663 ATGTAATCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 24
0.63 0.09 0.28
Matches are distributed among these distances:
14 16 0.30
15 8 0.15
19 14 0.26
20 16 0.30
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.39
Consensus pattern (19 bp):
TAAGATTACATATCTTATC
Found at i:44839595 original size:34 final size:34
Alignment explanation
Indices: 44839569--44839670 Score: 204
Period size: 34 Copynumber: 3.0 Consensus size: 34
44839559 ATATTATTTT
44839569 ATAAGATTACATATCTTATCTAAGATATGTAATC
1 ATAAGATTACATATCTTATCTAAGATATGTAATC
44839603 ATAAGATTACATATCTTATCTAAGATATGTAATC
1 ATAAGATTACATATCTTATCTAAGATATGTAATC
44839637 ATAAGATTACATATCTTATCTAAGATATGTAATC
1 ATAAGATTACATATCTTATCTAAGATATGTAATC
44839671 TTAGAAGATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (34 bp):
ATAAGATTACATATCTTATCTAAGATATGTAATC
Found at i:44839596 original size:51 final size:51
Alignment explanation
Indices: 44839498--44839609 Score: 120
Period size: 51 Copynumber: 2.2 Consensus size: 51
44839488 TGGAAACATG
* * * *
44839498 ATCTTAAAAGATATGATATTATAATATTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGGA
* * * ** *
44839549 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTATAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGGA
44839600 ATC--ATAAGAT
1 ATCTTATAAGAT
44839610 TACATATCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 7 0.14
51 44 0.86
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (51 bp):
ATCTTATAAGATATGATATTATAAGATTACAGATCTTAGATAAGATATGGA
Found at i:44839671 original size:19 final size:19
Alignment explanation
Indices: 44839581--44839673 Score: 62
Period size: 19 Copynumber: 5.3 Consensus size: 19
44839571 AAGATTACAT
44839581 ATCTTATCTAAGATATGTA
1 ATCTTATCTAAGATATGTA
**
44839600 ATC--A--TAAGAT-TACA
1 ATCTTATCTAAGATATGTA
44839614 TATCTTATCTAAGATATGTA
1 -ATCTTATCTAAGATATGTA
**
44839634 ATC--A--TAAGAT-TACA
1 ATCTTATCTAAGATATGTA
44839648 TATCTTATCTAAGATATGTA
1 -ATCTTATCTAAGATATGTA
44839668 ATCTTA
1 ATCTTA
44839674 GAAGATATGA
Statistics
Matches: 54, Mismatches: 8, Indels: 24
0.63 0.09 0.28
Matches are distributed among these distances:
14 4 0.07
15 18 0.33
17 4 0.07
19 24 0.44
20 4 0.07
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (19 bp):
ATCTTATCTAAGATATGTA
Found at i:44841311 original size:21 final size:21
Alignment explanation
Indices: 44841285--44841339 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
44841275 AACAGTGGTG
* *
44841285 GCGGTGAAATTAGTTACTGTA
1 GCGGTGAAATTAGGTACTATA
* *
44841306 GCGGTGAGATTGGGTACTATA
1 GCGGTGAAATTAGGTACTATA
* *
44841327 GCGATGATATTAG
1 GCGGTGAAATTAG
44841340 AAACAATAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.31
Consensus pattern (21 bp):
GCGGTGAAATTAGGTACTATA
Found at i:44841600 original size:35 final size:35
Alignment explanation
Indices: 44841534--44841609 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
44841524 AATAAAATTT
*
44841534 AAATATTTTTAAATTATATTCATAATAAAAT-ATCA
1 AAATATTTTCAAATTATATTCATAATAAAATAAT-A
* *
44841569 AAATATTTTACAAATTATATTTA-AATCAAATAATA
1 AAATATTTT-CAAATTATATTCATAATAAAATAATA
44841604 AAATAT
1 AAATAT
44841610 AAATTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (35 bp):
AAATATTTTCAAATTATATTCATAATAAAATAATA
Found at i:44841677 original size:17 final size:18
Alignment explanation
Indices: 44841642--44841680 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44841632 AATTTATAAA
*
44841642 TAAAAATTATATATTTAT
1 TAAAAATTATATATATAT
*
44841660 TAAAAATTGTAT-TATAT
1 TAAAAATTATATATATAT
44841677 TAAA
1 TAAA
44841681 TAATGACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAAAATTATATATATAT
Found at i:44850463 original size:18 final size:18
Alignment explanation
Indices: 44850442--44850488 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
44850432 TATATTAGAT
*
44850442 ATAAAAATGTGATTTTTA
1 ATAAAAATGTGATTTTAA
44850460 ATAAAAAT-T-ATTTTAA
1 ATAAAAATGTGATTTTAA
*
44850476 AAATAAAATGTGA
1 ATA-AAAATGTGA
44850489 AACCGATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 9 0.38
19 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (18 bp):
ATAAAAATGTGATTTTAA
Found at i:44855828 original size:25 final size:26
Alignment explanation
Indices: 44855792--44855840 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
44855782 AATACTTATC
44855792 TTAATAGTATTATATTAAT-TTAATA
1 TTAATAGTATTATATTAATATTAATA
*
44855817 TTAA-AGTGATTATCTTAATATTAA
1 TTAATAGT-ATTATATTAATATTAA
44855841 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
TTAATAGTATTATATTAATATTAATA
Found at i:44855839 original size:68 final size:67
Alignment explanation
Indices: 44855763--44855959 Score: 232
Period size: 62 Copynumber: 3.0 Consensus size: 67
44855753 TTTAATAGAT
*
44855763 TTAATATTAAATTTAATTTAATACTTATCTTAAT-AGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
44855827 TA
66 TA
* * *
44855829 TCTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTT-A-A-CAAA
1 --TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAAA
44855891 ---A--A
61 GTGATTA
* *
44855893 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
44855958 TA
66 TA
44855960 AGTTTAGTCA
Statistics
Matches: 108, Mismatches: 9, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 31 0.29
64 1 0.01
65 1 0.01
66 1 0.01
67 1 0.01
68 28 0.26
69 4 0.04
70 3 0.03
71 3 0.03
72 14 0.13
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (67 bp):
TTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
TA
Found at i:44857295 original size:40 final size:40
Alignment explanation
Indices: 44857251--44857428 Score: 275
Period size: 40 Copynumber: 4.5 Consensus size: 40
44857241 AACCCAATTA
* * ** *
44857251 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44857291 CCTTCGGGACTTAACCCGGAAATAGCGACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
44857331 CCTTCGGGGCTTAACCCGGAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
44857371 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
44857411 CCTTCGGGACTTAACCCG
1 CCTTCGGGACTTAACCCG
44857429 AATATAATCC
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.17
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:44860699 original size:26 final size:26
Alignment explanation
Indices: 44860670--44860777 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
44860660 TGGTACAAAT
