Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 89 of 135
Found at i:29943092 original size:215 final size:215
Alignment explanation
Indices: 29942621--29943762 Score: 1316
Period size: 215 Copynumber: 5.3 Consensus size: 215
29942611 TAAATAAGGT
** *
29942621 TTTGACAAGTTTGGAAGTTCGTCGAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * **
29942686 AATTCAAACACCAAAACTTGTTTAC-AAACTGACGAACTATTTAGACCAAATTATGTGATTTCCC
66 AATTCAAACACCAAAACATGTTTACGAAA-TGACAAACTATTTAGACCAAATGATGCGATTTTAC
** * * * *
29942750 GAGCATCGAATATTCGAAAAATTGCTCGAAGGAGTAGATCATCTTGAATACTTTCAGGAACCGAA
130 GAGCAAGGAATATTCGAAAAATT-CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
* *
29942815 GTCATAAAAGAAATCGAAAAAG
194 GTTATAAAAGAAATCGTAAAAG
* * * * * *
29942837 TTTGACAAGTTCTGATGTTCGTCCAAGAGCCAAGAGAGAAACAATACTTACGTAAATAAATTTTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * *
29942902 AATTCAAACACCAAAACATGTTTACGAAATAACAAACTATTTAGACCGTACA-G-TGCAATTTTA
66 AATTCAAACACCAAAACATGTTTACGAAATGACAAACTATTTAGACC--AAATGATGCGATTTTA
* * * * *
29942965 CGAG-AACGGAATGTTTGAAAAATTCTCAAAGGAATGGATTGTCTTGAATACTTTAAGGTACCGA
129 CGAGCAA-GGAATATTCGAAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGA
* *
29943029 AGTTATAAAAGAAATTGCAAAAG
193 AGTTATAAAAGAAATCGTAAAAG
* *
29943052 TTTGACAAGTTC-GAATGTTCGTCCAAGAGCCAAGAGAGAAACAATTCTTACGTAAATAAGTTTT
1 TTTGACAAGTTCAGAA-GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * *
29943116 TAATTCAAA-AACAAAACATGTTTACGAAATGACAAACCATTTAGACCATACGATGCGATTTTAC
65 TAATTCAAACACCAAAACATGTTTACGAAATGACAAACTATTTAGACCAAATGATGCGATTTTAC
* * * **
29943180 GAGCAAGGAATGTTCAAAAAATTCTCGAAGGAATGGATCGTCTTAAATACTTTAAGGTTCCGAAG
130 GAGCAAGGAATATTCGAAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAG
**
29943245 TTATAAAAGAGCTCGTAAAAG
195 TTATAAAAGAAATCGTAAAAG
* *
29943266 TTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * *
29943331 AATTGAAAGACCAAATTC-TGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCT-
66 AATTCAAACACCAAA-ACATGTTTACGAAATGACAAACTATTTAGACCAAATGATGCGATTT-TA
** * * * *
29943394 CGAGCTTGGAAATCTTCGAAAAACTGC-CTGAAGGAATGGATCGTCTTGAATACTTTATGGAAAC
129 CGAGCAAGG-AATATTCGAAAAA-TTCTC-GAAGGAATGGATCGTCTTGAATACTTTAAGGAACC
* * * *
29943458 AAAGTTATAAAATAACTTGTAAAAG
191 GAAGTTATAAAAGAAATCGTAAAAG
* * * * * *
29943483 TTT-AAAATGTTCGGAAGTTCTTCTAAGAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTT
1 TTTGACAA-GTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
** * * **
29943547 TAATTCAAGGACCAAAACAT-TTTTCTAAATGACAAACTATTTAGACCAAATGATGCGATTTCCC
65 TAATTCAAACACCAAAACATGTTTACGAAATGACAAACTATTTAGACCAAATGATGCGATTTTAC
* * * * * * *
29943611 GAGCAAGGAATATTTGGAAAATAGCTCGAAGGAATGGATTGTCATGAATACTTTGAGGAACTGAA
130 GAGCAAGGAATATTCGAAAAAT-TCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
29943676 GTTATAAAAGAAATCGTAAAAG
194 GTTATAAAAGAAATCGTAAAAG
* * * *
29943698 TTTGACAAGTTTAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTT
1 TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29943763 GACAAGTTCA
Statistics
Matches: 793, Mismatches: 112, Indels: 43
0.84 0.12 0.05
Matches are distributed among these distances:
212 2 0.00
213 1 0.00
214 185 0.23
215 289 0.36
216 189 0.24
217 125 0.16
218 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (215 bp):
TTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAACACCAAAACATGTTTACGAAATGACAAACTATTTAGACCAAATGATGCGATTTTACG
AGCAAGGAATATTCGAAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGT
TATAAAAGAAATCGTAAAAG
Found at i:29943605 original size:431 final size:426
Alignment explanation
Indices: 29942621--29943762 Score: 1371
Period size: 431 Copynumber: 2.7 Consensus size: 426
29942611 TAAATAAGGT
* * *
29942621 TTTGACAAGTTTGGAAGTTCGTCGAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * *
29942686 AATTCAAACACCAAAAC-TTGTTTACAAACTGACGAACTATTTAGACCAAATTATGTGATTTCCC
66 AATTCAAA-ACCAAAACATT-TTT-CAAA-TGACAAACTATTTAGACCAAATGATGCGATTTCCC
** * * * *
29942750 GAGCATCGAATATTCGAAAAATTGCTCGAAGGAGTAGATCATCTTGAATACTTTCAGGAACCGAA
127 GAGCAAGGAATATTCGAAAAATT-CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
* * * *
29942815 GTCATAAAAGAAATCGAAAAAGTTTGACAAGTTCTGATGTTCGTCCAAGAGCCAAGAGAGAAACA
191 GTTATAAAAGAAATCGTAAAAGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACA
* * *
29942880 ATACTTACGTAAATAAATTTTTAATTCAAACACCAAAACATGTTTACGAAATAACAAACTATTTA
256 ATTCTTACGTAAATAAGTTTTTAATTCAAACACCAAAACATGTTTACAAAATAACAAACTATTTA
* * * * * *
29942945 GACCGTACAGTGCAATTTTACGAGAACGGAATGTTTGAAAAATTCTCAAAGGAATGGATTGTCTT
321 GACCG-AAAGTACAATTTTACGAGAACGGAATCTTCGAAAAATCCTCAAAGGAATGGATCGTCTT
* * *
29943010 GAATACTTTAAGGTACCGAAGTTATAAAAGAAATTGCAAAAG
385 GAATACTTTAAGGAAACAAAGTTATAAAAGAAATTGCAAAAG
* * *
29943052 TTTGACAAGTTC-GAATGTTCGTCCAAGAGCCAAGAGAGAAACAATTCTTACGTAAATAAGTTTT
1 TTTGAAAAGTTCGGAA-GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * * * **
29943116 TAATTCAAAAACAAAACATGTTTACGAAATGACAAACCATTTAGACCATACGATGCGATTTTACG
65 TAATTCAAAACCAAAACAT-TTTTC-AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
* * * **
29943181 AGCAAGGAATGTTCAAAAAATTCTCGAAGGAATGGATCGTCTTAAATACTTTAAGGTTCCGAAGT
128 AGCAAGGAATATTCGAAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGT
** * * *
29943246 TATAAAAGAGCTCGTAAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAAT
193 TATAAAAGAAATCGTAAAAGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAAT
* * * * *
29943311 TCTCACGTAAATAAGTTTTTAATTGAAAGACCAAATTC-TGTTTACAAAATGACAAACTATTTAG
258 TCTTACGTAAATAAGTTTTTAATTCAAACACCAAA-ACATGTTTACAAAATAACAAACTATTTAG
* *** *
29943375 ACC-AAATGATACGATTTCT-CGAGCTTGGAAATCTTCGAAAAACTGCCT-GAAGGAATGGATCG
322 ACCGAAA-G-TACAATTT-TACGAGAACGG-AATCTTCGAAAAA-T-CCTCAAAGGAATGGATCG
* * * *
29943437 TCTTGAATACTTTATGGAAACAAAGTTATAAAATAACTTGTAAAAG
381 TCTTGAATACTTTAAGGAAACAAAGTTATAAAAGAAATTGCAAAAG
* * * *
29943483 TTT-AAAATGTTCGGAAGTTCTTCTAAGAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTT
1 TTTGAAAA-GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
*
29943547 TAATTCAAGGACCAAAACATTTTTCTAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
65 TAATTCAA-AACCAAAACATTTTTC-AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
* * * * * * *
29943612 AGCAAGGAATATTTGGAAAATAGCTCGAAGGAATGGATTGTCATGAATACTTTGAGGAACTGAAG
128 AGCAAGGAATATTCGAAAAAT-TCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAG
*
29943677 TTATAAAAGAAATCGTAAAAGTTTGACAAGTTTAGATGTTCGTCCAAGAACCAAGAGAGAAACAA
192 TTATAAAAGAAATCGTAAAAGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAA
*
29943742 TTCTTACATAAATAAGTTTTT
257 TTCTTACGTAAATAAGTTTTT
29943763 GACAAGTTCA
Statistics
Matches: 600, Mismatches: 96, Indels: 29
0.83 0.13 0.04
Matches are distributed among these distances:
427 2 0.00
428 1 0.00
429 161 0.27
430 73 0.12
431 235 0.39
432 128 0.21
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (426 bp):
TTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAACCAAAACATTTTTCAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGC
AAGGAATATTCGAAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTAT
AAAAGAAATCGTAAAAGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
TACGTAAATAAGTTTTTAATTCAAACACCAAAACATGTTTACAAAATAACAAACTATTTAGACCG
AAAGTACAATTTTACGAGAACGGAATCTTCGAAAAATCCTCAAAGGAATGGATCGTCTTGAATAC
TTTAAGGAAACAAAGTTATAAAAGAAATTGCAAAAG
Found at i:29943795 original size:62 final size:62
Alignment explanation
Indices: 29943698--29943886 Score: 279
Period size: 62 Copynumber: 3.0 Consensus size: 62
29943688 ATCGTAAAAG
* * * *
29943698 TTTGACAAGTTTAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTT
1 TTTGACAAGTTTAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
29943760 TTTGACAAGTTCAGAAGTTTGTCCAAGAACTAAGAGAGAAACAATACTCACGTAAATAAGTT
1 TTTGACAAGTTTAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * *
29943822 TTTGACAAGTTTGGAAGTTTGTCCAAGAACCAAGTGAGAACCAATTCTCACGTAAATAAGAT
1 TTTGACAAGTTTAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
29943884 TTT
1 TTT
29943887 AATTCAACGA
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 113 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (62 bp):
TTTGACAAGTTTAGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:29944136 original size:339 final size:339
Alignment explanation
Indices: 29943507--29944232 Score: 1050
Period size: 339 Copynumber: 2.1 Consensus size: 339
29943497 AAGTTCTTCT
* *
29943507 AAGAACAAAGAGAGAA-ATAATTCTCACGTAAATAAGTTTTTAATTCAAGGACCAAAACATTTTT
1 AAGAACCAAGAGAGAACA-AATTCTCACGTAAATAAGTTTTTAATTCAACGACCAAAACATTTTT
* * ***
29943571 CTAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAAGGAATATTTGGAAAATAGC
65 CTAAAAGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCAAGGAATATTCAAAAAATAGC
* ** * * * *
29943636 TCGAAGGAATGGATTGTCATGAATACTTTGAGGAACTGAAGTTATAAAAGAAATCGTAAAAGTTT
130 TCAAAGGAATGGATCATCATGAATACTTTCAGGAACCGAAGTTAAAAAAGAAATCGTAAAAATTT
*
29943701 GACAAGTTTAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTTGAC
195 GACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTTGAC
* *
29943766 AAGTTCAGAAGTTTGTCCAAGAACTAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAG
260 AAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAG
29943831 TTTGGAAGTTTGTCC
325 TTTGGAAGTTTGTCC
* * * *
29943846 AAGAACCAAGTGAGAACCAATTCTCACGTAAATAAGATTTTAATTCAACGACGAAAAC-TTGTTT
1 AAGAACCAAGAGAGAACAAATTCTCACGTAAATAAGTTTTTAATTCAACGACCAAAACATT-TTT
* * ** * *
29943910 AC-AAAAGACAAACTATTTAGACCAAATTATACGATTTCTCGAGCGTGGAATGTTCAAAAAATTG
65 -CTAAAAGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCAAGGAATATTCAAAAAATAG
* * *
29943974 CTTAAAGGAATGGATCATCTTGAATAGTTTCAGGAACCGAAGTTAAAAAAGAAATCGTAAAAATT
129 CTCAAAGGAATGGATCATCATGAATACTTTCAGGAACCGAAGTTAAAAAAGAAATCGTAAAAATT
* *
29944039 TGATAAGTTCGGATGTT-GATCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTTG
194 TGACAAGTTCAGATGTTCG-TCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTTG
*
29944103 ACAAGTTC-GAAAGTTCGTCCATGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
258 ACAAGTTCAG-AAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGAC
29944167 AAGTTTGGAAGTTTGTCC
322 AAGTTTGGAAGTTTGTCC
*
29944185 AAGAACCAAGAGAGAACAAATTCTCACGTGAAA-ATGTTTTTAATTCAA
1 AAGAACCAAGAGAGAACAAATTCTCACGT-AAATAAGTTTTTAATTCAA
29944233 TGACTAAGCA
Statistics
Matches: 344, Mismatches: 37, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
338 4 0.01
339 336 0.98
340 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (339 bp):
AAGAACCAAGAGAGAACAAATTCTCACGTAAATAAGTTTTTAATTCAACGACCAAAACATTTTTC
TAAAAGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCAAGGAATATTCAAAAAATAGCT
CAAAGGAATGGATCATCATGAATACTTTCAGGAACCGAAGTTAAAAAAGAAATCGTAAAAATTTG
ACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTTGACA
AGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAGT
TTGGAAGTTTGTCC
Found at i:29944225 original size:62 final size:62
Alignment explanation
Indices: 29944058--29944213 Score: 233
Period size: 62 Copynumber: 2.5 Consensus size: 62
29944048 CGGATGTTGA
* *
29944058 TCCAAGAACCAAGAGAGAAACAATTCTTACATAAATAAGTTTTTGACAAGTTCGAAAGTTCG
1 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTGACAAGTTCGAAAGTTCG
* * * * *
29944120 TCCATGAACCAAGAGAGAAACAATACTCACGTAAATAAGTTTTTGACAAGTTTGGAAGTTTG
1 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTGACAAGTTCGAAAGTTCG
29944182 TCCAAGAACCAAGAGAG-AACAAATTCTCACGT
1 TCCAAGAACCAAGAGAGAAAC-AATTCTCACGT
29944214 GAAAATGTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
61 3 0.04
62 81 0.96
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (62 bp):
TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTGACAAGTTCGAAAGTTCG
Found at i:29945367 original size:13 final size:14
Alignment explanation
Indices: 29945348--29945386 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
29945338 GCAAACAAAT
29945348 TGAAAAGAAAGAGA
1 TGAAAAGAAAGAGA
*
29945362 -GAAAAGAAAAAGA
1 TGAAAAGAAAGAGA
*
29945375 TGAAAAGGAAGA
1 TGAAAAGAAAGA
29945387 AAAAGAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (14 bp):
TGAAAAGAAAGAGA
Found at i:29951842 original size:22 final size:22
Alignment explanation
Indices: 29951775--29951853 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
29951765 AAGCGAAGGA
29951775 AAAAGAAAAGAGTGAGAATGAAAAAG
1 AAAAGAAAA-A-TGA-AA-GAAAAAG
* *
29951801 AAAAGAAAATTGAAAAAAAAAG
1 AAAAGAAAAATGAAAGAAAAAG
* *
29951823 AAAGGAAAAATGAGAGAAAAGAG
1 AAAAGAAAAATGAAAGAAAA-AG
*
29951846 CAAAGAAA
1 AAAAGAAA
29951854 GTGAAATACA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 22 0.50
23 10 0.23
24 3 0.07
26 9 0.20
ACGTcount: A:0.70, C:0.01, G:0.23, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAATGAAAGAAAAAG
Found at i:29951850 original size:28 final size:30
Alignment explanation
Indices: 29951819--29951874 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
29951809 ATTGAAAAAA
29951819 AAAGAAAG-GAAA-A-ATGAGAGAAAAGAGC
1 AAAGAAAGTGAAATACA-GAGAGAAAAGAGC
29951847 AAAGAAAGTGAAATACAGAGAGAAAAGA
1 AAAGAAAGTGAAATACAGAGAGAAAAGA
29951875 AAAAGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.32
29 4 0.16
30 12 0.48
31 1 0.04
ACGTcount: A:0.64, C:0.04, G:0.27, T:0.05
Consensus pattern (30 bp):
AAAGAAAGTGAAATACAGAGAGAAAAGAGC
Found at i:29957321 original size:62 final size:62
Alignment explanation
Indices: 29957224--29957369 Score: 229
