Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 92 of 185
Found at i:29215418 original size:17 final size:18
Alignment explanation
Indices: 29215390--29215423 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29215380 TAAATATGCG
*
29215390 ATTTTCAATTTATTAATA
1 ATTTTCAATTTAATAATA
29215408 ATTTT-AATTTAATAAT
1 ATTTTCAATTTAATAAT
29215424 TTAATCCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTCAATTTAATAATA
Found at i:29220547 original size:11 final size:11
Alignment explanation
Indices: 29220531--29220556 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29220521 TTATTATGTA
29220531 ATTTTATTTTT
1 ATTTTATTTTT
29220542 ATTTTATTTTT
1 ATTTTATTTTT
29220553 ATTT
1 ATTT
29220557 CCGTTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:29231172 original size:39 final size:40
Alignment explanation
Indices: 29231127--29231311 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
29231117 GCTCCTCGTT
* * *
29231127 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
29231167 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
29231206 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
29231246 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
29231287 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
29231312 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:29231227 original size:40 final size:39
Alignment explanation
Indices: 29231094--29231311 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
29231084 AAATCACGTA
* * **
29231094 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
29231133 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
29231172 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
29231212 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
29231252 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
29231292 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
29231312 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:29239097 original size:40 final size:40
Alignment explanation
Indices: 29238999--29239261 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
29238989 TCCTCGTTCA
* * * * *
29238999 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29239038 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29239078 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29239118 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29239158 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
29239198 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29239238 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29239262 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29242522 original size:17 final size:16
Alignment explanation
Indices: 29242489--29242522 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29242479 TTATGGGGAG
*
29242489 AGAAATAATAGTTGGA
1 AGAAATAATACTTGGA
29242505 AGAAATAATTACTTGGA
1 AGAAATAA-TACTTGGA
29242522 A
1 A
29242523 TGAATTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (16 bp):
AGAAATAATACTTGGA
Found at i:29251991 original size:45 final size:45
Alignment explanation
Indices: 29251934--29252022 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
29251924 TGACTTTCAA
*
29251934 GTTTTTTCGATCATAGAAACGTCATTAGAAAAAGTTAGCTTTCTT
1 GTTTTTTCGATCATAGAAACATCATTAGAAAAAGTTAGCTTTCTT
*
29251979 GTTTTTTCGATCATAGAAACATCATTAGAAAAGGTTAGCTTTCT
1 GTTTTTTCGATCATAGAAACATCATTAGAAAAAGTTAGCTTTCT
29252023 CTACCATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (45 bp):
GTTTTTTCGATCATAGAAACATCATTAGAAAAAGTTAGCTTTCTT
Found at i:29256121 original size:10 final size:10
Alignment explanation
Indices: 29256108--29256147 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
29256098 TATTATTTTC
29256108 ATATATTTAT
1 ATATATTTAT
* *
29256118 ATATATATGT
1 ATATATTTAT
29256128 ATATATTTAT
1 ATATATTTAT
29256138 ATATATTTAT
1 ATATATTTAT
29256148 TTCCATATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
ATATATTTAT
Found at i:29260383 original size:24 final size:24
Alignment explanation
Indices: 29260356--29260401 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
29260346 GGAACAGTCC
29260356 CAAAAGGAAATGCAA-GAGCAGCTT
1 CAAAAGGAAATG-AATGAGCAGCTT
**
29260380 CAAAATTAAATGAATGAGCAGC
1 CAAAAGGAAATGAATGAGCAGC
29260402 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (24 bp):
CAAAAGGAAATGAATGAGCAGCTT
Found at i:29268565 original size:44 final size:44
Alignment explanation
Indices: 29268517--29268698 Score: 104
Period size: 44 Copynumber: 4.1 Consensus size: 44
29268507 ATTGTAGATA
29268517 TTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGACGGCAAATC
1 TTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGACGGCAAATC
* * ** *
29268561 TTATCTTTCC-AAG-A-TAGTGGGAAGCAGAT-ATAAG-CCACAAAGCC
1 TTATC-TCCCTAAGCAGTAG-AGG-AGCAGATCA-AAGACGGCAAA-TC
* * * * * * ** ** * *
29268605 TTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATC
1 TTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGACGGCAAATC
* *
29268649 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATC
1 TTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGACGGCAAATC
*
29268693 CTATCT
1 TTATCT
29268699 TTCCAAGATA
Statistics
Matches: 96, Mismatches: 32, Indels: 20
0.65 0.22 0.14
Matches are distributed among these distances:
42 3 0.03
43 12 0.12
44 71 0.74
45 8 0.08
46 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (44 bp):
TTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGACGGCAAATC
Found at i:29268635 original size:132 final size:132
Alignment explanation
Indices: 29268464--29269318 Score: 1329
Period size: 132 Copynumber: 6.5 Consensus size: 132
29268454 ACCGGTGAAA
* * ** * *
29268464 CACCAAGCCTTGTCTCTCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATATTATCTCCCTAA
1 CACCAAGCCTTATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
29268529 GCAGTAGAGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATATAA
66 GCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
29268594 GC
131 GC
* * * *
29268596 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
29268661 GCAGTAGTGGAGCAGATCAAAGACGGAAAATCCTATCTTTCCAAGATAGTGGGAAGCAAATTCAA
66 GCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
29268726 GC
131 GC
* * * *
29268728 CACCAAGCCTCAACT-CCTCGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATATTATCTCCCTC
1 CACCAAGCCTTATCTCCCT-GAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * *
29268792 AGCAGTAGAGGAGCAGATCAAAGACGGAAAATCCTATCTTTCCAAGATAGTGGGAAGCAAATTCA
65 AGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTA
29268857 AGC
130 AGC
* *
29268860 CACCAAGCCTCAACT-CCTCGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTATCTCCCT-GAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
29268924 AGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTA
29268989 AGC
130 AGC
*
29268992 CACCAAGCCTCATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
29269057 GCAGTAGTGGAGCAGATCAAAGAC-GACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAGATCAAAGACGGA-AAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTA
29269121 AGC
130 AGC
* * * *
29269124 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
29269189 GCAGTAGTTGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
29269254 GC
131 GC
* * *
29269256 CACCAAGCCTTATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATGGCAAATCTTATCTCCCT
1 CACCAAGCCTTATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
29269319 GAAGTTGCAG
Statistics
Matches: 679, Mismatches: 40, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
131 5 0.01
132 670 0.99
133 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (132 bp):
CACCAAGCCTTATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
GC
Found at i:29268958 original size:44 final size:44
Alignment explanation
Indices: 29268910--29269226 Score: 126
Period size: 44 Copynumber: 7.2 Consensus size: 44
29268900 AAGATTGTAG
* *
29268910 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACAGAAA
* * * * **
29268954 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTAAAGACAGAAA
** * * * ** * * * ** * *
29268998 GCCTCATCTCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACAGAAA
*
29269042 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC-GACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACAGA-AA
* * * *
29269086 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACAAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTAAAGACAGAAA
** * * * * * * * ** * *
29269130 GCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACAGAAA
* * * *
29269174 ATCTTATCTCCCTAAGCAGTAGTTGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACAGAAA
29269218 ATCTTATCT
1 ATCTTATCT
29269227 TTCCAAGATA
Statistics
Matches: 183, Mismatches: 76, Indels: 28
0.64 0.26 0.10
Matches are distributed among these distances:
42 8 0.04
43 13 0.07
44 146 0.80
45 12 0.07
46 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACAGAAA
Found at i:29269439 original size:40 final size:44
Alignment explanation
Indices: 29269385--29269543 Score: 134
Period size: 44 Copynumber: 3.7 Consensus size: 44
29269375 AAACCTTTGA
** * *
29269385 TCTTATCTTTCTGAAGTTGCAG-AGAGCAGA-TCA-C-ATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAGCAAGCAAG
*
29269425 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAGCAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAGCAAGCAAG
* * * *
29269469 TCTTATC-CTCCTGAAGTTGCAGTA-AGGTAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTAGA-GCAGACT-CAGCA-AGCAAG
* *
29269514 TCTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAG
29269544 GTTAAAGCCG
Statistics
Matches: 96, Mismatches: 13, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
40 20 0.21
41 7 0.07
42 3 0.03
43 3 0.03
44 32 0.33
45 29 0.30
46 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAGCAAGCAAG
Found at i:29269604 original size:44 final size:45
Alignment explanation
Indices: 29269510--29269605 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
29269500 CTGAAGATGG
**
29269510 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCGA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGCCGA
*
29269555 -TAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAGAA-CC-A
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTA-AAGCCGA
29269598 CAAATCTT
1 CAAATCTT
29269606 GGATCTTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
43 1 0.02
44 42 0.93
45 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGCCGA
Found at i:29271043 original size:10 final size:10
Alignment explanation
Indices: 29271030--29271069 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
29271020 TATTATTTTC
29271030 ATATATTTAT
1 ATATATTTAT
* *
29271040 ATATATATGT
1 ATATATTTAT
*
29271050 ATATATCTAT
1 ATATATTTAT
29271060 ATATATTTAT
1 ATATATTTAT
29271070 TTCCATATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (10 bp):
ATATATTTAT
Found at i:29272578 original size:36 final size:36
Alignment explanation
Indices: 29272509--29272640 Score: 156
Period size: 36 Copynumber: 3.6 Consensus size: 36
29272499 CTACCTTCAT
** *
29272509 CCGATTTGCTTCCTTGTTTCTTTGCTTTTCTTTTCTG
1 CCGATTTGC-TCCCAGTTTCTTTTCTTTTCTTTTCTG
* *
29272546 CCGATTTGCTCCCAGTTTATTTTCTTTTCTTTTCTA
1 CCGATTTGCTCCCAGTTTCTTTTCTTTTCTTTTCTG
* *
29272582 CCGATTTGCTCCCCTCGTTTCTTTTCTTTTCTTTTTCGG
1 CCGATTTGCT-CCC-AGTTTCTTTTCTTTTC-TTTTCTG
*
29272621 CCGATTTGCTCACAGTTTCT
1 CCGATTTGCTCCCAGTTTCT
29272641 GTCGATTTGC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
36 32 0.40
37 18 0.22
38 16 0.20
39 15 0.19
ACGTcount: A:0.07, C:0.27, G:0.12, T:0.54
Consensus pattern (36 bp):
CCGATTTGCTCCCAGTTTCTTTTCTTTTCTTTTCTG
Found at i:29273740 original size:71 final size:69
Alignment explanation
Indices: 29273653--29273793 Score: 194
Period size: 71 Copynumber: 2.0 Consensus size: 69
29273643 TTTGTTGGTT
* *
29273653 TGTTCTGGACATTGTTTTGATAGTCTGCTGGAAAATGTTATTTTAATTTGTTAGTGAGTAGAAGA
1 TGTTCTGGACATTGTTTTGATAGTCTGCTGGAAAATG-T-TCTTAATTTGTTAGTCAGTAGAAGA
29273718 TGAAAC
64 TGAAAC
* * * *
29273724 TGTTCTGG-CAGTTGTTTTGATTGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAATAT
1 TGTTCTGGACA-TTGTTTTGATAGTCTGCTGGAAAATGTTCTTAATTTGTTAGTCAGTAGAAGAT
29273788 GAAAC
65 GAAAC
29273793 T
1 T
29273794 AGATCTTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
69 28 0.44
70 3 0.05
71 32 0.51
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.43
Consensus pattern (69 bp):
TGTTCTGGACATTGTTTTGATAGTCTGCTGGAAAATGTTCTTAATTTGTTAGTCAGTAGAAGATG
AAAC
Found at i:29274953 original size:37 final size:37
Alignment explanation
Indices: 29274910--29274998 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
29274900 ATCATAAATA
29274910 AATAAACTAATCAATGTTCA-AACTTTGAACATGCTTT
1 AATAAACTAATCAATG-TCAGAACTTTGAACATGCTTT
* * *
29274947 ATTAAACTAATCAATGTGAGGACTTTGAACATGCTTT
1 AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
*
29274984 AATGAACTAATCAAT
1 AATAAACTAATCAAT
29274999 ATATTTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.04
37 44 0.96
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (37 bp):
AATAAACTAATCAATGTCAGAACTTTGAACATGCTTT
Found at i:29275170 original size:108 final size:108
Alignment explanation
Indices: 29275044--29275250 Score: 405
Period size: 108 Copynumber: 1.9 Consensus size: 108
29275034 AAACTTGAAG
*
29275044 TATACATATACCAACAATTAATTTTAGGTCAATTATACATGCTTTATAATTTCTTTATTGTTTGG
1 TATACATACACCAACAATTAATTTTAGGTCAATTATACATGCTTTATAATTTCTTTATTGTTTGG
29275109 GTGATTGATAAAGAAATGAAATTAAAGTTGCAACACCAACAAT
66 GTGATTGATAAAGAAATGAAATTAAAGTTGCAACACCAACAAT
29275152 TATACATACACCAACAATTAATTTTAGGTCAATTATACATGCTTTATAATTTCTTTATTGTTTGG
1 TATACATACACCAACAATTAATTTTAGGTCAATTATACATGCTTTATAATTTCTTTATTGTTTGG
29275217 GTGATTGATAAAGAAATGAAATTAAAGTTGCAAC
66 GTGATTGATAAAGAAATGAAATTAAAGTTGCAAC
29275251 GATATCATTT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (108 bp):
TATACATACACCAACAATTAATTTTAGGTCAATTATACATGCTTTATAATTTCTTTATTGTTTGG
GTGATTGATAAAGAAATGAAATTAAAGTTGCAACACCAACAAT
Found at i:29278389 original size:92 final size:91
Alignment explanation
Indices: 29278232--29278440 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
29278222 TTGATTTTAG
* * *
29278232 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
29278297 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
29278324 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
29278388 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
29278416 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
29278441 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:29278403 original size:24 final size:25
Alignment explanation
