Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 99 of 290
Found at i:33642560 original size:76 final size:76
Alignment explanation
Indices: 33642421--33642718 Score: 315
Period size: 75 Copynumber: 3.9 Consensus size: 76
33642411 CAAAAATTGA
* * * *
33642421 AAAACATAAACTAAAAATACCTCAGCATGTGAGCC-GAGGCTTAACTCATCTCTCGCAATATGAG
1 AAAACAGAAACTAAAAATACCTCAGCA-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
33642485 TTGATTTTTTTTG
64 TTGATTTTTTTTG
* *
33642498 CAAAACAGAAATTAAAAATACCTCAGC-GTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGT
1 -AAAACAGAAACTAAAAATACCTCAGCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
33642562 TGA----TTTTG
65 TGATTTTTTTTG
* * * * **
33642570 ACGAATAGAAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 A-AAACAGAAACTAAAAATACCTCAGCA-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
33642635 TTGATTTTTTGATG
64 TTGATTTTTT-TTG
* * * * * *
33642649 -AAACAGAAATTAAAATTACCTCAGC-GTGTCCTAAGGCTCAACTCACATTTCGCAATATAAGTT
1 AAAACAGAAACTAAAAATACCTCAGCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
33642712 GATTTTT
66 GATTTTT
33642719 GAAACAGAAA
Statistics
Matches: 184, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
71 1 0.01
72 26 0.14
74 36 0.20
75 40 0.22
76 33 0.18
77 20 0.11
78 26 0.14
79 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (76 bp):
AAAACAGAAACTAAAAATACCTCAGCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTTG
Found at i:33642627 original size:74 final size:73
Alignment explanation
Indices: 33642423--33642734 Score: 312
Period size: 74 Copynumber: 4.2 Consensus size: 73
33642413 AAAATTGAAA
* * *
33642423 AACATAAACTAAAAATACCTCAGCATGTGAGCC-GAGGCTTAACTCATCTCTCGCAATATGAGTT
1 AACAGAAACTAAAAATACCTCAGC--GTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
33642487 GATTTTTTTTG-CAA
63 GA---TTTTTGAC-G
* * *
33642501 AACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGA-
1 AACAGAAACTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
33642565 TTTTGACG
66 TTTTGACG
* * * *
33642573 AATAGAAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAACTAAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
33642638 ATTTTTTGATG
64 A-TTTTTGACG
* * * * * * *
33642649 AAACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACATTTCGCAATATAAGTTGA
1 -AACAGAAACTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
33642714 TTTTTGA--
65 TTTTTGACG
33642721 AACAGAAA-TAAAAA
1 AACAGAAACTAAAAA
33642735 CATCAGAATA
Statistics
Matches: 200, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
70 5 0.03
71 8 0.04
72 26 0.13
73 1 0.00
74 43 0.22
75 35 0.17
76 40 0.20
77 20 0.10
78 22 0.11
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (73 bp):
AACAGAAACTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGACG
Found at i:33642712 original size:75 final size:74
Alignment explanation
Indices: 33642434--33642718 Score: 310
Period size: 76 Copynumber: 3.8 Consensus size: 74
33642424 ACATAAACTA
* * * *
33642434 AAAATACCTCAGCATGTGAGCC-GAGGCTTAACTCATCTCTCGCAATATGAGTTGATTTTTT-TT
1 AAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAT
33642497 GCAAAACAGAAATT
63 G--AAACAGAAATT
* *
33642511 AAAAATACCTCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGA--TTTTGACG-
1 -AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGA
* *
33642573 AATAGAAACTG
65 AACAGAAA-TT
* **
33642584 AAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATG
1 AAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATG
33642649 AAACAGAAATT
64 AAACAGAAATT
* * * *
33642660 AAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACATTTCGCAATATAAGTTGATTTTT
1 AAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
33642719 GAAACAGAAA
Statistics
Matches: 176, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
72 20 0.11
73 1 0.01
74 40 0.23
75 41 0.23
76 45 0.26
77 16 0.09
78 13 0.07
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (74 bp):
AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGAA
ACAGAAATT
Found at i:33642720 original size:150 final size:149
Alignment explanation
Indices: 33642428--33642717 Score: 447
Period size: 149 Copynumber: 1.9 Consensus size: 149
33642418 TGAAAAACAT
* * *
33642428 AAACTAAAAATACCTCAGCATGTGAGCCGAGGCTTAACTCATCTCTCGCAATATGAGTTGATTTT
1 AAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
33642493 TTTTGCAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATAT
66 TTATG-AAAACAGAAATTAAAAATACCTCAGCGTGTCCTAAGGCTCAAATCACATCTCGCAATAT
*
33642558 GAGTTGATTTTGACGAATAG
130 AAGTTGATTTTGACGAATAG
* *
33642578 AAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
33642643 TTGATG-AAACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACATTTCGCAATAT
66 TT-ATGAAAACAGAAATTAAAAATACCTCAGCGTGTCCTAAGGCTCAAATCACATCTCGCAATAT
33642707 AAGTTGATTTT
130 AAGTTGATTTT
33642718 TGAAACAGAA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
149 63 0.50
150 62 0.49
151 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (149 bp):
AAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTATGAAAACAGAAATTAAAAATACCTCAGCGTGTCCTAAGGCTCAAATCACATCTCGCAATATA
AGTTGATTTTGACGAATAG
Found at i:33643904 original size:317 final size:317
Alignment explanation
Indices: 33643329--33643961 Score: 1266
Period size: 317 Copynumber: 2.0 Consensus size: 317
33643319 TGGCTACAAA
33643329 TGATCTAGATATTCAACGCATGATCTCTTCCACGTTACTTAATCAAGAACCTTTTTCAAGCATGG
1 TGATCTAGATATTCAACGCATGATCTCTTCCACGTTACTTAATCAAGAACCTTTTTCAAGCATGG
33643394 CTTCTTATGTAGAAGATTTCGAGCTTTCAGAGATGCTTCAAATACTATAGCCTTGCCATTTGACC
66 CTTCTTATGTAGAAGATTTCGAGCTTTCAGAGATGCTTCAAATACTATAGCCTTGCCATTTGACC
33643459 CACCATTCAAATCGCCTTGCTCTTTAAGCCCAGGTTGGCTTCATTAGGATGCCCTTTCGGGTTTT
131 CACCATTCAAATCGCCTTGCTCTTTAAGCCCAGGTTGGCTTCATTAGGATGCCCTTTCGGGTTTT
33643524 CATCCTAATCTTTTGTGTTAATCAAGACGCCTTTTTCGGATTTTCACCTTGATCTTTTTTTTAGG
196 CATCCTAATCTTTTGTGTTAATCAAGACGCCTTTTTCGGATTTTCACCTTGATCTTTTTTTTAGG
33643589 GATAATATTTCTTTACAGCATCTGAGTTCACTGGATTAGGTAACTCCTTCCCATCCG
261 GATAATATTTCTTTACAGCATCTGAGTTCACTGGATTAGGTAACTCCTTCCCATCCG
33643646 TGATCTAGATATTCAACGCATGATCTCTTCCACGTTACTTAATCAAGAACCTTTTTCAAGCATGG
1 TGATCTAGATATTCAACGCATGATCTCTTCCACGTTACTTAATCAAGAACCTTTTTCAAGCATGG
33643711 CTTCTTATGTAGAAGATTTCGAGCTTTCAGAGATGCTTCAAATACTATAGCCTTGCCATTTGACC
66 CTTCTTATGTAGAAGATTTCGAGCTTTCAGAGATGCTTCAAATACTATAGCCTTGCCATTTGACC
33643776 CACCATTCAAATCGCCTTGCTCTTTAAGCCCAGGTTGGCTTCATTAGGATGCCCTTTCGGGTTTT
131 CACCATTCAAATCGCCTTGCTCTTTAAGCCCAGGTTGGCTTCATTAGGATGCCCTTTCGGGTTTT
33643841 CATCCTAATCTTTTGTGTTAATCAAGACGCCTTTTTCGGATTTTCACCTTGATCTTTTTTTTAGG
196 CATCCTAATCTTTTGTGTTAATCAAGACGCCTTTTTCGGATTTTCACCTTGATCTTTTTTTTAGG
33643906 GATAATATTTCTTTACAGCATCTGAGTTCACTGGATTAGGTAACTCCTTCCCATCC
261 GATAATATTTCTTTACAGCATCTGAGTTCACTGGATTAGGTAACTCCTTCCCATCC
33643962 ATCTCAGTGA
Statistics
Matches: 316, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
317 316 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (317 bp):
TGATCTAGATATTCAACGCATGATCTCTTCCACGTTACTTAATCAAGAACCTTTTTCAAGCATGG
CTTCTTATGTAGAAGATTTCGAGCTTTCAGAGATGCTTCAAATACTATAGCCTTGCCATTTGACC
CACCATTCAAATCGCCTTGCTCTTTAAGCCCAGGTTGGCTTCATTAGGATGCCCTTTCGGGTTTT
CATCCTAATCTTTTGTGTTAATCAAGACGCCTTTTTCGGATTTTCACCTTGATCTTTTTTTTAGG
GATAATATTTCTTTACAGCATCTGAGTTCACTGGATTAGGTAACTCCTTCCCATCCG
Found at i:33657760 original size:15 final size:16
Alignment explanation
Indices: 33657740--33657774 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33657730 CGTTTTATTT
*
33657740 AAAAACT-AAACTATA
1 AAAAACTAAAACCATA
33657755 AAAAACTAAAACCATA
1 AAAAACTAAAACCATA
33657771 AAAA
1 AAAA
33657775 CTTAGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAACTAAAACCATA
Found at i:33658913 original size:11 final size:11
Alignment explanation
Indices: 33658881--33658921 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
33658871 GAATAAAAAG
*
33658881 TATATACATAG
1 TATATACATAA
*
33658892 TAT-TA-AAAA
1 TATATACATAA
33658901 TATATACATAA
1 TATATACATAA
33658912 TATATACATA
1 TATATACATA
33658922 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:33659265 original size:25 final size:26
Alignment explanation
Indices: 33659237--33659301 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
33659227 AATAATGTGA
*
33659237 TATTTAAAATATATACAATATATA-G
1 TATTTAAAATATACACAATATATAGG
*
33659262 TA-TTAAGAATATACGCAATATATATGG
1 TATTTAA-AATATACACAATATATA-GG
*
33659289 TATTAAAAATATA
1 TATTTAAAATATA
33659302 GTATTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 4 0.12
25 17 0.52
27 9 0.27
28 3 0.09
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (26 bp):
TATTTAAAATATACACAATATATAGG
Found at i:33662099 original size:15 final size:15
Alignment explanation
Indices: 33662061--33662114 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
33662051 TTATTATAAA
*
33662061 AATAATTAA-AATTC
1 AATAATTAATAATTT
*
33662075 AATATGTTAATAATTT
1 AATA-ATTAATAATTT
*
33662091 AATAATTAATTATTT
1 AATAATTAATAATTT
*
33662106 TATAATTAA
1 AATAATTAA
33662115 AGTATGAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 4 0.12
15 21 0.64
16 8 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATTAATAATTT
Found at i:33664122 original size:46 final size:45
Alignment explanation
Indices: 33664025--33664240 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 45
33664015 ATCTCAATTC
* * * *
33664025 GATGCCATGTCCCAGAAATGGTCTTACACTGACTATCATCTCGTA-GTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACT-TCGTCTTG-AGGCT
*
33664073 GATGCATGTCCCAGACATGTTTTACACTGACTTACGTCTTGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGACTT-CGTCTTGAGGCT
* * * * *
33664119 GATGCACGTCCCAGACATGGCTTACACTAGCAGTT-GTCTCGATGCT
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACTTCGTCTTGAGGCT
* * ** * *
33664165 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGACT-TCGTCTTGAGGCT
33664213 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
33664241 AGCTCACAAT
Statistics
Matches: 138, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 70 0.51
47 41 0.30
48 25 0.18
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTTCGTCTTGAGGCT
Found at i:33664226 original size:94 final size:92
Alignment explanation
Indices: 33664072--33664243 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 92
33664062 ATCTCGTAGT
* * ** *
33664072 TGATGCATGTCCCAGACATGTTTTACACTGACTTACGTCTTGAGGCTGATGCACGTCCCAGACAT
1 TGATGCATGTCCCAGACATGTCTTACACTGACTTACATAATGAGGCCGATGCACGTCCCAGACAT
33664137 GGCTTACACTAGCAGTTGTCTCGATGC
66 GGCTTACACTAGCAGTTGTCTCGATGC
* * *
33664164 TGATGCAATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAGA
1 TGATGC-ATGTCCCAGACAT-GTCTTACACTGACT-TACATAATGAGGCCGATGCACGTCCCAGA
*
33664228 CATGTCTTACACTAGC
63 CATGGCTTACACTAGC