Period size: 62 Copynumber: 2.4 Consensus size: 62
29957214 GACTTGTATC
* * * *
29957224 ACAATTCTTACGTAAATAAGTTTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAA
1 ACAATTCTCACGTAAATAAATTTTAGACAAGTTCGGAAGTTCGTCAAAGAACCAAGAGAGAA
*
29957286 ACAATTCTCACGTAAATAAATTTTAGACAAGTTCGGAAGTTTGTCAAAGAACCAAGAGAGAA
1 ACAATTCTCACGTAAATAAATTTTAGACAAGTTCGGAAGTTCGTCAAAGAACCAAGAGAGAA
* *
29957348 ACAATTCGCACGTAACTAAATT
1 ACAATTCTCACGTAAATAAATT
29957370 ATTAATTAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 77 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.25
Consensus pattern (62 bp):
ACAATTCTCACGTAAATAAATTTTAGACAAGTTCGGAAGTTCGTCAAAGAACCAAGAGAGAA
Found at i:29957745 original size:278 final size:278
Alignment explanation
Indices: 29957246--29957865 Score: 895
Period size: 278 Copynumber: 2.2 Consensus size: 278
29957236 TAAATAAGTT
29957246 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTA
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTA
* *
29957311 GACAAGTTCGGAAGTTTGTCAAAGAACCAAGAGAGAAACAATTCGCACGTAACTAAATTATTAAT
66 GACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCGCACGTAACTAAATTATTAAT
* * * *
29957376 TAATAGTCCAAAACTTGTTTACAAAATGAGAAACTATTTTGACAAAATGATGTGATTTCTCGAGC
131 TAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGC
** *
29957441 ATGGAATGTTTGGAAATTTGCTCGAAGGAATGGATCATCTCAAATACTTTTA-GGAATCGAAGTT
196 ATGGAATGTTTAAAAATTTGCTCGAAGGAATGGATCATCTCAAATAC-TTTACGGAACCGAAGTT
29957505 ATAAAACAACTCGTAAAAG
260 ATAAAACAACTCGTAAAAG
* * * * *
29957524 TTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAACTTTTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTA
* * * *
29957589 GACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAACTAAGTTATTAAT
66 GACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCGCACGTAACTAAATTATTAAT
**
29957654 TAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACTGAATGATAG-GATTTCCCGAG
131 TAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGAT-GTGATTTCCCGAG
**
29957718 CATGGAATGTTTTAAAAATTT-CTCGAAGGAATGGATCATCTTGAATACTTTACGGAACCGAAGT
195 CATGGAATG-TTTAAAAATTTGCTCGAAGGAATGGATCATCTCAAATACTTTACGGAACCGAAGT
*
29957782 TATAAAAGAACTCGTAAAAG
259 TATAAAACAACTCGTAAAAG
* ** * * * * ** *
29957802 TTTCACGTGTTCGAAAATTAGTCCAAGAACGAAGAGAGAAACAATTCTCATTTAAATAAGTTTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAATTTT
29957866 TAATTCAAAG
Statistics
Matches: 303, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
277 4 0.01
278 289 0.95
279 10 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (278 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTA
GACAAGTTCGAAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCGCACGTAACTAAATTATTAAT
TAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAATGATGTGATTTCCCGAGC
ATGGAATGTTTAAAAATTTGCTCGAAGGAATGGATCATCTCAAATACTTTACGGAACCGAAGTTA
TAAAACAACTCGTAAAAG
Found at i:29957973 original size:216 final size:216
Alignment explanation
Indices: 29957586--29958296 Score: 851
Period size: 216 Copynumber: 3.3 Consensus size: 216
29957576 TAAATAACTT
* * * * *
29957586 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAACTAAGTTATT
1 TTTGACATGTTCGAAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* *
29957651 AATT-AACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACTGAATGATAG-GATTTCC
66 AATTCAA-AGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCGAATGAT-GCGATTTCC
* *
29957714 CGAGCATGGAATGTTTTAAAAATTTCTCGAAGGAATGGATCATCTTGAATACTTT-ACGGAACCG
129 CGAGCATGGAATGTTTAAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCA-GGAACCG
29957778 AAGTTATAAAAGAACTCGTAAAAG
193 AAGTTATAAAAGAACTCGTAAAAG
* * * * **
29957802 TTTCACGTGTTCGAAAATTAGTCCAAGAACGAAGAGAGAAACAATTCTCATTTAAATAAGTTTTT
1 TTTGACATGTTCGAAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * * *
29957867 AATTCAAAGACTAAAACTTGTTTACAAACTGACAAACTATTTAGACCAAATTATGCGATATCGCG
66 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCGAATGATGCGATTTCCCG
* * *
29957932 AGCATGGAATGTTAAAAAAATTGCTCGAAGGAATAGATCATCTTGAATACTTTCAGGAACCCAAG
131 AGCATGGAATGTTTAAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAG
* *
29957997 TTATAAAACAACTAGTAAAAG
196 TTATAAAAGAACTCGTAAAAG
* * * * * * *
29958018 TTTGAAATATTCGGAAGTTCA-TCTAAGAACCAAGAGAGAAATAGTTTTCACGTAAATAAGTTTT
1 TTTGACATGTTCGAAAGTT-AGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* *
29958082 TAATTCAAAGACCGAAACATT-TTT-CAAAATGACAAACTATTTAGACCGAATGATGCAATTTCC
65 TAATTCAAAGACCAAAAC-TTGTTTACAAAATGACAAACTATTTAGACCGAATGATGCGATTTCC
* *** * ** * * * * *
29958145 CGAGCAAGGAATGTTTGCGAAATTGCTTGTGGGAATGGATCGTCTTGACTACATTCAAGAACTGA
129 CGAGCATGGAATGTTTAAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCAGGAACCGA
29958210 AGTTATAAAAGAA-TCGTAAAAG
194 AGTTATAAAAGAACTCGTAAAAG
* * * * * *
29958232 TTTGACAAGTTTGTATGTTTGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
1 TTTGACATGTTCGAAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29958297 GACAAGTTCG
Statistics
Matches: 415, Mismatches: 74, Indels: 14
0.83 0.15 0.03
Matches are distributed among these distances:
214 60 0.14
215 96 0.23
216 253 0.61
217 6 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (216 bp):
TTTGACATGTTCGAAAGTTAGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCGAATGATGCGATTTCCCG
AGCATGGAATGTTTAAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTCAGGAACCGAAG
TTATAAAAGAACTCGTAAAAG
Found at i:29958713 original size:216 final size:215
Alignment explanation
Indices: 29958315--29958789 Score: 619
Period size: 216 Copynumber: 2.2 Consensus size: 215
29958305 CGGAAGTTCC
* * * * * *
29958315 TCCAAGAACTAAGAGAGAAACATTTCTCACGTAACTAAGTTTTTAATTTACAGTCCAAAACTTGT
1 TCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCACAGACCAAAACTTGT
* * * * * * *
29958380 TTACAAAATGACAAAAGATTTGACTAAATGATGTGATTTCTCGAGCATGGAATGTTTGGAAAATT
66 GTACAAAATGACAAAAGATTTGACCAAATGATGCGATTTCTCAAGCATGGAATATTCGAAAAATT
* * *
29958445 GCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTGTAAAAGAACTCGTAAAAGT
131 GCTCAAAGGAATAGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGT
* *
29958510 TTCACATGTTCGGAAATTAG
196 TTCACAAGTTCAGAAATTAG
*
29958530 TCCATGAACGAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCACAGACCAAAACTTGT
1 TCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCACAGACCAAAACTTGT
* ** *
29958595 GTACAAACTGACAAACTATTTAGACCAAATTATGCGATTTCTCAAGCATGGAATATTCGAAAAAT
66 GTACAAAATGACAAAAGATTT-GACCAAATGATGCGATTTCTCAAGCATGGAATATTCGAAAAAT
* * * *
29958660 TGCTCAAAGGAATAGATCGTCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAGTCGTAACAG
130 TGCTCAAAGGAATAGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
* ** *
29958725 TTTGACAAGTTCAGATGTTCG
195 TTTCACAAGTTCAGAAATTAG
* * *
29958746 CCCAAT-AACCAAGAGAGAAATAATTCTCACGTAAATAAATTTTT
1 TCC-ATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29958790 TACAAGTTAG
Statistics
Matches: 224, Mismatches: 34, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
215 76 0.34
216 146 0.65
217 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (215 bp):
TCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCACAGACCAAAACTTGT
GTACAAAATGACAAAAGATTTGACCAAATGATGCGATTTCTCAAGCATGGAATATTCGAAAAATT
GCTCAAAGGAATAGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGT
TTCACAAGTTCAGAAATTAG
Found at i:29958912 original size:62 final size:62
Alignment explanation
Indices: 29958729--29958913 Score: 291
Period size: 62 Copynumber: 3.0 Consensus size: 62
29958719 TAACAGTTTG
* * * * *
29958729 ACAAGTTCAGATGTTCGCCCAATAACCAAGAGAGAAATAATTCTCACGTAAATAAATTTTTT
1 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTT
29958791 ACAAGTT-AGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTT
1 ACAAGTTCAG-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTT
* *
29958853 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATATGTTTTT
1 ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
29958914 AATTCAACGA
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
61 2 0.02
62 110 0.96
63 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (62 bp):
ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTT
Found at i:29959166 original size:62 final size:62
Alignment explanation
Indices: 29959064--29959218 Score: 193
Period size: 62 Copynumber: 2.5 Consensus size: 62
29959054 ATCGTAAAAG
* * * * * * *
29959064 TTTGACAAGTTCAGATGTTTGTCCAAGAACCAAGAGAGAAACAAGTCTTACAAAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAAACAACAAAGAAACAAGTCTCACAAAAATAAGTT
* ***
29959126 TTTGACAAGTTCGGAAGTTCGTCCAAGAAACAACAAAGAAACAATTCTCATGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAAACAACAAAGAAACAAGTCTCACAAAAATAAGTT
* *
29959188 TTTGACAAGTTCGGAAGTTCGACCAAAAAAC
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAAAC
29959219 CAAGAGAGGA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.25
Consensus pattern (62 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAAACAACAAAGAAACAAGTCTCACAAAAATAAGTT
Found at i:29959168 original size:339 final size:339
Alignment explanation
Indices: 29958529--29959468 Score: 1307
Period size: 339 Copynumber: 2.8 Consensus size: 339
29958519 TCGGAAATTA
* * *
29958529 GTCCATGAACGAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC-ACAGACCAAAACTT
1 GTCCAAGAACCAAGAGAG-AACAATTCTCACGTAAATATGTTTTTAATTCAAC-GACCAAAACTT
* * * *
29958593 GTGTACAAACTGACAAACTATTTAGACCAAATTATGCGATTTCTCAAGCATGGAATATTCGAAAA
64 GTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCCAAGCATGGAATGTTCGAAAA
* * * *
29958658 ATTGCTCAAAGGAATAGATCGTCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAGTCGTAAC
129 ATTGCTCGAAGGAATGGATCGTCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAATCGTAAA
* * * *
29958723 AGTTTGACAAGTTCAGATGTTCGCCCAATAACCAAGAGAGAAATAATTCTCACGTAAATAAATTT
194 AGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* * * * *
29958788 TTTACAAGTTAGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTT
259 TTGACAAGTTAGAAAGTTCGTCCAAGAAACAACAAAGAAACAATTCTCACGTAAATAAGTTTTTG
29958853 ACAAGTTCAGAAGTTC
324 ACAAGTTCAGAAGTTC
*
29958869 GTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATATGTTTTTAATTCAACGACCAAATCTTG
1 GTCCAAGAACCAAGAGAGAA-CAATTCTCACGTAAATATGTTTTTAATTCAACGACCAAAACTTG
* * *
29958934 TTTACAAAAAGACAAACTATTTAGACCAAATTATGCGATTTCCCGAGCAT-GAATGTTCAAAAAA
65 TTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCCAAGCATGGAATGTTCGAAAAA
* *
29958998 TTGCTCGAAGAAATGGATCATCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAATCGTAAAA
130 TTGCTCGAAGGAATGGATCGTCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAATCGTAAAA
* * * **
29959063 GTTTGACAAGTTCAGATGTTTGTCCAAGAACCAAGAGAGAAACAAGTCTTACAAAAATAAGTTTT
195 GTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * *
29959128 TGACAAGTTCGGAAGTTCGTCCAAGAAACAACAAAGAAACAATTCTCATGTAAATAAGTTTTTGA
260 TGACAAGTTAGAAAGTTCGTCCAAGAAACAACAAAGAAACAATTCTCACGTAAATAAGTTTTTGA
*
29959193 CAAGTTCGGAAGTTC
325 CAAGTTCAGAAGTTC
* * * * ** * *
29959208 GACCAAAAAACCAAGAGAGGAACAATTCTCATGTAACT-TAGTTACTAATT-AAAGTCCAAAACT
1 GTCC-AAGAACCAAGAGA-GAACAATTCTCACGTAAATAT-GTTTTTAATTCAACGACCAAAACT
* * *
29959271 TGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCCAATCATGGAATGTTCGAAA
63 TGTTTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCCAAGCATGGAATGTTCGAAA
* * * *
29959336 AATTTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAGTTATAAAAGAACTCGTGA
128 AATTGCTCGAAGGAATGGATCGTCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAATCGT-A
*
29959401 AAA-TTTGACAAGTTC-GAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
192 AAAGTTTGACAAGTTCAG-ATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
29959464 TTTTT
256 TTTTT
29959469 AATTTAAAGA
Statistics
Matches: 530, Mismatches: 62, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
339 262 0.49
340 259 0.49
341 9 0.02
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (339 bp):
GTCCAAGAACCAAGAGAGAACAATTCTCACGTAAATATGTTTTTAATTCAACGACCAAAACTTGT
TTACAAAATGACAAACTATTTAGACCAAATTATGCGATTTCCCAAGCATGGAATGTTCGAAAAAT
TGCTCGAAGGAATGGATCGTCTTGAATACTTTCAGGAACCGAAGTTATAAAAGAAATCGTAAAAG
TTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
GACAAGTTAGAAAGTTCGTCCAAGAAACAACAAAGAAACAATTCTCACGTAAATAAGTTTTTGAC
AAGTTCAGAAGTTC
Found at i:29959567 original size:216 final size:215
Alignment explanation
Indices: 29959188--29959684 Score: 703
Period size: 216 Copynumber: 2.3 Consensus size: 215
29959178 TAAATAAGTT
* * * * * * * **
29959188 TTTGACAAGTTCGGAAGTTCGACCAAAAAACCAAGAGAGGAACAATTCTCATGTAACTTAGTTAC
1 TTTGACAAGTTCGAAAGTTCGTCC-AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
*
29959253 TAATTAAAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCCA
65 TAATTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCCA
*
29959318 ATCATGGAATGTTCGAAAAATTTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCT-AA
130 AGCATGGAATGTTCGAAAAATTTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CTGAA
*
29959382 GTTATAAAAGAACTCGTGAAA-A
194 GTTATAAAAGAAATCGT-AAAGA
29959404 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * *
29959469 AATTTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTCG
66 AA-TTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCCA
* *
29959534 AGCATGGAATGTTCGAAAAATTTCTCTAAGGAATGGATCGTCTTGAATACTTTTAGGAACTGAAG