44860670 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44860696 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44860722 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44860748 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44860774 TGAT
1 TGAT
44860778 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44862808 original size:137 final size:137
Alignment explanation
Indices: 44862562--44862848 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
44862552 GAGTAGTCTC
44862562 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44862627 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44862692 ACTGTTA
131 ACTGTTA
44862699 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44862764 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44862829 ACTGTTA
131 ACTGTTA
**
44862836 CCTGAATGGGCTT
1 CCCAAATGGGCTT
44862849 AGGCCTAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:44864743 original size:24 final size:24
Alignment explanation
Indices: 44864698--44864744 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44864688 AGGACTGTAA
**
44864698 AGGAGTTCCAAGATGTTTCTCCGG
1 AGGAGTTCCAAGATGTGCCTCCGG
44864722 AGGAGCTTCCAAGAT-TGCCTCCG
1 AGGAG-TTCCAAGATGTGCCTCCG
44864745 AACCGAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (24 bp):
AGGAGTTCCAAGATGTGCCTCCGG
Found at i:44867896 original size:25 final size:26
Alignment explanation
Indices: 44867841--44867946 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 26
44867831 TGGTACAAAT
44867841 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44867867 TGATAATGGATTAGGT-AATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44867892 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44867918 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44867943 TGAT
1 TGAT
44867947 GGCATTTCAT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
25 44 0.60
26 29 0.40
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44867901 original size:51 final size:51
Alignment explanation
Indices: 44867841--44867946 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
44867831 TGGTACAAAT
44867841 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGT-AATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATATTCCA
* *
44867892 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
44867943 TGAT
1 TGAT
44867947 GGCATTTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 6 0.12
51 46 0.88
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
Found at i:44869973 original size:137 final size:137
Alignment explanation
Indices: 44869727--44870013 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
44869717 GAGTAGTCTC
44869727 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
44869792 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44869857 ACTGTTA
131 ACTGTTA
44869864 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44869929 TGTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
44869994 AGTGTTA
131 ACTGTTA
**
44870001 CCTGAATGGGCTT
1 CCCAAATGGGCTT
44870014 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:44871819 original size:25 final size:26
Alignment explanation
Indices: 44871783--44871831 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
44871773 CGCTCAAATT
44871783 ATTTCTAGTATTTATTTT-TATTTTA
1 ATTTCTAGTATTTATTTTATATTTTA
44871808 ATTT-TAGTTATTTATTTTATATTT
1 ATTTCTAG-TATTTATTTTATATTT
44871832 AGATTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.64
26 5 0.23
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (26 bp):
ATTTCTAGTATTTATTTTATATTTTA
Found at i:44871832 original size:19 final size:18
Alignment explanation
Indices: 44871781--44871833 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
44871771 TGCGCTCAAA
44871781 TTATTTCTAGTATTTA-TTT
1 TTATTT-TA-TATTTAGTTT
44871800 TTATTTTA-ATTTTAGTTAT
1 TTATTTTATA-TTTAGTT-T
44871819 TTATTTTATATTTAG
1 TTATTTTATATTTAG
44871834 ATTTAATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.03
17 4 0.13
18 4 0.13
19 20 0.67
20 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (18 bp):
TTATTTTATATTTAGTTT
Found at i:44871832 original size:25 final size:26
Alignment explanation
Indices: 44871783--44871837 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
44871773 CGCTCAAATT
44871783 ATTTCTAGTATTTATTTTTATTTTA-
1 ATTTCTAGTATTTATTTTTATTTTAG
44871808 ATTT-TAGTTATTTA-TTTTATATTTAG
1 ATTTCTAG-TATTTATTTTTAT-TTTAG
44871834 ATTT
1 ATTT
44871838 AATCTCCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.33
25 14 0.52
26 4 0.15
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.67
Consensus pattern (26 bp):
ATTTCTAGTATTTATTTTTATTTTAG
Found at i:44873324 original size:25 final size:24
Alignment explanation
Indices: 44873283--44873330 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
44873273 GGGTCCCTTT
*
44873283 TCCTTTTATTTTATTTTGATTTAA
1 TCCTTTTATTTTATTTTAATTTAA
* *
44873307 TCCTTTTTTTCTTCTTTTAATTTA
1 TCCTTTTATT-TTATTTTAATTTA
44873331 TGCTTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.69
Consensus pattern (24 bp):
TCCTTTTATTTTATTTTAATTTAA
Found at i:44875613 original size:29 final size:29
Alignment explanation
Indices: 44875581--44875712 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
44875571 ATAGTGAATC
44875581 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44875610 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
44875640 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
44875669 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44875698 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44875713 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:44875722 original size:59 final size:59
Alignment explanation
Indices: 44875581--44875712 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
44875571 ATAGTGAATC
44875581 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
44875640 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
44875698 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44875713 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:44875733 original size:58 final size:60
Alignment explanation
Indices: 44875581--44875742 Score: 188
Period size: 59 Copynumber: 2.7 Consensus size: 60
44875571 ATAGTGAATC
* * * *
44875581 CGCACACTTAGTGCTATATATTTT-CAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAACCTCACACACTTAGTGCTATATAATTTTCAGCT
* * * * *