33664244 TCACAATAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 6 0.09
93 13 0.19
94 48 0.71
95 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (92 bp):
TGATGCATGTCCCAGACATGTCTTACACTGACTTACATAATGAGGCCGATGCACGTCCCAGACAT
GGCTTACACTAGCAGTTGTCTCGATGC
Found at i:33677239 original size:267 final size:267
Alignment explanation
Indices: 33676752--33677275 Score: 949
Period size: 267 Copynumber: 2.0 Consensus size: 267
33676742 CATTCATCAA
* *
33676752 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACTCATCAATATTCAATACACATTATA
1 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
33676817 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
66 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
*
33676882 TATAGTTTCTCATTAACTAGAAATAAAAACTTTCACCGTTGAACCATTCGGAATGCTATTGAATA
131 TATAGTTTCTCATTAACTAGAAATAAAAACTTTCACCGTTGAACCATTCGGAATGCTATCGAATA
* * *
33676947 TTCCATAGCATTAAACGTGGGTTAAGGTGATGATGCCATGTCCCAGACATGGTCTTACACTAGCT
196 TTCCATAGCATCAAACATGGGTTAAGGTGACGATGCCATGTCCCAGACATGGTCTTACACTAGCT
33677012 CATATCT
261 CATATCT
33677019 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
1 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
33677084 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
66 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
* * *
33677149 TATAGTTTCTCATTAACTAGAAATCAAAACTTTCGCTGTTGAACCATTCGGAATGCTATCGAATA
131 TATAGTTTCTCATTAACTAGAAATAAAAACTTTCACCGTTGAACCATTCGGAATGCTATCGAATA
* *
33677214 TTCCATAGCATCAAACATTGGTTAAGGTGCCGATGCCATGTCCCAGACATGGTCTTACACTA
196 TTCCATAGCATCAAACATGGGTTAAGGTGACGATGCCATGTCCCAGACATGGTCTTACACTA
33677276 ACTATCATCT
Statistics
Matches: 246, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
267 246 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (267 bp):
CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
TATAGTTTCTCATTAACTAGAAATAAAAACTTTCACCGTTGAACCATTCGGAATGCTATCGAATA
TTCCATAGCATCAAACATGGGTTAAGGTGACGATGCCATGTCCCAGACATGGTCTTACACTAGCT
CATATCT
Found at i:33677333 original size:46 final size:46
Alignment explanation
Indices: 33677242--33677468 Score: 176
Period size: 46 Copynumber: 4.8 Consensus size: 46
33677232 TGGTTAAGGT
*
33677242 GCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-TATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTA-CATCTCG-AG
* *
33677290 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
* * * * *
33677336 GCCAATGCATGTCCCAGACATGTCATACACTAGCACT-CGTCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTCGAG
* * * * * * * *
33677382 GCCGATGCAATGTTCTAGACGTGGTCTTAGAATGGCTCT-CATAAT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGAG
* *
33677430 GCCGATGCATGTCCTAGAAATGTCTTACACTAGCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACA
33677469 ATAACCCCTA
Statistics
Matches: 144, Mismatches: 27, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.01
46 76 0.53
47 37 0.26
48 28 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
Found at i:33680149 original size:76 final size:76
Alignment explanation
Indices: 33680056--33680209 Score: 254
Period size: 76 Copynumber: 2.0 Consensus size: 76
33680046 TAATCTTGTA
* * *
33680056 TGCTGCAATGCAGCATAGGTATTGTATCGAACTGTTAACTTCGTGGAATGGTACTAGATGAAGGG
1 TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTCGTGGAATGGTACTAGATGAAGGG
*
33680121 GCTCTCGGTGT
66 ACTCTCGGTGT
* *
33680132 TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTTGTGGAATGGTGCTAGATGAAGGG
1 TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTCGTGGAATGGTACTAGATGAAGGG
33680197 ACTCTCGGTGT
66 ACTCTCGGTGT
33680208 TG
1 TG
33680210 AACTTAGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (76 bp):
TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTCGTGGAATGGTACTAGATGAAGGG
ACTCTCGGTGT
Found at i:33684063 original size:13 final size:13
Alignment explanation
Indices: 33684045--33684085 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
33684035 CTTTTTCAAT
*
33684045 AGGGAAATTGACA
1 AGGGAAATCGACA
*
33684058 AGGGAAATCGATA
1 AGGGAAATCGACA
*
33684071 AGGGAAATGGACA
1 AGGGAAATCGACA
33684084 AG
1 AG
33684086 AAAAAGGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.07, G:0.34, T:0.12
Consensus pattern (13 bp):
AGGGAAATCGACA
Found at i:33688674 original size:211 final size:211
Alignment explanation
Indices: 33688310--33688731 Score: 835
Period size: 211 Copynumber: 2.0 Consensus size: 211
33688300 CGTTTTATGA
33688310 ATGAGAAAGTTGCTAATGGATCTTTAATAAGTATAATTAAATTCAGTTTTGGTTGATAAAATGAA
1 ATGAGAAAGTTGCTAATGGATCTTTAATAAGTATAATTAAATTCAGTTTTGGTTGATAAAATGAA
33688375 TAAATGGACATTTATTTATGTTTGATTAAATTAGATGAGTTCATACAAGATAAAAATTGACTTTG
66 TAAATGGACATTTATTTATGTTTGATTAAATTAGATGAGTTCATACAAGATAAAAATTGACTTTG
33688440 TTTATGGTACTTTCCTTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCATCTTTATGAA
131 TTTATGGTACTTTCCTTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCATCTTTATGAA
33688505 TTTTACAAATGACCTT
196 TTTTACAAATGACCTT
33688521 ATGAGAAAGTTGCTAATGGATCTTTAATAAGTATAATTAAATTCAGTTTTGGTTGATAAAATGAA
1 ATGAGAAAGTTGCTAATGGATCTTTAATAAGTATAATTAAATTCAGTTTTGGTTGATAAAATGAA
33688586 TAAATGGACATTTATTTATGTTTGATTAAATTAGATGAGTTCATACAAGATAAAAATTGACTTTG
66 TAAATGGACATTTATTTATGTTTGATTAAATTAGATGAGTTCATACAAGATAAAAATTGACTTTG
*
33688651 TTTATGGTACTTTCCTTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCGTCTTTATGAA
131 TTTATGGTACTTTCCTTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCATCTTTATGAA
33688716 TTTTACAAATGACCTT
196 TTTTACAAATGACCTT
33688732 TTATTAAATC
Statistics
Matches: 210, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 210 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.42
Consensus pattern (211 bp):
ATGAGAAAGTTGCTAATGGATCTTTAATAAGTATAATTAAATTCAGTTTTGGTTGATAAAATGAA
TAAATGGACATTTATTTATGTTTGATTAAATTAGATGAGTTCATACAAGATAAAAATTGACTTTG
TTTATGGTACTTTCCTTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCATCTTTATGAA
TTTTACAAATGACCTT
Found at i:33688745 original size:66 final size:66
Alignment explanation
Indices: 33688666--33688797 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
33688656 GGTACTTTCC
33688666 TTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCGTCTTTATGAATTTTACAAATGACCT
1 TTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCGTCTTTATGAATTTTACAAATGACCT
33688731 T
66 T
33688732 TTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCGTCTTTATGAATTTTACAAATGACCT
1 TTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCGTCTTTATGAATTTTACAAATGACCT
33688797 T
66 T
33688798 ATGAAAGGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (66 bp):
TTATTAAATCATGTGTATATTAGATGTTTGAAATTTGGCGTCTTTATGAATTTTACAAATGACCT
T
Found at i:33691840 original size:44 final size:44
Alignment explanation
Indices: 33691778--33691865 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
33691768 CCAAAGAGTA
*
33691778 AAAAAGAGTGGAATGAAGAAGATAGAAGGAATATTCAACTCAAT
1 AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
33691822 AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
1 AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
33691866 GCACACTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.52, C:0.07, G:0.24, T:0.17
Consensus pattern (44 bp):
AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
Found at i:33693081 original size:24 final size:24
Alignment explanation
Indices: 33693054--33693101 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
33693044 AGGAATGCGT
33693054 GGGTCCCTAAAGGACTTAGCGCTA
1 GGGTCCCTAAAGGACTTAGCGCTA
33693078 GGGTCCCTAAAGGACTTAGCGCTA
1 GGGTCCCTAAAGGACTTAGCGCTA
33693102 CTCAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (24 bp):
GGGTCCCTAAAGGACTTAGCGCTA
Found at i:33695169 original size:28 final size:28
Alignment explanation
Indices: 33695054--33695257 Score: 139
Period size: 29 Copynumber: 7.1 Consensus size: 28
33695044 AGGCTTACTC
*
33695054 TTCTAGAGTTTTGCCACAAAGGTTTGCCT
1 TTCTAGAGTTTTGCCACAAAGG-TTACCT
* * *
33695083 TTCTAGAATTTTTCCACAAAGGCTATCCT
1 TTCTAGAGTTTTGCCACAAAGGTTA-CCT
** *
33695112 TTCATAG-G-TTCACCAAAAAGGCTTACCT
1 TTC-TAGAGTTTTGCCACAAAGG-TTACCT
**
33695140 TTCTAGAGTTTTGCCACAAAGGTTGTCT
1 TTCTAGAGTTTTGCCACAAAGGTTACCT
* *
33695168 TT-TAGCAGGTTTT-TCACATAGGCTTACCT
1 TTCTAG-A-GTTTTGCCACAAAGG-TTACCT
* * * *
33695197 TTCCAGAGTTTTGTCACAAAGGCTATCT
1 TTCTAGAGTTTTGCCACAAAGGTTACCT
* *
33695225 TT-TAGCAGGTTTGCCAGAAAGGTTTACCT
1 TTCTAG-AGTTTTGCCACAAAGG-TTACCT
33695254 TTCT
1 TTCT
33695258 TGGTGATTTA
Statistics
Matches: 134, Mismatches: 28, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
27 8 0.06
28 56 0.42
29 64 0.48
30 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (28 bp):
TTCTAGAGTTTTGCCACAAAGGTTACCT
Found at i:33695178 original size:57 final size:57
Alignment explanation
Indices: 33695071--33695257 Score: 196
Period size: 57 Copynumber: 3.3 Consensus size: 57
33695061 GTTTTGCCAC
* * * * * * *
33695071 AAAGGTTTGCCTTTCTAGAATTTTTCCACAAAGGCTATCCTTTCA-TAGGTTCACCAA
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTAT-CTTTTAGCAGGTTTACCAA
* * ** *
33695128 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTGTCTTTTAGCAGGTTTTTCAC
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTATCTTTTAGCAGGTTTACCAA
* * * * *
33695185 ATAGGCTTACCTTTCCAGAGTTTTGTCACAAAGGCTATCTTTTAGCAGGTTTGCCAG
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTATCTTTTAGCAGGTTTACCAA
*
33695242 AAAGGTTTACCTTTCT
1 AAAGGCTTACCTTTCT
33695258 TGGTGATTTA
Statistics
Matches: 106, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
56 5 0.05
57 101 0.95
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (57 bp):
AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGCTATCTTTTAGCAGGTTTACCAA
Found at i:33695181 original size:86 final size:85
Alignment explanation
Indices: 33695015--33695257 Score: 230
Period size: 86 Copynumber: 2.9 Consensus size: 85
33695005 GTCTCGCCAT
* * *
33695015 AAAGGC-ATCCTTTAAGAGGTTCACTATAAAGGCTTACTCTTCTAGAGTTTTGCCACAAAGGTTT
1 AAAGGCTATCCTTTCAGAGGTTCACCAAAAAGGCTTACTCTTCTAGAGTTTTGCCACAAAGGTTT
33695079 GCCTTTCTAGAATTTTTCCAC
66 GCCTTTCTAGAATTTTT-CAC
*
33695100 AAAGGCTATCCTTTCATAGGTTCACCAAAAAGGCTTAC-CTTTCTAGAGTTTTGCCACAAAGG-T
1 AAAGGCTATCCTTTCAGAGGTTCACCAAAAAGGCTTACTC-TTCTAGAGTTTTGCCACAAAGGTT
* *
33695163 TGTCTTT-TAGCAGGTTTTTCAC
65 TGCCTTTCTAG-A-ATTTTTCAC
* * *** * * * *
33695185 ATAGGCT-TACCTTTCCAGAGTTTTGTCACAAAGGC-TA-TCTTTTAGCAGGTTTGCCAGAAAGG
1 AAAGGCTAT-CCTTT-CAGAGGTTCACCAAAAAGGCTTACTCTTCTAG-AGTTTTGCCACAAAGG
*
33695247 TTTACCTTTCT
63 TTTGCCTTTCT
33695258 TGGTGATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
84 9 0.07
85 46 0.35
86 74 0.57
87 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (85 bp):
AAAGGCTATCCTTTCAGAGGTTCACCAAAAAGGCTTACTCTTCTAGAGTTTTGCCACAAAGGTTT