130 AGCATGGAATGTTCGAAAAATTTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAG
*
29959599 TTATAAAAGAAATCGTAAAGG
195 TTATAAAAGAAATCGTAAAGA
* * * * * * *
29959620 TTTGACAAGTTC-AGATGTTCGTCCAAGAACCGAGATAGAAACAAATATTACGTAGATAAGTTTT
1 TTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
29959684 T
65 T
29959685 GACAAGTTCG
Statistics
Matches: 252, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
215 42 0.17
216 210 0.83
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (215 bp):
TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCCAA
GCATGGAATGTTCGAAAAATTTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACTGAAGT
TATAAAAGAAATCGTAAAGA
Found at i:29962486 original size:216 final size:216
Alignment explanation
Indices: 29961552--29962487 Score: 1256
Period size: 216 Copynumber: 4.3 Consensus size: 216
29961542 CTTGCATCAC
* * * *
29961552 CTTTGAATTAAAAACTTATTTAAACGAGAATT-TTTCTCTCTTTGTTCTAGGATGAACTTTCGAA
1 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAA
* *
29961616 CTTGTCAAACTTTTACGAGTTCCTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTC
66 CTTGTCAAACTTTTACGAGTTCTTTTATAACATCAGTTCCTTAAAGTATTCAAGACGATCCATTC
* ** ** * * *
29961681 CTTCGAGCAATTTTTTAAATGTTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATGGTTTGTC
131 CATCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTC
*
29961746 ATTTTGTAAATAAGTTTAGGT
196 ATTTTGTAAACAAGTTTAGGT
* * * *
29961767 CTTTGAATTAAAATCTTATTTACGTGAGAATTGTTT-TGCTCTTGGCTCTTGGACGAA-TTTCCG
1 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCT-CTCTTGGTTCTTGGATGAACTTT-CG
* * *
29961830 AACTTGTCAAACTTTTACGAGTTCTTTTATAACATCAATTCCTAAAAGTATTCCAGACGAT-CAT
64 AACTTGTCAAACTTTTACGAGTTCTTTTATAACATCAGTTCCTTAAAGTATTCAAGACGATCCAT
* * *
29961894 TCCATCGAGCAATTTTACGAACATTCCATGCTCGAGAAATCGCATCATTTGTTCTAAATAGTTTA
129 TCCATCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTG
* *
29961959 TCATTTTGTAAATAAGTCTAGGT
194 TCATTTTGTAAACAAGTTTAGGT
* ** * * * *
29961982 CTTTGAATTAAAATCTTATTTATGTGAGAATTGTTTCACTCTTGGTTCTTGGACGAACTTCCAAA
1 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAA
* * * *
29962047 CTTCTTAAACTTTTACGAGTTCTTTTATAACTTC-GATTCCTTAAAGTATTCAAGATGATCCATT
66 CTTGTCAAACTTTTACGAGTTCTTTTATAACATCAG-TTCCTTAAAGTATTCAAGACGATCCATT
* *
29962111 CCATCGATCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
130 CCATCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGT
*
29962176 CATTTTGTAAACAAGTTTTGGT
195 CATTTTGTAAACAAGTTTAGGT
* * * * *
29962198 CTTTAAATTAAAAACCTATTTACAAGAGAATTGTTTCTCTCTTGGTTCTTGCATGAACTTTTGAA
1 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAA
* *
29962263 CTTGTCAAACTTTTACGAGTTCTTTTATAACATCAGTTCCTTAAAGTACTCAAGATGATCCATT-
66 CTTGTCAAACTTTTACGAGTTCTTTTATAACATCAGTTCCTTAAAGTATTCAAGACGATCCATTC
* * *
29962327 CATTCGAGCAATTTTTCGAACATTCCATGCTTGAGAAATTGCATCATTTGGTCTAAATAGTATGT
131 CA-TCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGT
*
29962392 CATTTTGTAAACAAGTTTTGGAT
195 CATTTTGTAAACAAGTTTAGG-T
* * * * *
29962415 -TTCGAATTAAAAACTTATTTTCATGAGAATTGTTTCTCTCATGGTTCTTGGATGAACATTCAAA
1 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAA
*
29962479 TTTGTCAAA
66 CTTGTCAAA
29962488 AACTTATTTA
Statistics
Matches: 634, Mismatches: 77, Indels: 19
0.87 0.11 0.03
Matches are distributed among these distances:
215 220 0.35
216 412 0.65
217 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (216 bp):
CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTTCGAA
CTTGTCAAACTTTTACGAGTTCTTTTATAACATCAGTTCCTTAAAGTATTCAAGACGATCCATTC
CATCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTC
ATTTTGTAAACAAGTTTAGGT
Found at i:29962522 original size:62 final size:62
Alignment explanation
Indices: 29962423--29962549 Score: 184
Period size: 62 Copynumber: 2.0 Consensus size: 62
29962413 ATTTCGAATT
* * * *
29962423 AAAAACTTATTTTCATGAGAATTGTTTCTCTCATGGTTCTTGGATGAACATT-CAAATTTGTC
1 AAAAACTTATTTACATGAGAATCGTTTCTCTCATGGTTCTTGGAAGAAC-TTCCAAACTTGTC
* *
29962485 AAAAACTTATTTAGATGAGAATCGTTTCTCTCTTGGTTCTTGGAAGAACTTCCAAACTTGTC
1 AAAAACTTATTTACATGAGAATCGTTTCTCTCATGGTTCTTGGAAGAACTTCCAAACTTGTC
29962547 AAA
1 AAA
29962550 CTTTTACTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 2 0.03
62 56 0.97
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (62 bp):
AAAAACTTATTTACATGAGAATCGTTTCTCTCATGGTTCTTGGAAGAACTTCCAAACTTGTC
Found at i:29962731 original size:278 final size:278
Alignment explanation
Indices: 29962207--29962749 Score: 775
Period size: 278 Copynumber: 2.0 Consensus size: 278
29962197 TCTTTAAATT
* * ***
29962207 AAAAACCTATTTACAAGAGAATTGTTTCTCTCTTGGTTCTTGCATGAACTTTTGAACTTGTCAAA
1 AAAAACCTATTTACAAGAGAATCGTTTCTCTCTTGGTTCTTGCAAGAACTTCCAAACTTGTCAAA
* * * *
29962272 CTTTTACGAGTTCTTTTATAACATCAGTTCCTTAAAGTACTCAAGATGATCCATTCATTCGAGCA
66 CTTTTACGAGTTCATTTATAACATCAGTTCCTTAAAGTACTCAAGACGATCCAATCATTCGAGAA
* **
29962337 ATTTTTCGAACATTCCATGCTTGAGAAATTGCATCATTTGGTCTAAATAGTATGTCATTTTGTAA
131 ATTTTTCGAACATTCAATGCTCAAGAAATTGCATCATTTGGTCTAAATAGTATGTCATTTTGTAA
* * *
29962402 ACAAGTTTTGGATTTCGAATTAAAAACTTATTTTCATGAGAATTGTTTCTCTCATGGTTCTTGGA
196 ACAAGTTTTGGATTTCGAACTAAAAACTTATTTACATGAGAATTGTTTCTCTCATGGTTCATGGA
*
29962467 TGAACATTCAAATTTGTC
261 CGAACATTCAAATTTGTC
* * * *
29962485 AAAAACTTATTTAGATGAGAATCGTTTCTCTCTTGGTTCTTGGAAGAACTTCCAAACTTGTCAAA
1 AAAAACCTATTTACAAGAGAATCGTTTCTCTCTTGGTTCTTGCAAGAACTTCCAAACTTGTCAAA
* * * * *
29962550 CTTTTACTAGTTCATTTATAACTTC-GATTCCTTAAAGTATTCTAGACGATCCAATCCTTCGAGA
66 CTTTTACGAGTTCATTTATAACATCAG-TTCCTTAAAGTACTCAAGACGATCCAATCATTCGAGA
* * *
29962614 AATTTTTCGAACATTCAATGCTCAAGAAATTGCATCATTTGTTCTAAATGGTTTGTCATTTTGTA
130 AATTTTTCGAACATTCAATGCTCAAGAAATTGCATCATTTGGTCTAAATAGTATGTCATTTTGTA
* * *
29962679 AACAAGTTTTGGCCTTTC-AACTAAAAACTTATTTACATGAGAATTTTTTCTCTCTTGGTTCATG
195 AACAAGTTTTGG-ATTTCGAACTAAAAACTTATTTACATGAGAATTGTTTCTCTCATGGTTCATG
29962743 GACGAAC
259 GACGAAC
29962750 TTTCGAACTC
Statistics
Matches: 232, Mismatches: 31, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
277 1 0.00
278 227 0.98
279 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (278 bp):
AAAAACCTATTTACAAGAGAATCGTTTCTCTCTTGGTTCTTGCAAGAACTTCCAAACTTGTCAAA
CTTTTACGAGTTCATTTATAACATCAGTTCCTTAAAGTACTCAAGACGATCCAATCATTCGAGAA
ATTTTTCGAACATTCAATGCTCAAGAAATTGCATCATTTGGTCTAAATAGTATGTCATTTTGTAA
ACAAGTTTTGGATTTCGAACTAAAAACTTATTTACATGAGAATTGTTTCTCTCATGGTTCATGGA
CGAACATTCAAATTTGTC
Found at i:29962861 original size:216 final size:216
Alignment explanation
Indices: 29962485--29963699 Score: 1580
Period size: 216 Copynumber: 5.7 Consensus size: 216
29962475 CAAATTTGTC
* * * *
29962485 AAAAACTTATTTAGATGAGAATCGTTTCTCTCTTGGTTCTTGGAAGAACTTCCAAACTTGTCAAA
1 AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * *
29962550 CTTTTACT-AGTTCATTTATAACTTCGATTCCTTAAAGTATTCTAGACGATCCAATCCTTCGAGA
66 CTTTTA-TGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* ** * * *
29962614 AATTTTTCGAACATTCAATGCTCAAGAAATTGCATCATTTGTTCTAAATGGTTTGTCATTTTGTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* *
29962679 AACAAGTTTTGGCCTTTCAACT
195 AACAAGTTTTGGCCTTTGAATT
* * * *
29962701 AAAAACTTATTTACATGAGAATTTTTTCTCTCTTGGTTCATGGACGAACTTTCGAACTCGTCAAA
1 AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* *
29962766 CTTTTATGAGTTCTTTTATAACTTCTG-TTCCTTAAAGTATTCAAGACTATCCATTCCCTCGAGC
66 CTTTTATGAGTTCTTTTATAACTTC-GATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* ** * *
29962830 AATTTTACGAACGCTCCATGCTCTGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
*
29962895 AATAA------G----T---TT
195 AACAAGTTTTGGCCTTTGAATT
* * * *
29962904 AAAATCTTATTTACGTGAGAATTGTTTCACTCTTGGTTCTTGGACGAACTTCCGTACTTGTTC-A
1 AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTG-TCAA
* * * *
29962968 ACTTTTACGAGTTCTTTTATAACATCGATTCCTTAAAGTATTCAAGACGATGCATTCCATCGAGC
65 ACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
** * *
29963033 AATTTTTTAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTCAATAGTTTGTCATTTTTTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* *
29963098 AAAAAGTTTTGGTCTTTGAATT
195 AACAAGTTTTGGCCTTTGAATT
* * * * **
29963120 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGGTCTTGGATGAACTTTTGAACTTGTCAAA
1 AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * * * *
29963185 CTGTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCTACACGATCAATTCCTTCGAGAA
66 CTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* *
29963250 ATTTTTCGAACATTCCATGCTCGGGAAATCGTATCATTTGGTCTAAATGGTTTGTCATTTTGTAA
131 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
29963315 ACAAGTTTTGGCCTTTGAATT
196 ACAAGTTTTGGCCTTTGAATT
* * * * *
29963336 AAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTCATGGACGAACTTTCGAACTTGCCAAA
1 AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * *
29963401 CTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGATCA
66 CTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * *
29963466 ATTTTACGAACGTTCCATGCTCGGGAAATCGTATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
131 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * * **
29963531 ATATGTTTAGGTTTTTGAATT
196 ACAAGTTTTGGCCTTTGAATT
* * *
29963552 AAAATCTTATTTACATGAGAGTTGTTTCACTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
1 AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * *
29963617 CTTTTATGAGTTCTTTTATAACTTTGATTCCTTAGAGTATTCAAGACGATCCATTCCATCGAGCA
66 CTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
*
29963682 ATTTTCCGAACATTCCAT
131 ATTTTTCGAACATTCCAT
29963700 ACTTGAGAAA
Statistics
Matches: 871, Mismatches: 110, Indels: 36
0.86 0.11 0.04
Matches are distributed among these distances:
202 1 0.00
203 172 0.20
204 2 0.00
206 1 0.00
209 1 0.00
210 1 0.00
213 1 0.00
215 3 0.00
216 688 0.79
217 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (216 bp):
AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
CTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
ACAAGTTTTGGCCTTTGAATT
Found at i:29963269 original size:419 final size:422
Alignment explanation
Indices: 29962485--29963699 Score: 1596
Period size: 419 Copynumber: 2.9 Consensus size: 422
29962475 CAAATTTGTC
* * *
29962485 AAAAACTTATTTA-GATGAGAATCGTTTCTCTCTTGGTTCTTGGAAGAACTTCCAAACTTGTCAA
1 AAAAACTTATTTACG-TGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAA
* * * * *
29962549 ACTTTTACTAGTTCATTTATAACTTCGATTCCTTAAAGTATTCTAGACGATCCAATCCTTCGAGA
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* ** * * *
29962614 AATTTTTCGAACATTCAATGCTCAAGAAATTGCATCATTTGTTCTAAATGGTTTGTCATTTTGTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* * * * * *
29962679 AACAAGTTTTGGCCTTTCAACTAAAAACTTATTTACATGAGAATTTTTTCTCTCTTGGTTCATGG
195 AAAAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGG
*
29962744 ACGAACTTTCGAACTCGTCAAACTTTTATGAGTTCTTTTATAACTTCTG-TTCCTTAAAGTATTC
260 ACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTC-GATTCCTTAAAGTATTC
* * ** * *
29962808 AAGACTATCCATTCCCTCGAGCAATTTTACGAACGCTCCATGCTCTGGAAATTGCATCATTTGGT
324 AAGACGATCCATTCCATCGAGCAATTTTACGAACATTCCATGCTCGGGAAATCGCATCATTTGGT
*
29962873 CTAAATAGTTTGTCATTTTGTAAATAA-G-T-TT
389 CTAAATAGTTTGTCATTTTGTAAACAATGCTATT
* * *
29962904 AAAATCTTATTTACGTGAGAATTGTTTCACTCTTGGTTCTTGGACGAACTTCCGTACTTGTTC-A
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTG-TCAA
* * *
29962968 ACTTTTACGAGTTCTTTTATAACATCGATTCCTTAAAGTATTCAAGACGATGCATTCCATCGAGC
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
** * *
29963033 AATTTTTTAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTCAATAGTTTGTCATTTTTTA
130 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* *
29963098 AAAAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGGTCTTGG
195 AAAAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGG
* * * * *
29963163 ATGAACTTTTGAACTTGTCAAACTGTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCT
260 ACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCA
* * * * * *
29963228 ACACGATCAATTCCTTCGAGAAATTTTTCGAACATTCCATGCTCGGGAAATCGTATCATTTGGTC
325 AGACGATCCATTCCATCGAGCAATTTTACGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
*
29963293 TAAATGGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATT
390 TAAATAGTTTGTCATTTTGTAAACAA----T-G-C--T--ATT
* * * *
29963336 AAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTCATGGACGAACTTTCGAACTTGCCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * *
29963401 CTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGATCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * *
29963466 ATTTTACGAACGTTCCATGCTCGGGAAATCGTATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
131 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * * * * * * *
29963531 ATATGTTTAGGTTTTTGAATTAAAATCTTATTTACATGAGAGTTGTTTCACTCTTGGTTCTTGGA
196 AAAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGA
* * *
29963596 CGAACTTCCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTTGATTCCTTAGAGTATTCAA
261 CGAACTTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
*
29963661 GACGATCCATTCCATCGAGCAATTTTCCGAACATTCCAT
326 GACGATCCATTCCATCGAGCAATTTTACGAACATTCCAT
29963700 ACTTGAGAAA
Statistics
Matches: 684, Mismatches: 95, Indels: 21
0.86 0.12 0.03
Matches are distributed among these distances:
418 1 0.00
419 357 0.52
420 3 0.00
425 1 0.00
429 1 0.00
431 1 0.00
432 320 0.47