Indices: 29278368--29278415 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
29278358 TTATGAAATT
29278368 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
29278392 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
29278416 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:29278569 original size:66 final size:64
Alignment explanation
Indices: 29278494--29278685 Score: 181
Period size: 66 Copynumber: 3.1 Consensus size: 64
29278484 AAATATATTT
* *
29278494 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTAAAATTTT-ATTTATAGTAT-ATATATTATGATTTTAGTAAATTCATATAA
29278559 G
64 G
* **
29278560 AATATTAATTA-TTAAGAATTTTA-TTA-A--AT-TATA-TAT--TTTTATTAAATT-ATAT-TT
1 AATATTAATTATTTAA-AATTTTATTTATAGTATATATATTATGATTTTAGTAAATTCATATAAG
* * * *
29278614 AATAATAATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAA
1 AATATTAATTATTTAAAATTTTA-TTTATAGTA-TATATATTATGATTTTAGTAAATTCATATAA
29278679 G
64 G
29278680 AATATT
1 AATATT
29278686 TTAATATTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
54 15 0.15
55 7 0.07
56 13 0.13
57 1 0.01
58 3 0.03
59 5 0.05
60 1 0.01
61 6 0.06
62 3 0.03
63 1 0.01
64 14 0.14
65 8 0.08
66 22 0.22
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (64 bp):
AATATTAATTATTTAAAATTTTATTTATAGTATATATATTATGATTTTAGTAAATTCATATAAG
Found at i:29278594 original size:120 final size:120
Alignment explanation
Indices: 29278456--29278726 Score: 402
Period size: 120 Copynumber: 2.2 Consensus size: 120
29278446 AATTATTTTA
* * *
29278456 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCA-TT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTAT-ATTT
29278520 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA-TTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAA-TATTAAG
* * * *
29278576 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAGATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
29278641 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA-TTTAATATTAAG
29278697 AATTTTATTAAATTATAATATATTTAATTA
1 AATTTTATTAAATTAT-ATAT-TTTAATTA
29278727 TAATTATGTT
Statistics
Matches: 136, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
119 1 0.01
120 97 0.71
121 23 0.17
122 8 0.06
123 7 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAG
Found at i:29278791 original size:121 final size:118
Alignment explanation
Indices: 29278456--29278791 Score: 278
Period size: 120 Copynumber: 2.8 Consensus size: 118
29278446 AATTATTTTA
* * * * *
29278456 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATT-ATTTCAAATTTTCA-T
1 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTAAATT--AATTAT-ATT
* * *
29278519 TTATAGT-ATCATATATTAT-GATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTATAATAAT-ATATATTATAAAATT-A-TAAATTCATATAAGAATATTAATTATTAAG
* **
29278576 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAGATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTAAATTA-ATTATATTTT
* * * **
29278641 ATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAA-TATTAAG
65 ATAATAATATATATTATAAAATTA-TAAATTCATATAAGAATA--TTAATTATTAAG
* *
29278697 AATTTTATTAAATTATAATATATTTAATTATAATTATGTTTAA-ATATGATTAAATT-ATT-TAT
1 AATTTTATTAAATTAT-ATAT-TTTAATTA-AATTATATTTAATA-ATAATTAAATTAATTATAT
*
29278759 TATTGATAATAATA-ATCTTATTAAAATT-TAAAT
62 T-TT-ATAATAATATATATTA-TAAAATTATAAAT
29278792 AACAATAACA
Statistics
Matches: 182, Mismatches: 20, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
119 2 0.01
120 85 0.47
121 39 0.21
122 18 0.10
123 19 0.10
124 19 0.10
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (118 bp):
AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTAAATTAATTATATTTTA
TAATAATATATATTATAAAATTATAAATTCATATAAGAATATTAATTATTAAG
Found at i:29280195 original size:12 final size:12
Alignment explanation
Indices: 29280147--29280195 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
29280137 AAATCGGGGG
*
29280147 GAAAAAAGAA-A
1 GAAAAAATAAGA
*
29280158 G-AAAAACAAGA
1 GAAAAAATAAGA
*
29280169 AAAAAAATAAG-
1 GAAAAAATAAGA
29280180 GAAAAAATAAGA
1 GAAAAAATAAGA
29280192 GAAA
1 GAAA
29280196 GGAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 7 0.23
11 12 0.39
12 12 0.39
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (12 bp):
GAAAAAATAAGA
Found at i:29289956 original size:25 final size:25
Alignment explanation
Indices: 29289928--29290749 Score: 1644
Period size: 25 Copynumber: 32.9 Consensus size: 25
29289918 GGAGTTTAGC
29289928 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29289953 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29289978 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290003 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290028 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290053 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290078 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290103 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290128 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290153 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290178 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290203 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290228 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290253 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290278 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290303 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290328 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290353 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290378 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290403 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290428 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290453 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290478 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290503 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290528 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290553 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290578 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290603 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290628 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290653 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290678 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290703 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
29290728 GTGCTCTCTGATTACTAGCACG
1 GTGCTCTCTGATTACTAGCACG
29290750 CTCTCTGTTT
Statistics
Matches: 797, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 797 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (25 bp):
GTGCTCTCTGATTACTAGCACGTCA
Found at i:29292099 original size:47 final size:50
Alignment explanation
Indices: 29292040--29292143 Score: 135
Period size: 47 Copynumber: 2.1 Consensus size: 50
29292030 AAAATATGAT
* *
29292040 TATGTGATTTCCGGGTAAGACCATATCTGGGA-TATGGCATC-G-GTGTGA
1 TATGTGATTTCCGGGTAAGACCATAGCT-GGACTATAGCATCGGTGTGTGA
* *
29292088 TATGTG-TTTCCGTGTAAGACCATAGCTGGACTATAGCTTCGGTGTGTGA
1 TATGTGATTTCCGGGTAAGACCATAGCTGGACTATAGCATCGGTGTGTGA
29292137 TATGTGA
1 TATGTGA
29292144 CAATGTGCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 3 0.06
47 26 0.54
48 7 0.15
49 12 0.25
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (50 bp):
TATGTGATTTCCGGGTAAGACCATAGCTGGACTATAGCATCGGTGTGTGA
Found at i:29301509 original size:27 final size:27
Alignment explanation
Indices: 29301479--29301543 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
29301469 TATGGTGATC
* *
29301479 TAAGAAATTGAAGCCTTTGTGGCGATA
1 TAAGAAATGGAAGCCTTAGTGGCGATA
*
29301506 TAAGAAATGGAAGCCTTAGTGGCGATT
1 TAAGAAATGGAAGCCTTAGTGGCGATA
29301533 TAAGAAATGGA
1 TAAGAAATGGA
29301544 GGTTGTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (27 bp):
TAAGAAATGGAAGCCTTAGTGGCGATA
Found at i:29303668 original size:19 final size:19
Alignment explanation
Indices: 29303644--29303684 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
29303634 AGCAATATCA
29303644 ATTGTATTCCACCTTCTTT
1 ATTGTATTCCACCTTCTTT
* *
29303663 ATTGTATTCCATCTTGTTT
1 ATTGTATTCCACCTTCTTT
29303682 ATT
1 ATT
29303685 CAAGTATACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTGTATTCCACCTTCTTT
Found at i:29304511 original size:14 final size:15
Alignment explanation
Indices: 29304494--29304522 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29304484 ATAATATTTT
29304494 AAATATTT-TATTAA
1 AAATATTTATATTAA
29304508 AAATATTTATATTAA
1 AAATATTTATATTAA
29304523 TATTTTCGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTTATATTAA
Found at i:29304567 original size:31 final size:31
Alignment explanation
Indices: 29304532--29304590 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
29304522 ATATTTTCGT
*
29304532 AATAAAT-ATATATTATAAAGTACAAATATTC
1 AATAAATAATATATTATAAAATA-AAATATTC
* *
29304563 AATAATTAATATTTTATAAAATAAAATA
1 AATAAATAATATATTATAAAATAAAATA
29304591 AATATTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.46
32 13 0.54
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (31 bp):
AATAAATAATATATTATAAAATAAAATATTC
Found at i:29305363 original size:13 final size:14
Alignment explanation
Indices: 29305345--29305389 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
29305335 TCAAACTCGA
29305345 AATTATTT-TTTAT
1 AATTATTTATTTAT
29305358 AATTATTTATTTAT
1 AATTATTTATTTAT
*
29305372 --TTATTCTATTTTT
1 AATTATT-TATTTAT
29305385 AATTA
1 AATTA
29305390 AGATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.19
13 14 0.52
14 5 0.19
15 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTATTTATTTAT
Found at i:29306155 original size:23 final size:24
Alignment explanation
Indices: 29306107--29306158 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
29306097 AATTCTCAAG
*
29306107 ATTAAAAGTATATATAATATTAAAA
1 ATTAAAAG-ATATATAATATAAAAA
29306132 ATTAAAA-ATATATAAT-TAAGAAA
1 ATTAAAAGATATATAATATAA-AAA
29306155 ATTA
1 ATTA
29306159 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
25 7 0.28
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTAAAAGATATATAATATAAAAA
Found at i:29307277 original size:47 final size:49
Alignment explanation
Indices: 29307185--29307350 Score: 162
Period size: 47 Copynumber: 3.4 Consensus size: 49
29307175 GAAAATGAAT
29307185 AAAATTATAAAAATATAAAAAGATATATATGTATATATATATGTATATA
1 AAAATTATAAAAATATAAAAAGATATATATGTATATATATATGTATATA
*
29307234 AAAATTAT-AAAATATAAAAA-ATATATATGTATA-AGTATGTGTATATA
1 AAAATTATAAAAATATAAAAAGATATATATGTATATA-TATATGTATATA
* * * * * * * * * * *
29307281 TATATTCGTGAGAAGAAAAAAATATATGTATATATATAGATATGTATAT-
1 AAAATT-ATAAAAATATAAAAAGATATATATGTATATATATATGTATATA
29307330 -AAATTATAAAATATATAAAAA
1 AAAATTATAAAA-ATATAAAAA
29307351 AAATATGAGT
Statistics
Matches: 94, Mismatches: 17, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
46 1 0.01
47 31 0.33
48 24 0.26
49 17 0.18
50 20 0.21
51 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (49 bp):
AAAATTATAAAAATATAAAAAGATATATATGTATATATATATGTATATA
Found at i:29320382 original size:21 final size:20
Alignment explanation
Indices: 29320340--29320382 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
29320330 AAGAAAAAAG
*
29320340 ATGATAGCATTTTATTATAT
1 ATGATAGCATTTTATTACAT
*
29320360 ATGATAGCATTTTTTTTACAT
1 ATGATAGCA-TTTTATTACAT
29320381 AT
1 AT
29320383 TTTTATGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (20 bp):
ATGATAGCATTTTATTACAT
Found at i:29325092 original size:27 final size:28
Alignment explanation
Indices: 29324974--29325147 Score: 129
Period size: 28 Copynumber: 6.2 Consensus size: 28
29324964 CTATGAAAAG
* * * * *
29324974 AGGCTTTCCATTCAAATGTTCGCTACAG
1 AGGCTTTCCTTTCAAAGGTTCACCACAA
* * *
29325002 GGGCATTCCTTTCAAAGGTTCTCCACAA
1 AGGCTTTCCTTTCAAAGGTTCACCACAA
* *** ** *
29325030 AGGCTTTCCTTTCAAAAGTTTGTCGTAG
1 AGGCTTTCCTTTCAAAGGTTCACCACAA
29325058 AGGCTTTCCTTTCAAAGGTTCACCACAA
1 AGGCTTTCCTTTCAAAGGTTCACCACAA
29325086 AGG-TTTCCTTTC--AGGATTTCACCACAA
1 AGGCTTTCCTTTCAAAGG--TTCACCACAA
* * * *
29325113 AGGTTTTCCTTTTAGAGGTTTACCACAA
1 AGGCTTTCCTTTCAAAGGTTCACCACAA
*
29325141 AGACTTT
1 AGGCTTT
29325148 ATTTTCCTAG
Statistics
Matches: 114, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
25 3 0.03
27 22 0.19
28 86 0.75
30 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (28 bp):
AGGCTTTCCTTTCAAAGGTTCACCACAA
Found at i:29325123 original size:55 final size:56
Alignment explanation
Indices: 29325007--29325147 Score: 142
Period size: 55 Copynumber: 2.5 Consensus size: 56
29324997 TACAGGGGCA
* ** ** *
29325007 TTCCTTTCAAAGGTTCTCCACAAAGGCTTTCCTTTCAAAAGTTTGTCGTAGAGGCT
1 TTCCTTTCAAAGGTTCACCACAAAGGCTTTCCTTTCAAAAGTTTACCACAAAGGCT
** *
29325063 TTCCTTTCAAAGGTTCACCACAAAGG-TTTCCTTTCAGGA-TTTCACCACAAAGGTT
1 TTCCTTTCAAAGGTTCACCACAAAGGCTTTCCTTTCAAAAGTTT-ACCACAAAGGCT
* * * *
29325118 TTCCTTTTAGAGGTTTACCACAAAGACTTT
1 TTCCTTTCAAAGGTTCACCACAAAGGCTTT
29325148 ATTTTCCTAG
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 3 0.04
55 39 0.56
56 28 0.40
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (56 bp):
TTCCTTTCAAAGGTTCACCACAAAGGCTTTCCTTTCAAAAGTTTACCACAAAGGCT
Found at i:29335057 original size:31 final size:31
Alignment explanation
Indices: 29335019--29335077 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
29335009 ACACAGGGAT
29335019 TTTTTTGGTCT-TCAAAATCAAATATTAAGGA
1 TTTTTTGGTCTGT-AAAATCAAATATTAAGGA
29335050 TTTTTTGGTCTGTAAAATCAAATATTAA
1 TTTTTTGGTCTGTAAAATCAAATATTAA
29335078 TTATGACGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (31 bp):
TTTTTTGGTCTGTAAAATCAAATATTAAGGA
Found at i:29336616 original size:42 final size:42
Alignment explanation
Indices: 29336563--29336646 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
29336553 ATGCATTACT
29336563 TAACCTAAAACTGAAAGATACTTTGTATCATACACGGCATTC
1 TAACCTAAAACTGAAAGATACTTTGTATCATACACGGCATTC
*
29336605 TAACCTAAAACTGAAAGATACTTTGTATCATACACTGCATTC
1 TAACCTAAAACTGAAAGATACTTTGTATCATACACGGCATTC
29336647 CTTCATAGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (42 bp):
TAACCTAAAACTGAAAGATACTTTGTATCATACACGGCATTC
Found at i:29336815 original size:27 final size:27
Alignment explanation
Indices: 29336785--29336842 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
29336775 CAAAGCTTCC
29336785 TTTATTCAA-ATTGCCACAAGGGCTTTA
1 TTTATT-AAGATTGCCACAAGGGCTTTA
*
29336812 TTTATTAAGATTGCCACAAGGGCTTTC
1 TTTATTAAGATTGCCACAAGGGCTTTA
29336839 TTTA
1 TTTA
29336843 AGAGGTTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (27 bp):
TTTATTAAGATTGCCACAAGGGCTTTA
Found at i:29336876 original size:28 final size:29
Alignment explanation
Indices: 29336825--29337053 Score: 131
Period size: 28 Copynumber: 8.2 Consensus size: 29
29336815 ATTAAGATTG
* *
29336825 CCACAAGGGCTTT-CTTTAAG-AGGTTTA