GCCTTTCTAGAATTTTTCAC
Found at i:33701656 original size:28 final size:29
Alignment explanation
Indices: 33701619--33701688 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
33701609 TCATGACTAT
*
33701619 GAATGTGATTGGTC-CTGACGGGCCATATG
1 GAATGTGATTGGGCGC-GACGGGCCATATG
*
33701648 GAAT-TGATTGGGCGCGATGGGCCATAT-
1 GAATGTGATTGGGCGCGACGGGCCATATG
* *
33701675 GAATGAGACTGGGC
1 GAATGTGATTGGGC
33701689 CTAAAGGGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.11
28 26 0.74
29 5 0.14
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.24
Consensus pattern (29 bp):
GAATGTGATTGGGCGCGACGGGCCATATG
Found at i:33709137 original size:48 final size:48
Alignment explanation
Indices: 33709085--33709179 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
33709075 TGAAAGCCGC
*
33709085 TTCGGATCGTCAAAAGTCGTATGCGGATTTGAAAAGAAAAGACATTGT
1 TTCGGATCGTCAAAAGTCGTATGCGGACTTGAAAAGAAAAGACATTGT
*
33709133 TTCGGATCGTCAAAAGTCGTATGCGGGCTTGAAAAGAAAAGACATTG
1 TTCGGATCGTCAAAAGTCGTATGCGGACTTGAAAAGAAAAGACATTG
33709180 AATATCAGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (48 bp):
TTCGGATCGTCAAAAGTCGTATGCGGACTTGAAAAGAAAAGACATTGT
Found at i:33709360 original size:29 final size:29
Alignment explanation
Indices: 33709291--33709389 Score: 166
Period size: 28 Copynumber: 3.5 Consensus size: 29
33709281 TATGAAGTAT
*
33709291 AGCACTAAGTGTGCAAGTTTGATTATAT-
1 AGCACTAAGTGTGCGAGTTTGATTATATA
*
33709319 AGCACTAAGTGTGCGAGTTTGATTATGTA
1 AGCACTAAGTGTGCGAGTTTGATTATATA
33709348 AGCACTAAGTGTGCGAGTTTGATTATATA
1 AGCACTAAGTGTGCGAGTTTGATTATATA
33709377 A-CACTAAGTGTGC
1 AGCACTAAGTGTGC
33709390 AGACTTACTA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 38 0.57
29 29 0.43
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33710779 original size:29 final size:29
Alignment explanation
Indices: 33710744--33710817 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
33710734 GTTGTGAGAT
* *
33710744 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
33710773 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
33710802 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33710818 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:33737130 original size:21 final size:21
Alignment explanation
Indices: 33737106--33737146 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33737096 ATTACTCGAA
*
33737106 AGAAGCC-GATTGATCCATCTC
1 AGAAGCCAGATTCAT-CATCTC
33737127 AGAAGCCAGATTCATCATCT
1 AGAAGCCAGATTCATCATCT
33737147 AGACTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (21 bp):
AGAAGCCAGATTCATCATCTC
Found at i:33739151 original size:8 final size:8
Alignment explanation
Indices: 33739135--33739169 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
33739125 ATGGGCCGAA
33739135 AACGGGCC
1 AACGGGCC
*
33739143 AATGGGCC
1 AACGGGCC
33739151 AACGGGCC
1 AACGGGCC
33739159 AACGGGCC
1 AACGGGCC
33739167 AAC
1 AAC
33739170 TTTGGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.29, C:0.34, G:0.34, T:0.03
Consensus pattern (8 bp):
AACGGGCC
Found at i:33739555 original size:27 final size:26
Alignment explanation
Indices: 33739515--33739574 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
33739505 ACATATATAT
* *
33739515 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
33739541 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
33739568 ATATCTA
1 ATATCTA
33739575 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:33740927 original size:44 final size:44
Alignment explanation
Indices: 33740863--33740974 Score: 152
Period size: 44 Copynumber: 2.5 Consensus size: 44
33740853 GAATTACATC
* * *
33740863 AAGATTACCCATCCGGGCTAAATCCTTTCTATAACGAGGTCAAT
1 AAGATTACTCATCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
* **
33740907 AAGATTACTCATCTGAGCTAAAAACTTTCTATAACGAGCTCAAT
1 AAGATTACTCATCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
* *
33740951 AAAATTACTCGTCCGAGCTAAATC
1 AAGATTACTCATCCGAGCTAAATC
33740975 TCGTCAGCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (44 bp):
AAGATTACTCATCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
Found at i:33742616 original size:39 final size:38
Alignment explanation
Indices: 33742569--33742645 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
33742559 TGTATGTTGG
**
33742569 GCCACTGGT-AGGATATGTTAGTTGTTAACCAAGTTGGCA
1 GCCACTGGTAAGG-TATGTTAGTTACTAACC-AGTTGGCA
33742608 GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
1 GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
33742646 TGAGTGCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 8 0.23
39 24 0.69
40 3 0.09
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (38 bp):
GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
Found at i:33752205 original size:15 final size:16
Alignment explanation
Indices: 33752177--33752206 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33752167 CAACCATGCT
33752177 TTAACACAATATCAAA
1 TTAACACAATATCAAA
33752193 TTAACAC-ATATCAA
1 TTAACACAATATCAA
33752207 CAAGGGACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACACAATATCAAA
Found at i:33754059 original size:20 final size:20
Alignment explanation
Indices: 33754022--33754060 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33754012 CTCTATGTAC
33754022 TCTCTCAATTTTTACATACA
1 TCTCTCAATTTTTACATACA
*
33754042 TCTCTTAATCTTTT-CATAC
1 TCTCTCAAT-TTTTACATAC
33754061 CAATTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (20 bp):
TCTCTCAATTTTTACATACA
Found at i:33769903 original size:13 final size:13
Alignment explanation
Indices: 33769885--33769915 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
33769875 AGATTTTTAT
33769885 AATAATAAAATAA
1 AATAATAAAATAA
33769898 AATAATAAAATAA
1 AATAATAAAATAA
33769911 AATAA
1 AATAA
33769916 AATTTAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAATAAAATAA
Found at i:33769911 original size:18 final size:19
Alignment explanation
Indices: 33769883--33769918 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
33769873 TAAGATTTTT
33769883 ATAATAATAAAATAAAATA
1 ATAATAATAAAATAAAATA
33769902 ATAA-AATAAAATAAAAT
1 ATAATAATAAAATAAAAT
33769919 TTAAGAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAATAATAAAATAAAATA
Found at i:33793899 original size:68 final size:70
Alignment explanation
Indices: 33793827--33793984 Score: 171
Period size: 68 Copynumber: 2.3 Consensus size: 70
33793817 CATCATGTGT
** * * *
33793827 ACAAGAGAGCTACGAGATACCATGTA-GTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-C
1 ACAAGAGAGCTACGAGATA-CATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CAC
33793888 CATGTAG
64 CATGTAG
* * * * *
33793895 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGAGATACATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
33793960 ATGTAG
65 ATGTAG
33793966 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
33793985 AATTGGCTAG
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
67 3 0.04
68 37 0.51
69 1 0.01
70 1 0.01
71 31 0.42
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.20
Consensus pattern (70 bp):
ACAAGAGAGCTACGAGATACATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCA
TGTAG
Found at i:33802208 original size:189 final size:188
Alignment explanation
Indices: 33801864--33802232 Score: 517
Period size: 189 Copynumber: 2.0 Consensus size: 188
33801854 GTGAAACCAT
* * * * * * *
33801864 AAATCCTATACCTCTGAAGTGTAGTAGGTCGAATTAAGTCATCATGGTGAATCTTATCTCCCTAA
1 AAATCCTATACCTCTAAAGTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTAA
* * *
33801929 AGTTGCAGTGGGGCAGATTAAAGCCACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGAATGA
66 AGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTACAGTGGAGCAGAATGA
* *
33801994 AGATAGCAAATCTCATTTCCCTAAAGTTACGGCAGAACAGATTAAAGCTATAAGTCAC
131 AGAAAGCAAATCTCATTTCCCTAAAGTTACAGCAGAACAGATTAAAGCTATAAGTCAC
* *
33802052 AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTG
1 AAATCCTATACCTCTAAA-GTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTA
* *
33802117 AAGTTGCAGTGGAGCAGATTAAATCCACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCA-AACT
65 AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTACAGTGGAGCAGAA-T
* * * *
33802181 GAAGAAAGTAAATCTTATCTT-CCTAAAGTTGCAGTAGAACAGATTAAAGCTA
129 GAAGAAAGCAAATCTCAT-TTCCCTAAAGTTACAGCAGAACAGATTAAAGCTA
33802233 CAAACCACTA
Statistics
Matches: 158, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
188 19 0.12
189 137 0.87
190 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (188 bp):
AAATCCTATACCTCTAAAGTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTAA
AGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTACAGTGGAGCAGAATGA
AGAAAGCAAATCTCATTTCCCTAAAGTTACAGCAGAACAGATTAAAGCTATAAGTCAC
Found at i:33811164 original size:19 final size:19
Alignment explanation
Indices: 33811140--33811179 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33811130 GGGTTTAAGG
*
33811140 TTTAAGAGATTTTGAGAGA
1 TTTAAGAGAGTTTGAGAGA
*
33811159 TTTAAGAGAGTTTGAGGGA
1 TTTAAGAGAGTTTGAGAGA
33811178 TT
1 TT
33811180 AGAGGTCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (19 bp):
TTTAAGAGAGTTTGAGAGA
Found at i:33817607 original size:20 final size:20
Alignment explanation
Indices: 33817575--33817612 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33817565 GTGGAATTTG
*
33817575 TATGAAAAGATAAGATTAAT
1 TATGAAAAGATAAAATTAAT
33817595 TATGAAGAA-ATAAAATTA
1 TATGAA-AAGATAAAATTA
33817613 GTCTCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
TATGAAAAGATAAAATTAAT
Found at i:33818184 original size:38 final size:39
Alignment explanation
Indices: 33818087--33818185 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 39
33818077 AGTCGATGAA
** *
33818087 ACACTGAGTGTCAATTTATTACTTCGTATTTATTCAATGAG
1 ACACTG-GTGTCAATTT-TTACTTCGTATTTAACCAATAAG
* * *
33818128 GCACTGGGTGCCAA--TTTACTTCG-GTTTAACCAATAAG
1 ACACT-GGTGTCAATTTTTACTTCGTATTTAACCAATAAG
33818165 ACACTGGTGTCAATTTTTACT
1 ACACTGGTGTCAATTTTTACT
33818186 ACTTCGAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
36 7 0.15
37 14 0.30
38 14 0.30
39 1 0.02
41 10 0.21
42 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (39 bp):
ACACTGGTGTCAATTTTTACTTCGTATTTAACCAATAAG
Found at i:33818973 original size:21 final size:20
Alignment explanation
Indices: 33818931--33818973 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
33818921 ATTTAAAATG
* * *
33818931 ATGATTTGAATGATGTTTTA
1 ATGATATGAATGATGATATA
33818951 ATGATATGAAATGATGATATA
1 ATGATATG-AATGATGATATA
33818972 AT
1 AT
33818974 TGTGGTACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (20 bp):
ATGATATGAATGATGATATA
Found at i:33821238 original size:17 final size:17
Alignment explanation