44875640 CGCACACTTAGTGCTATATATTTT-CAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATAAATTTTAAACCTCACACACTTAGTGCTATATAATTTTCAGCT
*
44875698 CGCACACTTAGTGCTGTACAATTTTTAAACC-CACACACTTAGTGC
1 CGCACACTTAGTGCTATA-AA-TTTTAAACCTCACACACTTAGTGC
44875743 CAATCTTGTC
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
58 26 0.28
59 49 0.52
60 17 0.18
61 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (60 bp):
CGCACACTTAGTGCTATAAATTTTAAACCTCACACACTTAGTGCTATATAATTTTCAGCT
Found at i:44877035 original size:19 final size:18
Alignment explanation
Indices: 44877011--44877046 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44877001 CCCCCTTTTT
*
44877011 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
44877030 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
44877047 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:44883293 original size:29 final size:29
Alignment explanation
Indices: 44883261--44883392 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
44883251 ATAGTGAATC
44883261 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44883290 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
44883320 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
44883349 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44883378 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44883393 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:44883402 original size:59 final size:59
Alignment explanation
Indices: 44883261--44883392 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
44883251 ATAGTGAATC
44883261 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
44883320 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
44883378 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44883393 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:44884714 original size:19 final size:18
Alignment explanation
Indices: 44884690--44884725 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44884680 CCCCCTTTTT
*
44884690 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
44884709 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
44884726 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:44887538 original size:40 final size:40
Alignment explanation
Indices: 44887472--44887622 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
44887462 AAATTGAATG
* * *
44887472 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44887511 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44887551 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44887591 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44887623 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44887636 original size:40 final size:40
Alignment explanation
Indices: 44887509--44887638 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
44887499 ATGCTGGAAA
* * *
44887509 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
44887549 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
44887589 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44887629 TTATATCCGG
1 TTATATCCGG
44887639 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44895568 original size:40 final size:40
Alignment explanation
Indices: 44895483--44895633 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
44895473 AATTGAATGA
* * * **
44895483 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
44895523 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
44895564 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
44895603 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44895634 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:44895647 original size:40 final size:40
Alignment explanation
Indices: 44895520--44895649 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
44895510 ATGCTGGAAA
* * *
44895520 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
44895560 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
44895600 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44895640 TTATATCCGG
1 TTATATCCGG
44895650 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44901202 original size:31 final size:31
Alignment explanation
Indices: 44901157--44901242 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
44901147 TCAATCTCAG
*
44901157 CATAT-ACTGAGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
44901187 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
44901218 CATATCACTGGGTCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
44901243 TGTAACAGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:44901496 original size:26 final size:26
Alignment explanation
Indices: 44901460--44901555 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
44901450 CTCTTTTAAT
* *
44901460 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
44901486 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
44901512 AACTGGGGCAAAA-CCCTTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
44901536 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
44901556 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
23 2 0.03
24 16 0.24
25 11 0.17
26 37 0.56
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:44909976 original size:41 final size:42
Alignment explanation
Indices: 44909887--44910025 Score: 156
Period size: 45 Copynumber: 3.2 Consensus size: 42
44909877 GTCCTAGGCG
* *
44909887 TGGTCTTACATGTAATCACATATCGATGCCATTGTCCCAAACA
1 TGGTCTTACATGTAATCAAATATCGATGCCA-TGTCCCAGACA
* *
44909930 GGGTCTTACATG-AATCAAATA-CGATACCGATGTCCCAGACA
1 TGGTCTTACATGTAATCAAATATCGATGCC-ATGTCCCAGACA
* * *
44909971 TGGTCTTACACGTAACCATATATATCGATGCCAATGTCCCAGACG
1 TGGTCTTACATGTAATCA-A-ATATCGATGCC-ATGTCCCAGACA
44910016 TGGTCTTACA
1 TGGTCTTACA
44910026 CGAGAACACA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
41 26 0.32
42 13 0.16
43 12 0.15
44 3 0.04
45 27 0.33
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
TGGTCTTACATGTAATCAAATATCGATGCCATGTCCCAGACA
Found at i:44910012 original size:45 final size:42
Alignment explanation
Indices: 44909869--44910028 Score: 142
Period size: 45 Copynumber: 3.7 Consensus size: 42
44909859 ATATTGTACA
* * * * * * *
44909869 ATGCCAACGTCCTAGGCGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AACCAAATATCG
* * * * *
44909912 ATGCCATTGTCCCAAACAGGGTCTTACATGAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAACCAAATATCG
* *