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (422 bp):
AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
AAAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGA
CGAACTTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
GACGATCCATTCCATCGAGCAATTTTACGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCT
AAATAGTTTGTCATTTTGTAAACAATGCTATT
Found at i:29963366 original size:913 final size:916
Alignment explanation
Indices: 29961561--29963384 Score: 2615
Period size: 913 Copynumber: 2.0 Consensus size: 916
29961551 CCTTTGAATT
* * * * *
29961561 AAAAACTTATTTAAACGAGAATTTTTCTCTCTTTGTTCTAGGATGAACTTTCGAACTTGTCAAAC
1 AAAAACTTATTTAAACGAGAATGTTTCTCTCTTGGTTCTAGGAAGAACTTCCAAACTTGTCAAAC
* * * *
29961626 TTTTACGAGTTCCTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA
66 TTTTACGAGTTCATTTATAACATCGATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGAAA
* ** * ***
29961691 TTTTTTAAATGTTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATGGTTTGTCATTTTGTAAA
131 TTTTTCAAACATTCAATGCTCAAGAAATCGCATCATTTGGTCTAAATGGTTTGTCATTTTGTAAA
* * * * * * *
29961756 TAAGTTTAGGTCTTTGAATTAAAATCTTATTTACGTGAGAATTGTTTTGCTCTTGGCTCTTGGAC
196 CAAGTTTAGGCCTTTCAACTAAAAACTTATTTACATGAGAATTGTTTTGCTCTTGGCTCATGGAC
* *
29961821 GAATTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACATCAATTCCTAAAAGTATTCCAG
261 GAATTTCCGAACTCGTCAAACTTTTACGAGTTCTTTTATAACATCAATTCCTAAAAGTATTCAAG
* *
29961886 ACGATCATTCCATCGAGCAATTTTACGAACATTCCATGCTCGAGAAATCGCATCATTTGTTCTAA
326 ACGATCATTCCATCGAGCAATTTTACGAACACTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
*
29961951 ATAGTTTATCATTTTGTAAATAAGTCTAGGTCTTTGAATTAAAATCTTATTTATGTGAGAATTGT
391 ATAGTTTATCATTTTGTAAATAA---TAGG---TT--ATTAAAATCTTATTTACGTGAGAATTGT
*
29962016 TTCACTCTTGGTTCTTGGACGAACTTCCAAACTTCTTAAACTTTTACGAGTTCTTTTATAACTTC
448 TTCACTCTTGGTTCTTGGACGAACTTCCAAACTTCTTAAACTTTTACGAGTTCTTTTATAACATC
* * *
29962081 GATTCCTTAAAGTATTCAAGATGATCCATTCCATCGATCAATTTTTCGAACATTCCATGCTCGGG
513 GATTCCTTAAAGTATTCAAGACGATCCATTCCATCGAGCAATTTTTCAAACATTCCATGCTCGGG
*
29962146 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAA
578 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTAAATTAAAA
* * *
29962211 ACCTATTTACAAGAGAATTGTTTCTCTCTTGGTTCTTGCATGAACTTTTGAACTTGTCAAACTTT
643 ACCTATTTACAAGAGAATTATTTCTCTCTTGGGTCTTGCATGAACTTTTGAACTTGTCAAACTGT
* * * *
29962276 TACGAGTTCTTTTATAACATCAGTTCCTTAAAGTACTCAAGATGATCCATTCATTCGAGCAATTT
708 TACGAGTTCTTTTATAACATCAGTTCCTTAAAGTACTCAACACGATCAATTCATTCGAGAAATTT
* *
29962341 TTCGAACATTCCATGCTTGAGAAATTGCATCATTTGGTCTAAATAGTATGTCATTTTGTAAACAA
773 TTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTATGTCATTTTGTAAACAA
* * *
29962406 GTTTTGGATTTCGAATTAAAAACTTATTTTCATGAGAATTGTTTCTCTCATGGTTCTTGGATGAA
838 GTTTTGGATTTCGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCATGGTTCATGGACGAA
29962471 CATTCAAATTTGTC
903 CATTCAAATTTGTC
* * *
29962485 AAAAACTTATTTAGATGAGAATCGTTTCTCTCTTGGTTCTTGGAAGAACTTCCAAACTTGTCAAA
1 AAAAACTTATTTAAACGAGAAT-GTTTCTCTCTTGGTTCTAGGAAGAACTTCCAAACTTGTCAAA
* * *
29962550 CTTTTACTAGTTCATTTATAACTTCGATTCCTTAAAGTATTCTAGACGATCCAATCCTTCGAGAA
65 CTTTTACGAGTTCATTTATAACATCGATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGAA
* * *
29962615 ATTTTTCGAACATTCAATGCTCAAGAAATTGCATCATTTGTTCTAAATGGTTTGTCATTTTGTAA
130 ATTTTTCAAACATTCAATGCTCAAGAAATCGCATCATTTGGTCTAAATGGTTTGTCATTTTGTAA
* * *
29962680 ACAAGTTTTGGCCTTTCAACTAAAAACTTATTTACATGAGAATT-TTTTCTCTCTTGGTTCATGG
195 ACAAGTTTAGGCCTTTCAACTAAAAACTTATTTACATGAGAATTGTTTT-GCTCTTGGCTCATGG
* * ** *
29962744 ACGAACTTT-CGAACTCGTCAAACTTTTATGAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTC
259 ACGAA-TTTCCGAACTCGTCAAACTTTTACGAGTTCTTTTATAACATCAATTCCTAAAAGTATTC
* * * *
29962808 AAGACTATCCATTCCCTCGAGCAATTTTACGAACGCTCCATGCTCTG-GAAATTGCATCATTTGG
323 AAGACGAT-CATTCCATCGAGCAATTTTACGAACACTCCATGCTC-GAGAAATCGCATCATTTGG
*
29962872 TCTAAATAGTTTGTCATTTTGTAAAT-A-A-G-T-TTAAAATCTTATTTACGTGAGAATTGTTTC
386 TCTAAATAGTTTATCATTTTGTAAATAATAGGTTATTAAAATCTTATTTACGTGAGAATTGTTTC
** * *
29962932 ACTCTTGGTTCTTGGACGAACTTCCGTACTTGTTCAACTTTTACGAGTTCTTTTATAACATCGAT
451 ACTCTTGGTTCTTGGACGAACTTCCAAACTTCTTAAACTTTTACGAGTTCTTTTATAACATCGAT
* *
29962997 TCCTTAAAGTATTCAAGACGATGCATTCCATCGAGCAATTTTTTAAACATTCCATGCTCGGGAAA
516 TCCTTAAAGTATTCAAGACGATCCATTCCATCGAGCAATTTTTCAAACATTCCATGCTCGGGAAA
* * * *
29963062 TCGCATCATTTGGTCTCAATAGTTTGTCATTTTTTAAAAAAGTTTTGGTCTTTGAATTAAAAACT
581 TCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTAAATTAAAAACC
** *
29963127 TATTTACGTGAGAATTATTTCTCTCTTGGGTCTTGGATGAACTTTTGAACTTGTCAAACTGTTAC
646 TATTTACAAGAGAATTATTTCTCTCTTGGGTCTTGCATGAACTTTTGAACTTGTCAAACTGTTAC
* * * *
29963192 GAGTTCTTTTATAACTTC-GATTCCTTAAAGTATTCTACACGATCAATTCCTTCGAGAAATTTTT
711 GAGTTCTTTTATAACATCAG-TTCCTTAAAGTACTCAACACGATCAATTCATTCGAGAAATTTTT
* * * *
29963256 CGAACATTCCATGCTCGGGAAATCGTATCATTTGGTCTAAATGGTTTGTCATTTTGTAAACAAGT
775 CGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTATGTCATTTTGTAAACAAGT
* * * *
29963321 TTTGGCCTTT-GAATTAAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTCATGGACGAAC
840 TTTGG-ATTTCGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCATGGTTCATGGACGAAC
29963385 TTTCGAACTT
Statistics
Matches: 801, Mismatches: 92, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
912 1 0.00
913 434 0.54
914 3 0.00
916 1 0.00
920 1 0.00
921 1 0.00
924 24 0.03
925 259 0.32
926 76 0.09
927 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (916 bp):
AAAAACTTATTTAAACGAGAATGTTTCTCTCTTGGTTCTAGGAAGAACTTCCAAACTTGTCAAAC
TTTTACGAGTTCATTTATAACATCGATTCCTTAAAGTATTCAAGACGATCCAATCCTTCGAGAAA
TTTTTCAAACATTCAATGCTCAAGAAATCGCATCATTTGGTCTAAATGGTTTGTCATTTTGTAAA
CAAGTTTAGGCCTTTCAACTAAAAACTTATTTACATGAGAATTGTTTTGCTCTTGGCTCATGGAC
GAATTTCCGAACTCGTCAAACTTTTACGAGTTCTTTTATAACATCAATTCCTAAAAGTATTCAAG
ACGATCATTCCATCGAGCAATTTTACGAACACTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
ATAGTTTATCATTTTGTAAATAATAGGTTATTAAAATCTTATTTACGTGAGAATTGTTTCACTCT
TGGTTCTTGGACGAACTTCCAAACTTCTTAAACTTTTACGAGTTCTTTTATAACATCGATTCCTT
AAAGTATTCAAGACGATCCATTCCATCGAGCAATTTTTCAAACATTCCATGCTCGGGAAATCGCA
TCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAGTTTTGGTCTTTAAATTAAAAACCTATTT
ACAAGAGAATTATTTCTCTCTTGGGTCTTGCATGAACTTTTGAACTTGTCAAACTGTTACGAGTT
CTTTTATAACATCAGTTCCTTAAAGTACTCAACACGATCAATTCATTCGAGAAATTTTTCGAACA
TTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTATGTCATTTTGTAAACAAGTTTTGGA
TTTCGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCATGGTTCATGGACGAACATTCAAA
TTTGTC
Found at i:29978407 original size:18 final size:19
Alignment explanation
Indices: 29978376--29978448 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
29978366 AAAATATATA
29978376 TATTTTGTAATTTTTTAAA-
1 TATTTTG-AATTTTTTAAAG
29978395 TATTTTGAA--TTTTAAAG
1 TATTTTGAATTTTTTAAAG
**
29978412 TTATTTTGAATTTTCAAAAG
1 -TATTTTGAATTTTTTAAAG
29978432 TTATTTTGAATTATTTT
1 -TATTTTGAATT-TTTT
29978449 GTATTTTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 7 0.16
18 11 0.24
19 7 0.16
20 18 0.40
21 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.08, T:0.59
Consensus pattern (19 bp):
TATTTTGAATTTTTTAAAG
Found at i:29978433 original size:20 final size:18
Alignment explanation
Indices: 29978395--29978443 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 18
29978385 ATTTTTTAAA
29978395 TATTTTGAATTTTAAAGT
1 TATTTTGAATTTTAAAGT
29978413 TATTTTGAATTTTCAAAAGT
1 TATTTTGAATTTT--AAAGT
29978433 TATTTTGAATT
1 TATTTTGAATT
29978444 ATTTTGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.45
20 16 0.55
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (18 bp):
TATTTTGAATTTTAAAGT
Found at i:29983237 original size:23 final size:24
Alignment explanation
Indices: 29983211--29983256 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
29983201 TAATTAGCTA
* *
29983211 AGCTTTT-AATTTAGATTATTTTG
1 AGCTTTTCAAATTAAATTATTTTG
29983234 AGCTTTTCAAATTAAATTATTTT
1 AGCTTTTCAAATTAAATTATTTT
29983257 TGTTTAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (24 bp):
AGCTTTTCAAATTAAATTATTTTG
Found at i:29983257 original size:25 final size:26
Alignment explanation
Indices: 29983211--29983286 Score: 68
Period size: 30 Copynumber: 2.8 Consensus size: 26
29983201 TAATTAGCTA
* *
29983211 AGCTTTT-AATTTAGATTA-TTTTG-
1 AGCTTTTCAAATTAAATTATTTTTGT
29983234 AGCTTTTCAAATTAAATTATTTTTGTTT
1 AGCTTTTCAAATTAAATTATTTTTG--T
29983262 AAGCTATTTCAAATTATAATTATTT
1 -AGCT-TTTCAAATTA-AATTATTT
29983287 CATATTTAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.16
24 9 0.21
25 5 0.12
29 4 0.09
30 10 0.23
31 8 0.19
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.54
Consensus pattern (26 bp):
AGCTTTTCAAATTAAATTATTTTTGT
Found at i:29989884 original size:77 final size:77
Alignment explanation
Indices: 29989756--29989965 Score: 348
Period size: 77 Copynumber: 2.7 Consensus size: 77
29989746 AATGTATCTG
* * *
29989756 AACAATGCCTTAGGTCATCCCTAAACATCTCAATATACACAAACGTTAATTTAATCACATAATCC
1 AACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAATCACATAATCC
*
29989821 CAAAATTTTCCA
66 CAAAATTATCCA
* *
29989833 AACAATGCTTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAATCACATAATTC
1 AACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAATCACATAATCC
*
29989898 CAAAATTATCTA
66 CAAAATTATCCA
*
29989910 AACAATGCCTTAGGTCATCCCTAAACATCTTAATATGCACAAATGTCAATTTAATC
1 AACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAATC
29989966 CCAAATGATA
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 124 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.30
Consensus pattern (77 bp):
AACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAATCACATAATCC
CAAAATTATCCA
Found at i:29994786 original size:7 final size:7
Alignment explanation
Indices: 29994774--29994801 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
29994764 ACACTTTCAA
29994774 ATCATCC
1 ATCATCC
29994781 ATCATCC
1 ATCATCC
29994788 ATCATCC
1 ATCATCC
29994795 ATCATCC
1 ATCATCC
29994802 CTCAACATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCATCC
Found at i:29994846 original size:10 final size:8
Alignment explanation
Indices: 29994814--29994855 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
29994804 CAACATTCAA
29994814 TCATTCT-
1 TCATTCTC
29994821 TCATTCTC
1 TCATTCTC
29994829 TCATTCTC
1 TCATTCTC
29994837 TCATTCTC
1 TCATTCTC
*
29994845 TCATCCTC
1 TCATTCTC
29994853 TCA
1 TCA
29994856 ATCCTTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 7 0.21
8 26 0.79
ACGTcount: A:0.14, C:0.38, G:0.00, T:0.48
Consensus pattern (8 bp):
TCATTCTC
Found at i:30005023 original size:29 final size:27
Alignment explanation
Indices: 30004971--30005025 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
30004961 TTACTCACAC
30004971 TTCTTTTATTTCTACTTATTTTTCTTT
1 TTCTTTTATTTCTACTTATTTTTCTTT
* *
30004998 TTCTTTTGATTTTTTCTCTATTTTTCTT
1 TTCTTTT-ATTTCTACT-TATTTTTCTT
30005026 ATCCTCGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
28 7 0.29
29 10 0.42
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.75
Consensus pattern (27 bp):
TTCTTTTATTTCTACTTATTTTTCTTT
Found at i:30007204 original size:193 final size:193
Alignment explanation
Indices: 30006872--30007258 Score: 650
Period size: 193 Copynumber: 2.0 Consensus size: 193
30006862 AAGCCATCTC
* * * *
30006872 TAAACGTCTAGAGCCTTAAGATAAATCCGTAATGAGACGACTTATGATTCTGTTCCATGCGTGTT
1 TAAACGTCTAAAGCCCTAAGACAAATCCGTAACGAGACGACTTATGATTCTGTTCCATGCGTGTT
* *
30006937 TTTATCAAGTGGTATCAAATTTCAGACGTTTGTGTGTTTGGTCTTGAAAAAGAAAGAACCAAAGA
66 TTTATCAAGTGGTATCAAATTTCAGACGTTTGTGTGTTCGATCTTGAAAAAGAAAGAACCAAAGA
*
30007002 TTCGAACCAGAAAAGAAAAGAAAAGAAAAAAATATCCTCACACAAAAAT-GAATCAGTTGAGTT
131 TTCGAACCAGAAAAGAAAAGAAAAGAAAAAAATATCCTCACAC-AAAATCGAATCAGTTAAGTT
* *
30007065 TAAACGTCTAAAGCCCTAAGACAAATCCGTAACGAGACGACTTATGATTTTGTTCCGTGCGTGTT
1 TAAACGTCTAAAGCCCTAAGACAAATCCGTAACGAGACGACTTATGATTCTGTTCCATGCGTGTT
*
30007130 TTTATCAAGTGGTATCAAATTTCAGACGTTTGTGTGTTCGATCTTGAAAAAGAAAGAACCAAAGG
66 TTTATCAAGTGGTATCAAATTTCAGACGTTTGTGTGTTCGATCTTGAAAAAGAAAGAACCAAAGA
* *
30007195 TTTGAACCAGAAAAGAAAAGAAAAGAAAAAAATATCCTCACACAAAATCGAATCTGTTAAGTT
131 TTCGAACCAGAAAAGAAAAGAAAAGAAAAAAATATCCTCACACAAAATCGAATCAGTTAAGTT
30007258 T
1 T
30007259 TAATTTAGTT
Statistics
Matches: 181, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
192 5 0.03
193 176 0.97
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (193 bp):
TAAACGTCTAAAGCCCTAAGACAAATCCGTAACGAGACGACTTATGATTCTGTTCCATGCGTGTT
TTTATCAAGTGGTATCAAATTTCAGACGTTTGTGTGTTCGATCTTGAAAAAGAAAGAACCAAAGA
TTCGAACCAGAAAAGAAAAGAAAAGAAAAAAATATCCTCACACAAAATCGAATCAGTTAAGTT
Found at i:30019944 original size:20 final size:21
Alignment explanation
Indices: 30019899--30019937 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30019889 ACCCACAGAT
*
30019899 TTTTTTTTTATTTTTCTCGTA
1 TTTTTCTTTATTTTTCTCGTA
30019920 TTTTTCTTT-TTTTTCTCG
1 TTTTTCTTTATTTTTCTCG
30019938 ACTTTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTCTTTATTTTTCTCGTA
Found at i:30027070 original size:123 final size:121
Alignment explanation
Indices: 30026928--30027229 Score: 414
Period size: 124 Copynumber: 2.5 Consensus size: 121
30026918 ACTATCTTTT
* * *
30026928 CTTTTATTTTAATATCTCATAATAAAATGGAAATATATATCTTTAGAGAAATATATGAAAGGTTT
1 CTTTTA-TATAATATCTCATATTAAAATGGAAATAT-TATCTTTAAAGAAATATATGAAAGGTTT