Indices: 33821216--33821250 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33821206 GGTGAAAACA
33821216 TGTCTACAATTAAATCT
1 TGTCTACAATTAAATCT
33821233 TGTCTACAATTAAATCT
1 TGTCTACAATTAAATCT
33821250 T
1 T
33821251 CTTTCCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (17 bp):
TGTCTACAATTAAATCT
Found at i:33824952 original size:27 final size:28
Alignment explanation
Indices: 33824906--33824974 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
33824896 ATTAATTAAT
* *
33824906 TTTTTAA-AAA-TTAAAAAACT-ATATA
1 TTTTTAATAAATTTTAATAACTCATATA
*
33824931 CTTTTTAAT-AATTTTAATAACTCTTATA
1 -TTTTTAATAAATTTTAATAACTCATATA
33824959 TTTTTAATAAATTTTA
1 TTTTTAATAAATTTTA
33824975 TAATATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 9 0.25
27 16 0.44
28 11 0.31
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTTAATAAATTTTAATAACTCATATA
Found at i:33824975 original size:18 final size:18
Alignment explanation
Indices: 33824942--33824976 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33824932 TTTTTAATAA
*
33824942 TTTTAATAACTCTTATAT
1 TTTTAATAAATCTTATAT
*
33824960 TTTTAATAAATTTTATA
1 TTTTAATAAATCTTATA
33824977 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATAAATCTTATAT
Found at i:33833650 original size:21 final size:21
Alignment explanation
Indices: 33833624--33833665 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
33833614 ATGAACTTAG
33833624 AACTTATAGATTATTTCGTAT
1 AACTTATAGATTATTTCGTAT
33833645 AACTTATAGATTATTTCGTAT
1 AACTTATAGATTATTTCGTAT
33833666 TTTCAGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (21 bp):
AACTTATAGATTATTTCGTAT
Found at i:33837254 original size:18 final size:18
Alignment explanation
Indices: 33837231--33837319 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
33837221 AACAAGTGAG
33837231 GAAAAAGAAAAAGAGAAT
1 GAAAAAGAAAAAGAGAAT
*
33837249 GAAAAAGAGCAAAAAGAGATT
1 G-AAAA-AG-AAAAAGAGAAT
* *
33837270 GAGAATGAAAAAGA-AATT
1 GAAAAAGAAAAAGAGAA-T
* *
33837288 GAAGAAAG-AAGAGAAAAT
1 GAA-AAAGAAAAAGAGAAT
**
33837306 GAATTAGAAAAAGA
1 GAAAAAGAAAAAGA
33837320 AACAAAAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.06
18 25 0.46
19 10 0.19
20 5 0.09
21 11 0.20
ACGTcount: A:0.65, C:0.01, G:0.24, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGAGAAT
Found at i:33837304 original size:23 final size:22
Alignment explanation
Indices: 33837278--33837330 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33837268 TTGAGAATGA
*
33837278 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
33837301 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
33837323 AAAAGAAA
1 AAAAGAAA
33837331 AAGACGTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:33843231 original size:42 final size:42
Alignment explanation
Indices: 33843149--33843235 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
33843139 ACGGGCAGAG
* * *
33843149 ACACGGGCGTGTGTCTCATCCGTGTGTTCTATATAGCCTAGA
1 ACACGGGCGTGTGTCTCATCCGTGTGTGCTACAGAGCCTAGA
33843191 ACACGGGCGTGTGTCTCAGT-CGTGTGTGCTACACGA-CCTAGA
1 ACACGGGCGTGTGTCTCA-TCCGTGTGTGCTACA-GAGCCTAGA
33843233 ACA
1 ACA
33843236 TGGGTGTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (42 bp):
ACACGGGCGTGTGTCTCATCCGTGTGTGCTACAGAGCCTAGA
Found at i:33845278 original size:16 final size:16
Alignment explanation
Indices: 33845257--33845290 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33845247 GACATGAATT
*
33845257 TGCAATGTTGGCTCTG
1 TGCAATGTTGGCACTG
33845273 TGCAATGTTGGCACTG
1 TGCAATGTTGGCACTG
33845289 TG
1 TG
33845291 TTTTTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (16 bp):
TGCAATGTTGGCACTG
Found at i:33848952 original size:14 final size:14
Alignment explanation
Indices: 33848930--33848959 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33848920 AAATTATTAT
*
33848930 TTAATTAATTGAAA
1 TTAAATAATTGAAA
33848944 TTAAATAATTGAAA
1 TTAAATAATTGAAA
33848958 TT
1 TT
33848960 CGAGCTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAAATAATTGAAA
Found at i:33861039 original size:27 final size:26
Alignment explanation
Indices: 33861010--33861365 Score: 354
Period size: 27 Copynumber: 13.2 Consensus size: 26
33861000 GGGCAAATCA
* * *
33861010 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
33861037 GTCATTTTACCCTACAGGGATATTTTG
1 GTCATTTTACCCTA-TGGGGTATTTCG
* * *
33861064 GTCATTTTACCTTACGGGGATATTTTG
1 GTCATTTTACCCTATGGGG-TATTTCG
* *
33861091 GTCATTTTAACCTGTGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
33861118 GTCATTTTATCCTATGAGGCTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
33861145 GTCATTTTACCCTATGGGG-ATTGTTCG
1 GTCATTTTACCCTATGGGGTA-T-TTCG
* * *
33861172 ATCATTTTACCCTCTAGGGATATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
33861199 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* **
33861226 GTCATTTTACCATATAGGGGTATTTTA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
33861253 GTCATTTTACCTTATGAGGATATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
*
33861280 GTCATTTTACCTTATGGAGGTATTTCG
1 GTCATTTTACCCTATGG-GGTATTTCG
33861307 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
33861334 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
33861361 GTCAT
1 GTCAT
33861366 CATCTCGGCC
Statistics
Matches: 281, Mismatches: 36, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.00
26 10 0.04
27 259 0.92
28 10 0.04
29 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:33869430 original size:40 final size:39
Alignment explanation
Indices: 33869240--33869423 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
33869230 CGAATGATGT
* * * * *
33869240 CCGGGCTAAGTCACGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
33869280 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
33869320 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33869358 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33869399 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33869424 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33869445 original size:79 final size:79
Alignment explanation
Indices: 33869292--33869446 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
33869282 GGACTAAGAT
* **
33869292 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
33869357 ATTCGGGTTAAGTC
66 ATTCCGGTTAAGTC
* *
33869371 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
33869434 TATA-TCCGGTTAA
63 TAAATTCCGGTTAA
33869447 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 43 0.65
80 21 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAGTC
Found at i:33874167 original size:46 final size:45
Alignment explanation
Indices: 33874079--33874290 Score: 202
Period size: 46 Copynumber: 4.6 Consensus size: 45
33874069 TTACCGATCC
* **
33874079 CATGTCCTAGACATGGTCTTACACTGG--CACATCCCGTAGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTGGCTCTCATCAAG-AGCCGATG
33874124 CATGTCCTAGACATGTCTTACACTGGCT-TACATCAAGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTCT-CATCAAGA-GCCGATG
* * * *
33874170 CATGT-CTCAGACATGTCTTACACTAGCTCTCGTCTCAATA-CTGATG
1 CATGTCCT-AGACATGTCTTACACTGGCTCTC--ATCAAGAGCCGATG
* *
33874216 CCATATCCTAGACATGGTCTTACACTGGCTCTCAT-AATGTGGCCGATG
1 -CATGTCCTAGACAT-GTCTTACACTGGCTCTCATCAA-G-AGCCGATG
33874264 CATGTCCTAGACATGTCTTACACTGGC
1 CATGTCCTAGACATGTCTTACACTGGC
33874291 ACACAAATAA
Statistics
Matches: 139, Mismatches: 14, Indels: 27
0.77 0.08 0.15
Matches are distributed among these distances:
44 12 0.09
45 19 0.14
46 56 0.40
47 24 0.17
48 28 0.20
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCTAGACATGTCTTACACTGGCTCTCATCAAGAGCCGATG
Found at i:33889937 original size:63 final size:63
Alignment explanation
Indices: 33889838--33889963 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
33889828 AGCTAGCATT
* *
33889838 ATGAGACTTTAGTAAGTTAAATTTGTTTGAATTAGCTCAAGAGCTTAGAGGACTAAAGTTGGA
1 ATGAGACTTTAATAAGTTAAATTTGTTTGAATTAGCTCAAGAGCTTAGAGGACCAAAGTTGGA
33889901 ATGAGACTTTAATAAGTTAAATTTGTTTGAATTAGCTCAAGAGCTTAGAGGACCAAAGTTGGA
1 ATGAGACTTTAATAAGTTAAATTTGTTTGAATTAGCTCAAGAGCTTAGAGGACCAAAGTTGGA
33889964 TAAAGGAAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.33
Consensus pattern (63 bp):
ATGAGACTTTAATAAGTTAAATTTGTTTGAATTAGCTCAAGAGCTTAGAGGACCAAAGTTGGA
Found at i:33903695 original size:29 final size:28
Alignment explanation
Indices: 33903649--33903704 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
33903639 GCATGAATAT
33903649 AAATGTGACTGGGCCTAACAGGCCATAG
1 AAATGTGACTGGGCCTAACAGGCCATAG
* **
33903677 AAATGTGATTCGGGCCTAATGGGCCATA
1 AAATGTGACT-GGGCCTAACAGGCCATA
33903705 TACAGGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (28 bp):
AAATGTGACTGGGCCTAACAGGCCATAG
Found at i:33903713 original size:29 final size:27
Alignment explanation
Indices: 33903653--33903769 Score: 72
Period size: 29 Copynumber: 4.1 Consensus size: 27
33903643 GAATATAAAT
* ** * *
33903653 GTGACTGGGCCTAACAGGCCATAGAAAT
1 GTGATTGGGCCTAATGGGCCATA-TAAG
33903681 GTGATTCGGGCCTAATGGGCCATATACAG
1 GTGATT-GGGCCTAATGGGCCATATA-AG
* * *
33903710 GTGATTTGGACCTAAAGGGGCCATATGAAT
1 GTGA-TTGGGCCT-AATGGGCCATAT-AAG
* * *
33903740 ATGATTGGGCTTAATGGGCCAGATATAG
1 GTGATTGGGCCTAATGGGCCATATA-AG
33903768 GT
1 GT
33903770 ATGTGAATTT
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 31 0.46
30 17 0.25
31 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (27 bp):
GTGATTGGGCCTAATGGGCCATATAAG
Found at i:33913709 original size:47 final size:47
Alignment explanation
Indices: 33913654--33913782 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
33913644 CGCAATAGAT
33913654 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACAT-ATCCCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAAC-TCATCCCA
* * * * *
33913701 GAGTACCTATACTATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
* * *
33913748 AAATACCTATATCATGACCCATAGCCAAATCAAGG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGG
33913783 CATTATTCGC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
46 1 0.01
47 69 0.99
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
Found at i:33914367 original size:29 final size:28
Alignment explanation
Indices: 33914330--33914388 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
33914320 TTTTTATTTA
*
33914330 TTTCACAATTTAACCCCTCAATTTACATT
1 TTTCACAATTTAACCCCT-AATTGACATT
* *
33914359 TTTCTCAATTTAATCCCTAATTGACATT
1 TTTCACAATTTAACCCCTAATTGACATT
33914387 TT
1 TT
33914389 AGTCAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.46
Consensus pattern (28 bp):
TTTCACAATTTAACCCCTAATTGACATT
Found at i:33914394 original size:28 final size:29
Alignment explanation
Indices: 33914335--33914394 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
33914325 ATTTATTTCA
* *
33914335 CAATTTAACCCCTCAATTTACATTTTTCT