44909953 ATACCGATGTCCCAGACATGGTCTTACACGTAACCATATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AACCA-A-ATATCG
*
44909998 ATGCCAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
44910029 GAACACATAT
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 26 0.27
42 12 0.13
43 24 0.25
44 4 0.04
45 29 0.31
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAACCAAATATCG
Found at i:44910593 original size:29 final size:28
Alignment explanation
Indices: 44910542--44910601 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
44910532 AAGTCCATAC
* *
44910542 ATTTCATTTATTTTACATTTTAGTCTCTTA
1 ATTTCATTAATTTTACAATTTAGT-TC-TA
*
44910572 ATTT-ATTAATTTTTCAATTTAGTTCTA
1 ATTTCATTAATTTTACAATTTAGTTCTA
44910599 ATT
1 ATT
44910602 GCTCAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 2 0.07
29 16 0.59
30 4 0.15
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (28 bp):
ATTTCATTAATTTTACAATTTAGTTCTA
Found at i:44912729 original size:40 final size:40
Alignment explanation
Indices: 44912674--44912841 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
44912664 TGAATGATAC
* *
44912674 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
44912714 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
44912754 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * * *
44912794 CCGAGTTAAGACCCGAAGGTAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
44912834 CC-GGCTAA
1 CCGGGCTAA
44912842 ATTCTGAAGA
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
39 5 0.05
40 96 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:44912831 original size:80 final size:80
Alignment explanation
Indices: 44912674--44912841 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
44912664 TGAATGATAC
* * ** * * *
44912674 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGAGCTAAGACCCGAAGGAATTCG
*
44912739 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* * *
44912754 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGAGTTAAGACCCGAAGGTAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGAGCTAAGACCCGAAGG-AATTC
**
44912818 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
44912834 CC-GGCTAA
1 CCGGGCTAA
44912842 ATTCTGAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 65 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGAGCTAAGACCCGAAGGAATTCG
TGCGAGTGGTTATAT
Found at i:44919289 original size:28 final size:28
Alignment explanation
Indices: 44919224--44919324 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44919214 ATAGTGAATC
*
44919224 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
44919253 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44919281 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
44919311 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44919325 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44926586 original size:19 final size:18
Alignment explanation
Indices: 44926562--44926597 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44926552 CCCCCTTTTT
*
44926562 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
44926581 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
44926598 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:44932851 original size:29 final size:29
Alignment explanation
Indices: 44932819--44932950 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
44932809 ATAGTGAATC
44932819 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44932848 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
44932878 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
44932907 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44932936 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44932951 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:44932960 original size:59 final size:59
Alignment explanation
Indices: 44932819--44932950 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
44932809 ATAGTGAATC
44932819 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
44932878 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
44932936 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44932951 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:44934273 original size:19 final size:18
Alignment explanation
Indices: 44934249--44934284 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44934239 CCCCCTTTTT
*
44934249 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
44934268 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
44934285 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:44943065 original size:47 final size:47
Alignment explanation
Indices: 44943011--44943186 Score: 220
Period size: 47 Copynumber: 3.8 Consensus size: 47
44943001 GGTAGAATGC
44943011 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
* ** *
44943058 CGATGCCATGTCCCAAACATGGTCTTACACT--AACACATCTCATAG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCA-AGT
* *
44943103 CTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-GT
44943150 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
44943187 CAATAACCTA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
44 10 0.09
45 23 0.21
46 17 0.16
47 45 0.41
48 14 0.13
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
Found at i:44943174 original size:92 final size:93
Alignment explanation
Indices: 44943012--44943180 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
44943002 GTAGAATGCC
*
44943012 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACA
44943077 TGGTCTTACACTAACACATCTCATAGCT
66 TGGTCTTACACTAACACATCTCATAGCT
* *
44943105 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCCAAA
44943167 CATGGTCTTACACT
64 CATGGTCTTACACT
44943181 GGCTCACAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
90 1 0.01
91 20 0.28
92 46 0.65
93 4 0.06
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACA
TGGTCTTACACTAACACATCTCATAGCT
Found at i:44945428 original size:32 final size:31
Alignment explanation
Indices: 44945389--44945461 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 31
44945379 ATGGTACAAT
44945389 TTGAAAAGGTTATGTACACTTTGTGTGTACA
1 TTGAAAAGGTTATGTACACTTTGTGTGTACA
44945420 CTTGAAAAGGTTATGTACACTTTGTGTGTACA
1 -TTGAAAAGGTTATGTACACTTTGTGTGTACA
44945452 TATGAAAAGG
1 T-TGAAAAGG
44945462 AAAGGTATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 1 0.03
32 39 0.98
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (31 bp):