1 CCACAAAGGCTTTCCTTTCAGAAGGTTTA
* * *
29336852 CCATAAAGTCTTTCCTTTCA-AAGGTTCA
1 CCACAAAGGCTTTCCTTTCAGAAGGTTTA
*
29336880 CCACAAAGGCTTTCCTTTCAGAA-GTTTT
1 CCACAAAGGCTTTCCTTTCAGAAGGTTTA
* * **
29336908 CTACAAAGGCTTTCCTTTTAG-AGGTTCG
1 CCACAAAGGCTTTCCTTTCAGAAGGTTTA
* *
29336936 CCACAAAGGC-TTCC-TTCTAGGA-GTTCA
1 CCACAAAGGCTTTCCTTTC-AGAAGGTTTA
* * * *
29336963 CCACAAAAGATTTTCTTTCA-AAGGTTTG
1 CCACAAAGGCTTTCCTTTCAGAAGGTTTA
* ** * **
29336991 CCATAAAATCTATCC-TTCTAG-AGGTTCG
1 CCACAAAGGCTTTCCTTTC-AGAAGGTTTA
* * *
29337019 CCACAAAGGCTTTCCCTTCA-TAGGTTCA
1 CCACAAAGGCTTTCCTTTCAGAAGGTTTA
29337047 CCACAAA
1 CCACAAA
29337054 AGCATTTTTT
Statistics
Matches: 156, Mismatches: 33, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
26 2 0.01
27 33 0.21
28 113 0.72
29 8 0.05
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTTTCAGAAGGTTTA
Found at i:29336933 original size:56 final size:56
Alignment explanation
Indices: 29336825--29337053 Score: 178
Period size: 56 Copynumber: 4.1 Consensus size: 56
29336815 ATTAAGATTG
* * * *
29336825 CCACAAGGGCTTT-CTTTAAGAGGTTTACCATAAAGTCTTTCCTTTCAAAGGTTCA
1 CCACAAAGGCTTTCCTTTAAGAAGTTTACCACAAAGGCTTTCCTTTCAAAGGTTCA
* * * * * *
29336880 CCACAAAGGCTTTCCTTTCAGAAGTTTTCTACAAAGGCTTTCCTTTTAGAGGTTCG
1 CCACAAAGGCTTTCCTTTAAGAAGTTTACCACAAAGGCTTTCCTTTCAAAGGTTCA
* * * * * **
29336936 CCACAAAGGC-TTCCTTCT-AGGAGTTCACCACAAAAGATTTTCTTTCAAAGGTTTG
1 CCACAAAGGCTTTCCTT-TAAGAAGTTTACCACAAAGGCTTTCCTTTCAAAGGTTCA
* ** * * ** * *
29336991 CCATAAAATCTATCCTTCT-AGAGGTTCGCCACAAAGGCTTTCCCTTCATAGGTTCA
1 CCACAAAGGCTTTCCTT-TAAGAAGTTTACCACAAAGGCTTTCCTTTCAAAGGTTCA
29337047 CCACAAA
1 CCACAAA
29337054 AGCATTTTTT
Statistics
Matches: 136, Mismatches: 35, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
55 52 0.38
56 84 0.62
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (56 bp):
CCACAAAGGCTTTCCTTTAAGAAGTTTACCACAAAGGCTTTCCTTTCAAAGGTTCA
Found at i:29349151 original size:13 final size:13
Alignment explanation
Indices: 29349133--29349158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29349123 GACAAAGAAC
29349133 CACATGTCATACG
1 CACATGTCATACG
29349146 CACATGTCATACG
1 CACATGTCATACG
29349159 TTATGCCTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
CACATGTCATACG
Found at i:29358723 original size:626 final size:626
Alignment explanation
Indices: 29357532--29358783 Score: 2416
Period size: 626 Copynumber: 2.0 Consensus size: 626
29357522 CAAACATGAA
29357532 ATAAAAAGTAATCACCATCGTTTAGAAAAGAAATATAAACGAAACAAGTGGAGAATACGATTCCT
1 ATAAAAAGTAATCACCATCGTTTAGAAAAGAAATATAAACGAAACAAGTGGAGAATACGATTCCT
* *
29357597 AGAAAATCTAGACTTGAATCTCTCCATTCCCTCTTGTGTCGCACTTAGGGCTCTTTTTCAGGAGC
66 AGAAAATCTAGACTTGAATCTCTCCATTCCCTCCTGTGTCGCACTTAGGGCTCTTTCTCAGGAGC
29357662 TGATCTGCGTCCCTTTCACATCGGTTCACTCATAGGAGACTTAAGCTGCCATAGCCGAAAAGCTT
131 TGATCTGCGTCCCTTTCACATCGGTTCACTCATAGGAGACTTAAGCTGCCATAGCCGAAAAGCTT
29357727 CAAAAGATAGGTTGAAGAAGATAATACTTCCTAAAAAGCCTCCCTTTTTTTCCTTTTCACGTGAA
196 CAAAAGATAGGTTGAAGAAGATAATACTTCCTAAAAAGCCTCCCTTTTTTTCCTTTTCACGTGAA
29357792 TATTTATATTCTTCCAAATAGCACAGGTGTCCTTTTTTCAGTATCATGCTGCCTCTGAACGTACA
261 TATTTATATTCTTCCAAATAGCACAGGTGTCCTTTTTTCAGTATCATGCTGCCTCTGAACGTACA
* * * *
29357857 AGCTGATTATAGCATACTAGACAGCTCATACATTTCTCTTCTTGTTCGGACAACTATCAGGTGGG
326 AGCTGATTATAGCAAACTAGACAGCTCATACATTTCTCTTCTTATTCAGACAACTATCAGGTGCG
*
29357922 GTGAAAATTTTGGGCACAATCTAGAAATACTCATGCAATGATGTCGATACCAAAACATGACAAAA
391 GTGAAAATTTTGGGCACAATCTAGAAATACTCATGCAACGATGTCGATACCAAAACATGACAAAA
29357987 TTAAGGATAAATAGCCTAAGATCCACTGAGTTATAAAATACAATTTACTGAACTAAAACTGCTAA
456 TTAAGGATAAATAGCCTAAGATCCACTGAGTTATAAAATACAATTTACTGAACTAAAACTGCTAA
29358052 AATATGTGCTAAAGATAACTAAATGGGGACAAATTAACCAATAAGTAGGGAGAAAACATATGTTC
521 AATATGTGCTAAAGATAACTAAATGGGGACAAATTAACCAATAAGTAGGGAGAAAACATATGTTC
29358117 TTTCTAGTATTATCACACACCCTCAAACTAGAGTTTTTACT
586 TTTCTAGTATTATCACACACCCTCAAACTAGAGTTTTTACT
*
29358158 ATAAAAAGTAATCACCATCGTTTAGAAAAGAAATATAAACGAAACAAGTGGAGAATACTATTCCT
1 ATAAAAAGTAATCACCATCGTTTAGAAAAGAAATATAAACGAAACAAGTGGAGAATACGATTCCT
29358223 AGAAAATCTAGACTTGAATCTCTCCATTCCCTCCTGTGTCGCACTTAGGGCTCTTTGCT-AGGAG
66 AGAAAATCTAGACTTGAATCTCTCCATTCCCTCCTGTGTCGCACTTAGGGCTCTTT-CTCAGGAG
29358287 CTGATCTGCGTCCCTTTCACATCGGTTCACTCATAGGAGACTTAAGCTGCCATAGCCGAAAAGCT
130 CTGATCTGCGTCCCTTTCACATCGGTTCACTCATAGGAGACTTAAGCTGCCATAGCCGAAAAGCT
29358352 TCAAAAGATAGGTTGAAGAAGATAATACTTCCTAAAAAGCCTCCCTTTTTTTCCTTTTCACGTGA
195 TCAAAAGATAGGTTGAAGAAGATAATACTTCCTAAAAAGCCTCCCTTTTTTTCCTTTTCACGTGA
29358417 ATATTTATATTCTTCCAAATAGCACAGGTGTCCTTTTTTCAGTATCATGCTGCCTCTGAACGTAC
260 ATATTTATATTCTTCCAAATAGCACAGGTGTCCTTTTTTCAGTATCATGCTGCCTCTGAACGTAC
29358482 AAGCTGATTATAGCAAACTAGACAGCTCATACATTTCTCTTCTTATTCAGACAACTATCAGGTGC
325 AAGCTGATTATAGCAAACTAGACAGCTCATACATTTCTCTTCTTATTCAGACAACTATCAGGTGC
29358547 GGTGAAAATTTTGGGCACAATCTAGAAATACTCATGCAACGATGTCGATACCAAAACATGACAAA
390 GGTGAAAATTTTGGGCACAATCTAGAAATACTCATGCAACGATGTCGATACCAAAACATGACAAA
29358612 ATTAAGGATAAATAGCCTAAGATCCACTGAGTTATAAAATACAATTTACTGAACTAAAACTGCTA
455 ATTAAGGATAAATAGCCTAAGATCCACTGAGTTATAAAATACAATTTACTGAACTAAAACTGCTA
29358677 AAATATGTGCTAAAGATAACTAAATGGGGACAAATTAACCAATAAGTAGGGAGAAAACATATGTT
520 AAATATGTGCTAAAGATAACTAAATGGGGACAAATTAACCAATAAGTAGGGAGAAAACATATGTT
29358742 CTTTCTAGTATTATCACACACCCTCAAACTAGAGTTTTTACT
585 CTTTCTAGTATTATCACACACCCTCAAACTAGAGTTTTTACT
29358784 TGTCCTCAAG
Statistics
Matches: 617, Mismatches: 8, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
626 616 1.00
627 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (626 bp):
ATAAAAAGTAATCACCATCGTTTAGAAAAGAAATATAAACGAAACAAGTGGAGAATACGATTCCT
AGAAAATCTAGACTTGAATCTCTCCATTCCCTCCTGTGTCGCACTTAGGGCTCTTTCTCAGGAGC
TGATCTGCGTCCCTTTCACATCGGTTCACTCATAGGAGACTTAAGCTGCCATAGCCGAAAAGCTT
CAAAAGATAGGTTGAAGAAGATAATACTTCCTAAAAAGCCTCCCTTTTTTTCCTTTTCACGTGAA
TATTTATATTCTTCCAAATAGCACAGGTGTCCTTTTTTCAGTATCATGCTGCCTCTGAACGTACA
AGCTGATTATAGCAAACTAGACAGCTCATACATTTCTCTTCTTATTCAGACAACTATCAGGTGCG
GTGAAAATTTTGGGCACAATCTAGAAATACTCATGCAACGATGTCGATACCAAAACATGACAAAA
TTAAGGATAAATAGCCTAAGATCCACTGAGTTATAAAATACAATTTACTGAACTAAAACTGCTAA
AATATGTGCTAAAGATAACTAAATGGGGACAAATTAACCAATAAGTAGGGAGAAAACATATGTTC
TTTCTAGTATTATCACACACCCTCAAACTAGAGTTTTTACT
Found at i:29359067 original size:11 final size:11
Alignment explanation
Indices: 29359051--29359076 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29359041 ATATGTCTCC
29359051 TTTTTTCTTTT
1 TTTTTTCTTTT
29359062 TTTTTTCTTTT
1 TTTTTTCTTTT
29359073 TTTT
1 TTTT
29359077 GTGAATAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:29359643 original size:17 final size:17
Alignment explanation
Indices: 29359614--29359648 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
29359604 TTAATGCACT
29359614 AAAATTAAAATGCAATG
1 AAAATTAAAATGCAATG
29359631 AAAA-TAAAGATGCAATG
1 AAAATTAAA-ATGCAATG
29359648 A
1 A
29359649 TAATGTGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (17 bp):
AAAATTAAAATGCAATG
Found at i:29370440 original size:20 final size:22
Alignment explanation
Indices: 29370404--29370447 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
29370394 TTACAATTGA
*
29370404 TTAAATCTATGATTTTAGA-TG
1 TTAAATCTATAATTTTAGAGTG
29370425 TTAAATC-ATAATTTTAGAGTG
1 TTAAATCTATAATTTTAGAGTG
29370446 TT
1 TT
29370448 GATTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (22 bp):
TTAAATCTATAATTTTAGAGTG
Found at i:29371207 original size:25 final size:25
Alignment explanation
Indices: 29371174--29371268 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
29371164 CAGGCCCATT
* *
29371174 TTCACAGCTTGTATGAGCATTCTAA
1 TTCACAGCTCGTGTGAGCATTCTAA
29371199 TTCACAGCTCGTGTGAGCATTCTAA
1 TTCACAGCTCGTGTGAGCATTCTAA
* *
29371224 TTCACTGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTAA
*
29371249 TTCACAACTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
29371269 ACATGTACAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTAA
Found at i:29371217 original size:52 final size:50
Alignment explanation
Indices: 29371149--29371267 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 50
29371139 CATTCCAACC
* * * *
29371149 CACAGGTCATGTGAGCAGGCCCATTTTCACAGCTTGTATGAGCATTCTAATT
1 CACAGCTCGTGTGAGCA-GCCCA-ATTCACAGCTCGTATGAGCATTCTAATT
** * * * *
29371201 CACAGCTCGTGTGAGCATTCTAATTCACTGCTCGTGTGAGCATTCTGATT
1 CACAGCTCGTGTGAGCAGCCCAATTCACAGCTCGTATGAGCATTCTAATT
*
29371251 CACAACTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
29371268 TACATGTACA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 39 0.70
51 2 0.04
52 15 0.27
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (50 bp):
CACAGCTCGTGTGAGCAGCCCAATTCACAGCTCGTATGAGCATTCTAATT
Found at i:29377226 original size:13 final size:13
Alignment explanation
Indices: 29377208--29377233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29377198 AAAATAACAA
29377208 TTTGTAGATGAAT
1 TTTGTAGATGAAT
29377221 TTTGTAGATGAAT
1 TTTGTAGATGAAT
29377234 AATCACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTGTAGATGAAT
Found at i:29380174 original size:81 final size:81
Alignment explanation
Indices: 29380039--29380200 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 81
29380029 TTCCCCAAAA
* *
29380039 CTGTGCAAACATTACAAGGGAACAAATAACCATAGTGAAGAATCAACTGCCAAATAAGGAACAAA
1 CTGTGCAAACATTACAAGGGAACAAATAACCAAAGTGAAGAATCAACAGCCAAATAAGGAACAAA
*
29380104 ATAGGACTAGAATACC
66 ATAGGACCAGAATACC
* * *
29380120 CTGTGTAAACATTACAAGGGAACAAATAACCAAAGTGGAGAATCAACAGCCAAATAGGGAACAAA
1 CTGTGCAAACATTACAAGGGAACAAATAACCAAAGTGAAGAATCAACAGCCAAATAAGGAACAAA
*
29380185 ATAGGACCATAATACC
66 ATAGGACCAGAATACC
29380201 ATGGTCACAT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.48, C:0.19, G:0.18, T:0.15
Consensus pattern (81 bp):
CTGTGCAAACATTACAAGGGAACAAATAACCAAAGTGAAGAATCAACAGCCAAATAAGGAACAAA
ATAGGACCAGAATACC
Found at i:29381658 original size:596 final size:589
Alignment explanation
Indices: 29380468--29381662 Score: 1375
Period size: 596 Copynumber: 2.0 Consensus size: 589
29380458 TAAAGACTAA
* * * * *
29380468 AGGCAGTCTTGTGGTTTTTGTGTAATTTTCGTACGTGTAATTTTTAGATTTTTATGATTTTGTCT
1 AGGCAATCTTGTGATTTTTGTGTAATTTTCATACGTGTAATTTTCAGATTCTTATGATTTTGTCT
* * * * *
29380533 TATTCAACAAAAAATCATATTAGTGGGACTAAAACCACAATATAACTATTTTTTATATTAAAAAT
66 TATTAAAAAAAAAATCATATTAGTGGGACTAAAACAACAACATAACCATTTTTTATATTAAAAAT
** * * *
29380598 TTTAACTCTTGTTATGGTTTTATAGTACTAATTATCATATTTGCTCCTATTATTATAGTATTTGG
131 GCTAACTCTTGTTATGGTTTTATAGTACTAATCACCATATTTGATCCTATTATTATAGTATTTGG
* * ***
29380663 ATTCAACTTTTTCGATAAGAGAAATTGTTGGAGGTGGGATTGTGGGTTATTGTGATCAATTCGAG
196 ATCCAACTTTTTCGATAAGAGAAATTGTTGGAGGTGGCATTGCAAGTTATTGTG---AATT----
* **
29380728 ACGGAATAAATTTGAGACGTACTTGTCTTTGTTATAATACCATATTTCCCCCAAAAACATGTAAA
254 AC-----AAATTTGAGACGTACATGTCTTTACTATAATACCATATTTCCCCCAAAAACATGTAAA
*
29380793 TATTAGCAGGGAACAAATAACCAAAGAGAAGAATCAACTTCCAAATAGGGAACATAATAGGACCA
314 CATTAGCAGGGAACAAATAACCAAAGAGAAGAATCAACTTCCAAATAGGGAACATAATAGGACCA
* * ** * * *
29380858 TAAAACCATGGCCTCATGACTTTAAAAAGATTTTCTTCTAAATTAGAATGTGCAAGAAGCTAGAG
379 TAAAACCATGGACTCATGACTTTAAAAAGATTTTCTCCTAAAGCAGAATGTACAAGAAGCTACAA
* * * * *
29380923 AATCACTGTATAAGCGGTTATAAAAAGGGCTGACCATGCAAAAGTTTCTATTTCAAACATTTTAA
444 AATCACTATATAAGCGGTAATAAAAAGGGCTGACCATGCAAAAGTTTATATTCCAAACATTATAA
*
29380988 AGTAAAAAAAAAGTAAACAATGAAAAGGATGAGCAATATGATGATGAGAGTTGAGGGAAAAAAGG
509 AGTAAAAAAAAAGTAAACAATGAAAAGGATGAGAAATATGATGATGAGAGTTGAGGGAAAAAAGG
29381053 ATAGAGCTTGAAGGTTAT
574 --AGAGCTTGAAGGTTAT
* *
29381071 AGGCAATCTTGTGATTTTTTTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCT
1 AGGCAATCTTGTGATTTTTGTGTAATTTTCATACGTGTAATTTTCAGATTCTTATGATTTTGTCT
*
29381136 TATTTAAAATAAAAATTAAAAATTATATTAGTGGGACTAAAACAACAACATAACCATTTTTTATA
66 TA--T----TAAAAA--AAAAATCATATTAGTGGGACTAAAACAACAACATAACCATTTTTTATA
* * * *
29381201 TTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATCACCATATTTGATCGTATTATTATA
123 TTAAAAATGCTAACTCTTGTTATGGTTTTATAGTACTAATCACCATATTTGATCCTATTATTATA
* * * *
29381266 GTATTTGGATCCAATTTTTTCGATAAGAG-ACTTTTTTGAGGTGGCATTGCAAGTTATTGTG-A-
188 GTATTTGGATCCAACTTTTTCGATAAGAGAAATTGTTGGAGGTGGCATTGCAAGTTATTGTGAAT
*** *
29381328 T-C-AATTTGAGACGTACATGTCTTTACTATAATACCATATTT-TTTCAAAAACTTGTAAACATT
253 TACAAATTTGAGACGTACATGTCTTTACTATAATACCATATTTCCCCCAAAAACATGTAAACATT
* ** *
29381390 AGCAGGGAATAAATAA-CAAGAGAGGGGAATCAA-TTGCCAAATAGGGAACATAATAGGATCATA
318 AGCAGGGAACAAATAACCAA-AGAGAAGAATCAACTT-CCAAATAGGGAACATAATAGGACCATA
** * *** *
29381453 ATGCCATGGACTCATAAAGACTTTAAACAA-CTTTTCTCCTAAAGCAGAATGTATGGGAAGGTAC
381 AAACCATGGACTCAT---GACTTTAAA-AAGATTTTCTCCTAAAGCAGAATGTACAAGAAGCTAC
*** * *
29381517 AAAATTGTTATATAAGCGGTAATAGAAAGGGCTGACCATGCAAGAGTTTATATTCCAAACATTAT
442 AAAATCACTATATAAGCGGTAATAAAAAGGGCTGACCATGCAAAAGTTTATATTCCAAACATTAT
* ** * *
29381582 AGAGTCCAAAATAAGTAAACAATGAAAAGGATGAGAAATTTGATGATGAGAGTTGAAGGAGTAAA
507 AAAGTAAAAAAAAAGTAAACAATGAAAAGGATGAGAAATATGATGATGAGAGTTG-AGG-G-AAA
*
29381647 ACAGG-GAGCTTGAAGG
569 AAAGGAGAGCTTGAAGG
29381663 AAGAGTGTAG
Statistics
Matches: 501, Mismatches: 74, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
592 5 0.01
593 80 0.16
594 36 0.07
596 147 0.29
597 5 0.01
598 1 0.00
599 7 0.01
600 1 0.00
603 60 0.12
605 2 0.00
606 1 0.00
609 4 0.01
610 25 0.05
611 127 0.25
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (589 bp):
AGGCAATCTTGTGATTTTTGTGTAATTTTCATACGTGTAATTTTCAGATTCTTATGATTTTGTCT
TATTAAAAAAAAAATCATATTAGTGGGACTAAAACAACAACATAACCATTTTTTATATTAAAAAT
GCTAACTCTTGTTATGGTTTTATAGTACTAATCACCATATTTGATCCTATTATTATAGTATTTGG
ATCCAACTTTTTCGATAAGAGAAATTGTTGGAGGTGGCATTGCAAGTTATTGTGAATTACAAATT
TGAGACGTACATGTCTTTACTATAATACCATATTTCCCCCAAAAACATGTAAACATTAGCAGGGA
ACAAATAACCAAAGAGAAGAATCAACTTCCAAATAGGGAACATAATAGGACCATAAAACCATGGA
CTCATGACTTTAAAAAGATTTTCTCCTAAAGCAGAATGTACAAGAAGCTACAAAATCACTATATA
AGCGGTAATAAAAAGGGCTGACCATGCAAAAGTTTATATTCCAAACATTATAAAGTAAAAAAAAA
GTAAACAATGAAAAGGATGAGAAATATGATGATGAGAGTTGAGGGAAAAAAGGAGAGCTTGAAGG
TTAT
Found at i:29382326 original size:671 final size:664
Alignment explanation
Indices: 29381059--29382946 Score: 2336
Period size: 671 Copynumber: 2.8 Consensus size: 664
29381049 AAGGATAGAG
* * * * *
29381059 CTTGAAGGTTATAGGCAATCTTGTGATTTTTTTGTAATTTTCATAGGTGTAATTTTCAGATTCTT
1 CTTGAAGGCTAAAGGCAGTCTTGTGATTTTTATGTAATTTTCATAGGTGTAATTTTCAGATTTTT
* * * * *
29381124 ATGATTTTGTCTTATTTAAAATAAAAATTAAAAATTATATTAGTGGGACTAAAACAACAACATAA
66 AT-ATTTTGTCTTATTT-TAATAAAAATGAAAAATTATATTAGAGGGACTAAAACAACAATACAA
*
29381189 CCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATCACCATATTTGAT
129 CCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATCACCATATTTGCT
* * *
29381254 CGTATTATTATAGTATTTGGATCCAATTTTTTCGATAAGAGACTTT-TTTGAGGTGGCATTGCAA
194 CGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTTGTTGGAGATGGCATTGCAA
* *
29381318 GTTATTGTGATCAATTTGAGAC----G----T--AC--A-TGTCTTTACTATAATACCATATTTT
259 G-TATTTTGATCAATTTGAGACGTATGAATTTAGACGTACTGTCTTTACTATAATACCATATTTC
** * * * * *
29381370 TTCAAAAACTTGTAAACATTAGCAGGGAATAAATAA-CAAGAGAGGGGAATCAATTGCCAAATAG
323 CCCAAAAACGTGTAAACATTAGCAGGGAATAAATAACCAA-A-AGGAGAATCAACTACCAAATAA
*
29381434 GGAACATAATAGGATCATAATGCCATGGACTCATAAAGACTTTAAACAACTTTTCTCCTAAAGCA
386 GGAACATAATAGGATCATAATACCATGGACTCATAAAGACTTTAAACAACTTTTCTCCTAAAGCA
** * * * * * * *
29381499 GAATGTATGGGAAGGTACAAAATTGTTATATAAGCGGTAATAGAAAGGGCTGACCATGCAAGAGT
451 GAATGTGCGAGAAGGTAGAGAATAGCTATATAAGCGGTTATAAAAAGGGCTGACCATGCAAGAGT
* * * * * * **
29381564 TTATATTCCAAACATTATAGAGTCCAAAATAAGTAAACAATGAAAAGGATGAGAAATTTGATGAT
516 TTCTATTCAAAACATTTTAGAGTCAAAAATAAGTAAACAATGAAAACGATGACAAATACGATGAT
* *
29381629 GAGAGTTGAAGGAGTAAAACAGGGAGCTTGAAGGAAGAGTGTAGAAATGATGGAGTATGAAGGAT
581 GAGAGTTGAAGGAGTAAAACAGGGAGCTTGAAGGAAGAGTGAAGAAATGAGGGAGTATGAAGGAT
*
29381694 GAAAGAAGAAAGGAGGGAA
646 GAAAGAAGAAAGAAGGGAA
* *
29381713 CTTGAAGGCTAAAGGCAGTCTTGTGATTTTTATGTAATTTTCATTGGTGTAATTTTCAAATTTTT
1 CTTGAAGGCTAAAGGCAGTCTTGTGATTTTTATGTAATTTTCATAGGTGTAATTTTCAGATTTTT
** *
29381778 ATAATTTTGTCTTATTTTAACTAAAAATGAAAAATTATATTAGAGGGACTAAAATGACAATACAT
66 AT-ATTTTGTCTTATTTTAA-TAAAAATGAAAAATTATATTAGAGGGACTAAAACAACAATACAA
29381843 CCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATCACCATATTTGCT
129 CCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATCACCATATTTGCT
* * * *
29381908 CGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTTGTTGGAGCTAGTATTGCAT
194 CGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTTGTTGGAGATGGCATTGCAA
* * * **
29381973 GTATTTATGACCAATTTGAGACGTAATGAATTTAAGACGTACTTGTCTTTGCTGTAATATTATAT
259 GTATTT-TGATCAATTTGAGACGT-ATGAATTT-AGACGTAC-TGTCTTTACTATAATACCATAT
29382038 TTCCCCAAAAACGTGTAAACATTA-CAAGGGAATAAATAACCAAATAGGAGAATCAACTACCAAA
320 TTCCCCAAAAACGTGTAAACATTAGC-AGGGAATAAATAACCAAA-AGGAGAATCAACTACCAAA
* * *
29382102 TAAGGAATATAATAGGATCATAATACCATGAACTCATAAAGACTTTAAACATCTTTTCTCCTAAA
383 TAAGGAACATAATAGGATCATAATACCATGGACTCATAAAGACTTTAAACAACTTTTCTCCTAAA
* * * * * *
29382167 GCAGAATGTGCGAGACA-ATAGAGAATCGCTGTGTAAGTGGTTTTAAAAAGGGCTGACCATGCAA
448 GCAGAATGTGCGAGA-AGGTAGAGAATAGCTATATAAGCGGTTATAAAAAGGGCTGACCATGCAA
*
29382231 GAGTTTCTATTCTAAACATTTTAGAGTCAAAAATAAGTAAACAATGAAAACGATGACAAATACGA
512 GAGTTTCTATTCAAAACATTTTAGAGTCAAAAATAAGTAAACAATGAAAACGATGACAAATACGA
** * *
29382296 TGATGAGAGGTT-AAGGAAG-AAATTAGGGAGCTTTAAGGAAGAGTGAAGAAATGAGGGAGTTTG
577 TGATGAGA-GTTGAAGG-AGTAAAACAGGGAGCTTGAAGGAAGAGTGAAGAAATGAGGGAGTATG
* * *
29382359 AAGGTTGGAAGAAGAAAGAAGGGAG
640 AAGGATGAAAGAAGAAAGAAGGGAA
* *
29382384 CCTGAAGGCTAAAGGCAGTCTTGTGATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTATT
1 CTTGAAGGCTAAAGGCAGTCTTGTGATTTTTATGTAATTTTCATAGGTGTAATTTTCAGATT-TT
** * * * * *
29382449 GCTATTTTGTCTTA-TTTAA-AAAAAAGAAAAATTATATTAGCGAGAGTAAAACCACAAT-CTAA
65 TATATTTTGTCTTATTTTAATAAAAATGAAAAATTATATTAGAGGGACTAAAACAACAATAC-AA
* *
29382511 CCATTTTTTATATTGAAAATGTTAATTGTTGTTATGGTTTTATATTACTAATCACCATATTTGCT
129 CCATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATCACCATATTTGCT
*** * * *
29382576 CGTATTATTATAGTATTTATCTTCAATTTTTTCAATAAGAGACTTTGTTGGAGATGGCATTACAG
194 CGTATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTTGTTGGAGATGGCATTGCAA
* * * *
29382641 GTTATTGTT-ATCAATTTTAGATGTACTGAATTTGAGACGTACATCTCTTTACTATAATCCCATA
259 G-TATT-TTGATCAATTTGAGACGTA-TGAATTT-AGACGTAC-TGTCTTTACTATAATACCATA
* * *
29382705 TTTCCCGAAAACCGTGTAAACATTAGCAGGGAACAAATAACC-AAAGGAGAATCAACTACCAAAT
319 TTTCCCCAAAAACGTGTAAACATTAGCAGGGAATAAATAACCAAAAGGAGAATCAACTACCAAAT
* * *
29382769 AAAGAACATAAAAGGA-CTATAATACCATGGACTCATAAAGACTTTAAACAGCTTTTCTCCTAAA
384 AAGGAACATAATAGGATC-ATAATACCATGGACTCATAAAGACTTTAAACAACTTTTCTCCTAAA
** * * * * **
29382833 ATAGAATGTGCGAGAAGGTAGAGAATAACTACATAAGCGGTTAGAAAAAGGGCTGACAATGTGAG
448 GCAGAATGTGCGAGAAGGTAGAGAATAGCTATATAAGCGGTTATAAAAAGGGCTGACCATGCAAG
* **
29382898 AGTTTGC-ATTCAAAACATTTTAGAGGT-GAAAATAAGTAAGTAATGAAAA
513 AGTTT-CTATTCAAAACATTTTAGA-GTCAAAAATAAGTAAACAATGAAAA
29382947 AGATAAGAGA
Statistics
Matches: 1065, Mismatches: 135, Indels: 56
0.85 0.11 0.04
Matches are distributed among these distances:
653 2 0.00
654 224 0.21
655 28 0.03
660 1 0.00
664 1 0.00
665 2 0.00
666 166 0.16
667 9 0.01
668 233 0.22
669 7 0.01
670 7 0.01
671 373 0.35
672 12 0.01
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (664 bp):
CTTGAAGGCTAAAGGCAGTCTTGTGATTTTTATGTAATTTTCATAGGTGTAATTTTCAGATTTTT
ATATTTTGTCTTATTTTAATAAAAATGAAAAATTATATTAGAGGGACTAAAACAACAATACAACC
ATTTTTTATATTGAAAATGCTAACTGTTGTTATGGTTTTATATTACTAATCACCATATTTGCTCG
TATTATTATAGTATTTGGATTCAATTTTTTCGATAAGAGACTTTGTTGGAGATGGCATTGCAAGT
ATTTTGATCAATTTGAGACGTATGAATTTAGACGTACTGTCTTTACTATAATACCATATTTCCCC
AAAAACGTGTAAACATTAGCAGGGAATAAATAACCAAAAGGAGAATCAACTACCAAATAAGGAAC
ATAATAGGATCATAATACCATGGACTCATAAAGACTTTAAACAACTTTTCTCCTAAAGCAGAATG
TGCGAGAAGGTAGAGAATAGCTATATAAGCGGTTATAAAAAGGGCTGACCATGCAAGAGTTTCTA
TTCAAAACATTTTAGAGTCAAAAATAAGTAAACAATGAAAACGATGACAAATACGATGATGAGAG
TTGAAGGAGTAAAACAGGGAGCTTGAAGGAAGAGTGAAGAAATGAGGGAGTATGAAGGATGAAAG
AAGAAAGAAGGGAA
Found at i:29384252 original size:672 final size:670
Alignment explanation
Indices: 29382971--29384283 Score: 1712
Period size: 672 Copynumber: 2.0 Consensus size: 670
29382961 ATGATGTGAA
* * * * * *
29382971 TTGAAAGAAGAAAGGAGGGAGCCTGAAGGCTAAAGGTAGCCTAGAGATTTTTTGTTTAATTTTCG
1 TTGAAAGAAGAAAGGAGGGAACATGAAGACTAAAGGCAGCCTAGAGATTTTTTGTGTAATTTTCC
* *
29383036 TAGGTGTAATTTTAGAATTCTTATGATTTTATCTTATTTTAAACAAAAAGTAAAAATAATATTAG
66 TAGGTGTAATTTTAGAATTCTTATGATTTTATCTTATTTGAAAAAAAAAGTAAAAATAATATTAG
* ** *
29383101 ACAGACTAAAACCACAATATAACCATTCTTTCTATTCCAAATGCTAAATGTTGTTTTGGTTTTAT
131 ACAGACTAAAACCACAATATAACCATTCTTTATATTAAAAATGCTAAATGTTGTTATGGTTTTAT
* * * *
29383166 ATTATTGAGAACCATATTTGCTCATATTATTATAGCACTTGGATCTAGCTTTTTCGATAAGAGAC
196 ATTACTAAGAACCATACTTGCTCATATTATTATAGCACTTGGATCAAGCTTTTTCGATAAGAGAC
* *
29383231 ATTGTTGGAGGTGGCATTCCAGGTTATTGTGACCAATTTGAGACGTAATGAATTTGAGAAGTACA
261 ATTGTTGGAGGTGGCATTCCAAGTTATGGTGACCAATTTGAGACGTAATGAATTTGAGAAGTACA
* *
29383296 TGTCTTTACTATAATACAATATTTCCCCAAAACATGTAAACATTACAAGGGAACAAATAACCAGA
326 TGTCTTTACTATAATACAATATTTCCCAAAAACATGTAAACATTACAAGGGAACAAATAACCAAA
* *
29383361 GTGGAGAATCAAATGCAAACAGGGAACAGAATAGGACCATAATACCATAGACTCATAACGACTTT
391 GGGGAGAATCAAATGCAAACAGGGAACAGAATAGGACCATAAAACCATAGACTCATAACGACTTT
* * * * * * * *
29383426 AAACAACTTTTCTCTTGAAGCAGAATGTGTGAGACGGTAGAGAATCGCTTTATAAGCGGTTATGA
456 AAACAACTTTTCTCCTCAAGCAGAATGTGTAAGAAGGTAGAGAATCACTGTATAAGCAGTTATAA
* * *
29383491 AAGGGGCTGACCATGTAAGAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAACAATAA
521 AAAGGGCTGACCATGCAAAAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAACAATAA
* * * *
29383556 AAATGATAAGAAATATGATGATGAGAGGTTAAGGG-AGAAAGTAGGGAGCTTGAAGGAGGAGTAA
586 AAAGGATAAGAAATATGATGATGAGA-GTTAAGGGAAAAAAGGAGGGAGCTTAAAGGAGGAGTAA
29383620 AGAAAGGAGGGAGTTTGAAGG
650 AGAAAGGAGGGAGTTTGAAGG
* * * *
29383641 TTGAAAGAAGAAAGGAGGGAACATGAAGACTAAAGGCAGTCTTGTGA-TTTTTGTGTGATTTTCC
1 TTGAAAGAAGAAAGGAGGGAACATGAAGACTAAAGGCAGCCTAGAGATTTTTTGTGTAATTTTCC
* * *
29383705 TAGGTGTAATTTTCA-AATTCTTGTGATTTTGTCTTATTCTAGAAAAAAAAAG-AAAAATTATAT
66 TAGGTGTAATTTT-AGAATTCTTATGATTTTATCTTATT-T-GAAAAAAAAAGTAAAAATAATAT
*** * *** * * *
29383768 TAGTGGGACTGAAACCACAATA-AGATTGTTTTTTATATTAAAAATTCTAATTGTTGTTATGGTT
128 TAGACAGACTAAAACCACAATATA-ACCATTCTTTATATTAAAAATGCTAAATGTTGTTATGGTT
* * * **
29383832 TTATATTACTAATG-ACCATACTTGCTCTTATTATTATAGTATTTGGATTCAATTTTTTTCGATA
192 TTATATTACTAA-GAACCATACTTGCTCATATTATTATAGCACTTGGA-TCAAGCTTTTTCGATA
* * *
29383896 AGAGACATTGTTGGAGGTGGCGTTGCAAGTTATGGTGACTAATTTGAGACGTAATGAATTTGAGA
255 AGAGACATTGTTGGAGGTGGCATTCCAAGTTATGGTGACCAATTTGAGACGTAATGAATTTGAGA
* * *
29383961 CGTACATGTCTTTACTATAATACCATATTTCTCCAAAAACATGTAAATATTA-ACAGGGAACAAA
320 AGTACATGTCTTTACTATAATACAATATTTC-CCAAAAACATGTAAACATTACA-AGGGAACAAA
* * * * * *
29384025 TAACCAAAGGGGAGAATCAACTGCCAAATAGGGTACATAATAGGACCATAAAACCATGGACTTAT
383 TAACCAAAGGGGAGAATCAAATG-CAAACAGGGAACAGAATAGGACCATAAAACCATAGACTCAT
* *
29384090 AATG-CTTTAAA-AAGCTTTTCTCCTCAATCAGAATGTAG-AAGAAGTGT-GAGAATCACTGTAT
447 AACGACTTTAAACAA-CTTTTCTCCTCAAGCAGAATGT-GTAAGAAG-GTAGAGAATCACTGTAT
* *
29384151 AAGCAGTTATAAAAAGGGTTGACCATGCAAAAGTTTCTATTCCAAACATTTTAGAGTCTAAAATA
509 AAGCAGTTATAAAAAGGGCTGACCATGCAAAAGTTTCTATTCCAAACATTTTAGAGTCGAAAATA
* * * * *
29384216 ATTAAGCAATGAAAAGGATGAGAAATATGATGATGAGAGTTGAGGGAAAAAAGGAGGGAGCTTAA
574 AGTAAACAATAAAAAGGATAAGAAATATGATGATGAGAGTTAAGGGAAAAAAGGAGGGAGCTTAA
29384281 AGG
639 AGG
29384284 TTTAAGGTAG
Statistics
Matches: 550, Mismatches: 80, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
669 49 0.09
670 139 0.25
671 122 0.22
672 199 0.36
673 41 0.07
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (670 bp):
TTGAAAGAAGAAAGGAGGGAACATGAAGACTAAAGGCAGCCTAGAGATTTTTTGTGTAATTTTCC
TAGGTGTAATTTTAGAATTCTTATGATTTTATCTTATTTGAAAAAAAAAGTAAAAATAATATTAG
ACAGACTAAAACCACAATATAACCATTCTTTATATTAAAAATGCTAAATGTTGTTATGGTTTTAT
ATTACTAAGAACCATACTTGCTCATATTATTATAGCACTTGGATCAAGCTTTTTCGATAAGAGAC
ATTGTTGGAGGTGGCATTCCAAGTTATGGTGACCAATTTGAGACGTAATGAATTTGAGAAGTACA
TGTCTTTACTATAATACAATATTTCCCAAAAACATGTAAACATTACAAGGGAACAAATAACCAAA
GGGGAGAATCAAATGCAAACAGGGAACAGAATAGGACCATAAAACCATAGACTCATAACGACTTT
AAACAACTTTTCTCCTCAAGCAGAATGTGTAAGAAGGTAGAGAATCACTGTATAAGCAGTTATAA
AAAGGGCTGACCATGCAAAAGTTTCTATTCCAAACATTTTAGAGTCGAAAATAAGTAAACAATAA
AAAGGATAAGAAATATGATGATGAGAGTTAAGGGAAAAAAGGAGGGAGCTTAAAGGAGGAGTAAA
GAAAGGAGGGAGTTTGAAGG
Found at i:29385554 original size:663 final size:665
Alignment explanation
Indices: 29384265--29385555 Score: 1685
Period size: 663 Copynumber: 1.9 Consensus size: 665
29384255 TTGAGGGAAA
* * * * *
29384265 AAAGGAGGGAGCTTAAAGGTTTAAGGTAGTCATGTGATTTTTGTGTAATTTTCATAGGGGTACTT
1 AAAGGAGGGAGCCTAAAGGCTAAAGGTAGTCATATGATTTTTGTGTAATTTTCATAGGGGTAATT
* * * * *
29384330 TTCAGATTCTTATGATTTTGTCTTCTTTTAAATAAAAAAGAAAAATTATATTAGTGGGACTAAAA
66 TTAAGATTCTTATCATTTTGTCTTATTCTAAATAAAAAAGAAAAATTATATTAGTAGGACTAAAA
29384395 CGACAATATAACCATTTTTTATATTCAAAATGCTAGCTGTTGTTATGGTTTTATATTACTAATCA
131 CGACAATATAACCATTTTTTATATTCAAAATGCTAGCTGTTGTTATGGTTTTATATTACTAAT--
* * *
29384460 CCATATTTGATCATATTATTATAGTATTTGGATCCAATTTTTTCGATAGGAGACTTTTTTGGAGG
194 CCATATTTGATCATATTATTATAGTATTTAGATCCAATTTTTTCGATAAGAGACTTTGTTGGAGG
* * * *
29384525 TGGCATTGCATGTTATTGTGATCAATTTAAGATGTAATGAATTTGAGACGTACATGTTTTTACTA
259 TGGCATTACAGGTTATTGTGATCAATTTAAGACGTAATGAATTTGAGACGTACATGTCTTTACTA
* *
29384590 TAATACCATATTTCCCCAGAAACATGTAAACATTAGCAGGAAACAAATAACCAAATAGGGGAATC
324 TAATACCATATTTCCCCAAAAACATGTAAACAATAGCAGGAAACAAATAACC-AATAGGGGAATC
** * * * *
29384655 AACTGTCAAATAGGGGACATAATAGGACTATAATACCATGGACTCATACAGACTTTAAACAACTT
388 AACTACCAAACAGGGAACATAAAAGGACTATAATACCATGGACTCATAAAGACTTTAAACAACTT
* * * * * *
29384720 TTCTCCTAAAGCAGACTGTGCGAGAAGGCACAAAATCGTTATATAAGCGGTTATAAAAAGGGCTA
453 TTCTCCTAAAGCACAATGTGCAAGAAGGCACAAAATCCTTATACAAGCGATTATAAAAAGGGCTA
* * ** * * *
29384785 ACCATACAAGAGTTTCTACTCCAAATATTTTAGAGTCGAAAATAAGTAAACAATGACAAGGCTGA
518 ACAATACAAGAGTTTCTACTCCAAACATTTTAGAGTAAAAAATAAGTAAACAATGAAAAAGATGA
* *
29384850 GAAATTTGATGATGAGAGTTGAAGGAATAAAGTAGGGAGCTTGAAGGAAGTGTGAAGAAATGGAG
583 GAAATATGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGTGTGAAGAAATGGAG
29384915 TATGAAGGATGAAAGAAG
648 TATGAAGGATGAAAGAAG
* * ** *
29384933 AAAGGAGGGAGCCTGAAGGCTAAAGGTAGTCTTATGATTTTTGTGTAATTTTTGTAGGTGTAATT
1 AAAGGAGGGAGCCTAAAGGCTAAAGGTAGTCATATGATTTTTGTGTAATTTTCATAGGGGTAATT
*
29384998 TTAAGATTCTTGTCATTTTGTCTTATTCTAAA-AAGAAGAAG-AAAATTCATATTAG-AGGACTA
66 TTAAGATTCTTATCATTTTGTCTTATTCTAAATAA-AA-AAGAAAAATT-ATATTAGTAGGACTA
* * *
29385060 AAA-GCACAATCTAACCATTTTTTATATTGAAAATAG-TA-ATCGTTGTTATGGTTTTATATTAC
128 AAACG-ACAATATAACCATTTTTTATATTCAAAAT-GCTAGCT-GTTGTTATGGTTTTATATTAC
* * * * * * *
29385122 TAAT-CATATTTGCTCGTATTCTTATAGTATTTATATTCAGTTTTTTCGATAAGAGAGTTTGTTG
190 TAATCCATATTTGATCATATTATTATAGTATTTAGATCCAATTTTTTCGATAAGAGACTTTGTTG
29385186 GAGGTGGCATTACAGGTTATTGTGATCAATTTGAA-ACGTAATGAATTTGAGACGTACATGTCTT
255 GAGGTGGCATTACAGGTTATTGTGATCAATTT-AAGACGTAATGAATTTGAGACGTACATGTCTT
*
29385250 TACTATAATACCATATTTCCCCAAAAACGTGTAAACAATAGCAAGG-AACAAATAACC-A-AGGG
319 TACTATAATACCATATTTCCCCAAAAACATGTAAACAATAGC-AGGAAACAAATAACCAATAGGG
* *
29385312 AGAATCAATTACCAAACAGGTAACATAAAAGGACTATAATACCATGGACTCATAAAGACTTTAAA
383 -GAATCAACTACCAAACAGGGAACATAAAAGGACTATAATACCATGGACTCATAAAGACTTTAAA
* * * *
29385377 TAACTTTTCTCCTATATCACAATGTGCAAGAAGGTA-AAGAATCACTTATACAA-CGATTATAAA
447 CAACTTTTCTCCTAAAGCACAATGTGCAAGAAGGCACAA-AATC-CTTATACAAGCGATTATAAA
* * * * * *
29385440 AAGGGTTGACAATGCAAGAGTTTGTA-TTCACAACATTTTAGAGTAAAAAATAAGTAAATAATGA
510 AAGGGCTAACAATACAAGAGTTTCTACTCCA-AACATTTTAGAGTAAAAAATAAGTAAACAATGA
* * *
29385504 AAAAGATGAGATATATGATGATGTGAGTTGAATGAAGAAA-TGAGGGAGCTTG
574 AAAAGATGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGT-AGGGAGCTTG
29385556 GAGGCTATAG
Statistics
Matches: 538, Mismatches: 72, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
662 10 0.02
663 191 0.36
664 7 0.01
665 157 0.29
666 5 0.01
667 4 0.01
668 153 0.28
669 11 0.02
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (665 bp):
AAAGGAGGGAGCCTAAAGGCTAAAGGTAGTCATATGATTTTTGTGTAATTTTCATAGGGGTAATT
TTAAGATTCTTATCATTTTGTCTTATTCTAAATAAAAAAGAAAAATTATATTAGTAGGACTAAAA
CGACAATATAACCATTTTTTATATTCAAAATGCTAGCTGTTGTTATGGTTTTATATTACTAATCC
ATATTTGATCATATTATTATAGTATTTAGATCCAATTTTTTCGATAAGAGACTTTGTTGGAGGTG
GCATTACAGGTTATTGTGATCAATTTAAGACGTAATGAATTTGAGACGTACATGTCTTTACTATA
ATACCATATTTCCCCAAAAACATGTAAACAATAGCAGGAAACAAATAACCAATAGGGGAATCAAC
TACCAAACAGGGAACATAAAAGGACTATAATACCATGGACTCATAAAGACTTTAAACAACTTTTC
TCCTAAAGCACAATGTGCAAGAAGGCACAAAATCCTTATACAAGCGATTATAAAAAGGGCTAACA
ATACAAGAGTTTCTACTCCAAACATTTTAGAGTAAAAAATAAGTAAACAATGAAAAAGATGAGAA
ATATGATGATGAGAGTTGAAGGAAGAAAGTAGGGAGCTTGAAGGAAGTGTGAAGAAATGGAGTAT
GAAGGATGAAAGAAG
Found at i:29387539 original size:612 final size:612
Alignment explanation
Indices: 29386500--29388595 Score: 3388
Period size: 612 Copynumber: 3.4 Consensus size: 612
29386490 TAATACCATA
* * * * *
29386500 TTTCTCCTAAATCAGAATGTGCAAAAAGTGT-GAGAA-TCACTGTATAAGCGGTTATAAAAAGGT
1 TTTCTCCTAAATCAGAATGTGCAAAAAGT-TAAAAAATTGA-TGTATAAACGGTTATAAAAAGGG
* * * *
29386563 CTGACCATGCAAAAGCTTCAATTCCAAACATTTTAGAGTCTA-AAAGAAGTAAACAATGAGAAGG
64 CTGACCATGCAAGAGTTTCAATTCCAAACATTTTAGAGTC-AGAAATAAGTAAACAATGAAAAGG
* * * * * * *
29386627 AAGGGAAATATGATGATGAGAGTTGAAGGAAAAAAGAAGGGAGCTTGAAGG-TTAAAGGCAATCA
128 ATGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGAAGAGAGCTTGAAGGCTGAAA-GCAGTCT
29386691 TGTGATTTTT-TGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAA
192 TGTGATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAA
* * *
29386755 TAAAAAGGAAAAATTATATTAGTGGGACTAAAACGACAATATAACCATTTTTTATATTTAAAATG
257 TAAAAAAGAAAATTTTTATTAGTGGGACTAAAACGACAATATAACCATTTTTTATATTTAAAATG
29386820 CTAACTGTTTTATGGTTTTATATTACTGATCACCATATTTGATCGTATTATTATAGTATTTGGAT
322 CTAACTGTTTTATGGTTTTATATTACTGATCACCATATTTGATCGTATTATTATAGTATTTGGAT
29386885 CCAATTTTTCCGATAAGAGACTTTTTTGAAGGTGGCGTTGTAGGTTATTGTGATCAATTTGAGAT
387 CCAATTTTTCCGATAAGAGACTTTTTTGAAGGTGGCGTTGTAGGTTATTGTGATCAATTTGAGAT
29386950 GTAATGAATTTGAGACGTACATGTCATTACTATAATACCATATTTCCCCAAAAAATTGTAAACAT
452 GTAATGAATTTGAGACGTACATGTCATTACTATAATACCATATTTCCCCAAAAAATTGTAAACAT
29387015 TAGCTGGGAACAAATAACCAAAGAGGAGAATCAACTGCCAAATAGGGAACATAATAGGACCACAA
517 TAGCTGGGAACAAATAACCAAAGAGGAGAATCAACTGCCAAATAGGGAACATAATAGGACCACAA
29387080 TACCATGGACTCATAAAGACTTTAAACAACT
582 TACCATGGACTCATAAAGACTTTAAACAACT
*
29387111 TTTCTCCTAGATCAGAATGTGCAAAAAGTTAAAAAATTGATGTATAAACGGTTATAAAAAGGGCT
1 TTTCTCCTAAATCAGAATGTGCAAAAAGTTAAAAAATTGATGTATAAACGGTTATAAAAAGGGCT
*
29387176 GACCATGCAAGAGTTTCAATTCCAAACTTTTTAGAGTCAGAAATAAGTAAA-AGATGAAAAGGAT
66 GACCATGCAAGAGTTTCAATTCCAAACATTTTAGAGTCAGAAATAAGTAAACA-ATGAAAAGGAT
* * *
29387240 GAGAAATATGATGATGAGAGTTGAAGGAAGAATGGAGAGAGCTTTAAGGCTGAAAGCAGTCTTGT
130 GAGAAATATGATGATGAGAGTTGAAGGAAGAAAGAAGAGAGCTTGAAGGCTGAAAGCAGTCTTGT
29387305 GATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAATAA
195 GATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAATAA
29387370 AAAAGAAAATTTTTATTAGTGGGACTAAAACGACAATATAACCATTTTTTATATTTAAAATGCTA
260 AAAAGAAAATTTTTATTAGTGGGACTAAAACGACAATATAACCATTTTTTATATTTAAAATGCTA
29387435 ACTGTTTTATGGTTTTATATTACTGATCACCATATTTGATCGTATTATTATAGTATTTGGATCCA
325 ACTGTTTTATGGTTTTATATTACTGATCACCATATTTGATCGTATTATTATAGTATTTGGATCCA
29387500 ATTTTTCCGATAAGAGACTTTTTTGAAGGTGGCGTTGTAGGTTATTGTGATCAATTTGAGATGTA
390 ATTTTTCCGATAAGAGACTTTTTTGAAGGTGGCGTTGTAGGTTATTGTGATCAATTTGAGATGTA
29387565 ATGAATTTGAGACGTACATGTCATTACTATAATACCATATTTCCCCAAAAAATTGTAAACATTAG
455 ATGAATTTGAGACGTACATGTCATTACTATAATACCATATTTCCCCAAAAAATTGTAAACATTAG
29387630 CTGGGAACAAATAACCAAAGAGGAGAATCAACTGCCAAATAGGGAACATAATAGGACCACAATAC
520 CTGGGAACAAATAACCAAAGAGGAGAATCAACTGCCAAATAGGGAACATAATAGGACCACAATAC
29387695 CATGGACTCATAAAGACTTTAAACAACT
585 CATGGACTCATAAAGACTTTAAACAACT
*
29387723 TTTCTCCTAGATCAGAATGTGCAAAAAGTTAAAAAATTGATGTATAAACGGTTATAAAAAGGGCT
1 TTTCTCCTAAATCAGAATGTGCAAAAAGTTAAAAAATTGATGTATAAACGGTTATAAAAAGGGCT
*
29387788 GACCATGCAAGAGTTTCAATTCCAAACTTTTTAGAGTCAGAAATAAGTAAA-AGATGAAAAGGAT
66 GACCATGCAAGAGTTTCAATTCCAAACATTTTAGAGTCAGAAATAAGTAAACA-ATGAAAAGGAT
* * *
29387852 GAGAAATATGATGATGAGAGTTGAAGGAAGAATGGAGAGAGCTTTAAGGCTGAAAGCAGTCTTGT
130 GAGAAATATGATGATGAGAGTTGAAGGAAGAAAGAAGAGAGCTTGAAGGCTGAAAGCAGTCTTGT
29387917 GATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAATAA
195 GATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAATAA
29387982 AAAAGAAAATTTTTATTAGTGGGACTAAAACGACAATATAACCATTTTTTATATTTAAAATGCTA
260 AAAAGAAAATTTTTATTAGTGGGACTAAAACGACAATATAACCATTTTTTATATTTAAAATGCTA
* *
29388047 ACTGTTGTTATTGTTTTATATTACTAATCACCATATTTGATCGTATTATTATAGTATTTGGATCC
325 ACTGTT-TTATGGTTTTATATTACTGATCACCATATTTGATCGTATTATTATAGTATTTGGATCC
* * * * *
29388112 AATTTTTCTGATAAGAGACTTTTTTGGAGGTGACATTGTAGGTTATTGTGATGAATTTGAGATGT
389 AATTTTTCCGATAAGAGACTTTTTTGAAGGTGGCGTTGTAGGTTATTGTGATCAATTTGAGATGT
* * * * * **
29388177 AATGAATTTGAGACGTATATATCTTTACTATAATACCATATTTTCTCAAAAACGTGTAAACATTA
454 AATGAATTTGAGACGTACATGTCATTACTATAATACCATATTTCCCCAAAAAATTGTAAACATTA
* * * *
29388242 GCAGGGAACAAATAA-CAAGAGATGACAATCAACTGCCAAATAGGGAACATAATAGGACCATAAT
519 GCTGGGAACAAATAACCAA-AGAGGAGAATCAACTGCCAAATAGGGAACATAATAGGACCACAAT
* **
29388306 ACCATGGACTCATAATGACTTTAAA-AGGTT
583 ACCATGGACTCATAAAGACTTTAAACA-ACT
* * * * * ** *
29388336 TTTCTCCTAAATTAGAATGTGCAAGAAGGTAGAGAATTG-TAGTATAAGTGGCTATAAAAAGGGC
1 TTTCTCCTAAATCAGAATGTGCAAAAAGTTAAAAAATTGAT-GTATAAACGGTTATAAAAAGGGC
* * *
29388400 TGACAATGCAAGAGTTTCTATTCAAAACATTTTAGAGTC-GAAAATAAGTAAACAATGAAAAGGA
65 TGACCATGCAAGAGTTTCAATTCCAAACATTTTAGAGTCAG-AAATAAGTAAACAATGAAAAGGA
* * * *
29388464 TGAGAAATATGATGATGAGATTTGAAGGAAGAAAGAAGGGAGCTTGAAGGCT-AAGTGTAGTCTT
129 TGAGAAATATGATGATGAGAGTTGAAGGAAGAAAGAAGAGAGCTTGAAGGCTGAA-AGCAGTCTT
* * *
29388528 GTTATTTTTGTGTAATTTTCATAGGTGTAATTTTTAGATTATTATGATTTTGTCTTATTTTAAAT
193 GTGATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAAT
29388593 AAA
258 AAA
29388596 CTTGTGTAAT
Statistics
Matches: 1404, Mismatches: 68, Indels: 24
0.94 0.05 0.02
Matches are distributed among these distances:
610 3 0.00
611 166 0.12
612 751 0.53
613 483 0.34
614 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (612 bp):
TTTCTCCTAAATCAGAATGTGCAAAAAGTTAAAAAATTGATGTATAAACGGTTATAAAAAGGGCT
GACCATGCAAGAGTTTCAATTCCAAACATTTTAGAGTCAGAAATAAGTAAACAATGAAAAGGATG
AGAAATATGATGATGAGAGTTGAAGGAAGAAAGAAGAGAGCTTGAAGGCTGAAAGCAGTCTTGTG
ATTTTTGTGTAATTTTCATAGGTGTAATTTTCAGATTCTTATGATTTTGTCTTATTTTAAATAAA
AAAGAAAATTTTTATTAGTGGGACTAAAACGACAATATAACCATTTTTTATATTTAAAATGCTAA
CTGTTTTATGGTTTTATATTACTGATCACCATATTTGATCGTATTATTATAGTATTTGGATCCAA
TTTTTCCGATAAGAGACTTTTTTGAAGGTGGCGTTGTAGGTTATTGTGATCAATTTGAGATGTAA
TGAATTTGAGACGTACATGTCATTACTATAATACCATATTTCCCCAAAAAATTGTAAACATTAGC
TGGGAACAAATAACCAAAGAGGAGAATCAACTGCCAAATAGGGAACATAATAGGACCACAATACC
ATGGACTCATAAAGACTTTAAACAACT
Found at i:29388632 original size:62 final size:62
Alignment explanation
Indices: 29388535--29388658 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
29388525 CTTGTTATTT
29388535 TTGTGTAATTTTCATAGGTGTAATTTTTAGATTATTATGATTTTGTCTTATTTTAAATAAAC
1 TTGTGTAATTTTCATAGGTGTAATTTTTAGATTATTATGATTTTGTCTTATTTTAAATAAAC
29388597 TTGTGTAATTTTCATAGGTGTAATTTTTAGATTATTATGATTTTGTCTTATTTTAAATAAAC
1 TTGTGTAATTTTCATAGGTGTAATTTTTAGATTATTATGATTTTGTCTTATTTTAAATAAAC
29388659 AAGAAAAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (62 bp):
TTGTGTAATTTTCATAGGTGTAATTTTTAGATTATTATGATTTTGTCTTATTTTAAATAAAC
Found at i:29389582 original size:671 final size:671
Alignment explanation
Indices: 29387897--29389588 Score: 2276
Period size: 675 Copynumber: 2.5 Consensus size: 671
29387887 AGAGAGCTTT
* *
29387897 AAGGCTGAAA-GCAGTCTTGTGATTTTTGTGTAATTTTCATAGGTGT-AATTTTCAGATTCTTAT
1 AAGGCT-AAAGGCAATCTTGTGATTTTTGTGTAATTTTCATAGGTGTAAATTTAC-GATTCTTAT
* *
29387960 GATTTTGTCTTATTTTAAATAAAAAAGAAAATTTTTATTAGTGGGACTAAAACGACAATATAACC
64 GATTTTGTCTTATTTTAAATAAAAAAGAAAAATTATATTAGTGGGACTAAAACGACAATATAACC
29388025 ATTTTTTATATTTAAAATGCTAACTGTTGTTATTGTTTTATATTACTAATCACCATATTTGATCG
129 ATTTTTTATATTTAAAATGCTAACTGTTGTTATTGTTTTATATTACTAATCACCATATTTGATCG
29388090 TATTATTATAGTATTTGGATCCAATTTTTCTGATAAGAGACTTTTTTGGAGGTGACATTGTAGGT
194 TATTATTATAGTATTTGGATCCAATTTTTCTGATAAGAGACTTTTTTGGAGGTGACATTGTAGGT
*
29388155 TATTGTGATGAATTTGAGATGTAATGAATTTGAGACGTATATATCTTTACTATAATACCATATTT
259 TATTGTGATGAATTTGAGATGTAATGAATTTGAGACGTATATGTCTTTACTATAATACCATATTT
29388220 TCTCAAAAACGTGTAAACATTAGCAGGGAACAAATAACAAGAGATGACAATCAACTGCCAAATAG
324 TCTCAAAAACGTGTAAACATTAGCAGGGAACAAATAACAAGAGATGACAATCAACTGCCAAATAG
* **
29388285 GGAACATAATAGGACCATAATACCATGGACTCATAATGACTTTAAAAGGTTTTTCTCCTAAATTA
389 GGAACATAATAGGACCATAATACCATGGACTCATAATGACTTTAAAAGATTTTTCTCCTAAAGCA
* * ** ** * *
29388350 GAATGTGCAAGAAGGTAGAGAATTGTAGTATAAGTGGCTATAAAAAGGGCTGACAATGCAAGAGT
454 GAATGTGCAAGAAGGTACAAAATACTAGTATAAGCAGATATAAAAAGGGCTAACAATGCAAGAGT
* *
29388415 TTCTATTCAAAACATTTTAGAGTCGAAAATAAGTAAACAATGAAAAGGATGAGAAATATGATGAT
519 TTCTATTCAAAACATTTTAGAGTCGAAAACAAGTAAACAATGAAAAGGATAAGAAATATGATGAT
* * ** * *** ** *** * **
29388480 GAGATTTGAAGGAAGAAAGAAGGGAGCTTGAAGGCTAAGTGTAGTCTTGTTATTTTTGTGTAATT
584 GAGAGTTGAAGGAAGAAAGAAGGGAGCTTAAAGGAGAAGTGAAGAAATGAGAGAGTTGCGTAAGG
* ** * ***** *
29388545 TTCATAGGTGTAATTTTTAGATT
649 TTCAAAGAAGAAAAAGGGAGATG
* * *** * * * ** *
29388568 ATTATGATTTTGTCTTAT-TT-TAAATAAACTTGTGTAATTTTCATAGGTGTAATTTTTA-GATT
1 A--AGGCTAAAGGC-AATCTTGT-GAT--TTTTGTGTAATTTTCATAGGTGTAA-ATTTACGATT
* *
29388630 ATTATGATTTTGTCTTATTTTAAATAAACAAGAAAAATTATATTAGTGGGACTAAAACGACAATA
59 CTTATGATTTTGTCTTATTTTAAATAAAAAAGAAAAATTATATTAGTGGGACTAAAACGACAATA
29388695 TAACCATTTTTTATATTTAAAATGCTAACTGTTGTTATTGTTTTATATTACTAATCACCATATTT
124 TAACCATTTTTTATATTTAAAATGCTAACTGTTGTTATTGTTTTATATTACTAATCACCATATTT
29388760 GATCGTATTATTATAGTATTTGGATCCAATTTTTCTGATAAGAGACTTTTTTGGAGGTGACATTG
189 GATCGTATTATTATAGTATTTGGATCCAATTTTTCTGATAAGAGACTTTTTTGGAGGTGACATTG
29388825 TAGGTTATTGTGATGAATTTGAGATGTAATGAATTTGAGACGTATATGTCTTTACTATAATACCA
254 TAGGTTATTGTGATGAATTTGAGATGTAATGAATTTGAGACGTATATGTCTTTACTATAATACCA
* *
29388890 TATTTTCTCAAAAATGTGTAAACATTAGCAGGGAACAAATAACAAGAGATGAGAATCAACTGCCA
319 TATTTTCTCAAAAACGTGTAAACATTAGCAGGGAACAAATAACAAGAGATGACAATCAACTGCCA
29388955 AATAGGGAACATAATAGGACCATAATACCATGGACTCATAATGACTTTAAACA-ATTTTTCTCCT
384 AATAGGGAACATAATAGGACCATAATACCATGGACTCATAATGACTTTAAA-AGATTTTTCTCCT
* *
29389019 AAAGCAGAATGTGCGAGAAGGTACAAAATCACTA-TATAAGCAGATATAAAAAGGGCTAACCATG
448 AAAGCAGAATGTGCAAGAAGGTACAAAAT-ACTAGTATAAGCAGATATAAAAAGGGCTAACAATG
** * *
29389083 CAATCGTTTTTATTCCAAACATTTTAGAGTCGAAAACAAGTAAACAATGAAAAGGATAAGAAATA
512 CAAGAGTTTCTATTCAAAACATTTTAGAGTCGAAAACAAGTAAACAATGAAAAGGATAAGAAATA
* * * *
29389148 TGATGATGGGAGGTT-AAGGGAGAAAGTAGGGAGCTTAAAGGAGAAGTGAAGAAATGAGGGAGTT
577 TGATGATGAGA-GTTGAAGGAAGAAAGAAGGGAGCTTAAAGGAGAAGTGAAGAAATGAGAGAGTT
*
29389212 -CG-AAGGTTGAAAGAAGAAAGAAGGGAGCATG
641 GCGTAAGGTTCAAAGAAGAAA-AAGGGAG-ATG
* * *
29389243 AAGGCTAAAGGCAATCTTGTGATTTTTGTGTAATTTTCGTAGGTGTAAATTTACGGTTCTTCTGA
1 AAGGCTAAAGGCAATCTTGTGATTTTTGTGTAATTTTCATAGGTGTAAATTTACGATTCTTATGA
* * *
29389308 TTTTGTCTTATTCTAAATAAAAAAGAAAAATTATATTTGTGGGACTAAAACAACAATATAACCAT
66 TTTTGTCTTATTTTAAATAAAAAAGAAAAATTATATTAGTGGGACTAAAACGACAATATAACCAT
* * ** * * *
29389373 TTTTTATATTGAAAATGCTTACTGTTGAAATGGTTTTATATTACTAATCACTATATTTGTTCGTA
131 TTTTTATATTTAAAATGCTAACTGTTGTTATTGTTTTATATTACTAATCACCATATTTGATCGTA
* * *
29389438 TTATTATAGTATTTGGATTCAATTTTT-TCGA-AGAGAGACTTTGTTGGAGGTGGCATTGTAGGT
196 TTATTATAGTATTTGGATCCAATTTTTCT-GATA-AGAGACTTTTTTGGAGGTGACATTGTAGGT
* * * * * * * * * *
29389501 TTTTGTGGTCAATTTGAGACGTCATGAATTTGAGACATACATGTATTTATTATAAAACCATA-TT
259 TATTGTGATGAATTTGAGATGTAATGAATTTGAGACGTATATGTCTTTACTATAATACCATATTT
29389565 TCTGCAAAAACGTGTAAACATTAG
324 TCT-CAAAAACGTGTAAACATTAG
29389589 TTGGGAATAT
Statistics
Matches: 891, Mismatches: 110, Indels: 40
0.86 0.11 0.04
Matches are distributed among these distances:
670 11 0.01
671 277 0.31
672 3 0.00
673 27 0.03
674 5 0.01
675 559 0.63
676 6 0.01
677 3 0.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (671 bp):
AAGGCTAAAGGCAATCTTGTGATTTTTGTGTAATTTTCATAGGTGTAAATTTACGATTCTTATGA
TTTTGTCTTATTTTAAATAAAAAAGAAAAATTATATTAGTGGGACTAAAACGACAATATAACCAT
TTTTTATATTTAAAATGCTAACTGTTGTTATTGTTTTATATTACTAATCACCATATTTGATCGTA
TTATTATAGTATTTGGATCCAATTTTTCTGATAAGAGACTTTTTTGGAGGTGACATTGTAGGTTA
TTGTGATGAATTTGAGATGTAATGAATTTGAGACGTATATGTCTTTACTATAATACCATATTTTC
TCAAAAACGTGTAAACATTAGCAGGGAACAAATAACAAGAGATGACAATCAACTGCCAAATAGGG
AACATAATAGGACCATAATACCATGGACTCATAATGACTTTAAAAGATTTTTCTCCTAAAGCAGA
ATGTGCAAGAAGGTACAAAATACTAGTATAAGCAGATATAAAAAGGGCTAACAATGCAAGAGTTT
CTATTCAAAACATTTTAGAGTCGAAAACAAGTAAACAATGAAAAGGATAAGAAATATGATGATGA
GAGTTGAAGGAAGAAAGAAGGGAGCTTAAAGGAGAAGTGAAGAAATGAGAGAGTTGCGTAAGGTT
CAAAGAAGAAAAAGGGAGATG
Found at i:29390135 original size:16 final size:17
Alignment explanation
Indices: 29390114--29390151 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
29390104 TTTTGTGGTC
29390114 AATTTGAGACGT-CATG
1 AATTTGAGACGTACATG
29390130 AATTTGAGACGTACATG
1 AATTTGAGACGTACATG
*
29390147 TATTT
1 AATTT
29390152 ACTATGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAGACGTACATG
Found at i:29392136 original size:26 final size:24
Alignment explanation
Indices: 29392096--29392150 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
29392086 GAGGTACACA
29392096 TTTTTTTTAAATTAGTACTTAAATT
1 TTTTTTTTAAATTAGTA-TTAAATT
* *
29392121 TATTTTTTTAATTTAGTATTTAATT
1 T-TTTTTTTAAATTAGTATTAAATT
29392146 TTTTT
1 TTTTT
29392151 AATTTGGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 4 0.15
25 8 0.30
26 15 0.56
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTTTTTAAATTAGTATTAAATT
Found at i:29392148 original size:21 final size:21
Alignment explanation
Indices: 29392118--29392163 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
29392108 TAGTACTTAA
29392118 ATTT-ATTTTTTTAATTTAGT
1 ATTTAATTTTTTTAATTTAGT
*
29392138 ATTTAATTTTTTTAATTTGGT
1 ATTTAATTTTTTTAATTTAGT
29392159 ATTTA
1 ATTTA
29392164 TCAAACGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
ATTTAATTTTTTTAATTTAGT
Found at i:29395903 original size:156 final size:156
Alignment explanation
Indices: 29395619--29395907 Score: 578
Period size: 156 Copynumber: 1.9 Consensus size: 156
29395609 TTAATGGAGA
29395619 GTTTTCCAATTTTCTGAAAAGCCATGATGGTTGGGAGCCATAATTTAAACCTCACTTACTTTTAC
1 GTTTTCCAATTTTCTGAAAAGCCATGATGGTTGGGAGCCATAATTTAAACCTCACTTACTTTTAC
29395684 GCCTTAAATCTTAAACCTCACCTCCTCTGCATAGTTCGTTTAAGCATACTCATTTTATTTTTTAA
66 GCCTTAAATCTTAAACCTCACCTCCTCTGCATAGTTCGTTTAAGCATACTCATTTTATTTTTTAA
29395749 AAAGGAGCCATAATTTAAACCTCACT
131 AAAGGAGCCATAATTTAAACCTCACT
29395775 GTTTTCCAATTTTCTGAAAAGCCATGATGGTTGGGAGCCATAATTTAAACCTCACTTACTTTTAC
1 GTTTTCCAATTTTCTGAAAAGCCATGATGGTTGGGAGCCATAATTTAAACCTCACTTACTTTTAC
29395840 GCCTTAAATCTTAAACCTCACCTCCTCTGCATAGTTCGTTTAAGCATACTCATTTTATTTTTTAA
66 GCCTTAAATCTTAAACCTCACCTCCTCTGCATAGTTCGTTTAAGCATACTCATTTTATTTTTTAA
29395905 AAA
131 AAA
29395908 ATAATTATTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 133 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.37
Consensus pattern (156 bp):
GTTTTCCAATTTTCTGAAAAGCCATGATGGTTGGGAGCCATAATTTAAACCTCACTTACTTTTAC
GCCTTAAATCTTAAACCTCACCTCCTCTGCATAGTTCGTTTAAGCATACTCATTTTATTTTTTAA
AAAGGAGCCATAATTTAAACCTCACT
Found at i:29415476 original size:24 final size:24
Alignment explanation
Indices: 29415431--29415476 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29415421 TAGCCTGTAT
* *
29415431 ATTTATTAGCCCACATACATCAGA
1 ATTTATTAGCCCAAATAAATCAGA
*
29415455 ATTTATTAGGCCAAATAAATCA
1 ATTTATTAGCCCAAATAAATCA
29415477 CTAGCTCGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (24 bp):
ATTTATTAGCCCAAATAAATCAGA
Found at i:29417635 original size:12 final size:13
Alignment explanation
Indices: 29417618--29417646 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29417608 CTCATACATG
29417618 AATAAATAAA-GT
1 AATAAATAAATGT
29417630 AATAAATAAATGT
1 AATAAATAAATGT
29417643 AATA
1 AATA
29417647 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
AATAAATAAATGT
Found at i:29420960 original size:43 final size:43
Alignment explanation
Indices: 29420913--29420994 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
29420903 GAAATCTTGT