1 CAATTTAACCCCTCAATTGACATTTTACT
* *
33914364 CAATTTAATCCCT-AATTGACATTTTAGT
1 CAATTTAACCCCTCAATTGACATTTTACT
33914392 CAA
1 CAA
33914395 AAATCACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (29 bp):
CAATTTAACCCCTCAATTGACATTTTACT
Found at i:33923155 original size:46 final size:46
Alignment explanation
Indices: 33923105--33923322 Score: 382
Period size: 46 Copynumber: 4.7 Consensus size: 46
33923095 TGGTTGAGCA
33923105 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
33923151 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
33923197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* **
33923243 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33923289 CCCGAGCTCGTTGAGTTGGGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33923323 GGGGCGGGTT
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33928945 original size:43 final size:42
Alignment explanation
Indices: 33928890--33929005 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 42
33928880 ATATCGTACA
*
33928890 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* * * *
33928933 ATGCCACTGTCCCAAACAG-GGTTTTACACATAATCACTTATCG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACATATAATCACATATCG
** * *
33928976 ATGCCAAAATCCCTGACGTGGGCTTACATA
1 ATGCC-ACGTCCCAGACGTGGTCTTACATA
33929006 AGAACACATA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.05
43 52 0.91
44 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACATATAATCACATATCG
Found at i:33935124 original size:42 final size:43
Alignment explanation
Indices: 33935059--33935168 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
33935049 ATTTACGTGC
* ** *
33935059 AAGACCATGTCTGGCACATTGGCATC-GTATATGAGTT-CGTGT
1 AAGACCATGTCTGGGATGTTGGCATCGGTATATGA-TTACATGT
* * *
33935101 AAGACCTTGTTTGGGATAG-TGGCATCGGTATGTGATTACATGT
1 AAGACCATGTCTGGGAT-GTTGGCATCGGTATATGATTACATGT
33935144 AAGACCATGTCTGGGATGTTGGCAT
1 AAGACCATGTCTGGGATGTTGGCAT
33935169 TATACTAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (43 bp):
AAGACCATGTCTGGGATGTTGGCATCGGTATATGATTACATGT
Found at i:33940775 original size:44 final size:41
Alignment explanation
Indices: 33940727--33940824 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 41
33940717 AACAATTCTA
*
33940727 CACACTTAGTGCCATCTCAACTAACAGAAGCTAAGTTAGTATCG
1 CACACTTAGTGCCAT-T-AACTAACAGAAGCTAAGTTA-AATCG
* * * * *
33940771 CACACTTAGTGCC-TTTAGTAGCCGAAGCTAATTTAAATCG
1 CACACTTAGTGCCATTAACTAACAGAAGCTAAGTTAAATCG
33940811 CACACTTAGTGCCA
1 CACACTTAGTGCCA
33940825 AATACTTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 17 0.36
41 15 0.32
42 1 0.02
43 1 0.02
44 13 0.28
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
CACACTTAGTGCCATTAACTAACAGAAGCTAAGTTAAATCG
Found at i:33946878 original size:40 final size:40
Alignment explanation
Indices: 33946682--33946868 Score: 293
Period size: 40 Copynumber: 4.7 Consensus size: 40
33946672 CAATTGAAGA
33946682 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
33946722 TTATATTCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
33946762 TTATGTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTT
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
33946802 TTATATCCGGGTTCAGTCCCGAAGGCATTTGTGTTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** *
33946842 TTATATCCGGGCAAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
33946869 ATTGGGTTGG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:33947953 original size:45 final size:46
Alignment explanation
Indices: 33947889--33948168 Score: 137
Period size: 45 Copynumber: 6.2 Consensus size: 46
33947879 TGACCCATGG
* * *
33947889 TGTCTTTCAACTATGGTCTTATTTA-TTCTTATCTTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTCATTTCTTATCATGATGCCATAA
* * * * *
33947934 TGTCTTTCAACCATGGTCTTATTCATTTTTTGTCATGTTTCCATAG
1 TGTCTTTCAACCATGGTCTTATTCATTTCTTATCATGATGCCATAA
* * * * *
33947980 TTTCTTTCAACCATGGTCTTGTTCGTTTGATT-T-GTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTCATTT-CTTATCATGATGCCATAA
* * ** * * ***
33948025 CGTTTTTCAGTCATGGTCTT-CTCA-ATAGAATCATGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTCATTTCTTATCATGATGCCATAA
* ** * **
33948069 AGTCTTTCAGTCATGGTCTTACTCGATAAC--ATCATGATG-CATAA
1 TGTCTTTCAACCATGGTCTTATTC-ATTTCTTATCATGATGCCATAA
* ** * * * ** * *
33948113 CGTCTTTCAGTCATGGTTTTACTCGTTTCTGGT-ATGGTGCCATAT
1 TGTCTTTCAACCATGGTCTTATTCATTTCTTATCATGATGCCATAA
33948158 TGTCTTTCAAC
1 TGTCTTTCAAC
33948169 TATCGTATTA
Statistics
Matches: 183, Mismatches: 42, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 63 0.34
45 71 0.39
46 41 0.22
47 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (46 bp):
TGTCTTTCAACCATGGTCTTATTCATTTCTTATCATGATGCCATAA
Found at i:33948137 original size:44 final size:45
Alignment explanation
Indices: 33948014--33948137 Score: 182
Period size: 44 Copynumber: 2.8 Consensus size: 45
33948004 GTTTGATTTG
* *
33948014 TGATGCCATAACGTTTTTCAGTCATGGTCTT-CTCAATAGAATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
*
33948058 TGATGCCATAAAGTCTTTCAGTCATGGTCTTACTCGATA-ACATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGA-ATCA
*
33948103 TGATG-CATAACGTCTTTCAGTCATGGTTTTACTCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCG
33948138 TTTCTGGTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 58 0.79
45 15 0.21
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
Found at i:33950599 original size:19 final size:19
Alignment explanation
Indices: 33950554--33950592 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33950544 ATAGTGTTTC
33950554 GAAGATTGATTTGAGATTT
1 GAAGATTGATTTGAGATTT
33950573 GAAGATTGATTTGAGATTT
1 GAAGATTGATTTGAGATTT
33950592 G
1 G
33950593 GTTATTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (19 bp):
GAAGATTGATTTGAGATTT
Found at i:33954098 original size:11 final size:12
Alignment explanation
Indices: 33954073--33954101 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
33954063 TTTGCATGTG
33954073 ATAAATTTCATT
1 ATAAATTTCATT
33954085 ATAAATTT-ATT
1 ATAAATTTCATT
33954096 ATAAAT
1 ATAAAT
33954102 GCTTTGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATTTCATT
Found at i:33955628 original size:54 final size:54
Alignment explanation
Indices: 33955567--33955676 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
33955557 GTTGGCCGTA
* * *
33955567 TGACCCAAGTCAAAGAGTTACACGGGGTAGGACACGGGCTGGGACACGGCCATG
1 TGACCCAAGACAAAGAGTTACACGGGGTAAGACACGGGCTGGGACACGACCATG
* * *
33955621 TGACCCAAGACAGAGAGTTACACGGGGTAAGACATGGGTTGGGACACGACCATG
1 TGACCCAAGACAAAGAGTTACACGGGGTAAGACACGGGCTGGGACACGACCATG
33955675 TG
1 TG
33955677 CTCTCATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.29, C:0.22, G:0.35, T:0.15
Consensus pattern (54 bp):
TGACCCAAGACAAAGAGTTACACGGGGTAAGACACGGGCTGGGACACGACCATG
Found at i:33958238 original size:43 final size:43
Alignment explanation
Indices: 33958174--33958287 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
33958164 AGTATCGTAC
* *
33958174 CAATGCC-ATATCCCAGATATGGTCATACATG-TGATCTCATAT
1 CAATGCCAATAGCCCAGATATGGTCATACATGAAG-TCTCATAT
*
33958216 CAATGCCAATAGCCCAGCTATGGTCATACATGAAGTCTCATAT
1 CAATGCCAATAGCCCAGATATGGTCATACATGAAGTCTCATAT
* * * *
33958259 CGATGCC-ATATCTCAGATATGGTCTTACA
1 CAATGCCAATAGCCCAGATATGGTCATACA
33958288 CGTAAATTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 25 0.40
43 36 0.58
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
CAATGCCAATAGCCCAGATATGGTCATACATGAAGTCTCATAT
Found at i:33971193 original size:42 final size:44
Alignment explanation
Indices: 33971071--33971193 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 44
33971061 ATGCCAATGG
* * **
33971071 CATA-TCCCAGATATGGTCTTACATGGGATCACACATATCGATGTC
1 CATAGTCCCAGACATGGTCTTACACGAAAT-A-ACATATCGATGTC
* ** **
33971116 GATAG-CCCA-ACTATGGTCTTACACGATGTTTCATATCGATG-C
1 CATAGTCCCAGAC-ATGGTCTTACACGAAATAACATATCGATGTC
33971158 CAT-GTCCCAGACATGGTCTTACACGAAATAACATAT
1 CATAGTCCCAGACATGGTCTTACACGAAATAACATAT
33971194 TTATGCCAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 12 0.20
44 1 0.02
45 20 0.33
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
CATAGTCCCAGACATGGTCTTACACGAAATAACATATCGATGTC
Found at i:33971225 original size:48 final size:48
Alignment explanation
Indices: 33971154--33971337 Score: 235
Period size: 48 Copynumber: 3.8 Consensus size: 48
33971144 TTTCATATCG
* ** * *
33971154 ATGCCATGTCCCAGACATGGTCTTACACGAAATAACATATTTATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCTATGCCA
* * * * *
33971202 ATGTCATATCCCAGATATGGTCTTATATGGGATCCCATATCGT-TGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC-TATGCCA
* *
33971250 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCTATGCCA
*
33971298 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATAT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
33971338 AACCCTAATG
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
48 117 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCTATGCCA
Found at i:33971289 original size:96 final size:96
Alignment explanation
Indices: 33971154--33971337 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 96
33971144 TTTCATATCG
** * *
33971154 ATGCCATGTCCCAGACATGGTCTTACACGAAATAACATATTTATGCCAATGTCATATCCCAGATA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATAACATATCGATGCCAATGCCATATCCCAGACA
*
33971219 TGGTCTTATATGGGATCCCATATCGTTGCCA
66 TGGTCTTACATGGGATCCCATATCGTTGCCA
* ** ** *
33971250 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATAACATATCGATGCCAATGCCATATCCCAGACA
*
33971315 TGGTCTTACATGGGATCTCATAT
66 TGGTCTTACATGGGATCCCATAT
33971338 AACCCTAATG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATAACATATCGATGCCAATGCCATATCCCAGACA
TGGTCTTACATGGGATCCCATATCGTTGCCA
Found at i:33976083 original size:9 final size:9
Alignment explanation
Indices: 33976069--33976093 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33976059 GATCAAGAAA
33976069 AATTAAATT
1 AATTAAATT
33976078 AATTAAATT
1 AATTAAATT
33976087 AATTAAA
1 AATTAAA
33976094 GTAAATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:33978062 original size:43 final size:41
Alignment explanation
Indices: 33977894--33978093 Score: 237
Period size: 43 Copynumber: 4.9 Consensus size: 41
33977884 ATTAGGTTAC
33977894 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
33977936 TGAGA-T--T-TCAGACCATATCTGGGATATGGCATTGATA
1 TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
33977973 TGAGATTCGTGTAAAACCATATCTGGTATATGGCATCGATA
1 TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
33978014 AGAGATTCCGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
33978057 CGAGATTACATGAAAGACCATATCTGGGATATGGCAT
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCAT
33978094 TGGTACGGTA