TTGAAAAGGTTATGTACACTTTGTGTGTACA
Found at i:44945474 original size:32 final size:32
Alignment explanation
Indices: 44945402--44945478 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
44945392 AAAAGGTTAT
** *
44945402 GTACACTTTGTGTGTACACTTGAAAAGGTTAT
1 GTACACTTTGTGTGTACACTTGAAAAGGAAAG
44945434 GTACACTTTGTGTGTACA-TATGAAAAGGAAAG
1 GTACACTTTGTGTGTACACT-TGAAAAGGAAAG
*
44945466 GTATACTTTGTGT
1 GTACACTTTGTGT
44945479 ATACCACTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 1 0.03
32 39 0.98
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.36
Consensus pattern (32 bp):
GTACACTTTGTGTGTACACTTGAAAAGGAAAG
Found at i:44951609 original size:26 final size:26
Alignment explanation
Indices: 44951574--44951638 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
44951564 TTATAAAACC
44951574 TAAAATTAAAATAATA-TTAAAGGAAAA
1 TAAAA-TAAAATAATACTTAAA-GAAAA
*
44951601 TAAAATAAAA-AGTACTTAAAGAAAA
1 TAAAATAAAATAATACTTAAAGAAAA
44951626 T-AAATAAAGATAA
1 TAAAATAAA-ATAA
44951639 AAGTGAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 7 0.21
25 10 0.30
26 11 0.33
27 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (26 bp):
TAAAATAAAATAATACTTAAAGAAAA
Found at i:44951653 original size:6 final size:6
Alignment explanation
Indices: 44951627--44951665 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
44951617 TAAAGAAAAT
* * *
44951627 AAATAA AGATAA AAGTGA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
44951666 GTCTTTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:44956566 original size:32 final size:32
Alignment explanation
Indices: 44956528--44956603 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
44956518 ATGGTACAAT
*
44956528 TTGAAAAGGTTATGTACACTTTGTGTGTATAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
44956560 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
*
44956592 TTGGAAAGGTTA
1 TTGAAAAGGTTA
44956604 GGTATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (32 bp):
TTGAAAAGGTTATGTACACTTTGTGTGTACAC
Found at i:44964635 original size:47 final size:47
Alignment explanation
Indices: 44964555--44964734 Score: 165
Period size: 47 Copynumber: 3.9 Consensus size: 47
44964545 GGGGTAGAAT
* *
44964555 GTCGATTCCATGTCCCAGACATGGTCTTTCACTGGCTCATATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
* * * *
44964602 GTCAATGCCATGTCCCAGACATAGTCTTACACT-G-ACATATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
* * * * *
44964648 GCCGATG-CATATCCCAAACAT-GTCTTACACTAGCTC-TCGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA
* *
44964693 -TGCTGATGCCATGTCCTAGACATGGTCTTACACTGGTTCATA
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATA
44964735 ATAACCCATA
Statistics
Matches: 104, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
44 10 0.10
45 24 0.23
46 16 0.15
47 40 0.38
48 13 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
Found at i:44967976 original size:45 final size:45
Alignment explanation
Indices: 44967855--44967978 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 45
44967845 AAACCGAAAT
* * *
44967855 AATAAGACCATAGTTGAACGATATTATGGCACTAAACCCAAAATG
1 AATAAGACCATAGTTGAAAGATATTATGGCATTAAACCCAAAACG
** * * * *
44967900 TGTAAGACCATGGTTGAAAGATACTATGGCATTAAAGCCAATACG
1 AATAAGACCATAGTTGAAAGATATTATGGCATTAAACCCAAAACG
* *
44967945 AATAAGACCACAGTTGAAAGATATTAAGGCATTA
1 AATAAGACCATAGTTGAAAGATATTATGGCATTA
44967979 TATCGGTAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (45 bp):
AATAAGACCATAGTTGAAAGATATTATGGCATTAAACCCAAAACG
Found at i:44967997 original size:45 final size:45
Alignment explanation
Indices: 44967946--44968044 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
44967936 GCCAATACGA
* * * *
44967946 ATAAGACCACAGTTGAAAGATATTAAGGCATTATATCGGTAATG-
1 ATAAGACCACAATTGAAAGATACTAAGGCACTATATCGGGAATGC
* *
44967990 ATCAAGACCACAATTGAAAGATACTATGGCACTATTTCGGGAATGC
1 AT-AAGACCACAATTGAAAGATACTAAGGCACTATATCGGGAATGC
44968036 ATAAGACCA
1 ATAAGACCA
44968045 TGGTTGGAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 2 0.04
45 43 0.91
46 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.24
Consensus pattern (45 bp):
ATAAGACCACAATTGAAAGATACTAAGGCACTATATCGGGAATGC
Found at i:44973800 original size:26 final size:26
Alignment explanation
Indices: 44973771--44973850 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
44973761 AATTAAATCA
44973771 TTTACTCATCATAGTAAAATCATAGT
1 TTTACTCATCATAGTAAAATCATAGT
* * **
44973797 TTTACT-A-AATAGGT-CAAT--TAAA
1 TTTACTCATCATA-GTAAAATCATAGT
44973819 TTTACTCATCATAGTAAAATCATAGT
1 TTTACTCATCATAGTAAAATCATAGT
44973845 TTTACT
1 TTTACT
44973851 AAATAGGTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
22 8 0.20
23 3 0.08
24 12 0.30
25 3 0.08
26 14 0.35
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (26 bp):
TTTACTCATCATAGTAAAATCATAGT
Found at i:44973822 original size:48 final size:48
Alignment explanation
Indices: 44973770--44973870 Score: 202
Period size: 48 Copynumber: 2.1 Consensus size: 48
44973760 GAATTAAATC
44973770 ATTTACTCATCATAGTAAAATCATAGTTTTACTAAATAGGTCAATTAA
1 ATTTACTCATCATAGTAAAATCATAGTTTTACTAAATAGGTCAATTAA
44973818 ATTTACTCATCATAGTAAAATCATAGTTTTACTAAATAGGTCAATTAA
1 ATTTACTCATCATAGTAAAATCATAGTTTTACTAAATAGGTCAATTAA
44973866 ATTTA
1 ATTTA
44973871 TTTGGCTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (48 bp):
ATTTACTCATCATAGTAAAATCATAGTTTTACTAAATAGGTCAATTAA
Found at i:44974265 original size:19 final size:19
Alignment explanation
Indices: 44974212--44974267 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
44974202 GTTAAAACAT
* *
44974212 TATTAAA-ATTTATAAAAA
1 TATTAAATATTAATTAAAA
* *
44974230 TACTAAATA-AAATTTAAAA
1 TATTAAATATTAA-TTAAAA
44974249 TATTAAATATTAATTAAAA
1 TATTAAATATTAATTAAAA
44974268 GTCATATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 7 0.24
19 20 0.69
20 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTAAATATTAATTAAAA
Found at i:44978567 original size:53 final size:53
Alignment explanation
Indices: 44978506--44978619 Score: 228
Period size: 53 Copynumber: 2.2 Consensus size: 53
44978496 AATTAATTAA
44978506 ATAAAAGAACACTTAAAGTAAATAGAGAATTTTCTCGTCTCCTCTTTTCATTT
1 ATAAAAGAACACTTAAAGTAAATAGAGAATTTTCTCGTCTCCTCTTTTCATTT
44978559 ATAAAAGAACACTTAAAGTAAATAGAGAATTTTCTCGTCTCCTCTTTTCATTT
1 ATAAAAGAACACTTAAAGTAAATAGAGAATTTTCTCGTCTCCTCTTTTCATTT
44978612 ATAAAAGA
1 ATAAAAGA