29420913 ATCGATACCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
1 ATCGATACCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
* *
29420956 ATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATC
1 ATCGATACCAATAGCCCAGCTATGGTCTTACACAAAATC
29420995 ACACCTCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
ATCGATACCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
Found at i:29421225 original size:169 final size:169
Alignment explanation
Indices: 29420946--29421284 Score: 660
Period size: 169 Copynumber: 2.0 Consensus size: 169
29420936 GGTCTTACAC
*
29420946 AAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCACACCTCGAAACTCCT
1 AAAATCTCAAATCGATGCAAATAGCCCAGCTATGGTCTTACACGAAATCACACCTCGAAACTCCT
29421011 AATATCATGACATCAATATCCAATACATTTACTAAGGTTCATTCAGAGCTTTCGACTTCGTAATT
66 AATATCATGACATCAATATCCAATACATTTACTAAGGTTCATTCAGAGCTTTCGACTTCGTAATT
29421076 AAATCAATTCATGCACGAAACCAATCATCCAATGCTCAA
131 AAATCAATTCATGCACGAAACCAATCATCCAATGCTCAA
*
29421115 AAAATCTCAAATTGATGCAAATAGCCCAGCTATGGTCTTACACGAAATCACACCTCGAAACTCCT
1 AAAATCTCAAATCGATGCAAATAGCCCAGCTATGGTCTTACACGAAATCACACCTCGAAACTCCT
29421180 AATATCATGACATCAATATCCAATACATTTACTAAGGTTCATTCAGAGCTTTCGACTTCGTAATT
66 AATATCATGACATCAATATCCAATACATTTACTAAGGTTCATTCAGAGCTTTCGACTTCGTAATT
29421245 AAATCAATTCATGCACGAAACCAATCATCCAATGCTCAA
131 AAATCAATTCATGCACGAAACCAATCATCCAATGCTCAA
29421284 A
1 A
29421285 TCAATTTGAC
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 168 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (169 bp):
AAAATCTCAAATCGATGCAAATAGCCCAGCTATGGTCTTACACGAAATCACACCTCGAAACTCCT
AATATCATGACATCAATATCCAATACATTTACTAAGGTTCATTCAGAGCTTTCGACTTCGTAATT
AAATCAATTCATGCACGAAACCAATCATCCAATGCTCAA
Found at i:29421392 original size:31 final size:31
Alignment explanation
Indices: 29421313--29421517 Score: 259
Period size: 31 Copynumber: 6.6 Consensus size: 31
29421303 CCATATACGG
* * *
29421313 ATCAAATTCGGCAATGTATATCTACACATAA
1 ATCAAATTCGGCAATGTATATCTATATACAA
* ** *
29421344 ATC-GATTCAACAATGTATATCCATATACAA
1 ATCAAATTCGGCAATGTATATCTATATACAA
* *
29421374 ATCAAATTCGGCAATGTATAACCATATACAA
1 ATCAAATTCGGCAATGTATATCTATATACAA
* * *
29421405 ATCAAATTTGACAATGTATATCTATAAACAA
1 ATCAAATTCGGCAATGTATATCTATATACAA
* *
29421436 TTCAAATTCGACAATGTATATCTATATACAA
1 ATCAAATTCGGCAATGTATATCTATATACAA
*
29421467 TTCAAATTCGGCAATGTATATCTATATACAA
1 ATCAAATTCGGCAATGTATATCTATATACAA
*
29421498 ATCAAATTTGGCAATGTATA
1 ATCAAATTCGGCAATGTATA
29421518 AAACATATAC
Statistics
Matches: 151, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
30 23 0.15
31 128 0.85
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.32
Consensus pattern (31 bp):
ATCAAATTCGGCAATGTATATCTATATACAA
Found at i:29421476 original size:93 final size:92
Alignment explanation
Indices: 29421303--29421517 Score: 295
Period size: 93 Copynumber: 2.3 Consensus size: 92
29421293 ACAATAATAC
** * * * *
29421303 CCATATACGGATCAAATTCGGCAATGTATATCTACACATAAATCGATTCAACAATGTATATCCAT
1 CCATATACAAATCAAATTTGGCAATGTATATCTACAAACAAATCAATTCAACAATGTATATCCAT
29421368 ATACAAATCAAATTCGGCAATGTATAA
66 ATACAAATCAAATTCGGCAATGTATAA
* * * * *
29421395 CCATATACAAATCAAATTTGACAATGTATATCTATAAACAATTCAAATTCGACAATGTATATCTA
1 CCATATACAAATCAAATTTGGCAATGTATATCTACAAACAAATC-AATTCAACAATGTATATCCA
* *
29421460 TATACAATTCAAATTCGGCAATGTATAT
65 TATACAAATCAAATTCGGCAATGTATAA
*
29421488 CTATATACAAATCAAATTTGGCAATGTATA
1 CCATATACAAATCAAATTTGGCAATGTATA
29421518 AAACATATAC
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 36 0.34
93 71 0.66
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (92 bp):
CCATATACAAATCAAATTTGGCAATGTATATCTACAAACAAATCAATTCAACAATGTATATCCAT
ATACAAATCAAATTCGGCAATGTATAA
Found at i:29433656 original size:25 final size:25
Alignment explanation
Indices: 29433626--29433686 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
29433616 ATATATATTT
29433626 AATATATATTTGATTAAAAATAAAA
1 AATATATATTTGATTAAAAATAAAA
29433651 AATATATATTTGATTAAAAATAAAA
1 AATATATATTTGATTAAAAATAAAA
*
29433676 AATAAATATTT
1 AATATATATTT
29433687 AACATATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (25 bp):
AATATATATTTGATTAAAAATAAAA
Found at i:29442988 original size:486 final size:485
Alignment explanation
Indices: 29441758--29443032 Score: 1930
Period size: 487 Copynumber: 2.6 Consensus size: 485
29441748 GAAGCCTTGA
* * * *
29441758 TTTTCCTTGAACTTATCAGACTAAGATTTAAAAATGTGAAAGTTTAGGCAATCTGGAATGTACCT
1 TTTTCCTTGAACTTATCAGACTAAGATTTAACAATGTGGAAGTTTACGCAATCTGGAATGTACTT
* * *
29441823 CTTCAGTACCTAACACCACTGCCACAAATTATTGTATGACGCATCCCACCCATTATGCATCATCT
66 CTCCAGTACCTAACACCACTGCCACAAATCATTGTATGACGCATCCCACCCATTATGCATCTTCT
* *
29441888 CCAATGCTTTATGCTTTGTGATCCACGCCTTGAGGTATGACGACGTGCAATCGAACTGGCTACGA
131 CCAAT-CTTTATGCTTTGTGATCCACGCCTTGCGGTATGACGACGTGTAATCGAACTGGCTACGA
* * * *
29441953 ATATTTGTCATTAAAATCGACATAGCAATCTTGGGACTCATTTTCACTATAGGTAGTATTATATT
195 ATATTTGTAATTAAAACCGAAATAGCAATCTTGGGACTCATTTTCACCATAGGTAGTATTATATT
*
29442018 TGCGATCATCTCCGAA-TCTAATTTTGAATGATTTC-AAATAATACTTGCAACAATACGAGTACG
260 TGCGATCATCTCCGAATTC-AA-TTTGAATGATTTCGAGA-AATACTTGCAACAATACGAGTACG
* * *
29442081 TTAAAGTTAGGAATTCAACACCCAAATATAATACAGTCTTGAAATAGTACTCACGACAACACACG
322 TTAAAGTTAGGAATTCAACACCCAAATATAATACAGTCTTGAAACAGTACCCACGACAACACACA
* *
29442146 TATTCAGAACGATAAATTTTTTTATGGTCCACAACCCTATCTTCTTCTTAACAGAAGCCATGATT
387 TATTCAGAACGATAAATTTTTTTATGGTCCACAACCCTATCTTCTTCTAAACAAAAGCCATGATT
* * *
29442211 TTCCATGCACATTTGTTGTCTTGCATTGCACTTT
452 TTCCATGCACATCTGTTGTCTCGCATTGCACTAT
*
29442245 TTTTCCTTGAACTTATCAGACTAAGATTTAACAATGTGGAAGTTTACGCAATCTGGAACGTACTT
1 TTTTCCTTGAACTTATCAGACTAAGATTTAACAATGTGGAAGTTTACGCAATCTGGAATGTACTT
* *
29442310 CTCCAGTACCTAACACCACTGCCACAAATCATTTTATGACGCATCCCACCCATTATGTATCTTCT
66 CTCCAGTACCTAACACCACTGCCACAAATCATTGTATGACGCATCCCACCCATTATGCATCTTCT
* * * * * *
29442375 CCAATGTGTTATGCTTTGTGATCCACGCCTTACGATACGACAACGTGTAATCAAACTGGCTACGA
131 CCAATCT-TTATGCTTTGTGATCCACGCCTTGCGGTATGACGACGTGTAATCGAACTGGCTACGA
* * *
29442440 ATATTTGTAATTTAAACCGAAATAGCTATCCTT-GGACTCATTTTCACCATAGGTATTATTATAT
195 ATATTTGTAATTAAAACCGAAATAGCAAT-CTTGGGACTCATTTTCACCATAGGTAGTATTATAT
* *
29442504 TTGCGATCATCTCTGAATTCAATTATGAATGATTTCGAGAAATACTTGCAACAATACGAGTATGT
259 TTGCGATCATCTCCGAATTCAATT-TGAATGATTTCGAGAAATACTTGCAACAATACGAGTACGT
*
29442569 TAAAGTTAGGAATTCAACACCCAAATATAATAC-GATCTTGAAACAGTACCCACGGCAACACACA
323 TAAAGTTAGGAATTCAACACCCAAATATAATACAG-TCTTGAAACAGTACCCACGACAACACACA
* * * *
29442633 TATTCAGAGCGGTAAATTTTTTTATGGTCCACAACCTTATCTTCTTCTAAATAAAAGCCATGATT
387 TATTCAGAACGATAAATTTTTTTATGGTCCACAACCCTATCTTCTTCTAAACAAAAGCCATGATT
29442698 TTCCATGCACATCTGTTGTCTCGCATTGCAC-AT
452 TTCCATGCACATCTGTTGTCTCGCATTGCACTAT
*
29442731 TTTTCCTTGAACTTACCAGACTAAGATTTAACAATGTGGAAGTTTACGCAATCTGGAATGTACTT
1 TTTTCCTTGAACTTATCAGACTAAGATTTAACAATGTGGAAGTTTACGCAATCTGGAATGTACTT
*
29442796 CTCCAGTACCTGACACCACTGCCACAAATCATTGTATGACGCATCCCACCCATTATGCATCTTCT
66 CTCCAGTACCTAACACCACTGCCACAAATCATTGTATGACGCATCCCACCCATTATGCATCTTCT
* * * * * * * *
29442861 CAAATACTTTATGTTTTGTGATCCATGCCGTGCGGTATAACGATGTGTAATTGAACTGACTACGA
131 CCAAT-CTTTATGCTTTGTGATCCACGCCTTGCGGTATGACGACGTGTAATCGAACTGGCTACGA
* *
29442926 ATATTTGTAATTAAAACCGATATTGCAATCTTGGGACTCATTTTCACCATAGGTAGTATTATATT
195 ATATTTGTAATTAAAACCGAAATAGCAATCTTGGGACTCATTTTCACCATAGGTAGTATTATATT
* *
29442991 TGCGATCATCTCCGAATCCAATTTCGAATGATTTTGAGAAAT
260 TGCGATCATCTCCGAATTCAATTT-GAATGATTTCGAGAAAT
29443033 CACCCGAATC
Statistics
Matches: 711, Mismatches: 68, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
485 4 0.01
486 272 0.38
487 428 0.60
488 7 0.01
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (485 bp):
TTTTCCTTGAACTTATCAGACTAAGATTTAACAATGTGGAAGTTTACGCAATCTGGAATGTACTT
CTCCAGTACCTAACACCACTGCCACAAATCATTGTATGACGCATCCCACCCATTATGCATCTTCT
CCAATCTTTATGCTTTGTGATCCACGCCTTGCGGTATGACGACGTGTAATCGAACTGGCTACGAA
TATTTGTAATTAAAACCGAAATAGCAATCTTGGGACTCATTTTCACCATAGGTAGTATTATATTT
GCGATCATCTCCGAATTCAATTTGAATGATTTCGAGAAATACTTGCAACAATACGAGTACGTTAA
AGTTAGGAATTCAACACCCAAATATAATACAGTCTTGAAACAGTACCCACGACAACACACATATT
CAGAACGATAAATTTTTTTATGGTCCACAACCCTATCTTCTTCTAAACAAAAGCCATGATTTTCC
ATGCACATCTGTTGTCTCGCATTGCACTAT
Found at i:29450130 original size:129 final size:129
Alignment explanation
Indices: 29449920--29450154 Score: 407
Period size: 129 Copynumber: 1.8 Consensus size: 129
29449910 CATTGATGCT
29449920 ATTCTTGCTCTCTATTTGTTGAGCCTTTCCTTCCCTACATGATTTGAATCTAAAAGTTTCCATGG
1 ATTCTTGCTCTCTATTTGTTGAGCCTTTCCTTCCCTACATGATTTGAATCTAAAAGTTTCCATGG
* *
29449985 AATTGTTCTAAAAGAAGAAAAAAGGAATTGACATTTGAATAAGATCTTGCATGCCATTTATGTC
66 AATTGTTCCAAAAGAAGAAAAAAGGAATTGAAATTTGAATAAGATCTTGCATGCCATTTATGTC
* * *
29450049 ATTCTTGCTCTCTATTTGTTGAGTCTTTCCTTCCCTACATGATTTGGATCTAAAATTTTCCATGG
1 ATTCTTGCTCTCTATTTGTTGAGCCTTTCCTTCCCTACATGATTTGAATCTAAAAGTTTCCATGG
* *
29450114 AATTGTTCCAAGAGAAGAAAAAGGGAATTGAAATTTGAATA
66 AATTGTTCCAAAAGAAGAAAAAAGGAATTGAAATTTGAATA
29450155 CCTTTGTTCT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 99 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (129 bp):
ATTCTTGCTCTCTATTTGTTGAGCCTTTCCTTCCCTACATGATTTGAATCTAAAAGTTTCCATGG
AATTGTTCCAAAAGAAGAAAAAAGGAATTGAAATTTGAATAAGATCTTGCATGCCATTTATGTC
Found at i:29450657 original size:24 final size:23
Alignment explanation
Indices: 29450622--29450666 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
29450612 AATTAAAAAA
29450622 AATTAAAACCTAAAACCCTAAAG
1 AATTAAAACCTAAAACCCTAAAG
*
29450645 AATTAAAAACCTAATACCCTAA
1 AATT-AAAACCTAAAACCCTAA
29450667 TTTAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.56, C:0.22, G:0.02, T:0.20
Consensus pattern (23 bp):
AATTAAAACCTAAAACCCTAAAG
Found at i:29452327 original size:16 final size:16
Alignment explanation
Indices: 29452308--29452338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29452298 TTATTAATGA
*
29452308 TATTTAATTTTAAAAT
1 TATTTAATATTAAAAT
29452324 TATTTAATATTAAAA
1 TATTTAATATTAAAA
29452339 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:29470449 original size:62 final size:62
Alignment explanation
Indices: 29470352--29470705 Score: 618
Period size: 62 Copynumber: 5.7 Consensus size: 62
29470342 AAATGTACCT
*
29470352 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
*
29470414 AATTTATATTACAAATTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
*
29470476 AATTTATATTACAAATTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
*
29470538 AATTTATATTACAAATTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * *
29470600 AATTTATTTTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * *
29470662 AATTTATTTTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT
1 AATTTATATTACAAAGTTTCTTCCAAGTTTTAATATTGTAATGT
29470706 TGTAATGTTG
Statistics
Matches: 285, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 285 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTCTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:29471919 original size:14 final size:14
Alignment explanation
Indices: 29471900--29471927 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29471890 ACATTTACAT
29471900 GTTAGAATAGTATC
1 GTTAGAATAGTATC
29471914 GTTAGAATAGTATC
1 GTTAGAATAGTATC
29471928 AGTTGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:29475392 original size:19 final size:18
Alignment explanation
Indices: 29475368--29475405 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
29475358 ATTATGATTC
29475368 TAAATAA-ATATATAATTTA
1 TAAATAATA-ATAT-ATTTA
29475387 TAAATAATAATATATTTA
1 TAAATAATAATATATTTA
29475405 T
1 T
29475406 TTTAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 11 0.61
20 1 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATAATAATATATTTA
Found at i:29475403 original size:18 final size:19
Alignment explanation
Indices: 29475368--29475405 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
29475358 ATTATGATTC
29475368 TAAATAAATATATAATTTA
1 TAAATAAATATATAATTTA
29475387 TAAAT-AATA-ATATATTTA
1 TAAATAAATATATA-ATTTA
29475405 T
1 T
29475406 TTTAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 10 0.56
19 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATAAATATATAATTTA
Found at i:29475709 original size:24 final size:24
Alignment explanation
Indices: 29475681--29475732 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
29475671 TTTCTAGAAG
* *
29475681 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
29475705 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
29475729 ATTT
1 ATTT
29475733 GACTTACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:29477989 original size:14 final size:14
Alignment explanation
Indices: 29477968--29478001 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29477958 TTTATAAGTT
*
29477968 AAATAATAATAGAA
1 AAATAATAAAAGAA
*
29477982 ACATAATAAAAGAA
1 AAATAATAAAAGAA
29477996 AAATAA
1 AAATAA
29478002 ATGAAAGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (14 bp):
AAATAATAAAAGAA
Found at i:29480249 original size:54 final size:54
Alignment explanation
Indices: 29480140--29480243 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
29480130 TAGTGAGCTA
* * * * * *
29480140 CACGGGCTGAGACAGAGTCGTGTGTCTCAAGTTAGTGAGTTACAAGGGTAAGGG
1 CACGGGCTGAGACACAGTCGTGTGTCCCAACTTAGAGAGTCACAAGGCTAAGGG
* *
29480194 CACGGTCTGAGACACAGTCGTGTGTCCCAACTTCGAGAGTCACACAGGCT
1 CACGGGCTGAGACACAGTCGTGTGTCCCAACTTAGAGAGTCACA-AGGCT
29480244 GGGGCATTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
54 37 0.90
55 4 0.10
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (54 bp):
CACGGGCTGAGACACAGTCGTGTGTCCCAACTTAGAGAGTCACAAGGCTAAGGG
Found at i:29481535 original size:18 final size:18
Alignment explanation
Indices: 29481514--29481607 Score: 66
Period size: 18 Copynumber: 5.3 Consensus size: 18
29481504 ATCTATGTTT
29481514 TTTTTATAAATTTTTATA
1 TTTTTATAAATTTTTATA
** *
29481532 TTTTTATAAATTTACATGC
1 TTTTTATAAATTTTTAT-A
* *
29481551 TTTTT-TATATTTATATA
1 TTTTTATAAATTTTTATA
* **
29481568 -TATTATAAGCTTTTATA
1 TTTTTATAAATTTTTATA
* **
29481585 TATTTATAAAAATTTATA
1 TTTTTATAAATTTTTATA
29481603 TTTTT
1 TTTTT
29481608 TATCTTAGTC
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
16 3 0.05
17 8 0.14
18 40 0.71
19 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTTATAAATTTTTATA
Found at i:29481579 original size:27 final size:28
Alignment explanation
Indices: 29481524--29481600 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
29481514 TTTTTATAAA
*
29481524 TTTTTATATTTTTATAAATTTACATGCT
1 TTTTTATATTTATATAAATTTACATGCT
*
29481552 TTTTTATATTTATATATATTATA-A-GCT
1 TTTTTATATTTATATAAATT-TACATGCT
* *
29481579 TTTATATATTTATAAAAATTTA
1 TTTTTATATTTATATAAATTTA
29481601 TATTTTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 20 0.47
28 19 0.44