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
37 33 0.25
38 2 0.02
40 1 0.01
41 33 0.25
42 29 0.22
43 35 0.26
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:33994254 original size:27 final size:27
Alignment explanation
Indices: 33994216--33994367 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
33994206 NNNNNNNNNN
* *
33994216 TCGCACACTTAGTGCTACGTAATCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
33994243 TCGCACACTTAGTGCTACATAGTCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
** * *
33994270 CTCGCACACTTAGTGCCGCATGGTCAAT
1 -TCGCACACTTAGTGCTACATAGTCAAA
* **
33994298 TCGCACACTTAGTGC-ATCATATTCATT
1 TCGCACACTTAGTGCTA-CATAGTCAAA
*
33994325 TCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
33994352 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
33994368 GTACAATTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
27 84 0.78
28 24 0.22
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCGCACACTTAGTGCTACATAGTCAAA
Found at i:33996289 original size:34 final size:33
Alignment explanation
Indices: 33996251--33996324 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 33
33996241 ATATCAGTCG
33996251 CAATATCAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAATATCAGTGTGGGCCTTAGCCCAATACAGT-A
* * *
33996285 CAATATCAGTGTGGGCCTTAGCCTATTTCAGTA
1 CAATATCAGTGTGGGCCTTAGCCCAATACAGTA
33996318 CAATATC
1 CAATATC
33996325 CAAAATGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 8 0.22
34 29 0.78
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (33 bp):
CAATATCAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:34009406 original size:64 final size:64
Alignment explanation
Indices: 34009325--34009506 Score: 181
Period size: 67 Copynumber: 2.8 Consensus size: 64
34009315 AGACATTATG
* ** *
34009325 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAACTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAACTACAAGATAA
* * * * * *
34009389 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACAAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAACTACAAGAT
34009454 AA
63 AA
* * *
34009456 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGA
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGA
34009507 GCCAAAATTA
Statistics
Matches: 95, Mismatches: 18, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 25 0.26
66 21 0.22
67 29 0.31
68 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAACTACAAGATAA
Found at i:34009522 original size:19 final size:19
Alignment explanation
Indices: 34009498--34009536 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34009488 TCACCATGTG
34009498 TACAAGAGAGCCAAAATTA
1 TACAAGAGAGCCAAAATTA
34009517 TACAAGAGAGCCAAAATTA
1 TACAAGAGAGCCAAAATTA
34009536 T
1 T
34009537 GTGTGCAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (19 bp):
TACAAGAGAGCCAAAATTA
Found at i:34014722 original size:42 final size:43
Alignment explanation
Indices: 34014614--34014739 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
34014604 ACCAAGTACA
* * * *
34014614 ATGCCGACGTCCTGGACATGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCTAGACATGGTCTTACACGAAATTCAATATCG
** * *
34014657 ATGCCTCTGTCCTAGAAAGGGTCTTACACGAAATT-AGATA-CG
1 ATGCCGATGTCCTAGACATGGTCTTACACGAAATTCA-ATATCG
* *
34014699 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAAT
1 ATGCCGATGTCCTAGACATGGTCTTACACG-AAAT-TCAAT
34014740 CGAGGCTTGT
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
42 27 0.42
43 34 0.52
44 3 0.05
45 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
ATGCCGATGTCCTAGACATGGTCTTACACGAAATTCAATATCG
Found at i:34018523 original size:30 final size:30
Alignment explanation
Indices: 34018489--34018549 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34018479 TCCTTAACTC
34018489 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34018519 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34018549 A
1 A
34018550 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:34028836 original size:26 final size:26
Alignment explanation
Indices: 34028800--34028851 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34028790 ATCTCGTATT
34028800 CCAATTTTACAAACACCAACATTGTG
1 CCAATTTTACAAACACCAACATTGTG
34028826 CCAATTTTACAAACACCAACATTGTG
1 CCAATTTTACAAACACCAACATTGTG
34028852 TTATATCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (26 bp):
CCAATTTTACAAACACCAACATTGTG
Found at i:34032596 original size:22 final size:24
Alignment explanation
Indices: 34032565--34032609 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
34032555 AAAATAAGAT
*
34032565 ATTGAGTTGAAT-TAAATTTAAAA
1 ATTGAGTTGAATCAAAATTTAAAA
34032588 ATTGA-TTGAATCAAAATTTAAA
1 ATTGAGTTGAATCAAAATTTAAA
34032610 TTAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (24 bp):
ATTGAGTTGAATCAAAATTTAAAA
Found at i:34037187 original size:29 final size:30
Alignment explanation
Indices: 34037120--34037189 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
34037110 ATCCCAAAAC
34037120 TATACATGAACTATGATTTAATGTACAATTG
1 TATACATGAACTATGATTT-ATGTACAATTG
* * *
34037151 TATACATGAACTCTGATTT-TGTGCAATTT
1 TATACATGAACTATGATTTATGTACAATTG
34037180 TATACATGAA
1 TATACATGAA
34037190 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 18 0.50
31 18 0.50
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (30 bp):
TATACATGAACTATGATTTATGTACAATTG
Found at i:34049375 original size:23 final size:24
Alignment explanation
Indices: 34049341--34049385 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34049331 TCCCTTGTTG
*
34049341 CCCTCCGACCCC-CACAATTCCAT
1 CCCTCCGACCCCTCAAAATTCCAT
*
34049364 CCCTCCGCCCCCTCAAAATTCC
1 CCCTCCGACCCCTCAAAATTCC
34049386 CGAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.20, C:0.58, G:0.04, T:0.18
Consensus pattern (24 bp):
CCCTCCGACCCCTCAAAATTCCAT
Found at i:34066001 original size:27 final size:27
Alignment explanation
Indices: 34065971--34066143 Score: 247
Period size: 27 Copynumber: 6.4 Consensus size: 27
34065961 GGGGCAAAAT
* * * *
34065971 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34065998 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34066025 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34066052 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34066079 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34066106 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34066133 GGTAATTCTAC
1 GGTAATTCTAC
34066144 AACTTATCCA
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:34075729 original size:345 final size:345
Alignment explanation
Indices: 34075087--34075777 Score: 1310
Period size: 345 Copynumber: 2.0 Consensus size: 345
34075077 GGCTCGTTTT
34075087 CAAAGAAAGTAACATCAAGGGACACAAACATTCGGTGTAAGGTTGGAGAGTAGCCCTTGTACCCT
1 CAAAGAAAGTAACATCAAGGGACACAAACATTCGGTGTAAGGTTGGAGAGTAGCCCTTGTACCCT
34075152 TTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTGTGGGCTCTAGGATCAAGTTTAGATCGGTT
66 TTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTGTGGGCTCTAGGATCAAGTTTAGATCGGTT
* *
34075217 AGGTTGATGGTTGTGGACAAATGCTTTGCAACCAAATGTTTTGGTTGGGAGATTAGGATCACGAA
131 AGGTTGATGGTTGTGGACAAATGCTTTGCAACCAAATGTTTTGGTTCGGAGATTAGGAACACGAA
* *
34075282 ACAAGGGAAATTTTTTTTGAAAAGTATGTAAAGGTGTTTGAAAGTTTAATACCTTTGATGGGAGT
196 ACAAGGGAAAATTTTTTTGAAAAGTATGTAAAGGTGTTTGAAAGTTTAATACCTTAGATGGGAGT
34075347 CGGTTTATAAGATAACAAGCAGTAAGGACAACTTCTCCCCATAAATACTTTGGTACACCCATAGT
261 CGGTTTATAAGATAACAAGCAGTAAGGACAACTTCTCCCCATAAATACTTTGGTACACCCATAGT
34075412 AAACATAAGGGCACGAGCCA
326 AAACATAAGGGCACGAGCCA
34075432 CAAAGAAAGTAACATCAAGGGACACAAACATTCGGTGTAAGGTTGGAGAGTAGCCCTTGTACCCT
1 CAAAGAAAGTAACATCAAGGGACACAAACATTCGGTGTAAGGTTGGAGAGTAGCCCTTGTACCCT
34075497 TTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTGTGGGCTCTAGGATCAAGTTTAGATCGGTT
66 TTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTGTGGGCTCTAGGATCAAGTTTAGATCGGTT
34075562 AGGTTGATGGTTGTGGACAAATGCTTTGCAACCAAATGTTTTGGTTCGGAGATTAGGAACACGAA
131 AGGTTGATGGTTGTGGACAAATGCTTTGCAACCAAATGTTTTGGTTCGGAGATTAGGAACACGAA
**
34075627 ACAAGGGAAAATTTTTTTGAAGGGTATGTAAAGGTGTTTGAAAGTTTAATACCTTAGATGGGAGT
196 ACAAGGGAAAATTTTTTTGAAAAGTATGTAAAGGTGTTTGAAAGTTTAATACCTTAGATGGGAGT
* *
34075692 CGGTTTATAAGATAACAAGCAGTGAGGACAGCTTCTCCCCATAAATACTTTGGTACACCCATAGT
261 CGGTTTATAAGATAACAAGCAGTAAGGACAACTTCTCCCCATAAATACTTTGGTACACCCATAGT
34075757 AAACATAAGGGCACGAGCCA
326 AAACATAAGGGCACGAGCCA
34075777 C
1 C
34075778 GACTACAAGG
Statistics
Matches: 338, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
345 338 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (345 bp):
CAAAGAAAGTAACATCAAGGGACACAAACATTCGGTGTAAGGTTGGAGAGTAGCCCTTGTACCCT
TTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTGTGGGCTCTAGGATCAAGTTTAGATCGGTT
AGGTTGATGGTTGTGGACAAATGCTTTGCAACCAAATGTTTTGGTTCGGAGATTAGGAACACGAA
ACAAGGGAAAATTTTTTTGAAAAGTATGTAAAGGTGTTTGAAAGTTTAATACCTTAGATGGGAGT
CGGTTTATAAGATAACAAGCAGTAAGGACAACTTCTCCCCATAAATACTTTGGTACACCCATAGT
AAACATAAGGGCACGAGCCA
Found at i:34085974 original size:17 final size:17
Alignment explanation
Indices: 34085954--34085989 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
34085944 TCATAGCTAT
34085954 TAAATCCCTTTAGCTTA
1 TAAATCCCTTTAGCTTA
34085971 TAAATCCCTTTAGCTTA
1 TAAATCCCTTTAGCTTA
34085988 TA
1 TA
34085990 GAACTCTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (17 bp):
TAAATCCCTTTAGCTTA
Found at i:34086908 original size:20 final size:20
Alignment explanation
Indices: 34086883--34086932 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
34086873 AATTAGGTTT
*
34086883 ATTTAAAATAAAAAATTTAA
1 ATTTAAAATAAAAAATATAA
* *
34086903 ATTTAAATTTAAAAATATAA
1 ATTTAAAATAAAAAATATAA
*
34086923 ATTTATAATA
1 ATTTAAAATA
34086933 TTAAATACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAAAATAAAAAATATAA
Found at i:34086937 original size:14 final size:13
Alignment explanation
Indices: 34086895--34086952 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
34086885 TTAAAATAAA
34086895 AAATTTAAAT-TT
1 AAATTTAAATATT
*
34086907 AAATTTAAAAATAT
1 AAATTTAAATAT-T
34086921 AAATTTATAATATT
1 AAATTTA-AATATT
*
34086935 AAATACTTCAATATT
1 AAAT--TTAAATATT
34086950 AAA
1 AAA
34086953 AAATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 9 0.24
13 1 0.03
14 13 0.34
15 13 0.34
16 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTTAAATATT
Found at i:34088778 original size:14 final size:14
Alignment explanation
Indices: 34088759--34088787 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34088749 CAAGTAGATT
34088759 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
34088773 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
34088787 T
1 T
34088788 TATATGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:34090788 original size:43 final size:45