30026993 ATCAAAAACATTATATCCTTTTCCAAAAAGGATATTAACTTTCATG-T-ATATTCAATTTC
64 AT-AAAAACATTATATCC-TTTCC-AAAAGGATATTAACTTTCATGTTAATATTCAATTTC
* *
30027052 CTTTTATATAATATCTCATATTAAAATGGAAATATT-CCTTTACAGAAATATATGAAAGGTTTAT
1 CTTTTATATAATATCTCATATTAAAATGGAAATATTATCTTTAAAGAAATATATGAAAGGTTTAT
*
30027116 TAAAACATTATATCCTTTCCAAAAGGATATTAACTTTCATGTTTTTAATATTCAATTTC
66 AAAAACATTATATCCTTTCCAAAAGGATATTAACTTTCATG---TTAATATTCAATTTC
* * *
30027175 CTTTTTGTATAAGATCTAATATTAAAATGGAAATATTAT-TTTAAAGAAATATATG
1 C-TTTTATATAATATCTCATATTAAAATGGAAATATTATCTTTAAAGAAATATATG
30027230 GAACAATATA
Statistics
Matches: 161, Mismatches: 10, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
118 21 0.13
119 5 0.03
120 14 0.09
121 26 0.16
122 2 0.01
123 40 0.25
124 53 0.33
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (121 bp):
CTTTTATATAATATCTCATATTAAAATGGAAATATTATCTTTAAAGAAATATATGAAAGGTTTAT
AAAAACATTATATCCTTTCCAAAAGGATATTAACTTTCATGTTAATATTCAATTTC
Found at i:30027366 original size:30 final size:30
Alignment explanation
Indices: 30027332--30027426 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
30027322 TATTCAGTAA
30027332 ATATTAAACTTTTGTATGAATCAAATTCAT
1 ATATTAAACTTTTGTATGAATCAAATTCAT
* * * * *
30027362 ATATTAATAGTTAAAT-TAT--AT-TAAGT-AA
1 ATATTAA-ACTT--TTGTATGAATCAAATTCAT
30027390 ATATTAAACTTTTGTATGAATCAAATTCAT
1 ATATTAAACTTTTGTATGAATCAAATTCAT
30027420 ATATTAA
1 ATATTAA
30027427 TATTAACTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 3 0.06
28 10 0.21
29 6 0.13
30 17 0.36
31 3 0.06
32 3 0.06
33 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
ATATTAAACTTTTGTATGAATCAAATTCAT
Found at i:30027377 original size:58 final size:58
Alignment explanation
Indices: 30027313--30027432 Score: 224
Period size: 58 Copynumber: 2.1 Consensus size: 58
30027303 TTATAATTAC
*
30027313 GTTAAATTATATTCAGTAAATATTAAACTTTTGTATGAATCAAATTCATATATTAATA
1 GTTAAATTATATTAAGTAAATATTAAACTTTTGTATGAATCAAATTCATATATTAATA
30027371 GTTAAATTATATTAAGTAAATATTAAACTTTTGTATGAATCAAATTCATATATTAATA
1 GTTAAATTATATTAAGTAAATATTAAACTTTTGTATGAATCAAATTCATATATTAATA
30027429 -TTAA
1 GTTAA
30027433 CTATGTCCTC
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (58 bp):
GTTAAATTATATTAAGTAAATATTAAACTTTTGTATGAATCAAATTCATATATTAATA
Found at i:30027421 original size:28 final size:28
Alignment explanation
Indices: 30027332--30027421 Score: 65
Period size: 29 Copynumber: 3.1 Consensus size: 28
30027322 TATTCAGTAA
30027332 ATATTAAACTTTTGTATGAATCAAATTC
1 ATATTAAACTTTTGTATGAATCAAATTC
* * ** * * * **
30027360 ATATATTAA-TAGTTAAATTATATTAAGTAA
1 ATAT-TAAACT-TTTGTATGA-ATCAAATTC
30027390 ATATTAAACTTTTGTATGAATCAAATTC
1 ATATTAAACTTTTGTATGAATCAAATTC
30027418 ATAT
1 ATAT
30027422 ATTAATATTA
Statistics
Matches: 40, Mismatches: 18, Indels: 8
0.61 0.27 0.12
Matches are distributed among these distances:
28 14 0.35
29 16 0.40
30 10 0.25
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (28 bp):
ATATTAAACTTTTGTATGAATCAAATTC
Found at i:30030240 original size:2 final size:2
Alignment explanation
Indices: 30030233--30030261 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30030223 TATTAATGAA
30030233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30030262 AATTAAAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30042561 original size:120 final size:120
Alignment explanation
Indices: 30042237--30042594 Score: 511
Period size: 119 Copynumber: 3.0 Consensus size: 120
30042227 CTTCCACAAA
* *
30042237 CTATAATCCAGAATTTCATCCTCATGTTTGTATCAACTCTGTTACCAATATACGATGCTGCTCAC
1 CTATAATCCAGAATTTCATTCTCATGTTTGTATCAACTCTGTTACCAGTATACGATGCTGCTCAC
** * * * *
30042302 ATAAGCTGTCGAGGACTCATAACATATGCGGTACCCTAGCCATTGATATAATATG
66 ATAAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACAGTATG
* *
30042357 CTATAATCTAGAATTTCATTCT-ATGTTTGTATCAACTCTATTACCAGTATACGATGCTGCTCAC
1 CTATAATCCAGAATTTCATTCTCATGTTTGTATCAACTCTGTTACCAGTATACGATGCTGCTCAC
* *
30042421 ACAAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAACCATCGATACAGTATG
66 ATAAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACAGTATG
* * * * *
30042476 CTATAATCCAGAATTCCATTCTCATGTCTATATCAACTCTGTTACCAGTATACAATGTTGCTCAC
1 CTATAATCCAGAATTTCATTCTCATGTTTGTATCAACTCTGTTACCAGTATACGATGCTGCTCAC
* * * * *
30042541 ATGAGCTGTAGAGGAATCGCAACATATGCGATACCCCAGCCATCGATACGGTAT
66 ATAAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACAGTAT
30042595 CTGTGCATAT
Statistics
Matches: 211, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 107 0.51
120 104 0.49
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (120 bp):
CTATAATCCAGAATTTCATTCTCATGTTTGTATCAACTCTGTTACCAGTATACGATGCTGCTCAC
ATAAGCTGTCGAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACAGTATG
Found at i:30045625 original size:56 final size:56
Alignment explanation
Indices: 30045542--30045691 Score: 153
Period size: 56 Copynumber: 2.7 Consensus size: 56
30045532 TGCCAAACCT
* *
30045542 AGAATAATGTTCTTTA-GAGCCAAAATATAGA-ATATCGCCCTTT-CAAGCCAAAATGC
1 AGAATAATGCTC-TTACGAGCCAAAATATAGAGATAT-G-CCTTTACAAGCCAAAATAC
* * * *
30045598 AGAATAATGCTCTTACGAGCTAGAATATAGAGTTATGCTTTTACAAGCCAAAATAC
1 AGAATAATGCTCTTACGAGCCAAAATATAGAGATATGCCTTTACAAGCCAAAATAC
* * * * *
30045654 AGAGTTATACTCTTACGAGCCAAAATACAGAGTTATGC
1 AGAATAATGCTCTTACGAGCCAAAATATAGAGATATGC
30045692 TCTTACGAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
55 7 0.09
56 69 0.87
57 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (56 bp):
AGAATAATGCTCTTACGAGCCAAAATATAGAGATATGCCTTTACAAGCCAAAATAC
Found at i:30045652 original size:28 final size:28
Alignment explanation
Indices: 30045559--30045697 Score: 136
Period size: 28 Copynumber: 5.0 Consensus size: 28
30045549 TGTTCTTTAG
* * * *
30045559 AGCCAAAATATAGA-ATATCGCCCTTTCA
1 AGCCAAAATACAGAGTTAT-GCTCTTACA
* * * *
30045587 AGCCAAAATGCAGAATAATGCTCTTACG
1 AGCCAAAATACAGAGTTATGCTCTTACA
* * * *
30045615 AGCTAGAATATAGAGTTATGCTTTTACA
1 AGCCAAAATACAGAGTTATGCTCTTACA
* *
30045643 AGCCAAAATACAGAGTTATACTCTTACG
1 AGCCAAAATACAGAGTTATGCTCTTACA
30045671 AGCCAAAATACAGAGTTATGCTCTTAC
1 AGCCAAAATACAGAGTTATGCTCTTAC
30045698 GAGATAGAAT
Statistics
Matches: 88, Mismatches: 22, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
28 86 0.98
29 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (28 bp):
AGCCAAAATACAGAGTTATGCTCTTACA
Found at i:30045692 original size:56 final size:56
Alignment explanation
Indices: 30045558--30045697 Score: 156
Period size: 56 Copynumber: 2.5 Consensus size: 56
30045548 ATGTTCTTTA
* * * * * *
30045558 GAGCCAAAATATAGA-ATATCGCCCTTTCAAGCCAAAATGCAGAATAATGCTCTTAC
1 GAGCCAAAATACAGAGTTAT-GCTCTTACAAGCCAAAATACAGAATAATACTCTTAC
* * * * * *
30045614 GAGCTAGAATATAGAGTTATGCTTTTACAAGCCAAAATACAGAGTTATACTCTTAC
1 GAGCCAAAATACAGAGTTATGCTCTTACAAGCCAAAATACAGAATAATACTCTTAC
30045670 GAGCCAAAATACAGAGTTATGCTCTTAC
1 GAGCCAAAATACAGAGTTATGCTCTTAC
30045698 GAGATAGAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
56 66 0.96
57 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (56 bp):
GAGCCAAAATACAGAGTTATGCTCTTACAAGCCAAAATACAGAATAATACTCTTAC
Found at i:30045709 original size:56 final size:56
Alignment explanation
Indices: 30045558--30045713 Score: 143
Period size: 56 Copynumber: 2.8 Consensus size: 56
30045548 ATGTTCTTTA
* * * * * * * * *
30045558 GAGCCAAAATATAGA-ATATCGCCCTTTCAAGCCAAAATGCAGAATAATGCTCTTAC
1 GAGCCAAAATACAGAGTTAT-GCTCTTACAAGACAAAATACAGAGTTATACTCTTAC
* * * * *
30045614 GAGCTAGAATATAGAGTTATGCTTTTACAAGCCAAAATACAGAGTTATACTCTTAC
1 GAGCCAAAATACAGAGTTATGCTCTTACAAGACAAAATACAGAGTTATACTCTTAC
* * *
30045670 GAGCCAAAATACAGAGTTATGCTCTTACGAGATAGAATACAGAG
1 GAGCCAAAATACAGAGTTATGCTCTTACAAGACAAAATACAGAG
30045714 AAATTCTCAA
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
56 78 0.96
57 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (56 bp):
GAGCCAAAATACAGAGTTATGCTCTTACAAGACAAAATACAGAGTTATACTCTTAC
Found at i:30045713 original size:28 final size:28
Alignment explanation
Indices: 30045587--30045700 Score: 147
Period size: 28 Copynumber: 4.1 Consensus size: 28
30045577 CGCCCTTTCA
* * *
30045587 AGCCAAAATGCAGAATAATGCTCTTACG
1 AGCCAAAATACAGAGTTATGCTCTTACG
* * * * *
30045615 AGCTAGAATATAGAGTTATGCTTTTACA
1 AGCCAAAATACAGAGTTATGCTCTTACG
*
30045643 AGCCAAAATACAGAGTTATACTCTTACG
1 AGCCAAAATACAGAGTTATGCTCTTACG
30045671 AGCCAAAATACAGAGTTATGCTCTTACG
1 AGCCAAAATACAGAGTTATGCTCTTACG
30045699 AG
1 AG
30045701 ATAGAATACA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (28 bp):
AGCCAAAATACAGAGTTATGCTCTTACG
Found at i:30049165 original size:23 final size:22
Alignment explanation
Indices: 30049111--30049165 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
30049101 ACATCAATAT
* *
30049111 AAACAACATAAATACATCATTC
1 AAACACCATAAATACAGCATTC
* *
30049133 AAACATCATAAATCACAGCCTTC
1 AAACACCATAAAT-ACAGCATTC
*
30049156 AGACACCATA
1 AAACACCATA
30049166 TCTTGCAGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (22 bp):
AAACACCATAAATACAGCATTC
Found at i:30049512 original size:23 final size:22
Alignment explanation
Indices: 30049458--30049512 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
30049448 ACATCAATAT
* *
30049458 AAACAACATAAATACATCATTC
1 AAACACCATAAATACAGCATTC
* *
30049480 AAACATCATAAATCACAGCCTTC
1 AAACACCATAAAT-ACAGCATTC
*
30049503 AGACACCATA
1 AAACACCATA
30049513 TCTTGCAGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (22 bp):
AAACACCATAAATACAGCATTC
Found at i:30049635 original size:347 final size:347
Alignment explanation
Indices: 30049000--30050027 Score: 2011
Period size: 347 Copynumber: 3.0 Consensus size: 347
30048990 TTGCTTAAAC
*
30049000 AGAGTTTGTTCACACAAATAGGACAACCTTATGACTCATTAAGATATCCAAAATGGACAGCTTGA
1 AGAGTTTGTTCACACAAATAGGACAACCTTACGACTCATTAAGATATCCAAAATGGACAGCTTGA
30049065 ACAACCTTAATTCAGACAGTATTTTGACTTACTTAAACATCAATATAAACAACATAAATACATCA
66 ACAACCTTAATTCAGACAGTATTTTGACTTACTTAAACATCAATATAAACAACATAAATACATCA
30049130 TTCAAACATCATAAATCACAGCCTTCAGACACCATATCTTGCAGCGTTTAACACATAAATTTTCA
131 TTCAAACATCATAAATCACAGCCTTCAGACACCATATCTTGCAGCGTTTAACACATAAATTTTCA
* *
30049195 GCTTACTATCATCATAAATTCGTATCCATTTGGACATCATTAATTAACATTTAAAAATTTAGTCT
196 GCTTACTATCATCATAAATTCGCATCCATTTGGACATCATTAATTAACATTTAACAATTTAGTCT
30049260 CACACTATTCAGACCATTTAATTTTCCTGATCACTTGGGTTATTTTTATTTAATATTTAGACGAT
261 CACACTATTCAGACCATTTAATTTTCCTGATCACTTGGGTTATTTTTATTTAATATTTAGACGAT
30049325 AGTAAACAATCTCCATTCAAAT
326 AGTAAACAATCTCCATTCAAAT
30049347 AGAGTTTGTTCACACAAATAGGACAACCTTACGACTCATTAAGATATCCAAAATGGACAGCTTGA
1 AGAGTTTGTTCACACAAATAGGACAACCTTACGACTCATTAAGATATCCAAAATGGACAGCTTGA
30049412 ACAACCTTAATTCAGACAGTATTTTGACTTACTTAAACATCAATATAAACAACATAAATACATCA
66 ACAACCTTAATTCAGACAGTATTTTGACTTACTTAAACATCAATATAAACAACATAAATACATCA
30049477 TTCAAACATCATAAATCACAGCCTTCAGACACCATATCTTGCAGCGTTTAACACATAAATTTTCA
131 TTCAAACATCATAAATCACAGCCTTCAGACACCATATCTTGCAGCGTTTAACACATAAATTTTCA
30049542 GCTTACTATCATCATAAATTCGCATCCATTTGGACATCATTAATTAACATTTAACAATTTAGTCT
196 GCTTACTATCATCATAAATTCGCATCCATTTGGACATCATTAATTAACATTTAACAATTTAGTCT
30049607 CACACTATTCAGACCATTTAATTTTCCTGATCACTTGGGTTATTTTTATTTAATATTTAGACGAT
261 CACACTATTCAGACCATTTAATTTTCCTGATCACTTGGGTTATTTTTATTTAATATTTAGACGAT
30049672 AGTAAACAATCTCCATTCAAAT
326 AGTAAACAATCTCCATTCAAAT
30049694 AGAGTTTGTTCACACAAATAGGACAACCTTACGACTCATTAAGATATCCAAAATGGACAGCTTGA
1 AGAGTTTGTTCACACAAATAGGACAACCTTACGACTCATTAAGATATCCAAAATGGACAGCTTGA
30049759 ACAACCTTAATTCAGACAGTATTTTGACTTACTTAAACATCAATATAAACAACATAAATACATCA
66 ACAACCTTAATTCAGACAGTATTTTGACTTACTTAAACATCAATATAAACAACATAAATACATCA
30049824 TTCAAACATCATAAATCACAGCCTTCAGACACCATATCTTGCAGCGTTTAACACATAAATTTTCA
131 TTCAAACATCATAAATCACAGCCTTCAGACACCATATCTTGCAGCGTTTAACACATAAATTTTCA
30049889 GCTTACTATCATCATAAATTCGCATCCATTTGGACATCATTAATTAACATTTAACAATTTAGTCT
196 GCTTACTATCATCATAAATTCGCATCCATTTGGACATCATTAATTAACATTTAACAATTTAGTCT
**
30049954 CACACTATTCAGACCATTTAATTTTCCTGATCACTTGGGCAATTTTTATTTAATATTTAGACGAT
261 CACACTATTCAGACCATTTAATTTTCCTGATCACTTGGGTTATTTTTATTTAATATTTAGACGAT
30050019 AGTAAACAA
326 AGTAAACAA
30050028 CCATCGATCG
Statistics
Matches: 676, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
347 676 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (347 bp):
AGAGTTTGTTCACACAAATAGGACAACCTTACGACTCATTAAGATATCCAAAATGGACAGCTTGA
ACAACCTTAATTCAGACAGTATTTTGACTTACTTAAACATCAATATAAACAACATAAATACATCA
TTCAAACATCATAAATCACAGCCTTCAGACACCATATCTTGCAGCGTTTAACACATAAATTTTCA
GCTTACTATCATCATAAATTCGCATCCATTTGGACATCATTAATTAACATTTAACAATTTAGTCT
CACACTATTCAGACCATTTAATTTTCCTGATCACTTGGGTTATTTTTATTTAATATTTAGACGAT
AGTAAACAATCTCCATTCAAAT
Found at i:30049859 original size:23 final size:22
Alignment explanation
Indices: 30049805--30049859 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
30049795 ACATCAATAT
* *
30049805 AAACAACATAAATACATCATTC
1 AAACACCATAAATACAGCATTC
* *
30049827 AAACATCATAAATCACAGCCTTC
1 AAACACCATAAAT-ACAGCATTC
*
30049850 AGACACCATA
1 AAACACCATA
30049860 TCTTGCAGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (22 bp):
AAACACCATAAATACAGCATTC
Found at i:30051227 original size:2 final size:2
Alignment explanation
Indices: 30051222--30051249 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30051212 CAACACACTC
30051222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30051250 TAAACATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30052084 original size:2 final size:2