29 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTTATATTTATATAAATTTACATGCT
Found at i:29484372 original size:40 final size:40
Alignment explanation
Indices: 29484300--29484437 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
29484290 AACACACCAG
* * *
29484300 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATAGGATAAATCGAAGTAATAA
* *
29484340 TTTGACACCCAGTGTCTCATAGGCTAAATCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATAGGATAAATCGAAGTAATAA
* * * * *
29484378 -TTGGCACCTAGTGCCTTATTA-AATTAATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCA-TAGGATAAAT-CGAAGTAATAA
* *
29484418 ATTGACACCCAGTGTCTCAT
1 TTTGACACCCAGTGCCTCAT
29484438 CGACTCAAAG
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
37 18 0.23
38 10 0.13
39 2 0.03
40 33 0.43
41 14 0.18
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATAGGATAAATCGAAGTAATAA
Found at i:29485401 original size:52 final size:52
Alignment explanation
Indices: 29485321--29485436 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
29485311 TTCTTTTTCT
* *
29485321 TTCTTTCTTTTTCCCCCTTGTTTCGTTCTATTCTTTGTTTCTTTTTCAATTCA
1 TTCTTTC-TTTTCCCCCCTGCTTCGTTCTATTCTTTGTTTCTTTTTCAATTCA
*
29485374 TTCTTTCTTTTCCCCCCTGCTTCGTTCTATTCTTTGTTTCTTTTTCAATTCC
1 TTCTTTCTTTTCCCCCCTGCTTCGTTCTATTCTTTGTTTCTTTTTCAATTCA
29485426 TT-TTTCTTTTC
1 TTCTTTCTTTTC
29485437 TTTTCTTTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 9 0.15
52 44 0.73
53 7 0.12
ACGTcount: A:0.06, C:0.27, G:0.05, T:0.62
Consensus pattern (52 bp):
TTCTTTCTTTTCCCCCCTGCTTCGTTCTATTCTTTGTTTCTTTTTCAATTCA
Found at i:29485527 original size:19 final size:20
Alignment explanation
Indices: 29485503--29485541 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
29485493 ATTAATAAGC
29485503 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
29485522 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
29485542 TTATTACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:29485855 original size:34 final size:34
Alignment explanation
Indices: 29485817--29485888 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
29485807 TCGTTACATG
*
29485817 ATAAGAATG-ACTTTTGCTA-TCGTATTGATCTGTT
1 ATAAGAATGTA-TATTGCTACT-GTATTGATCTGTT
* *
29485851 ATAAGCATGTATATTGCTACTTTATTGATCTGTT
1 ATAAGAATGTATATTGCTACTGTATTGATCTGTT
29485885 ATAA
1 ATAA
29485889 ACACGCCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.44
Consensus pattern (34 bp):
ATAAGAATGTATATTGCTACTGTATTGATCTGTT
Found at i:29486108 original size:39 final size:39
Alignment explanation
Indices: 29486044--29486123 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
29486034 TATTTTTACT
* * * *
29486044 ACGAGTAGTTCATCGACACCGATGAGTAGTTTATCTACA
1 ACGAGTAGTTCATCCACAACAATGAGTAGTTTATCCACA
* *
29486083 ACGAGTGGTTCATCCACAACAATGAGTGGTTTATCCACA
1 ACGAGTAGTTCATCCACAACAATGAGTAGTTTATCCACA
29486122 AC
1 AC
29486124 ATGATGTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (39 bp):
ACGAGTAGTTCATCCACAACAATGAGTAGTTTATCCACA
Found at i:29486109 original size:21 final size:21
Alignment explanation
Indices: 29486080--29486124 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
29486070 TAGTTTATCT
29486080 ACAACGAGTGGTTCATCCACA
1 ACAACGAGTGGTTCATCCACA
* *
29486101 ACAATGAGTGGTTTATCCACA
1 ACAACGAGTGGTTCATCCACA
29486122 ACA
1 ACA
29486125 TGATGTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (21 bp):
ACAACGAGTGGTTCATCCACA
Found at i:29488940 original size:43 final size:43
Alignment explanation
Indices: 29487733--29488926 Score: 2090
Period size: 43 Copynumber: 27.8 Consensus size: 43
29487723 TTATTTTTAT
* * *** *
29487733 AAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGC-TAC-AAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCAT-CTTCCAC
* * * * * *
29487775 AAATGCCACTAAAGGTCAGGGTCTTTAGCGGCGC-TTTTCCTAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCC-AC
* * * * * * * *
29487818 AAACACCGCTAAAGGTCATGTTCTTTGGAGGCACTTTTTCAAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
* * *
29487861 AAACGCCGCTGAAGATCATGTTCTTTAGCGGCGCTTGTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29487904 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29487947 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29487990 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488033 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488076 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488119 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488162 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488205 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488248 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488291 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488334 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488377 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488420 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488463 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488506 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488549 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488592 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488635 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488678 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488721 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488764 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
29488807 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
*
29488850 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-ATTCTTCCGC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCA-TCTTCCAC
* *
29488893 AAACGCCACTAAAGGTCATGTTCTTGTAGCGGCG
1 AAACGCCGCTAAAGATCATGTTCTT-TAGCGGCG
29488927 TTTTTACACA
Statistics
Matches: 1115, Mismatches: 32, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
42 32 0.03
43 1070 0.96
44 13 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCATCTTCCAC
Found at i:29489405 original size:21 final size:21
Alignment explanation
Indices: 29489381--29489431 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
29489371 TTCTTTTGAA
*
29489381 CCTCTGCTTCTCTCACTGCAG
1 CCTCTGCTTCCCTCACTGCAG
* ** *
29489402 CCTCTACTTCCCTCGTTGCCG
1 CCTCTGCTTCCCTCACTGCAG
29489423 CCTCTGCTT
1 CCTCTGCTT
29489432 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.45, G:0.14, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCACTGCAG
Found at i:29489422 original size:87 final size:87
Alignment explanation
Indices: 29489295--29489471 Score: 264
Period size: 87 Copynumber: 2.0 Consensus size: 87
29489285 TTCCGCTCTA
** * * * *
29489295 CTCTGCTTCCCTTGCTGCAGCGTCTGCTTCTCTCGATGCCGCATCTTCTTTAAGTTGTAGCTGGA
1 CTCTGCTTCCCTCACTGCAGCCTCTACTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGA
*
29489360 GTTCTTCATATTTCTTTTGAAC
66 GTTCTTCATATTTCCTTTGAAC
* * *
29489382 CTCTGCTTCTCTCACTGCAGCCTCTACTTCCCTCGTTGCCGCCTCTGCTTTAAGTTGTAGCTGGA
1 CTCTGCTTCCCTCACTGCAGCCTCTACTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGA
29489447 GTTCTTCATATTTCCTTTGAAC
66 GTTCTTCATATTTCCTTTGAAC
29489469 CTC
1 CTC
29489472 AACTGTGGTC
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.12, C:0.31, G:0.17, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCCCTCACTGCAGCCTCTACTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGA
GTTCTTCATATTTCCTTTGAAC
Found at i:29491740 original size:25 final size:25
Alignment explanation
Indices: 29491700--29492417 Score: 921
Period size: 25 Copynumber: 28.8 Consensus size: 25
29491690 CATCATATAT
*
29491700 TTATATAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
29491725 TTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
29491750 TTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
29491775 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
29491800 TTATGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
29491825 TTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
29491850 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
29491875 TTATGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
29491900 TTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
29491925 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
29491950 TTATGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
29491975 TTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
29492000 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
29492025 TTATGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
29492050 TTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
29492075 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
29492100 TTATGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
29492125 TTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
29492150 TTAAGTAAATTATGTCAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
29492175 TTATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
29492200 TTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
29492225 TTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
29492250 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
*
29492275 TTATGTAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
*
29492300 TTATGTAAGTTATGT-A-TTAAGTAAA
1 TTATGTAAGTTATGTAAGTTATGT--A
* *
29492325 TTATGTAAG-T-TGT--CTTATATAA
1 TTATGTAAGTTATGTAAGTTATGT-A
*
29492347 GTTATGTAAGTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTAAGTTATGTA
*
29492373 TTATGTAAGTTATGT-A-TTAAGTA
1 TTATGTAAGTTATGTAAGTTATGTA
29492396 GGTTATGTAAGTTATGTAAGTT
1 --TTATGTAAGTTATGTAAGTT
29492418 TTTATTTTTG
Statistics
Matches: 598, Mismatches: 83, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
22 2 0.00
23 26 0.04
24 4 0.01
25 558 0.93
26 2 0.00
27 6 0.01
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTATGTA
Found at i:29492483 original size:12 final size:12
Alignment explanation
Indices: 29492466--29492505 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
29492456 AGGTTATGTA
*
29492466 TTATTATCTAAG
1 TTATTATGTAAG
*
29492478 TTATTATGTAGG
1 TTATTATGTAAG
*
29492490 ATATTATGTAAG
1 TTATTATGTAAG
29492502 TTAT
1 TTAT
29492506 GTAAGTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:29492531 original size:96 final size:96
Alignment explanation
Indices: 29492398--29492856 Score: 902
Period size: 96 Copynumber: 4.8 Consensus size: 96
29492388 ATTAAGTAGG
*
29492398 TTATGTAAGTTATGTAAGTTTTT-ATTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
1 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
29492462 TGTATTATTATCTAAGTTATTATGTAGGATA
66 TGTATTATTATCTAAGTTATTATGTAGGATA
29492493 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
1 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
29492558 TGTATTATTATCTAAGTTATTATGTAGGATA
66 TGTATTATTATCTAAGTTATTATGTAGGATA
29492589 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
1 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
29492654 TGTATTATTATCTAAGTTATTATGTAGGATA
66 TGTATTATTATCTAAGTTATTATGTAGGATA
29492685 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
1 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
29492750 TGTATTATTATCTAAGTTATTATGTAGGATA
66 TGTATTATTATCTAAGTTATTATGTAGGATA
29492781 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
1 TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
29492846 TGTATTATTAT
66 TGTATTATTAT
29492857 GTATTATAAA
Statistics
Matches: 362, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
95 23 0.06
96 339 0.94
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (96 bp):
TTATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGTAGGTTA
TGTATTATTATCTAAGTTATTATGTAGGATA
Found at i:29492579 original size:12 final size:12
Alignment explanation
Indices: 29492562--29492601 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
29492552 AGGTTATGTA
*
29492562 TTATTATCTAAG
1 TTATTATGTAAG
*
29492574 TTATTATGTAGG
1 TTATTATGTAAG
*
29492586 ATATTATGTAAG
1 TTATTATGTAAG
29492598 TTAT
1 TTAT
29492602 GTAAGTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:29492675 original size:12 final size:12
Alignment explanation
Indices: 29492658--29492697 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
29492648 AGGTTATGTA
*
29492658 TTATTATCTAAG
1 TTATTATGTAAG
*
29492670 TTATTATGTAGG
1 TTATTATGTAAG
*
29492682 ATATTATGTAAG
1 TTATTATGTAAG
29492694 TTAT
1 TTAT
29492698 GTAAGTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:29492771 original size:12 final size:12
Alignment explanation
Indices: 29492754--29492793 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
29492744 AGGTTATGTA
*
29492754 TTATTATCTAAG
1 TTATTATGTAAG
*
29492766 TTATTATGTAGG
1 TTATTATGTAAG
*
29492778 ATATTATGTAAG
1 TTATTATGTAAG
29492790 TTAT
1 TTAT
29492794 GTAAGTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:29492994 original size:19 final size:17
Alignment explanation
Indices: 29492941--29492994 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
29492931 TCAATTTTTA
29492941 AAAATATATATAAATTT
1 AAAATATATATAAATTT
* *
29492958 TAAATATATATATA-TT
1 AAAATATATATAAATTT
29492974 AAAACTATATATAAATCTT
1 AAAA-TATATATAAAT-TT
29492993 AA
1 AA
29492995 TAAGTTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 5 0.17
17 21 0.70
19 4 0.13
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATATATATAAATTT
Found at i:29493058 original size:9 final size:9
Alignment explanation
Indices: 29493028--29493075 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
29493018 TAAATTTAAA
29493028 TTATGTAAG
1 TTATGTAAG
*
29493037 TTGTG-AA-
1 TTATGTAAG
29493044 TTATGTAAG
1 TTATGTAAG
*
29493053 TTATGTAAA
1 TTATGTAAG
*
29493062 TTACGTAAG
1 TTATGTAAG
29493071 TTATG
1 TTATG
29493076 AAATTTGAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
7 4 0.13
8 4 0.13
9 23 0.74
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:29493069 original size:18 final size:18
Alignment explanation
Indices: 29493024--29493080 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
29493014 ATTATAAATT
29493024 TAAATTATGTAAG-T-TG
1 TAAATTATGTAAGTTATG
*
29493040 TGAATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
*
29493058 TAAATTACGTAAGTTATG
1 TAAATTATGTAAGTTATG
29493076 -AAATT
1 TAAATT
29493081 TGAACTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.33
17 6 0.17
18 18 0.50
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.42
Consensus pattern (18 bp):
TAAATTATGTAAGTTATG
Found at i:29496161 original size:14 final size:14
Alignment explanation
Indices: 29496117--29496173 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
29496107 CCATATTCTT
29496117 TAAACCCTAAATCA
1 TAAACCCTAAATCA
*
29496131 TAGAA---TATAT-A
1 TA-AACCCTAAATCA
*
29496142 TAAACCCTAAATCC
1 TAAACCCTAAATCA
29496156 TAAACCCTAAATCA
1 TAAACCCTAAATCA