Alignment explanation
Indices: 34090727--34090821 Score: 140
Period size: 43 Copynumber: 2.2 Consensus size: 45
34090717 CGGCTAAGGG
** *
34090727 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
*
34090772 AGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
34090815 AGATAAG
1 AGATAAG
34090822 GTTTGGGGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 37 0.80
44 1 0.02
45 8 0.17
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:34090822 original size:176 final size:179
Alignment explanation
Indices: 34090563--34091048 Score: 622
Period size: 180 Copynumber: 2.7 Consensus size: 179
34090553 ATAGATTTTT
* * * * **
34090563 AATCTTTAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTG
1 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACT-CAATCTTCAACCTGCTCTCTTG
* * * * * *
34090628 CTACCTCAGAGGGATAAGGCTAGTGGCTAAAATCTGCTCCATTACTGATACATGGAGATAAGACT
65 CTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTACCGATAAATGGAGATAAGA-T
* * ** *
34090693 T-GCCAACT-T-CGATCTGCTCCGCTACGGC-TAAGGGAGATAAGATCTTC
129 TAGCCAACTATAAGATCTACTCCGCTACAACTTAAGGGAGATAAAATCTTC
34090740 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGC
1 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGC
* * *
34090805 TACCTCAGAGAGATAAGGTTTGGGGCTTAAATCTACTCCATTACCGATAAATGGAGATAAGATTA
66 TACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTACCGATAAATGGAGATAAGATTA
* * *
34090870 GCCATCTATGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAATCTTC
131 GCCAACTAT-AAGATCTACTCCGCTACAACTTAAGGGAGATAAAATCTTC
* * *
34090920 AAT-TCACAGTCTTCTTTTTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTG
1 AATCT-TCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTG
* * * * *
34090984 CTACCTCAAAGAGATAAGGCTTGAGGCTTAATTTTGCTCCATTGCCGATAAATAGAGATAAGATT
65 CTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTACCGATAAATGGAGATAAGATT
34091049 TTCCTTTTCC
Statistics
Matches: 270, Mismatches: 33, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
175 2 0.01
176 81 0.30
177 39 0.14
179 15 0.06
180 133 0.49
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (179 bp):
AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGC
TACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTACCGATAAATGGAGATAAGATTA
GCCAACTATAAGATCTACTCCGCTACAACTTAAGGGAGATAAAATCTTC
Found at i:34091209 original size:147 final size:146
Alignment explanation
Indices: 34090938--34091210 Score: 352
Period size: 147 Copynumber: 1.9 Consensus size: 146
34090928 GTCTTCTTTT
34090938 TTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGG
1 TTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGG
** * * * **
34091003 CTTGAGGCTTAATTTTGCTCCATTGCCGATAAATAGAGATAAGATTTTCCTTTTCCAATCTTCAA
66 CCAGAGGCTAAAATTTGCTCCATTGCCGATAAATAGAGACAAGATTCGCCTTTTCCAATCTTCAA
34091068 TCTTCAGTCTGCTTCC
131 TCTTCAGTCTGCTTCC
* * * **
34091084 TTGCTACCTCAGGAAGATAAGACTACCATCTTCAACCTGCTCTCTTGCTTCCTCCGAGAGATAAG
1 TTGCTACCTCAGAAAGATAAGACT-CAATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAG
* * * * *
34091149 GCCAGTGGCTAAAATTTGCTCCATTGTCTG-TACATGGATACAAGATTCGCCATTTT-CAATCT
65 GCCAGAGGCTAAAATTTGCTCCATTG-CCGATAAATAGAGACAAGATTCGCC-TTTTCCAATCT
34091211 ACTCCACTGG
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
146 23 0.21
147 78 0.73
148 6 0.06
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (146 bp):
TTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGG
CCAGAGGCTAAAATTTGCTCCATTGCCGATAAATAGAGACAAGATTCGCCTTTTCCAATCTTCAA
TCTTCAGTCTGCTTCC
Found at i:34091257 original size:87 final size:89
Alignment explanation
Indices: 34091139--34091324 Score: 218
Period size: 87 Copynumber: 2.1 Consensus size: 89
34091129 TGCTTCCTCC
* * * *
34091139 GAGAGATAAGGCCAGTGGCTAAAATTTGCTCCATTGTCTG-TACATGGATACAAGATTCGCCATT
1 GAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTG-CTGATACATGGAGACAAGATTCACCATC
*
34091203 TTCAATCTACTCCACTGGAACTT-A
65 TTCAATCTACTCCACTGCAACTTCA
* *
34091227 GAGAGATAAGG-CTGATGG-TAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATC
1 GAGAGATAAGGCCAG-TGGCTAAAATCTGCTCCATTGCTGATACATGGAGACAAGATTCACCATC
** * *
34091290 TTCGGTCTGCTCCGCTGCAACTTCA
65 TTCAATCTACTCCACTGCAACTTCA
*
34091315 GGGAGATAAG
1 GAGAGATAAG
34091325 ATCTTCAATC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
86 3 0.04
87 56 0.67
88 24 0.29
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (89 bp):
GAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCTGATACATGGAGACAAGATTCACCATCT
TCAATCTACTCCACTGCAACTTCA
Found at i:34091385 original size:133 final size:133
Alignment explanation
Indices: 34091203--34091502 Score: 487
Period size: 133 Copynumber: 2.3 Consensus size: 133
34091193 ATTCGCCATT
* * * *
34091203 TTCAATCTACTCCACTGGAA-CTTAGAGAGATAAGGCTGATGGTAAAATCTGCTCCATTGCT-GA
1 TTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGGCTGATGGTAAAATCTGCTCCATT-CTCGA
*
34091266 TACATGGAGATAAGATTCACCATCTTCGGTCTGCTCCGCTGCAACTTCAGGGAGATAAGATCTTC
65 TACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGATCTTC
34091331 AATC
130 AATC
* * *
34091335 TTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGGCTGGTGGTAAAATCTGCTTCATTTTCGAT
1 TTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGGCTGATGGTAAAATCTGCTCCATTCTCGAT
* *
34091400 ACATGGAGATAAGATTCATCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGATCTTCA
66 ACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGATCTTCA
34091465 ATC
131 ATC
34091468 TTCAGTCTACTCCACTGCAACCTCAGGGAGATAAG
1 TTCAGTCTACTCCACTGCAACCTCAGGGAGATAAG
34091503 ATTTGTCATG
Statistics
Matches: 156, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
132 19 0.12
133 137 0.88
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (133 bp):
TTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGGCTGATGGTAAAATCTGCTCCATTCTCGAT
ACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGCAACTTCAGGGAGATAAGATCTTCA
ATC
Found at i:34091504 original size:45 final size:45
Alignment explanation
Indices: 34091271--34091504 Score: 153
Period size: 45 Copynumber: 5.2 Consensus size: 45
34091261 GCTGATACAT
* * *
34091271 GGAGATAAGA--TTCACCATCTTCGGTCTGCTCCGCTGCAACTTCAG
1 GGAGATAAGATCTTCA--ATCTTCAGTCTGCTCCACTGCAACCTCAG
*
34091316 GGAGATAAGATCTTCAATCTTCAGTCTACTCCACTGCAACCTCAG
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAG
* ** * ** * * * * * *
34091361 GGAGATAAG-GC-T-GGTGGTAAAATCTGCTTCATTTTCGA--TACAT
1 GGAGATAAGATCTTCAAT-CTTCAGTCTGCTCCA-CTGCAACCT-CAG
* ** *
34091404 GGAGATAAGATTCATC-ATCTTC-GATCTGCTCTGCTGCAACTTCAG
1 GGAGATAAGA-TCTTCAATCTTCAG-TCTGCTCCACTGCAACCTCAG
*
34091449 GGAGATAAGATCTTCAATCTTCAGTCTACTCCACTGCAACCTCAG
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAG
34091494 GGAGATAAGAT
1 GGAGATAAGAT
34091505 TTGTCATGAT
Statistics
Matches: 140, Mismatches: 35, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
42 2 0.01
43 21 0.15
44 11 0.08
45 98 0.70
46 4 0.03
47 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
GGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAG
Found at i:34094166 original size:64 final size:63
Alignment explanation
Indices: 34094065--34094250 Score: 237
Period size: 64 Copynumber: 2.9 Consensus size: 63
34094055 TTGATGTATC
* * *
34094065 ATGCTTATGCCAACTAATTAGGATACTATGATCAAAATGAATCAAATACTCCTAATTAGACATG
1 ATGCTTATGACAA-TAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAATTAGACATG
* **
34094129 ATGCTTATGACACATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGACA-ATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAATTAGACATG
* * ** * *
34094193 ATGCTGATGTCAAATAATTAGGCCGCTATGATCGAAATGAATCAAATGCACCTAATTA
1 ATGCTTATGAC-AATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAATTA
34094251 AATGTGTTAT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
64 105 0.98
65 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.29
Consensus pattern (63 bp):
ATGCTTATGACAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAATTAGACATG
Found at i:34102577 original size:40 final size:39
Alignment explanation
Indices: 34102519--34102598 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 39
34102509 ATATCTGGGA
*
34102519 CATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGA-CATGT
1 CATGCATCGGCCTCGAGATGT--GCCAGTGTAAGACCATGT
*
34102559 CATGCATCGG-CTACGAGATGTGTCAGTGTAAGACCATGT
1 CATGCATCGGCCT-CGAGATGTGCCAGTGTAAGACCATGT
34102598 C
1 C
34102599 TGGGACATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
38 11 0.31
39 8 0.22
40 17 0.47
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CATGCATCGGCCTCGAGATGTGCCAGTGTAAGACCATGT
Found at i:34102631 original size:48 final size:49
Alignment explanation
Indices: 34102580--34102807 Score: 211
Period size: 50 Copynumber: 4.7 Consensus size: 49
34102570 TACGAGATGT
* *
34102580 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATG-TATAGAGTT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAGCCTGATATAGA-TA
* * *
34102628 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCGCGGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAGC-CTGATAT-AGATA
* ** * *
34102678 G-CTAGTGTAAGACCATGTCTAGGACATGGTGTC-AGCCTCGATTTCGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGAGCCT-GATATAGATA
* * *
34102727 GTCAGTGTAAGACCATGTATGGGACATGGCATCGA-CTTG--ATGGATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAGCCTGATATAGAT-A
* *
34102774 GCCAGTGTAAGACCATGTCTGGAACATGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
34102808 TTATTATACC
Statistics
Matches: 149, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
46 4 0.03
47 33 0.22
48 35 0.23
49 35 0.23
50 40 0.27
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAGCCTGATATAGATA
Found at i:34103671 original size:13 final size:13
Alignment explanation
Indices: 34103653--34103682 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34103643 CACACGGGCG
34103653 TGTGCCTTGGCCA
1 TGTGCCTTGGCCA
*
34103666 TGTGCCTTGGCCG
1 TGTGCCTTGGCCA
34103679 TGTG
1 TGTG
34103683 ACCCTTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.37, T:0.33
Consensus pattern (13 bp):
TGTGCCTTGGCCA
Found at i:34105633 original size:43 final size:43
Alignment explanation
Indices: 34105575--34105769 Score: 327
Period size: 43 Copynumber: 4.5 Consensus size: 43
34105565 CATTATAGCA
* * *
34105575 TGCTAGGCTCAAAGGCCCGAATACACATCATCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
34105618 TGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
34105661 TGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
34105704 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAAGCA
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
34105747 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