Alignment explanation
Indices: 30052077--30052110 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
30052067 GTATCATTCA
30052077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30052111 CAAGCCAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30062281 original size:28 final size:28
Alignment explanation
Indices: 30062250--30062316 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
30062240 CACACGAGCT
30062250 AGAATACAGAGTTATGCTCTTA-GAAGCC
1 AGAATACAGAGTTATGCTCTTACGAA-CC
*
30062278 AGAATACAGAGTTATGCTCTTACGAACT
1 AGAATACAGAGTTATGCTCTTACGAACC
*
30062306 AGAATATAGAG
1 AGAATACAGAG
30062317 AAATTCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (28 bp):
AGAATACAGAGTTATGCTCTTACGAACC
Found at i:30063765 original size:19 final size:20
Alignment explanation
Indices: 30063723--30063759 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
30063713 TAAACATAAA
*
30063723 AAATATTAATTTTTGATAGC
1 AAATATTAATTTTTAATAGC
30063743 AAATATT-ATTTTTAATA
1 AAATATTAATTTTTAATA
30063760 TTAAATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
AAATATTAATTTTTAATAGC
Found at i:30069619 original size:22 final size:23
Alignment explanation
Indices: 30069578--30069626 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
30069568 GTATTTGTTA
30069578 TGTAATCTTTAGAAGATATGATT
1 TGTAATCTTTAGAAGATATGATT
30069601 CTGTAATC-TTAG-AGATATGATT
1 -TGTAATCTTTAGAAGATATGATT
30069623 TGTA
1 TGTA
30069627 GATAGCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
23 4 0.16
24 7 0.28
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (23 bp):
TGTAATCTTTAGAAGATATGATT
Found at i:30074345 original size:22 final size:23
Alignment explanation
Indices: 30074296--30074349 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
30074286 GATATGTGTT
*
30074296 TGATATGTAATCTTTAGAAGATA
1 TGATTTGTAATCTTTAGAAGATA
30074319 TGATTCTGTAATC-TTA-AAGAT-
1 TGATT-TGTAATCTTTAGAAGATA
30074340 TAGATTTGTA
1 T-GATTTGTA
30074350 GATAGCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 5 0.18
22 9 0.32
23 7 0.25
24 7 0.25
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.43
Consensus pattern (23 bp):
TGATTTGTAATCTTTAGAAGATA
Found at i:30085862 original size:13 final size:13
Alignment explanation
Indices: 30085844--30085871 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30085834 TATTATGATG
30085844 GTAATTTCAAAAT
1 GTAATTTCAAAAT
30085857 GTAATTTCAAAAT
1 GTAATTTCAAAAT
30085870 GT
1 GT
30085872 GACAAAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (13 bp):
GTAATTTCAAAAT
Found at i:30086236 original size:18 final size:19
Alignment explanation
Indices: 30086215--30086264 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
30086205 TCATGTTAGC
*
30086215 AAAATATTTTAAAGTT-AA
1 AAAATAATTTAAAGTTAAA
* *
30086233 AAAATAATTAAAATTTAAA
1 AAAATAATTTAAAGTTAAA
30086252 AAAATAATTTAAA
1 AAAATAATTTAAA
30086265 ACACCCTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATAATTTAAAGTTAAA
Found at i:30086243 original size:17 final size:19
Alignment explanation
Indices: 30086215--30086265 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
30086205 TCATGTTAGC
* *
30086215 AAAATATTTTAAAGTT-AA
1 AAAATAATTAAAAGTTAAA
*
30086233 AAAATAATTAAAATTTAAA
1 AAAATAATTAAAAGTTAAA
30086252 AAAATAATTTAAAA
1 AAAATAA-TTAAAA
30086266 CACCCTAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.46
19 9 0.32
20 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATAATTAAAAGTTAAA
Found at i:30086319 original size:15 final size:15
Alignment explanation
Indices: 30086299--30086330 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30086289 ACACGGGCAA
30086299 AAGTAAAAAATTAGC
1 AAGTAAAAAATTAGC
30086314 AAGTAAAAAATTAGC
1 AAGTAAAAAATTAGC
30086329 AA
1 AA
30086331 CTCCTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (15 bp):
AAGTAAAAAATTAGC
Found at i:30087487 original size:16 final size:18
Alignment explanation
Indices: 30087455--30087487 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30087445 AAACATTAAA
30087455 AATATATTTTAATATTTT
1 AATATATTTTAATATTTT
30087473 AATA-ATTTT-ATATTT
1 AATATATTTTAATATTT
30087488 CAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATATATTTTAATATTTT
Found at i:30089879 original size:24 final size:24
Alignment explanation
Indices: 30089840--30089902 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
30089830 TAGAATAATA
* *
30089840 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
30089864 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
30089888 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
30089903 AATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:30091831 original size:24 final size:24
Alignment explanation
Indices: 30091815--30091889 Score: 132
Period size: 24 Copynumber: 3.1 Consensus size: 24
30091805 AGTTTGACTC
30091815 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
30091839 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* *
30091863 AAACAATTAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
30091887 AAA
1 AAA
30091890 AATTATTTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:30092214 original size:30 final size:31
Alignment explanation
Indices: 30092146--30092217 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
30092136 ACAACAAGAG
* * *
30092146 GACTATTTTGTCACTTTTCGATAACTTTAGT
1 GACTGTTTTGTCACATTTCGATAACTTGAGT
* * *
30092177 AACTGTTTTGTCACATTTCTA-AAGTTGAGT
1 GACTGTTTTGTCACATTTCGATAACTTGAGT
30092207 GACTGTTTTGT
1 GACTGTTTTGT
30092218 TAAACGTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (31 bp):
GACTGTTTTGTCACATTTCGATAACTTGAGT
Found at i:30092698 original size:5 final size:5
Alignment explanation
Indices: 30092688--30092712 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30092678 CAATTTAATC
30092688 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
30092713 ATATCGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:30098145 original size:33 final size:32
Alignment explanation
Indices: 30098098--30098162 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
30098088 AGTGTATATA
* *
30098098 GATGTAAGACCATAGCTGGGCTATGGCATTCT
1 GATGTAAGACCATAGCTGCGCTATGACATTCT
*
30098130 GATGATAAGATCATAGCTGCGCTATGACATTCT
1 GATG-TAAGACCATAGCTGCGCTATGACATTCT
30098163 AGCGTAAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (32 bp):
GATGTAAGACCATAGCTGCGCTATGACATTCT
Found at i:30098223 original size:69 final size:69
Alignment explanation
Indices: 30098130--30098311 Score: 242
Period size: 69 Copynumber: 2.6 Consensus size: 69
30098120 ATGGCATTCT
* * * *
30098130 GATGATAAGATCATAGCT-GCGCTATGACATTCT-AGCGTAAGACGATGGTTGGACCATGGCAGT
1 GATG-TAAGACCATAGCTAG-GCTATGGCATTCTGA-CATAAGACGATGGGTGGACCATGGCAGT
30098193 GTATATA
63 GTATATA
* *
30098200 GATGTAAGACCATAGTTAGGCTATGGCATTCTGACATAAGACTATGGGTGGACCATGGCAGTGTA
1 GATGTAAGACCATAGCTAGGCTATGGCATTCTGACATAAGACGATGGGTGGACCATGGCAGTGTA
30098265 TATA
66 TATA
* *
30098269 GATGTAAGACCATAGCTGGGCTATGGCATTCTGATGATAAGAC
1 GATGTAAGACCATAGCTAGGCTATGGCATTCTGA-CATAAGAC
30098312 CATAGTTAGA
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
69 87 0.87
70 13 0.13
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (69 bp):
GATGTAAGACCATAGCTAGGCTATGGCATTCTGACATAAGACGATGGGTGGACCATGGCAGTGTA
TATA
Found at i:30115494 original size:21 final size:21
Alignment explanation
Indices: 30115468--30115507 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30115458 ATTCGACGAG
*
30115468 TAAATTCATAT-AATGAATATT
1 TAAATT-ATATGAATCAATATT
30115489 TAAATTATATGAATCAATA
1 TAAATTATATGAATCAATA
30115508 ATAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
TAAATTATATGAATCAATATT
Found at i:30115763 original size:16 final size:16
Alignment explanation
Indices: 30115730--30115763 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30115720 CAAGTAAGGA
**
30115730 AAAAGAGGTAAATTTT
1 AAAAGAGGTAAAAGTT
30115746 AAAAGAGGTAAAAGTT
1 AAAAGAGGTAAAAGTT
30115762 AA
1 AA
30115764 TTGCTATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAAGAGGTAAAAGTT
Found at i:30117811 original size:42 final size:42
Alignment explanation
Indices: 30117675--30117991 Score: 343
Period size: 42 Copynumber: 7.5 Consensus size: 42
30117665 TAGAAGACCC
* * * * *
30117675 ATGTCTCGGA-ATGAGCGTGAGATTATGTATAAATGGAAGACTC
1 ATGTCTCGGATA-GAGCATAAGATTATAT-TAAAAGGAAGACTT
* * * * * *
30117718 ATGACTTGGGAT-GAACATGAGATTATGTATAAATGGAAGACTT
1 ATGTC-TCGGATAGAGCATAAGATTATAT-TAAAAGGAAGACTT
* * * *
30117761 ATGTCTCGGGAT-GAGCTTGAGATTATGTTTAAAGGAAGACTT
1 ATGTCTC-GGATAGAGCATAAGATTATATTAAAAGGAAGACTT
* *
30117803 ATGTCTCGGATAGAGCAAAAGATTTTATTAAAAGGAAGACTT
1 ATGTCTCGGATAGAGCATAAGATTATATTAAAAGGAAGACTT
* * * *
30117845 ATGTATCGAATAGAGCATAAGATTGTATTAAAAGGAAGATTT
1 ATGTCTCGGATAGAGCATAAGATTATATTAAAAGGAAGACTT
*
30117887 ATGTCTCGGATAGAGCATAAGATTGTATTAAAAGGAAGACTT
1 ATGTCTCGGATAGAGCATAAGATTATATTAAAAGGAAGACTT
30117929 ATGTCTCGGATAGAGCATAAGATTATATTAAAAGGAAGACTT
1 ATGTCTCGGATAGAGCATAAGATTATATTAAAAGGAAGACTT
* * *
30117971 ATGACTCGGTTTGAGCATAAG
1 ATGTCTCGGATAGAGCATAAG
30117992 GTTAATTCAG
Statistics
Matches: 241, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
41 4 0.02
42 179 0.74
43 54 0.22
44 4 0.02
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.30
Consensus pattern (42 bp):
ATGTCTCGGATAGAGCATAAGATTATATTAAAAGGAAGACTT
Found at i:30124702 original size:24 final size:24
Alignment explanation
Indices: 30124668--30124714 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30124658 ATTCATCTTT
*
30124668 TATTAATTTGCTCTGAC-ATTTTA
1 TATTAATTTGCACTGACAATTTTA
30124691 TATTACATTTGCACTGACAATTTT
1 TATTA-ATTTGCACTGACAATTTT
30124715 TACTCTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.49
Consensus pattern (24 bp):
TATTAATTTGCACTGACAATTTTA
Found at i:30129350 original size:17 final size:17
Alignment explanation
Indices: 30129318--30129384 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
30129308 CTGCTAGTAA
**
30129318 TCATTGTCATCACATTC
1 TCATTGTCATTGCATTC
*
30129335 TCATTGTCATTGCATTT
1 TCATTGTCATTGCATTC
* *
30129352 TAATTGTCACTGCATTC
1 TCATTGTCATTGCATTC
* *
30129369 GCATTGTTATTGCATT
1 TCATTGTCATTGCATT
30129385 TCCATTTGTC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (17 bp):
TCATTGTCATTGCATTC
Found at i:30129390 original size:17 final size:17
Alignment explanation
Indices: 30129336--30129390 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
30129326 ATCACATTCT
*
30129336 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTC
* *
30129353 AATTGTCACTGCA-TTC
1 CATTGTCATTGCATTTC
*
30129369 GCATTGTTATTGCATTTC
1 -CATTGTCATTGCATTTC
30129387 CATT
1 CATT
30129391 TGTCTTTGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 2 0.07
17 25 0.83
18 3 0.10
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:30131868 original size:310 final size:310
Alignment explanation
Indices: 30131286--30132524 Score: 2083
Period size: 310 Copynumber: 4.0 Consensus size: 310
30131276 TTTCTGTCAA
* * *
30131286 CTATTCACGTTAGGAACCCTATTTCATTATTATTGCATTTTATTCTTAATTTTACATAATCGCTT
1 CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGCTT
* *
30131351 TGACAAATCAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCAACAATTATATACAAAA
66 CGACAAATCAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCGACAATTATATACAAAA
* *
30131416 AACATCCATCCTCGTGGGATCGATATCCGACAGGTTGTACTTCTGTCTACTATTCTTGCATCGAC
131 AACATCCATCCTCGTGGGATCGATATCCGACAGGTTGTACATCTGTCTACTATACTTGCATCGAC
* * *
30131481 AGTGTATGCTTGCACATATTTGCTGTAACGTTCATAGCGCGATCAAGTTTTGGCGTCGTTGCCAG
196 AGTGTATGCTTGCACATATTTGCTGTGACGTTCATAGCGCGATCAAGTTTTGGCGCCGTTGCCGG
*
30131546 GTATGACGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTAC
261 GTATGGCGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTAC
30131596 CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGCTT
1 CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGCTT
* * *
30131661 CGACAAATCAATATCACAATTTTATTGCATTTACTTATTCATTGCATCGATAATTATATACAAAA
66 CGACAAATCAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCGACAATTATATACAAAA
* * *
30131726 AACATCCATCCTCGTGGGATCGATATCCGACAAGCTGTACATCTGTCTACTATACTTGTATCGAC
131 AACATCCATCCTCGTGGGATCGATATCCGACAGGTTGTACATCTGTCTACTATACTTGCATCGAC
* * **
30131791 AGTGTATGCTTACACATATTTGCTGTGACGTTCATTGCGCGATCAAGTTTTGGCGCCGTTATCGG
196 AGTGTATGCTTGCACATATTTGCTGTGACGTTCATAGCGCGATCAAGTTTTGGCGCCGTTGCCGG
30131856 GTATGGCGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTAC
261 GTATGGCGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTAC
*
30131906 CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGATT
1 CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGCTT
*
30131971 CGACAAATCAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCGACAATTATCTACAAAA
66 CGACAAATCAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCGACAATTATATACAAAA
* *
30132036 AACATCCATCCTCGTGGGATCGATACCCGACAGGTTGTACATCTATCTACTATACTTGCATCGAC
131 AACATCCATCCTCGTGGGATCGATATCCGACAGGTTGTACATCTGTCTACTATACTTGCATCGAC
* * * *
30132101 AGTGCATGATTGCACATATTTGTTATGACGTTCATAGCGCGATCAAGTTTTGGCGCCGTTGCCGG
196 AGTGTATGCTTGCACATATTTGCTGTGACGTTCATAGCGCGATCAAGTTTTGGCGCCGTTGCCGG
* *
30132166 GTATGGTGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTGC
261 GTATGGCGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTAC
30132216 CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGCTT
1 CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGCTT
* *
30132281 CGACAAATTAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCGATAATTATATACAAAA
66 CGACAAATCAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCGACAATTATATAC-AAA
*
30132346 AAACATCCATCCTCGTGGGATCGATATCTGACAGGTTGTACATCTGTCTACTATACTTGCATCGA
130 AAACATCCATCCTCGTGGGATCGATATCCGACAGGTTGTACATCTGTCTACTATACTTGCATCGA
* **
30132411 CAGTGTATGCTTGCACATATTTGATGTGACGTTCATAGCGCGATCAAGTTTTGGCGCCGTTTTCG
195 CAGTGTATGCTTGCACATATTTGCTGTGACGTTCATAGCGCGATCAAGTTTTGGCGCCGTTGCCG
* *
30132476 AGTA---C--TTGTTTGATGATTATTTTTCTCTACATTTATTCTTTCTTAC
260 GGTATGGCGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTAC
30132522 CTA
1 CTA
30132525 ATATTTATTT
Statistics
Matches: 870, Mismatches: 58, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
306 42 0.05
310 701 0.81
311 127 0.15
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (310 bp):
CTATTCACGTTAGGAACCCCATTTCATTATTATTGCATTTCATTCTTAATTTTACATCATCGCTT
CGACAAATCAATCTCACAATTTTATTGCATTTACTTATTCATTGCACCGACAATTATATACAAAA
AACATCCATCCTCGTGGGATCGATATCCGACAGGTTGTACATCTGTCTACTATACTTGCATCGAC
AGTGTATGCTTGCACATATTTGCTGTGACGTTCATAGCGCGATCAAGTTTTGGCGCCGTTGCCGG
GTATGGCGTTTGTTTGATGATTATTTTTCTCTGCATTTATTCTTTCTTAC
Found at i:30136455 original size:66 final size:68
Alignment explanation
Indices: 30136331--30136461 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 68
30136321 CAATTTATTC
*
30136331 ACTATTTTAATTAAAAAATTGATTTTAATCTCTCATTGATTAGAGAATATCATCATAACTCATTT
1 ACTATTTTAATTAAAAAATT-ATTTTAATCTCTCATTGAGTAGAGAATATCATCATAACTCATTT
30136396 CTTT
65 CTTT
* * *
30136400 ACTATTTTCATTAAAAAAATT-TTTTAATC-C-CATTTAGTAGAGAATACTCCT-ATAACTCATT
1 ACTATTTTAATT-AAAAAATTATTTTAATCTCTCATTGAGTAGAGAATA-TCATCATAACTCATT
30136461 T
64 T
30136462 TTCATTATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
66 25 0.45
67 4 0.07
68 8 0.14
69 11 0.20
70 8 0.14
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (68 bp):
ACTATTTTAATTAAAAAATTATTTTAATCTCTCATTGAGTAGAGAATATCATCATAACTCATTTC
TTT
Found at i:30136489 original size:20 final size:22
Alignment explanation
Indices: 30136466--30136510 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30136456 TCATTTTTCA
*
30136466 TTATTTGATT-AAAT-TTAATT
1 TTATTTCATTAAAATGTTAATT
*
30136486 TTATTTCCTTAAAATGTTAATT
1 TTATTTCATTAAAATGTTAATT
30136508 TTA
1 TTA
30136511 ATCTCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 9 0.43
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
TTATTTCATTAAAATGTTAATT
Found at i:30136711 original size:32 final size:31
Alignment explanation
Indices: 30136666--30136768 Score: 102
Period size: 32 Copynumber: 3.1 Consensus size: 31
30136656 GCATGTGTAA
30136666 AAATTTTATATATGAAAAATATGAATTAATT
1 AAATTTTATATATGAAAAATATGAATTAATT
* *
30136697 AAATCTTTATATATGAACTAAATTATAGTATGT-ATA
1 AAAT-TTTATATATGAA--AAA-TAT-GAAT-TAATT
30136733 AATATTTTATATAT-AAAATATATGAATTAATT
1 AA-ATTTTATATATGAAAA-ATATGAATTAATT
30136765 AAAT
1 AAAT
30136769 ATATTTTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
31 7 0.12
32 19 0.32
33 5 0.08
34 4 0.07
35 5 0.08
36 16 0.27
37 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (31 bp):
AAATTTTATATATGAAAAATATGAATTAATT
Found at i:30138078 original size:26 final size:29
Alignment explanation
Indices: 30138039--30138095 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
30138029 AGTAATCCAT
*
30138039 AATTCAAAACATCCCA-AAATTAAAATCC
1 AATTCAAAACATCCCATAAATAAAAATCC
*
30138067 AATTC-AAA-ATCCCATCAATAAAAATCC
1 AATTCAAAACATCCCATAAATAAAAATCC
30138094 AA
1 AA
30138096 ATAAATCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 15 0.58
28 5 0.19
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (29 bp):
AATTCAAAACATCCCATAAATAAAAATCC
Found at i:30138746 original size:26 final size:26
Alignment explanation
Indices: 30138684--30138753 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
30138674 AGTAAATGAT
*
30138684 AAAATAAAGGGTAAACTAAGTATGAAA
1 AAAATAAATGGTAAACTAAG-ATGAAA
* *
30138711 AAAATAAATGATAAACTAA-ATGCAGA
1 AAAATAAATGGTAAACTAAGATG-AAA
30138737 AAAATAAATGGTAAACT
1 AAAATAAATGGTAAACT
30138754 GTAAATGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 3 0.08
26 18 0.47
27 17 0.45
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (26 bp):
AAAATAAATGGTAAACTAAGATGAAA
Found at i:30150041 original size:2 final size:2
Alignment explanation
Indices: 30150034--30150065 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30150024 TTTTAATTTA
30150034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30150066 CAATGACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30154648 original size:96 final size:96
Alignment explanation
Indices: 30154483--30154669 Score: 259
Period size: 96 Copynumber: 1.9 Consensus size: 96
30154473 GGAATAATAA
* *
30154483 ATTAGGAGTGTGTTGGACCGATTAACCGAGATGGAGTGCTTAGGTTGTCATTTCATTTCACGTCA
1 ATTAGGAGTATGTTGGACCGAGTAACCGAGATGGAGTGCTTAGGTTGTCATTTCATTTCACGTCA
* *
30154548 AAAGGTCTAATACATTCTTAAGGAAAAAAATG
66 AAAGGACCAATACATTCTTAA-GAAAAAAATG
* * * * * *
30154580 ATTAGGAGTATGTTGGGCTGAGTAACTGGGATGGAGTG-TTTGGTTGTCATTTCATTTCGCGTCA
1 ATTAGGAGTATGTTGGACCGAGTAACCGAGATGGAGTGCTTAGGTTGTCATTTCATTTCACGTCA
*
30154644 AAAGGACCAATATATTCTTAAGAAAA
66 AAAGGACCAATACATTCTTAAGAAAA
30154670 GAAAAAAAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 5 0.06
96 42 0.53
97 32 0.41
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (96 bp):
ATTAGGAGTATGTTGGACCGAGTAACCGAGATGGAGTGCTTAGGTTGTCATTTCATTTCACGTCA
AAAGGACCAATACATTCTTAAGAAAAAAATG
Found at i:30156601 original size:6 final size:6
Alignment explanation
Indices: 30156567--30156622 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
30156557 TAATAGGGAT
* * * *
30156567 TTTCAA TTTACAA -TTC-A TATCAC TTTCAA TTTCAA TTTCAC TTTCAC
1 TTTCAA TTT-CAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
30156614 TTTCAA TTT
1 TTTCAA TTT
30156623 TGATCACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
4 1 0.02
5 3 0.07
6 34 0.83
7 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTCAA
Found at i:30156609 original size:18 final size:18
Alignment explanation
Indices: 30156586--30156622 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30156576 ACAATTCATA
30156586 TCACTTTCAATTTCAATT
1 TCACTTTCAATTTCAATT
*
30156604 TCACTTTCACTTTCAATT
1 TCACTTTCAATTTCAATT
30156622 T
1 T
30156623 TGATCACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCACTTTCAATTTCAATT
Found at i:30165174 original size:24 final size:24
Alignment explanation
Indices: 30165108--30165341 Score: 200
Period size: 24 Copynumber: 9.8 Consensus size: 24
30165098 GTTGATGCCT
* *
30165108 GTCAACTTATATACGTTTACGCTT
1 GTCAGCTTATATACGTTTACGCTC
* * ** *
30165132 GTTAGATTGCACACGTTTACGCTC
1 GTCAGCTTATATACGTTTACGCTC
* *
30165156 ATCAGCTTATATACATTTACGCTC
1 GTCAGCTTATATACGTTTACGCTC
*
30165180 ATCAGCTTATATACGTTTACGCTC
1 GTCAGCTTATATACGTTTACGCTC
* ** * * *
30165204 GTCAACTTGCACACGTTTATGCTT
1 GTCAGCTTATATACGTTTACGCTC
30165228 GT-AGCTTATATACGTTTACGCTC
1 GTCAGCTTATATACGTTTACGCTC
* ** * *
30165251 GTCATCTTGCACACGTTTATGCTC
1 GTCAGCTTATATACGTTTACGCTC
30165275 GTCAGCTTATATACGTTTACGCTC
1 GTCAGCTTATATACGTTTACGCTC
* * ** * * *
30165299 ATCAACTTGCAGACATTTACACTC
1 GTCAGCTTATATACGTTTACGCTC
*
30165323 GTCAGATTATATACGTTTA
1 GTCAGCTTATATACGTTTA
30165342 TGTAATTCAA
Statistics
Matches: 157, Mismatches: 52, Indels: 2
0.74 0.25 0.01
Matches are distributed among these distances:
23 17 0.11
24 140 0.89
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (24 bp):
GTCAGCTTATATACGTTTACGCTC
Found at i:30165241 original size:47 final size:48
Alignment explanation
Indices: 30165144--30165341 Score: 245
Period size: 48 Copynumber: 4.1 Consensus size: 48
30165134 TAGATTGCAC
* * ** * * * *
30165144 ACGTTTACGCTCATCAGCTTATATACATTTACGCTCATCAGCTTATAT
1 ACGTTTACGCTCGTCAACTTGCACACGTTTATGCTCGTCAGCTTATAT
*
30165192 ACGTTTACGCTCGTCAACTTGCACACGTTTATGCTTGT-AGCTTATAT
1 ACGTTTACGCTCGTCAACTTGCACACGTTTATGCTCGTCAGCTTATAT
*
30165239 ACGTTTACGCTCGTCATCTTGCACACGTTTATGCTCGTCAGCTTATAT
1 ACGTTTACGCTCGTCAACTTGCACACGTTTATGCTCGTCAGCTTATAT
* * * ** *
30165287 ACGTTTACGCTCATCAACTTGCAGACATTTACACTCGTCAGATTATAT
1 ACGTTTACGCTCGTCAACTTGCACACGTTTATGCTCGTCAGCTTATAT
30165335 ACGTTTA
1 ACGTTTA
30165342 TGTAATTCAA
Statistics
Matches: 131, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
47 45 0.34
48 86 0.66
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (48 bp):
ACGTTTACGCTCGTCAACTTGCACACGTTTATGCTCGTCAGCTTATAT
Found at i:30165275 original size:71 final size:72
Alignment explanation
Indices: 30165120--30165302 Score: 199
Period size: 71 Copynumber: 2.6 Consensus size: 72
30165110 CAACTTATAT
* *
30165120 ACGTTTACGCTTGTTAGA-TTGCACACGTTTACGCTCATCAGCTTATATACATTTACGCTCATCA
1 ACGTTTACGCTCGTCA-ACTTGCACACGTTTACGCTCATCAGCTTATATACATTTACGCTCATCA
* *
30165184 GCTTATAT
65 GCTTACAC
* ** * * *
30165192 ACGTTTACGCTCGTCAACTTGCACACGTTTATGCTTGT-AGCTTATATACGTTTACGCTCGTCAT
1 ACGTTTACGCTCGTCAACTTGCACACGTTTACGCTCATCAGCTTATATACATTTACGCTCATCAG
*
30165256 CTTGCAC
66 CTTACAC
* * ** *
30165263 ACGTTTATGCTCGTCAGCTTATATACGTTTACGCTCATCA
1 ACGTTTACGCTCGTCAACTTGCACACGTTTACGCTCATCA
30165303 ACTTGCAGAC
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
71 58 0.64
72 32 0.36
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.37
Consensus pattern (72 bp):
ACGTTTACGCTCGTCAACTTGCACACGTTTACGCTCATCAGCTTATATACATTTACGCTCATCAG
CTTACAC
Found at i:30165289 original size:95 final size:96
Alignment explanation
Indices: 30165144--30165341 Score: 254
Period size: 95 Copynumber: 2.1 Consensus size: 96
30165134 TAGATTGCAC
* * *
30165144 ACGTTTACGCTCATCAGCTTATATACATTTACGCTCATCAGCTTATATACGTTTACGCTCGTCAA
1 ACGTTTACGCTCATCAGCTTACACACATTTACGCTCATCAGCTTATATACGTTTACGCTCATCAA
* ** * *
30165209 CTTGCACACGTTTATGCTTGT-AGCTTATAT
66 CTTGCACACATTTACACTCGTCAGATTATAT
* * * * * *
30165239 ACGTTTACGCTCGTCATCTTGCACACGTTTATGCTCGTCAGCTTATATACGTTTACGCTCATCAA
1 ACGTTTACGCTCATCAGCTTACACACATTTACGCTCATCAGCTTATATACGTTTACGCTCATCAA
*
30165304 CTTGCAGACATTTACACTCGTCAGATTATAT
66 CTTGCACACATTTACACTCGTCAGATTATAT
30165335 ACGTTTA
1 ACGTTTA
30165342 TGTAATTCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 72 0.83
96 15 0.17
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (96 bp):
ACGTTTACGCTCATCAGCTTACACACATTTACGCTCATCAGCTTATATACGTTTACGCTCATCAA
CTTGCACACATTTACACTCGTCAGATTATAT
Found at i:30165339 original size:119 final size:120
Alignment explanation
Indices: 30165088--30165343 Score: 318
Period size: 119 Copynumber: 2.1 Consensus size: 120
30165078 ATGCACTTTT
* * *
30165088 ACTTATACACGTTGATGCCTGTCAACTTATATACGTTTACGCTTGTTAGATTGCACACGTTTACG
1 ACTTATACACGTTTATGCCTGTCAACTTATATACGTTTACGCTCGTCAGATTGCACACGTTTACG
* * * * *
30165153 CTCATCAGCTTATATACATTTACGCTCATCAGCTTATATACGTTTACGCTCGTCA
66 CTCATCAGCTTATATACATTTACGCTCATCAACTTACAGACATTTACACTCGTCA
** * * ** *
30165208 ACTTGCACACGTTTATGCTTGT-AGCTTATATACGTTTACGCTCGTCATCTTGCACACGTTTATG
1 ACTTATACACGTTTATGCCTGTCAACTTATATACGTTTACGCTCGTCAGATTGCACACGTTTACG
* * *
30165272 CTCGTCAGCTTATATACGTTTACGCTCATCAACTTGCAGACATTTACACTCGTCA
66 CTCATCAGCTTATATACATTTACGCTCATCAACTTACAGACATTTACACTCGTCA
*
30165327 GA-TTATATACGTTTATG
1 -ACTTATACACGTTTATG
30165344 TAATTCAACA
Statistics
Matches: 114, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
119 95 0.83
120 19 0.17
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (120 bp):
ACTTATACACGTTTATGCCTGTCAACTTATATACGTTTACGCTCGTCAGATTGCACACGTTTACG
CTCATCAGCTTATATACATTTACGCTCATCAACTTACAGACATTTACACTCGTCA
Found at i:30178715 original size:12 final size:12
Alignment explanation
Indices: 30178681--30178719 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30178671 AAGGAGTAAG
* *
30178681 AGAAGAAGAGAA
1 AGAAGAAAAGGA
30178693 AGAAGAAAAGGA
1 AGAAGAAAAGGA
*
30178705 AGAAGAGAAGGA
1 AGAAGAAAAGGA
30178717 AGA
1 AGA
30178720 TGAAGAAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAGGA
Found at i:30187127 original size:24 final size:24
Alignment explanation
Indices: 30187094--30187140 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30187084 GTTAAGAGTA
*
30187094 AAAATTGTCAGTGCAAATGTAATAT
1 AAAATTGTCAGAGCAAAT-TAATAT
30187119 AAAA-TGTCAGAGCAAATTAATA
1 AAAATTGTCAGAGCAAATTAATA
30187141 AAAGATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.28
Consensus pattern (24 bp):
AAAATTGTCAGAGCAAATTAATAT
Found at i:30190642 original size:24 final size:24
Alignment explanation
Indices: 30190609--30190655 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30190599 GTTAAGAGTA
*
30190609 AAAATTGCCAGTGCAAATGTAATAT
1 AAAATTGCCAGAGCAAAT-TAATAT
30190634 AAAA-TGCCAGAGCAAATTAATA
1 AAAATTGCCAGAGCAAATTAATA
30190656 AAAGATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (24 bp):
AAAATTGCCAGAGCAAATTAATAT
Found at i:30191995 original size:18 final size:18
Alignment explanation
Indices: 30191971--30192023 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
30191961 GTGCAGCCTG
30191971 ATCAGATGCAATCACATA
1 ATCAGATGCAATCACATA
* * *
30191989 CTCAGATGCAGTCATATA
1 ATCAGATGCAATCACATA
* *
30192007 AGCAGATGCAACCACAT
1 ATCAGATGCAATCACAT
30192024 GCACGAATGC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21
Consensus pattern (18 bp):
ATCAGATGCAATCACATA