44978620 GTTATATATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (53 bp):
ATAAAAGAACACTTAAAGTAAATAGAGAATTTTCTCGTCTCCTCTTTTCATTT
Found at i:44978878 original size:14 final size:15
Alignment explanation
Indices: 44978859--44978891 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
44978849 CTGTAGGATA
44978859 AAAACCTAATGAA-G
1 AAAACCTAATGAAGG
44978873 AAAACCTAATGAAGG
1 AAAACCTAATGAAGG
44978888 AAAA
1 AAAA
44978892 AGAGTACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (15 bp):
AAAACCTAATGAAGG
Found at i:44981934 original size:32 final size:30
Alignment explanation
Indices: 44981881--44981943 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 30
44981871 GCTTATTTTC
*
44981881 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
*
44981911 TTGTTAATTTTTTATTATTATTTTAGAGGCAT
1 TTGTTAA--TTTTATTATTATTTTAAAGGCAT
44981943 T
1 T
44981944 GACTTGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.24
32 22 0.76
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:44982075 original size:10 final size:11
Alignment explanation
Indices: 44982049--44982076 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
44982039 TATATATATT
44982049 TAAAAATAATA
1 TAAAAATAATA
44982060 TAAAAATAATA
1 TAAAAATAATA
44982071 TAAAAA
1 TAAAAA
44982077 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:44985911 original size:46 final size:46
Alignment explanation
Indices: 44985844--44986017 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
44985834 TGTAACCCGC
44985844 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
44985890 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
44985940 -C-TCA-CGAACTC-GACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
44985982 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
44986018 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
45 6 0.06
46 75 0.70
47 6 0.06
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:44985963 original size:92 final size:93
Alignment explanation
Indices: 44985852--44986021 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
44985842 GCCCATAAGT
** *
44985852 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44985917 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
44985945 GAACTC-GACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
44986009 CGAGTTCGGATGC
66 CGAGCTCGGATGC
44986022 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 66 0.92
93 6 0.08
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:44990707 original size:16 final size:16
Alignment explanation
Indices: 44990686--44990717 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44990676 GGCCAATAAC
*
44990686 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
44990702 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
44990718 TTACATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:44990778 original size:22 final size:22
Alignment explanation
Indices: 44990753--44990810 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
44990743 ATCTCAGCAA
44990753 CCCCATACCCCCACTAAAACAG
1 CCCCATACCCCCACTAAAACAG
* *
44990775 CCCCATACCCCCACTACAATAG
1 CCCCATACCCCCACTAAAACAG
* *
44990797 TCCCATACCTCCAC
1 CCCCATACCCCCAC
44990811 AGTCCTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.52, G:0.03, T:0.14
Consensus pattern (22 bp):
CCCCATACCCCCACTAAAACAG
Found at i:44991338 original size:29 final size:29
Alignment explanation
Indices: 44991303--44991394 Score: 157
Period size: 29 Copynumber: 3.2 Consensus size: 29
44991293 GGCGCCGGCG
*
44991303 CCGGCGGACCTCCGGTGGCCGTCCGGTGA
1 CCGGCGGACCTCCGGCGGCCGTCCGGTGA
44991332 CCGGCGGACCTCCGGCGGCCGTCCGGTGA
1 CCGGCGGACCTCCGGCGGCCGTCCGGTGA
*
44991361 CCGGCGGCCCTCCGGCGGCCGTCCGGTGA
1 CCGGCGGACCTCCGGCGGCCGTCCGGTGA
*
44991390 TCGGC
1 CCGGC
44991395 CCCCATGGCC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.05, C:0.41, G:0.41, T:0.12
Consensus pattern (29 bp):
CCGGCGGACCTCCGGCGGCCGTCCGGTGA
Found at i:45006945 original size:41 final size:41
Alignment explanation
Indices: 45006878--45007004 Score: 157
Period size: 41 Copynumber: 3.0 Consensus size: 41
45006868 CTTCGTTTTC
* *
45006878 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCAACTATGGTCTTACACATATTCACAT-A
* *
45006921 T-GATGCCATAGCCATCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCAACTATGGTCTTACACATATTCACATA
* * *
45006961 TCGATGCCATAGCCTAGCTATGGTCTTACGCATAATCACATA
1 TCGATGCCATAGCC-AACTATGGTCTTACACATATTCACATA
45007003 TC
1 TC
45007005 ACATATCGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.03
41 36 0.49
42 35 0.47
43 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (41 bp):
TCGATGCCATAGCCAACTATGGTCTTACACATATTCACATA
Found at i:45007029 original size:49 final size:48
Alignment explanation
Indices: 45006947--45007052 Score: 131
Period size: 49 Copynumber: 2.2 Consensus size: 48
45006937 TATGGTCTTA
* * * * * * *
45006947 CACATATTCATATATCGATGCCATAGCCTAGCTATGGTCTTACGCATAAT
1 CACATA-TCACATATCGATGCAAGAGCCCAGCTATAGTCTTACAC-GAAT
45006997 CACATATCACATATCGATGCAAGAGCCCAGCTATAGTCTTACACGAAT
1 CACATATCACATATCGATGCAAGAGCCCAGCTATAGTCTTACACGAAT
45007045 CACATATC
1 CACATATC
45007053 TCACTGATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
48 11 0.22
49 32 0.65
50 6 0.12
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCAAGAGCCCAGCTATAGTCTTACACGAAT
Found at i:45007187 original size:31 final size:31
Alignment explanation
Indices: 45007152--45007269 Score: 139
Period size: 31 Copynumber: 3.8 Consensus size: 31
45007142 CTTGTCACTT
*
45007152 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
** *
45007183 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* * **
45007214 ATAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
*
45007245 GTAG-CAGAAGCTACCTCTTTTCACT
1 GTAGCCA-AAGCTACCACTTTTCACT
45007270 TGTCATTTGT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
30 1 0.01
31 73 0.99
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:45007339 original size:50 final size:50
Alignment explanation
Indices: 45007245--45007421 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
45007235 CACTGATCAG
* * * * *
45007245 GTAGCAGAAGCTACCTCTTTTCACTTGTCATTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
45007296 GTAGCCGAAGTTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
45007346 GTAGTCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
45007396 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