34105770 TAATACCAGC
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:34110248 original size:9 final size:9
Alignment explanation
Indices: 34110234--34110261 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
34110224 TACCTCTAAT
34110234 GGAGTTGAA
1 GGAGTTGAA
34110243 GGAGTTGAA
1 GGAGTTGAA
34110252 GGAGTTGAA
1 GGAGTTGAA
34110261 G
1 G
34110262 ACTCAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.21
Consensus pattern (9 bp):
GGAGTTGAA
Found at i:34113752 original size:21 final size:21
Alignment explanation
Indices: 34113726--34113775 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
34113716 TATAATGACT
34113726 ACACGGGCATGTTGCCCTTTC
1 ACACGGGCATGTTGCCCTTTC
*
34113747 ACACGGGCATGTTGTCCTTTC
1 ACACGGGCATGTTGCCCTTTC
*
34113768 ACATGGGC
1 ACACGGGC
34113776 GTGTGCCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (21 bp):
ACACGGGCATGTTGCCCTTTC
Found at i:34122628 original size:92 final size:92
Alignment explanation
Indices: 34122471--34122654 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
34122461 AACTAATCAA
34122471 ATAAATCATCAATCCTCGGCAACGGGTACTTGTTCTTTATAGTCACCTTATTAAGCTGACGGTAA
1 ATAAATCATCAATCCTCGGCAACGGGTACTTGTTCTTTATAGTCACCTTATTAAGCTGACGGTAA
34122536 TCAATGCAAAGTCTCATTGAACCATCC
66 TCAATGCAAAGTCTCATTGAACCATCC
* *
34122563 ATAAATCATCAATCCTCGGCAACGGGTACTTGTTCTTTATAGTCACCTTATTGAGCTGATGGTAA
1 ATAAATCATCAATCCTCGGCAACGGGTACTTGTTCTTTATAGTCACCTTATTAAGCTGACGGTAA
*
34122628 TCAATGCAAAGTCTCATTGAGCCATCC
66 TCAATGCAAAGTCTCATTGAACCATCC
34122655 TTCTTTTTTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (92 bp):
ATAAATCATCAATCCTCGGCAACGGGTACTTGTTCTTTATAGTCACCTTATTAAGCTGACGGTAA
TCAATGCAAAGTCTCATTGAACCATCC
Found at i:34122922 original size:30 final size:30
Alignment explanation
Indices: 34122888--34122946 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
34122878 GAAATTCACA
* *
34122888 GACTATCGGTACTGATTTAAGCTTCAATTT
1 GACTATCAGTACTGATTCAAGCTTCAATTT
34122918 GACTATCAGTACTGATTCAAGCTTCAATT
1 GACTATCAGTACTGATTCAAGCTTCAATT
34122947 CAGACAGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (30 bp):
GACTATCAGTACTGATTCAAGCTTCAATTT
Found at i:34134401 original size:58 final size:57
Alignment explanation
Indices: 34134330--34134443 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 57
34134320 ATTGACGTTA
* * * *
34134330 TTACAGAAAGGATTTGGCCTGGGCTGGTAATCTTGATATAAGCCCTCT-TGAGCATATG
1 TTACAGAAAGGATTTGGCCCGGACGGGTAATCCTGAT-TAAGCCCT-TGTGAGCATATG
* *
34134388 TTACAGATAGGATTTGGCCCGGACGGGTAATCCTGATTAAGCTCTTGTGAGCATAT
1 TTACAGAAAGGATTTGGCCCGGACGGGTAATCCTGATTAAGCCCTTGTGAGCATAT
34134444 TTTGGAAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
56 1 0.02
57 16 0.33
58 32 0.65
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (57 bp):
TTACAGAAAGGATTTGGCCCGGACGGGTAATCCTGATTAAGCCCTTGTGAGCATATG
Found at i:34167991 original size:49 final size:50
Alignment explanation
Indices: 34167913--34168158 Score: 334
Period size: 49 Copynumber: 4.9 Consensus size: 50
34167903 AGCTATTATG
34167913 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
34167963 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
34168013 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
34168063 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
34168113 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
34168159 GCTTCGGCTA
Statistics
Matches: 170, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 84 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:34168050 original size:28 final size:28
Alignment explanation
Indices: 34168018--34168101 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
34168008 AACTTCGATC
34168018 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
34168046 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
34168068 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
34168096 ACGTGT
1 ACGTGT
34168102 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:34189710 original size:47 final size:47
Alignment explanation
Indices: 34189632--34189979 Score: 552
Period size: 47 Copynumber: 7.3 Consensus size: 47
34189622 CCCTTCGGGA
* * * * * *
34189632 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34189679 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34189726 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34189775 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34189822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34189869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34189916 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34189965 CCTATCACATATATA
1 CTTATCACATATATA
34189980 NNNNNNNNNN
Statistics
Matches: 283, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
47 193 0.68
49 90 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34189930 original size:143 final size:144
Alignment explanation
Indices: 34189632--34189979 Score: 589
Period size: 143 Copynumber: 2.4 Consensus size: 144
34189622 CCCTTCGGGA
* * *
34189632 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATAC
34189695 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
34189760 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
* * * *
34189775 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATAC
34189838 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
34189902 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
34189916 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATA
34189980 NNNNNNNNNN
Statistics
Matches: 190, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
141 47 0.25
142 1 0.01
143 142 0.75
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:34189973 original size:190 final size:190
Alignment explanation
Indices: 34189632--34189979 Score: 588
Period size: 190 Copynumber: 1.8 Consensus size: 190
34189622 CCCTTCGGGA
* * * * *
34189632 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
34189697 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
34189762 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34189822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
34189887 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
34189952 TTGGCCACTCGGCCCTATCACATATATA
131 TCGGCCACTAGGCCCTATCACATATATA
34189980 NNNNNNNNNN
Statistics
Matches: 146, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
190 146 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34210678 original size:14 final size:14
Alignment explanation
Indices: 34210659--34210694 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
34210649 CCACCCTTAA
34210659 ACACTCACATACTT
1 ACACTCACATACTT
34210673 ACACTCACATACTT
1 ACACTCACATACTT
34210687 ACACTCAC
1 ACACTCAC
34210695 TTCATGGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (14 bp):
ACACTCACATACTT
Found at i:34214913 original size:28 final size:28
Alignment explanation
Indices: 34214882--34214980 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
34214872 ATATTTTCCT
* * * *
34214882 TCGCACACTTAGTGTTTGATAATCAAAC
1 TCGCACACTTAGTGATCGTTAACCAAAC
*
34214910 TCGCACACTTAGTGCTCGTTAACCAAAC
1 TCGCACACTTAGTGATCGTTAACCAAAC
* *
34214938 TCGCACGCTTAGTGAACGTTAACCAAAC
1 TCGCACACTTAGTGATCGTTAACCAAAC
*
34214966 TCGCACGCTTAGTGA
1 TCGCACACTTAGTGA
34214981 AATTTTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (28 bp):
TCGCACACTTAGTGATCGTTAACCAAAC
Found at i:34214981 original size:28 final size:28
Alignment explanation
Indices: 34214905--34214981 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
34214895 GTTTGATAAT
* **
34214905 CAAACTCGCACACTTAGTGCTCGTTAAC
1 CAAACTCGCACGCTTAGTGAACGTTAAC
34214933 CAAACTCGCACGCTTAGTGAACGTTAAC
1 CAAACTCGCACGCTTAGTGAACGTTAAC
34214961 CAAACTCGCACGCTTAGTGAA
1 CAAACTCGCACGCTTAGTGAA
34214982 ATTTTCATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (28 bp):
CAAACTCGCACGCTTAGTGAACGTTAAC
Found at i:34222806 original size:45 final size:45
Alignment explanation
Indices: 34222756--34222843 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
34222746 AAACATGTGT
*
34222756 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCACGAACTCAGACCATAACTCAATGAGTTCAGATGC
* * *
34222801 CACATATATCACGTACTCAGACCATAACTCAATTAGTTCAGAT
1 CACATACATCACGAACTCAGACCATAACTCAATGAGTTCAGAT
34222844 CACATAGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.25
Consensus pattern (45 bp):
CACATACATCACGAACTCAGACCATAACTCAATGAGTTCAGATGC
Found at i:34225710 original size:46 final size:45
Alignment explanation
Indices: 34225565--34225778 Score: 155
Period size: 46 Copynumber: 4.6 Consensus size: 45
34225555 TGGTGGGCTA
* * * * * *
34225565 GTGTAAGACATGTCTGGGACGTGCATCAGCCAC-ATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA-AGCCT
* * *
34225611 GTATAAGAACATGTCTGGGACATGGCATCGGCATCGAGAC-AAGTGCT
1 GTGTAAG-ACATGTCTGGGACAT-GCATCGGCCTCGAGACGAAG-CCT
*
34225658 AATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCT
1 -GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCCT
* * * * * * *
34225705 GTGTAAGACATGTTTGGGACAAGCATC-GACTACGAAATGATAGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA-AGCCT
*
34225751 GTGTAAGACCATGTCTAGGACATGCATC
1 GTGTAAGA-CATGTCTGGGACATGCATC
34225779 AACATGAGAT
Statistics
Matches: 134, Mismatches: 24, Indels: 19
0.76 0.14 0.11
Matches are distributed among these distances:
45 4 0.03
46 63 0.47
47 49 0.37
48 17 0.13
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGCCT
Found at i:34225778 original size:47 final size:45
Alignment explanation
Indices: 34225660--34225826 Score: 111
Period size: 46 Copynumber: 3.6 Consensus size: 45
34225650 CAAGTGCTAA
* * * * ** * * *
34225660 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCTG
1 TGTAAGACATGTCTAGGACATGCATC-GACACGAAATATGAGTCAG
* * *
34225706 TGTAAGACATGTTTGGGACAAGCATCGACTACGAAATGAT-AGTCAG
1 TGTAAGACATGTCTAGGACATGCATCGAC-ACGAAAT-ATGAGTCAG
* * * * *
34225752 TGTAAGACCATGTCTAGGACATGCATCAACATGAGATATGAGTTAT
1 TGTAAGA-CATGTCTAGGACATGCATCGACACGAAATATGAGTCAG
*
34225798 TGTAAGATCGTGTCTAGGACATGGCATCG
1 TGTAAGA-CATGTCTAGGACAT-GCATCG
34225827 GCACCTTACC
Statistics
Matches: 96, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
45 4 0.04
46 68 0.71
47 24 0.25
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (45 bp):
TGTAAGACATGTCTAGGACATGCATCGACACGAAATATGAGTCAG
Found at i:34233543 original size:15 final size:15
Alignment explanation
Indices: 34233508--34233545 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
34233498 TTTTTATTCA
*
34233508 TTTATTAT-ATGGAT
1 TTTATTATAATAGAT
*
34233522 TTCATTATAATAGAT
1 TTTATTATAATAGAT
34233537 TTTATTATA
1 TTTATTATA
34233546 TGAATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (15 bp):
TTTATTATAATAGAT
Done.