29496170 TAAA
1 TAAA
29496174 ACATATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 4 0.12
13 4 0.12
14 19 0.56
15 2 0.06
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:29496199 original size:39 final size:40
Alignment explanation
Indices: 29496116--29496200 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 40
29496106 GCCATATTCT
* * *
29496116 TTAAACCCTAAATCATAGAATATATATAAACCCTAAATCC
1 TTAAACCCTAAATCATAAAACATATATAAACCATAAATCC
*
29496156 -TAAACCCTAAATCATAAAACATATATAAACTATAAA-CC
1 TTAAACCCTAAATCATAAAACATATATAAACCATAAATCC
29496194 TTAAACC
1 TTAAACC
29496201 TCAACTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.26
Consensus pattern (40 bp):
TTAAACCCTAAATCATAAAACATATATAAACCATAAATCC
Found at i:29496851 original size:208 final size:205
Alignment explanation
Indices: 29496590--29497249 Score: 953
Period size: 208 Copynumber: 3.2 Consensus size: 205
29496580 TTTTGGCAAT
* * * * * *
29496590 GCGCCACTAATGTCTCTAAATCTGAAAAAGAAAACGATGTCATTTGCCTAAAACTATTATCGATA
1 GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTA-CGATA
* *
29496655 ATGCTTGAATTTTATGGCATTTTTCGCGAAGCGCCACTAATGTCCCCAAGCACAACAGAAAACGA
65 ATGCTTGAATTTT-TGGCGTTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGA
*
29496720 CGGCGTATGCTTAAAACTTTTTGCAACACTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGG
129 CGGCGTATGCTTAAAACTTTTTGCGACACTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGG
* *
29496785 CTATTTCTTCGA
194 CGATTTCTTTGA
*
29496797 GGCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTACCGAC
1 -GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTA-CGAT
* * * *
29496862 AATGCTTGACTTTTGCGGCGTTTTTCGCGAAGCGCCACTAATGTCCCTAAACACAACAGAAAACA
64 AATGCTTGAATTTT-TGGCGTTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACG
* *
29496927 ATGGTGTATGCTTAAAACTTTTTGCGACACTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCG
128 ACGGCGTATGCTTAAAACTTTTTGCGACACTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCG
29496992 GCGATTTCTTTGAA
193 GCGATTTCTTTG-A
* * ** *
29497006 ACGCCACTATTGAGTCTAAAACTCAACAAGAAAACGTTGTTGTTTTCCTAAAACTATTACTGATA
1 GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTAC-GATA
* *
29497071 ATGCTT-AACTTTTGCAGCGTTTTTCACGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACG
65 ATGCTTGAATTTTTG--GCGTTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACG
* * *
29497135 ACGGCGTATGCTTAAAACTTTTTGCGGCGCTTCATCTAAAGCGCCGCTAATGATTGACTTCAGCG
128 ACGGCGTATGCTTAAAACTTTTTGCGACACTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCG
29497200 GCGATTTCTTTGTA
193 GCGATTTCTTTG-A
* *
29497214 TCGCCACTATTGTGTCTAAAAGTCAACAAGAAAACG
1 GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACG
29497250 ACATCGTTTG
Statistics
Matches: 407, Mismatches: 41, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
206 1 0.00
207 5 0.01
208 400 0.98
209 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (205 bp):
GCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGTTGTCATTTGCCTAAAACTATTACGATAA
TGCTTGAATTTTTGGCGTTTTTCGCGAAGCGCCACTAATGTCCCTAAGCACAACAGAAAACGACG
GCGTATGCTTAAAACTTTTTGCGACACTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGGCG
ATTTCTTTGA
Found at i:29500957 original size:36 final size:35
Alignment explanation
Indices: 29500850--29501059 Score: 231
Period size: 35 Copynumber: 5.9 Consensus size: 35
29500840 AATGCCGACA
* *
29500850 CTTACAAAAGGTTAGGATAGACTCATCTAAGACAAC
1 CTTA-AAAAGGTTGGGATAGACTCGTCTAAGACAAC
* *
29500886 TTTAAAAAGGTTGGGATAAACTCGTCTAAGACAAC
1 CTTAAAAAGGTTGGGATAGACTCGTCTAAGACAAC
* * * *
29500921 CTTAAAAAGGTTAGGATAAACCTTGTCTAAGGCAAC
1 CTTAAAAAGGTTGGGATAGA-CTCGTCTAAGACAAC
* * *
29500957 CTTTAAAAAAGGTTGGTATAGACTCGTTTAAGGCAAC
1 C-TT-AAAAAGGTTGGGATAGACTCGTCTAAGACAAC
* * *
29500994 CTTAAAAAAGTTGGGATAGACCTTGTCTAAGACATC
1 CTTAAAAAGGTTGGGATAGA-CTCGTCTAAGACAAC
* *
29501030 TTTAAAAAGGTTGGGATAGACACGTCTAAG
1 CTTAAAAAGGTTGGGATAGACTCGTCTAAG
29501060 GTAATTTTTT
Statistics
Matches: 147, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
35 69 0.47
36 48 0.33
37 16 0.11
38 14 0.10
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (35 bp):
CTTAAAAAGGTTGGGATAGACTCGTCTAAGACAAC
Found at i:29500969 original size:73 final size:71
Alignment explanation
Indices: 29500850--29501059 Score: 278
Period size: 73 Copynumber: 2.9 Consensus size: 71
29500840 AATGCCGACA
** *
29500850 CTTACAAAAGGTTAGGATAGA-CTCATCTAAGACAACTTTAAAAAGGTTGGGATAAACTCGTCTA
1 CTTA-AAAAGGTTAGGATAGACCTTGTCTAAGACAACTTTAAAAAGGTTGGGATAGACTCGTCTA
29500914 AGACAAC
65 AGACAAC
* * * *
29500921 CTTAAAAAGGTTAGGATAAACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGTATAGACTCGTTT
1 CTTAAAAAGGTTAGGATAGACCTTGTCTAAGACAA-CTTT-AAAAAGGTTGGGATAGACTCGTCT
*
29500986 AAGGCAAC
64 AAGACAAC
* * * *
29500994 CTTAAAAAAGTTGGGATAGACCTTGTCTAAGACATCTTTAAAAAGGTTGGGATAGACACGTCTAA
1 CTTAAAAAGGTTAGGATAGACCTTGTCTAAGACAACTTTAAAAAGGTTGGGATAGACTCGTCTAA
29501059 G
66 G
29501060 GTAATTTTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
70 15 0.12
71 39 0.32
72 8 0.07
73 58 0.48
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (71 bp):
CTTAAAAAGGTTAGGATAGACCTTGTCTAAGACAACTTTAAAAAGGTTGGGATAGACTCGTCTAA
GACAAC
Found at i:29502399 original size:40 final size:40
Alignment explanation
Indices: 29502334--29502464 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
29502324 CGTTTGGATA
* * * *
29502334 AAAAATGCCTCTACAGATTGAGCATTAGTGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTG
* * *
29502374 AAAAACGCCGCTATAGATCGGGCATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTG
*
29502414 AAAAACGCCGCTATAGATCGAGCATTAGTGACGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTG
*
29502454 GAAAACGCCGC
1 AAAAACGCCGC
29502465 AAAAAATTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTG
Found at i:29502633 original size:39 final size:39
Alignment explanation
Indices: 29502348--29502668 Score: 183
Period size: 40 Copynumber: 8.2 Consensus size: 39
29502338 ATGCCTCTAC
* * *
29502348 AGATTGAGCATTAGTGGCGCTTTTTGAAAAACGCCGCTAT
1 AGATCGAGCATTAGCGACGCTTTTTG-AAAACGCCGCTAT
* * *
29502388 AGATCGGGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAT
1 AGATCGAGCATTAGCGACGC-TTTTTGAAAACGCCGCTAT
* * *
29502428 AGATCGAGCATTAGTGACGCTTTTTGGAAAACGCCGCAAA
1 AGATCGAGCATTAGCGACGCTTTTT-GAAAACGCCGCTAT
* ** * **** * *
29502468 AAATTTAAGCA-TA---ACGCATCATTT-ATGTTG-AGCTTT
1 AGA-TCGAGCATTAGCGACGC-T-TTTTGAAAACGCCGCTAT
* * *
29502504 AG-T-G-GCATTAGTGGCGCTTTTTGAGAAACGCTGCTAT
1 AGATCGAGCATTAGCGACGCTTTTTGA-AAACGCCGCTAT
* * ** * * *
29502541 AGATTGAGTATTAGCGGTGCTTTTTAAAAAATGCCGTTAT
1 AGATCGAGCATTAGCGACGCTTTTT-GAAAACGCCGCTAT
*
29502581 AGATCGAGTATTAGCGACGCTTTTTGAAAACGCCGCTAT
1 AGATCGAGCATTAGCGACGCTTTTTGAAAACGCCGCTAT
* * * * *
29502620 AGGTCGACCATTAGCAACGCGTTTTGAAAAACGCCACTAT
1 AGATCGAGCATTAGCGACGCTTTTTG-AAAACGCCGCTAT
29502660 AGATCGAGC
1 AGATCGAGC
29502669 TTTATGGTTT
Statistics
Matches: 211, Mismatches: 53, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
32 3 0.01
33 2 0.01
34 4 0.02
35 2 0.01
36 7 0.03
37 12 0.06
38 2 0.01
39 41 0.19
40 127 0.60
41 11 0.05
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (39 bp):
AGATCGAGCATTAGCGACGCTTTTTGAAAACGCCGCTAT
Found at i:29502712 original size:21 final size:21
Alignment explanation
Indices: 29502669--29502764 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
29502659 TAGATCGAGC
* * *
29502669 TTTATGGTTTAACGATTATGG
1 TTTATGGTTTAAGGGTTAGGG
*
29502690 TTTATGGTTTAAGGGTTGGGG
1 TTTATGGTTTAAGGGTTAGGG
*
29502711 TTTAAGGTTTAAGGGTTAGAGG
1 TTTATGGTTTAAGGGTTAG-GG
* * *
29502733 -TTAAGGGTTAGGGGTTTAGGG
1 TTTATGGTTTAAGGG-TTAGGG
*
29502754 TTTATGATTTA
1 TTTATGGTTTA
29502765 TGTTTTATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
21 48 0.79
22 13 0.21
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (21 bp):
TTTATGGTTTAAGGGTTAGGG
Found at i:29502736 original size:14 final size:14
Alignment explanation
Indices: 29502719--29502755 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
29502709 GGTTTAAGGT
29502719 TTAAGGGTTAGAGG
1 TTAAGGGTTAGAGG
*
29502733 TTAAGGGTTAGGGG
1 TTAAGGGTTAGAGG
*
29502747 TTTAGGGTT
1 TTAAGGGTT
29502756 TATGATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGAGG
Found at i:29502944 original size:7 final size:7
Alignment explanation
Indices: 29502907--29503055 Score: 72
Period size: 7 Copynumber: 20.9 Consensus size: 7
29502897 TATCATTATA
29502907 GTTTAGG
1 GTTTAGG
*
29502914 GTTTATG
1 GTTTAGG
*
29502921 ATTTAGG
1 GTTTAGG
* *
29502928 GTATATG
1 GTTTAGG
29502935 GTTTAGG
1 GTTTAGG
**
29502942 GTTTAAA
1 GTTTAGG
29502949 GTTTAGG
1 GTTTAGG
29502956 AGTTACTA--
1 -GTT--TAGG
* *
29502964 TTTTAAG
1 GTTTAGG
*
29502971 GTTTATG
1 GTTTAGG
*
29502978 GATTATGG
1 GTTTA-GG
29502986 GTTTATGG
1 GTTTA-GG
*
29502994 G-TTATG
1 GTTTAGG
29503000 GTTTAAGG
1 GTTT-AGG
*
29503008 G-TTGGG
1 GTTTAGG
*
29503014 GTTTAAG
1 GTTTAGG
29503021 GTTTAGG
1 GTTTAGG
*
29503028 GGTTAGG
1 GTTTAGG
*
29503035 GGTTAGGG
1 GTTTA-GG
29503043 GTTTAGG
1 GTTTAGG
29503050 GTTTAG
1 GTTTAG
29503056 ATTAATTAGT
Statistics
Matches: 106, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.02
6 5 0.05
7 76 0.72
8 21 0.20
10 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:29502990 original size:15 final size:14
Alignment explanation
Indices: 29502970--29503004 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
29502960 ACTATTTTAA
29502970 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
29502984 GGGTTTATGGGTTAT
1 -GGTTTATGGATTAT
29502999 GGTTTA
1 GGTTTA
29503005 AGGGTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:29502990 original size:22 final size:22
Alignment explanation
Indices: 29502965--29503010 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
29502955 GAGTTACTAT
* *
29502965 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAAGGG
* *
29502987 TTTATGGGTTATGGTTTAAGGG
1 TTTAAGGGTTATGGATTAAGGG
29503009 TT
1 TT
29503011 GGGGTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.48
Consensus pattern (22 bp):
TTTAAGGGTTATGGATTAAGGG
Found at i:29513854 original size:40 final size:40
Alignment explanation
Indices: 29513810--29513892 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
29513800 GAGACAATTT
29513810 AACTAAATAAACATATATAAGGCATAGGAAAGGGTTGATA
1 AACTAAATAAACATATATAAGGCATAGGAAAGGGTTGATA
29513850 AACTAAATAAACATATATAAGGCATAGGAAAGGGTTGATA
1 AACTAAATAAACATATATAAGGCATAGGAAAGGGTTGATA
29513890 AAC
1 AAC
29513893 GTCACGTTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (40 bp):
AACTAAATAAACATATATAAGGCATAGGAAAGGGTTGATA
Found at i:29514846 original size:24 final size:24
Alignment explanation
Indices: 29514818--29514883 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
29514808 GAATAACTAC
29514818 TATTGTTAACAACTTAACTGTTGT
1 TATTGTTAACAACTTAACTGTTGT
29514842 TATTGTTAACAACTTAACTGTTGT
1 TATTGTTAACAACTTAACTGTTGT
*
29514866 TATTGTTAACAACCTAAC
1 TATTGTTAACAACTTAAC
29514884 AGCTGAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (24 bp):
TATTGTTAACAACTTAACTGTTGT
Found at i:29519439 original size:51 final size:51
Alignment explanation
Indices: 29519363--29519579 Score: 165
Period size: 51 Copynumber: 4.3 Consensus size: 51
29519353 AAACACGTGT
* * * *
29519363 TAGTACTAAGTGCAAGCTACTATGTGTATCGATA-GATAATAGTCACATGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACCGA-AGGATAATAGTCACATGTG
* * * * *
29519414 TAGTACTATGTGCAGGCTACTATGTGTACCAGAAGGCT-TTGGTCACGTGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACC-GAAGGATAATAGTCACATGTG
* * * **
29519465 TAGTACTATGTGCAGGCTACTACGTGAACCGAA--A-AGTTTGATCATGTGTG
1 TAGTACTATGTGCAGGCTACTACGTGTACCGAAGGATA-ATAG-TCACATGTG
* * * * * * *
29519515 TAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAATTACACGGG
1 TAGTACTATGTGCAGGCTACTACGTGTACCGAAGGATAATAGTCACATGTG
*
29519566 TGGTACTATGTGCA
1 TAGTACTATGTGCA
29519580 AACCACCGAA
Statistics
Matches: 133, Mismatches: 25, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
49 3 0.02
50 41 0.31
51 82 0.62
52 6 0.05
53 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (51 bp):
TAGTACTATGTGCAGGCTACTACGTGTACCGAAGGATAATAGTCACATGTG
Found at i:29519535 original size:50 final size:51
Alignment explanation
Indices: 29519405--29519540 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
29519395 TAGATAATAG
* * * * *
29519405 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAGGCTTTGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGA
29519456 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACC-GAAAAG-TTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAG-AAAGCTTTGA
* *
29519506 TCATGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTG
29519541 TATCGAATGA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
50 38 0.49
51 39 0.51
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGA
Found at i:29523471 original size:22 final size:22
Alignment explanation
Indices: 29523446--29523489 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
29523436 TTTTATCTTT
29523446 TAGT-TTAACTAAAATGCCTAAA
1 TAGTATTAAC-AAAATGCCTAAA
*
29523468 TAGTATTCACAAAATGCCTAAA
1 TAGTATTAACAAAATGCCTAAA
29523490 CATTTTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (22 bp):
TAGTATTAACAAAATGCCTAAA
Found at i:29525367 original size:19 final size:20
Alignment explanation
Indices: 29525322--29525366 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
29525312 ACTAAAAAGT
* * *
29525322 TTTTTTTTATTCCGTTGTAA
1 TTTTTTATATTCCCTTATAA
29525342 TTTTTTATATTCCCTTATAA
1 TTTTTTATATTCCCTTATAA
29525362 TTTTT
1 TTTTT
29525367 AGTACTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.11, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTTATATTCCCTTATAA
Found at i:29525421 original size:19 final size:20
Alignment explanation
Indices: 29525399--29525441 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
29525389 TCCTCGTGAC
29525399 TTTT-GGTATTCCATCATAA
1 TTTTGGGTATTCCATCATAA
* *
29525418 TTTTGGGTATTCCCTCATAG
1 TTTTGGGTATTCCATCATAA
29525438 TTTT
1 TTTT
29525442 TGAAATACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (20 bp):
TTTTGGGTATTCCATCATAA
Found at i:29528046 original size:9 final size:9
Alignment explanation
Indices: 29528027--29528093 Score: 70
Period size: 9 Copynumber: 7.9 Consensus size: 9
29528017 ACATAAGTGA
*
29528027 GTAAATTAT
1 GTAAGTTAT
*
29528036 GTCAGTTAT
1 GTAAGTTAT
29528045 GT-A-TTAT
1 GTAAGTTAT
29528052 GTAAGTTAT
1 GTAAGTTAT
29528061 GTAAGTTAT
1 GTAAGTTAT
*
29528070 GT-A-TTAA
1 GTAAGTTAT
*
29528077 GTAAATTAT
1 GTAAGTTAT
29528086 GTAAGTTA
1 GTAAGTTA
29528094 GAAATGTAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
7 11 0.22
8 4 0.08
9 34 0.69
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Done.