45007422 GTTGCCATGG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 92 0.81
51 21 0.19
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:45011462 original size:3 final size:3
Alignment explanation
Indices: 45011454--45011485 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
45011444 TCGCTGTATG
45011454 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
45011486 TACGTCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45023142 original size:20 final size:19
Alignment explanation
Indices: 45023119--45023158 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
45023109 CTTGTATGAT
*
45023119 TTGATTATGGAATTTATTTA
1 TTGATTAAGGAA-TTATTTA
*
45023139 TTGATTAAGTAATTATTTA
1 TTGATTAAGGAATTATTTA
45023158 T
1 T
45023159 CTAAAATTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
TTGATTAAGGAATTATTTA
Found at i:45023335 original size:16 final size:16
Alignment explanation
Indices: 45023314--45023351 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
45023304 ATGGGACTGA
* *
45023314 AAGGGTATTTTTAGCT
1 AAGGGTATTCTTAACT
45023330 AAGGGTATTCTTAACT
1 AAGGGTATTCTTAACT
45023346 AAGGGT
1 AAGGGT
45023352 GGTAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (16 bp):
AAGGGTATTCTTAACT
Found at i:45023406 original size:19 final size:19
Alignment explanation
Indices: 45023371--45023407 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45023361 CTTAGTTAAG
*
45023371 GATAATTAGTGACTTAATT
1 GATAATTAGAGACTTAATT
*
45023390 GATAATTAGAGATTTAAT
1 GATAATTAGAGACTTAAT
45023408 CAATCATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (19 bp):
GATAATTAGAGACTTAATT
Found at i:45026628 original size:46 final size:46
Alignment explanation
Indices: 45026403--45026634 Score: 295
Period size: 46 Copynumber: 5.0 Consensus size: 46
45026393 GTGTGCTCTC
* *
45026403 TGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
45026449 TGATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCTACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
45026495 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *** *
45026541 TGATATGGAATGAACAAGACCATGGTTGAAAGATACAATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
45026587 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
45026633 TG
1 TG
45026635 TCAAAGATAA
Statistics
Matches: 165, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:45033603 original size:40 final size:40
Alignment explanation
Indices: 45033493--45033589 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
45033483 ATTTTGATAA
* *
45033493 AAAAAATGCCACTATAGA-ACGAGCATTAGCGGCGCTTTTT
1 AAAAAACGCCACTATAGACA-GAACATTAGCGGCGCTTTTT
* * *
45033533 TAAAAACGCCATTATAGACAGAACATTAGCGGCACTTTTT
1 AAAAAACGCCACTATAGACAGAACATTAGCGGCGCTTTTT
*
45033573 AAAAAACGCCGCTATAG
1 AAAAAACGCCACTATAG
45033590 GTCGATTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (40 bp):
AAAAAACGCCACTATAGACAGAACATTAGCGGCGCTTTTT
Found at i:45033833 original size:41 final size:41
Alignment explanation
Indices: 45033776--45033865 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
45033766 TTTAGTGGCT
* * * * * *
45033776 TTAGCAGCGCCTTTTTGAAAATCGCCGCTATATATCGAGCA
1 TTAGCGGCGCCTTTTTGAAAAACACCACAATAGATCGAGCA
* *
45033817 TTAGCGGCGCTTTTTTGAAAAACACCACAATAGGTCGAGCA
1 TTAGCGGCGCCTTTTTGAAAAACACCACAATAGATCGAGCA
45033858 TTAGCGGC
1 TTAGCGGC
45033866 ATTTTTCAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (41 bp):
TTAGCGGCGCCTTTTTGAAAAACACCACAATAGATCGAGCA
Found at i:45034259 original size:7 final size:7
Alignment explanation
Indices: 45034134--45034270 Score: 73
Period size: 7 Copynumber: 19.4 Consensus size: 7
45034124 TTAATTATCA
*
45034134 TTATAGT
1 TTATGGT
*
45034141 TTAGGGT
1 TTATGGT
*
45034148 TTATGAT
1 TTATGGT
45034155 TTATGGT
1 TTATGGT
* ***
45034162 ATACAAT
1 TTATGGT
*
45034169 TTAGGGT
1 TTATGGT
*
45034176 TTAGGGT
1 TTATGGT
*
45034183 ATATGGT
1 TTATGGT
*
45034190 TTAGGGT
1 TTATGGT
45034197 TTATGGT
1 TTATGGT
*
45034204 TTAAGAGT
1 TTATG-GT
45034212 TACTAT--T
1 T--TATGGT
*
45034219 TTAAGGT
1 TTATGGT
**
45034226 TTATGAA
1 TTATGGT
45034233 TTATGGGT
1 TTAT-GGT
*
45034241 TTA-GGA
1 TTATGGT
45034247 TTATGGT
1 TTATGGT
45034254 TTATGGT
1 TTATGGT
45034261 TTATGGT
1 TTATGGT
45034268 TTA
1 TTA
45034271 ACAATTGGGG
Statistics
Matches: 95, Mismatches: 28, Indels: 14
0.69 0.20 0.10
Matches are distributed among these distances:
5 2 0.02
6 5 0.05
7 79 0.83
8 7 0.07
10 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:45034303 original size:7 final size:7
Alignment explanation
Indices: 45034293--45034339 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
45034283 TAAGATTTAA
45034293 GGGTTAG
1 GGGTTAG
45034300 GGGTTAG
1 GGGTTAG
* *
45034307 GGGCTAA
1 GGGTTAG
*
45034314 GGGTTAA
1 GGGTTAG
45034321 GGGTTAG
1 GGGTTAG
45034328 GGGTTAG
1 GGGTTAG
*
45034335 AGGTT
1 GGGTT
45034340 TATAGTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.19, C:0.02, G:0.51, T:0.28
Consensus pattern (7 bp):
GGGTTAG
Found at i:45034339 original size:21 final size:21
Alignment explanation
Indices: 45034290--45034330 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45034280 GTTTAAGATT
*
45034290 TAAGGGTTAGGGGTTAGGGGC
1 TAAGGGTTAAGGGTTAGGGGC
45034311 TAAGGGTTAAGGGTTAGGGG
1 TAAGGGTTAAGGGTTAGGGG
45034331 TTAGAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (21 bp):
TAAGGGTTAAGGGTTAGGGGC
Found at i:45034398 original size:7 final size:7
Alignment explanation
Indices: 45034373--45034456 Score: 62
Period size: 7 Copynumber: 11.7 Consensus size: 7
45034363 TGTTTTGTGA
45034373 TTTAGGG
1 TTTAGGG
*
45034380 CTTAAGGG
1 -TTTAGGG
*
45034388 TTTATGG
1 TTTAGGG
*
45034395 TTTAGGA
1 TTTAGGG
45034402 TTTAGGG
1 TTTAGGG
**
45034409 TTTAAAG
1 TTTAGGG
45034416 TTTAGGG
1 TTTAGGG
45034423 TTTAGGAG
1 TTTAGG-G
*
45034431 -ATAGAGG
1 TTTAG-GG
* *
45034438 TTAAAGG
1 TTTAGGG
45034445 TTTAGGG
1 TTTAGGG
45034452 TTTAG
1 TTTAG
45034457 ATTAATTAAT
Statistics
Matches: 57, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
7 48 0.84
8 9 0.16
ACGTcount: A:0.25, C:0.01, G:0.35, T:0.39
Consensus pattern (7 bp):
TTTAGGG
Found at i:45034403 original size:29 final size:27
Alignment explanation
Indices: 45034371--45034456 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 27
45034361 TATGTTTTGT
*
45034371 GATTTAGGGCTTAAGGGTTTATGGTTTAG
1 GATTTAGGG-TTAA-GGTTTAGGGTTTAG
*
45034400 GATTTAGGGTTTAAAGTTTAGGGTTTAG
1 GATTTAGGG-TTAAGGTTTAGGGTTTAG
**
45034428 GAGATAGAGGTTAAAGGTTTAGGGTTTAG
1 GATTTAG-GGTT-AAGGTTTAGGGTTTAG
45034457 ATTAATTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.39
29 30 0.61
ACGTcount: A:0.26, C:0.01, G:0.35, T:0.38
Consensus pattern (27 bp):
GATTTAGGGTTAAGGTTTAGGGTTTAG
Found at i:45034627 original size:15 final size:15
Alignment explanation
Indices: 45034607--45034665 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 15
45034597 ATGGTTTAGG
45034607 ATTTAATCTAAAAAT
1 ATTTAATCTAAAAAT
*
45034622 ATTTAATCTAAACCAT
1 ATTTAATCTAAA-AAT
45034638 -TTGATATAT-TAAAAAT
1 ATT--TA-ATCTAAAAAT
45034654 ATTTAATCTAAA
1 ATTTAATCTAAA
45034666 CCATTCGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 2 0.06
15 20 0.56
16 4 0.11
17 8 0.22
18 2 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (15 bp):
ATTTAATCTAAAAAT
Found at i:45034651 original size:32 final size:32
Alignment explanation
Indices: 45034615--45034687 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
45034605 GGATTTAATC
*
45034615 TAAAAATATTTAATCTAAACCATTTGATATAT
1 TAAAAATATTTAATCTAAACCATTCGATATAT
45034647 TAAAAATATTTAATCTAAACCATTCGATATAT
1 TAAAAATATTTAATCTAAACCATTCGATATAT
*
45034679 T-TAAATATT
1 TAAAAATATT
45034688 AGGATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 7 0.18
32 32 0.82
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.41
Consensus pattern (32 bp):
TAAAAATATTTAATCTAAACCATTCGATATAT
Found at i:45036315 original size:15 final size:16
Alignment explanation
Indices: 45036291--45036331 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45036281 ATTAAATTTT
45036291 AATA-AAAAATT--AA
1 AATATAAAAATTAGAA
45036304 AATATTAAAAATTAGAA
1 AATA-TAAAAATTAGAA
45036321 AATATAAAAAT
1 AATATAAAAAT
45036332 CGTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
15 7 0.29
16 7 0.29
17 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AATATAAAAATTAGAA
Found at i:45036322 original size:17 final size:17
Alignment explanation
Indices: 45036302--45036349 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
45036292 ATAAAAAATT
45036302 AAAATATTAAAAAT-TA
1 AAAATATTAAAAATCTA
45036318 GAAAATA-TAAAAATCGTA
1 -AAAATATTAAAAATC-TA
45036336 AAAATATATAAAAA
1 AAAATAT-TAAAAA
45036350 ATTGTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.26
17 12 0.44
18 2 0.07
19 6 0.22
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAATATTAAAAATCTA
Found at i:45036351 original size:20 final size:19
Alignment explanation
Indices: 45036292--45036366 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 19
45036282 TTAAATTTTA
45036292 ATAAAAAAT--TAAAATAT
1 ATAAAAAATCGTAAAATAT
45036309 -T-AAAAAT--TAGAAA-AT
1 ATAAAAAATCGTA-AAATAT
45036324 AT-AAAAATCGTAAAAATAT
1 ATAAAAAATCGT-AAAATAT
*
45036343 ATAAAAAATTGTAAAAT-T
1 ATAAAAAATCGTAAAATAT
45036361 ATAAAA
1 ATAAAA
45036367 TAAATAAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
15 10 0.20
16 11 0.22
18 11 0.22
19 10 0.20
20 8 0.16
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (19 bp):
ATAAAAAATCGTAAAATAT
Found at i:45036371 original size:20 final size:20
Alignment explanation
Indices: 45036322--45036366 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45036312 AAATTAGAAA
45036322 ATAT-AAAAATCGTAAAAAT
1 ATATAAAAAATCGTAAAAAT
*
45036341 ATATAAAAAATTGT-AAAAT
1 ATATAAAAAATCGTAAAAAT
45036360 -TATAAAA
1 ATATAAAA
45036367 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
ATATAAAAAATCGTAAAAAT
Found at i:45036382 original size:18 final size:19
Alignment explanation
Indices: 45036361--45036402 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
45036351 TTGTAAAATT
45036361 ATAAAATAAATA-AAATAC
1 ATAAAATAAATAGAAATAC
*
45036379 ATAAAATATATAGAAATAC
1 ATAAAATAAATAGAAATAC
45036398 A-AAAA
1 ATAAAA
45036403 AATTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (19 bp):
ATAAAATAAATAGAAATAC
Found at i:45036403 original size:19 final size:18
Alignment explanation
Indices: 45036363--45036403 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
45036353 GTAAAATTAT
*
45036363 AAAATAAATAAAATACAT
1 AAAATAAATAAAATACAA
*
45036381 AAAATATATAGAAATACAA
1 AAAATAAATA-AAATACAA
45036400 AAAA
1 AAAA
45036404 ATTATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAATAAATAAAATACAA
Found at i:45042749 original size:34 final size:34
Alignment explanation
Indices: 45042711--45042781 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
45042701 AAGCAAAATT
45042711 AGTACTCATGATAATCCTGCAGATATGATGACTA
1 AGTACTCATGATAATCCTGCAGATATGATGACTA
45042745 AGTACTCATGATAATCCTGCAGATATGATGACTA
1 AGTACTCATGATAATCCTGCAGATATGATGACTA
45042779 AGT
1 AGT
45042782 CACTTCCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (34 bp):
AGTACTCATGATAATCCTGCAGATATGATGACTA
Found at i:45043001 original size:38 final size:38
Alignment explanation
Indices: 45042946--45043025 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
45042936 AGATTGTTAG
* *
45042946 AAGTTGTGTGACTCAAATTCCTGTTAAACATAAAATAC
1 AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
45042984 AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
1 AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
45043022 AAGT
1 AAGT
45043026 CAAGCTGCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (38 bp):
AAGTTGTGTGACCCAAATTCCTATTAAACATAAAATAC
Found at i:45043466 original size:17 final size:16
Alignment explanation
Indices: 45043446--45043500 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
45043436 TTCTTATGAC
45043446 TTTTAGCATTTTATAAT
1 TTTTA-CATTTTATAAT
*
45043463 TTTTATCATTTT-TGAAA
1 TTTTA-CATTTTAT-AAT
45043480 TTTTA-ATTTTAATAAT
1 TTTTACATTTT-ATAAT
45043496 TTTTA
1 TTTTA
45043501 TAATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 5 0.16
16 8 0.25
17 19 0.59
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTTACATTTTATAAT
Found at i:45043468 original size:9 final size:9
Alignment explanation
Indices: 45043454--45043507 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
45043444 ACTTTTAGCA
45043454 TTTTATAAT
1 TTTTATAAT
*
45043463 TTTTATCAT
1 TTTTATAAT
45043472 TTTTGA-AA-
1 TTTT-ATAAT
45043480 -TTT-TAAT
1 TTTTATAAT
*
45043487 TTTAATAAT
1 TTTTATAAT
45043496 TTTTATAAT
1 TTTTATAAT
45043505 TTT
1 TTT
45043508 AAAAATTCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
6 2 0.06
7 3 0.08
8 2 0.06
9 28 0.78
10 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Done.