Found at i:30198636 original size:17 final size:17
Alignment explanation
Indices: 30198605--30198646 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
30198595 TAATTATCAT
*
30198605 TGCATTTTTTATTGTCTC
1 TGCATTTTATATTGT-TC
30198623 TGCATTTTAT-TTGTTC
1 TGCATTTTATATTGTTC
30198639 TAGCATTT
1 T-GCATTT
30198647 GAATTGTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (17 bp):
TGCATTTTATATTGTTC
Found at i:30210678 original size:27 final size:29
Alignment explanation
Indices: 30210633--30210687 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
30210623 AAAAACATAA
30210633 TAAAGTCCCAAAATAATAA-ACAAAGTCCT
1 TAAAGTCCCAAAATAATAATA-AAAGTCCT
30210662 TAAAGT-CCAAAAT-ATAATAAAAGTCC
1 TAAAGTCCCAAAATAATAATAAAAGTCC
30210688 ATAATTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 11 0.44
28 8 0.32
29 6 0.24
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (29 bp):
TAAAGTCCCAAAATAATAATAAAAGTCCT
Found at i:30211140 original size:48 final size:48
Alignment explanation
Indices: 30211079--30211184 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
30211069 ATCACATAAT
* *
30211079 CACATATTCACTTTGCA-ATTAAACTACCACATAATCGCCATAAATGGC
1 CACATAATCACTTTGCAGA-TAAACTACCACATAATCACCATAAATGGC
* * *
30211127 CACATAATCACTTTGTAGATAAACTGCCACATAATTACCATAAATGGC
1 CACATAATCACTTTGCAGATAAACTACCACATAATCACCATAAATGGC
30211175 CACAT-ATCAC
1 CACATAATCAC
30211185 ATAATTGCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
47 5 0.10
48 46 0.88
49 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (48 bp):
CACATAATCACTTTGCAGATAAACTACCACATAATCACCATAAATGGC
Found at i:30211199 original size:28 final size:28
Alignment explanation
Indices: 30211154--30211207 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
30211144 GATAAACTGC
*
30211154 CACATAATTACCATAAATGGCCACATAT
1 CACATAATTACCAAAAATGGCCACATAT
*
30211182 CACATAATTGCCAAAAATGGCCACAT
1 CACATAATTACCAAAAATGGCCACAT
30211208 CTTCCATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (28 bp):
CACATAATTACCAAAAATGGCCACATAT
Found at i:30219057 original size:9 final size:9
Alignment explanation
Indices: 30219021--30219078 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
30219011 CATGTGTTAA
*
30219021 ATGTGATAA
1 ATGTGATAT
*
30219030 ATTTGATGAT
1 ATGTGAT-AT
*
30219040 TTGTGATAT
1 ATGTGATAT
30219049 ATGTGATAT
1 ATGTGATAT
* *
30219058 ATGCGAAAT
1 ATGTGATAT
30219067 ATGTGAT-T
1 ATGTGATAT
30219075 ATGT
1 ATGT
30219079 TGTGTGATGA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
8 5 0.13
9 28 0.72
10 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (9 bp):
ATGTGATAT
Found at i:30226362 original size:24 final size:24
Alignment explanation
Indices: 30226346--30226420 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
30226336 AGTTTGACTC
30226346 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
30226370 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* *
30226394 AAACAATTAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
30226418 AAA
1 AAA
30226421 GATTATTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:30234481 original size:26 final size:25
Alignment explanation
Indices: 30234433--30234481 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30234423 TAATTAAGAA
*
30234433 AATTAAAAAATATATATTCTTTTGT
1 AATTAAAAAATATATATTATTTTGT
30234458 AATTAAAATAAGT-TATATTATTTT
1 AATTAAAA-AA-TATATATTATTTT
30234482 AGGGTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 12 0.57
27 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (25 bp):
AATTAAAAAATATATATTATTTTGT
Found at i:30234616 original size:19 final size:19
Alignment explanation
Indices: 30234594--30234638 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
30234584 TAAGCCAAAG
* *
30234594 TTTTATCTTATTTTGTACA
1 TTTTATCTTATTATGCACA
*
30234613 TTTTAATTTTATTATGCACA
1 TTTT-ATCTTATTATGCACA
30234633 TTTTAT
1 TTTTAT
30234639 TAACTCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTATCTTATTATGCACA
Found at i:30239064 original size:64 final size:64
Alignment explanation
Indices: 30238986--30239128 Score: 259
Period size: 64 Copynumber: 2.2 Consensus size: 64
30238976 TCGAGACATG
*
30238986 TTGGTGTGTTGGAGAGTGTTAGCTTTATGCTATGCTTATGGAATATGTTAGACTCTTTGAGTCA
1 TTGGTGTGTTGGAGAATGTTAGCTTTATGCTATGCTTATGGAATATGTTAGACTCTTTGAGTCA
*
30239050 TTGGTGTGTTGGAGAATGTTAGCTTTATGCTATGCTTATGGGATATGTTAGACTCTTTGAGTCA
1 TTGGTGTGTTGGAGAATGTTAGCTTTATGCTATGCTTATGGAATATGTTAGACTCTTTGAGTCA
*
30239114 TTGGTGTGATGGAGA
1 TTGGTGTGTTGGAGA
30239129 TCCATGTATT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 76 1.00
ACGTcount: A:0.20, C:0.08, G:0.30, T:0.41
Consensus pattern (64 bp):
TTGGTGTGTTGGAGAATGTTAGCTTTATGCTATGCTTATGGAATATGTTAGACTCTTTGAGTCA
Found at i:30239670 original size:3 final size:3
Alignment explanation
Indices: 30239656--30239686 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
30239646 ATGTGATGGA
30239656 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30239687 GTTTTAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:30240419 original size:29 final size:27
Alignment explanation
Indices: 30240387--30240445 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
30240377 ACGAGAGAGC
*
30240387 CCGTCAGGATAGTAAAAACACGAGGTAAT
1 CCGTCAGGACA-T-AAAACACGAGGTAAT
* * *
30240416 CCGTCGGGACATTAAACATGAGGTAAT
1 CCGTCAGGACATAAAACACGAGGTAAT
30240443 CCG
1 CCG
30240446 CCACGACGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 16 0.62
28 1 0.04
29 9 0.35
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
CCGTCAGGACATAAAACACGAGGTAAT
Found at i:30255926 original size:24 final size:24
Alignment explanation
Indices: 30255869--30255928 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
30255859 TAGACTAATA
* *
30255869 AGAGTTTGACTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
*
30255893 AAAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
30255917 AGAGTTTAATTG
1 AGAGTTTAATTG
30255929 GAATATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:30257836 original size:24 final size:25
Alignment explanation
Indices: 30257797--30257863 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 25
30257787 AATCTAAACT
*
30257797 AATAAGAGTTTGATTGAAACAAATA
1 AATAAGAGTTTAATTGAAACAAATA
30257822 AATAA-AGTTTAATTGAAACAAATA
1 AATAAGAGTTTAATTGAAACAAATA
30257846 AA-AAGAGTTTAATTGAAA
1 AATAAGAGTTTAATTGAAA
30257864 GATTATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 2 0.05
24 33 0.82
25 5 0.12
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.28
Consensus pattern (25 bp):
AATAAGAGTTTAATTGAAACAAATA
Found at i:30261985 original size:14 final size:14
Alignment explanation
Indices: 30261966--30261993 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30261956 GATCCCACTA
30261966 TCAATATAGTAAAC
1 TCAATATAGTAAAC
30261980 TCAATATAGTAAAC
1 TCAATATAGTAAAC
30261994 GCTCGTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
TCAATATAGTAAAC
Found at i:30264219 original size:20 final size:19
Alignment explanation
Indices: 30264191--30264248 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
30264181 CCACGTCAGC
*
30264191 AAATGATTTTAAAATTATAA
1 AAATTATTTTAAAATTAT-A
30264211 AAATTATTTTTTAAAA-TATA
1 AAATTA--TTTTAAAATTATA
*
30264231 AAATTAATTTAAAATTAT
1 AAATTATTTTAAAATTAT
30264249 TTTTTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 7 0.21
19 3 0.09
20 12 0.36
21 3 0.09
22 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAATTATTTTAAAATTATA
Found at i:30264240 original size:21 final size:22
Alignment explanation
Indices: 30264197--30264248 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
30264187 CAGCAAATGA
30264197 TTTTAAAATTATAAAAATTATT
1 TTTTAAAATTATAAAAATTATT
30264219 TTTTAAAA-TAT-AAAATTA--
1 TTTTAAAATTATAAAAATTATT
*
30264237 ATTTAAAATTAT
1 TTTTAAAATTAT
30264249 TTTTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.25
19 3 0.11
20 7 0.25
21 3 0.11
22 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTAAAATTATAAAAATTATT
Found at i:30265070 original size:21 final size:22
Alignment explanation
Indices: 30265036--30265088 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
30265026 ATTTTAAAAA
30265036 ATAATTTT--AAAATAATT-TT
1 ATAATTTTAAAAAATAATTATT
*
30265055 ATATTTTTAAAAAATAATTATT
1 ATAATTTTAAAAAATAATTATT
30265077 ATAATTTTAAAA
1 ATAATTTTAAAA
30265089 TCATTTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 7 0.24
21 9 0.31
22 13 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATTTTAAAAAATAATTATT
Found at i:30265083 original size:30 final size:29
Alignment explanation
Indices: 30265010--30265085 Score: 109
Period size: 32 Copynumber: 2.5 Consensus size: 29
30265000 GATGATGATG
30265010 ATTTTAATAATTTTATATTTTAAAAAATA
1 ATTTTAATAATTTTATATTTTAAAAAATA
30265039 ATTTTAAAATAATTTTATATTTTTAAAAAATA
1 ATTTT--AATAATTTTATA-TTTTAAAAAATA
30265071 ATTATT-ATAATTTTA
1 ATT-TTAATAATTTTA
30265086 AAATCATTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
29 5 0.12
30 9 0.21
31 12 0.28
32 15 0.35
33 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTTAATAATTTTATATTTTAAAAAATA
Found at i:30268555 original size:10 final size:10
Alignment explanation
Indices: 30268542--30268571 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
30268532 GAGAGATAAG
30268542 GGGGTGAGAT
1 GGGGTGAGAT
30268552 GGGGTGAGAT
1 GGGGTGAGAT
*
30268562 GGAGTGAGAT
1 GGGGTGAGAT
30268572 ATAAAGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.57, T:0.20
Consensus pattern (10 bp):
GGGGTGAGAT
Found at i:30285581 original size:15 final size:15
Alignment explanation
Indices: 30285561--30285591 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30285551 AATTAAATTA
30285561 AAGAAAGAAAAGATG
1 AAGAAAGAAAAGATG
30285576 AAGAAAGAAAAGATG
1 AAGAAAGAAAAGATG
30285591 A
1 A
30285592 TATTTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (15 bp):
AAGAAAGAAAAGATG
Found at i:30291172 original size:7 final size:7
Alignment explanation
Indices: 30291160--30291187 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
30291150 AAATTCAATT
30291160 GTGTTGA
1 GTGTTGA
30291167 GTGTTGA
1 GTGTTGA
30291174 GTGTTGA
1 GTGTTGA
30291181 GTGTTGA
1 GTGTTGA
30291188 ATATTAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GTGTTGA
Found at i:30292695 original size:21 final size:21
Alignment explanation
Indices: 30292655--30292695 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30292645 ATTTCAGCAA
*
30292655 TTTATTCTTCTTTTTCTTTTC
1 TTTATTCTTCTTTCTCTTTTC
30292676 TTTATTCTT-TTTCTCATTTT
1 TTTATTCTTCTTTCTC-TTTT
30292696 TGTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTCTTCTTTCTCTTTTC
Found at i:30293708 original size:164 final size:164
Alignment explanation
Indices: 30293430--30293759 Score: 570
Period size: 164 Copynumber: 2.0 Consensus size: 164
30293420 CCCTTGTCAT
* * *
30293430 GGTGTTTCTTTTTCTTGTCCTTGCGCCTCTTCTGGATTTTATCCTTTGAATCAATCGACTCGGGG
1 GGTGTTTCTTTTTCTTGTCCTTGCACCTCTTCTGCATTTTATCCTTTGAACCAATCGACTCGGGG
*
30293495 GATTGTTCCTCCTTAGCGGGTTGGGTGACGGCCTCATTAGTTGTCACCTCGGATGGATGAATTTC
66 GATTGTTCCTCCTCAGCGGGTTGGGTGACGGCCTCATTAGTTGTCACCTCGGATGGATGAATTTC
*
30293560 TGTGAGTGGTGCCACAAAGGGCACAATAGCCAGA
131 TGCGAGTGGTGCCACAAAGGGCACAATAGCCAGA
* *
30293594 GGTGTTTCTTTTTCTTGTCCTTGCACCTCTTCTTCTTTTTATCCTTTGAACCAATCGACTCGGGG
1 GGTGTTTCTTTTTCTTGTCCTTGCACCTCTTCTGCATTTTATCCTTTGAACCAATCGACTCGGGG
* * *
30293659 GATTGTTCCTCCTCAGCGGGTTGGGTGACGGCCTCATTAGTTTTCACCTCGGATGGGTGGATTTC
66 GATTGTTCCTCCTCAGCGGGTTGGGTGACGGCCTCATTAGTTGTCACCTCGGATGGATGAATTTC
30293724 TGCGAGTGGTGCCACAAAGGGCACAATAGCCAGA
131 TGCGAGTGGTGCCACAAAGGGCACAATAGCCAGA
30293758 GG
1 GG
30293760 ATTCAGTTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 156 1.00
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (164 bp):
GGTGTTTCTTTTTCTTGTCCTTGCACCTCTTCTGCATTTTATCCTTTGAACCAATCGACTCGGGG
GATTGTTCCTCCTCAGCGGGTTGGGTGACGGCCTCATTAGTTGTCACCTCGGATGGATGAATTTC
TGCGAGTGGTGCCACAAAGGGCACAATAGCCAGA
Found at i:30311827 original size:36 final size:36
Alignment explanation
Indices: 30311787--30311869 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
30311777 CGCAGCCTGA
* *
30311787 TCAGATGCAGTCACATACTCAAAAGCAATCACATAC
1 TCAGATGCAGTCACATAATCAAAAGCAACCACATAC
* * * *
30311823 TCAGATACAGTCATATAATCAAATGCAACCACATGC
1 TCAGATGCAGTCACATAATCAAAAGCAACCACATAC
30311859 TC-GAATGCAGT
1 TCAG-ATGCAGT
30311870 TACAACAGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (36 bp):
TCAGATGCAGTCACATAATCAAAAGCAACCACATAC
Found at i:30317682 original size:9 final size:9
Alignment explanation
Indices: 30317670--30317713 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
30317660 CCTCGTCAGG
30317670 TTCTTTTTC
1 TTCTTTTTC
*
30317679 TTCTTTCTC
1 TTCTTTTTC
30317688 TTCTTCATTTCC
1 TTCTT--TTT-C
30317700 TTCTTTTTC
1 TTCTTTTTC
30317709 TTCTT
1 TTCTT
30317714 CTTGATCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 19 0.63
10 3 0.10
11 2 0.07
12 6 0.20
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.70
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:30317693 original size:12 final size:12
Alignment explanation
Indices: 30317676--30317716 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
30317666 CAGGTTCTTT
30317676 TTCTTCTTTCTC
1 TTCTTCTTTCTC
30317688 TTCTTCATTTC-C
1 TTCTTC-TTTCTC
30317700 TTCTT-TTTCTTC
1 TTCTTCTTTC-TC
30317712 TTCTT
1 TTCTT
30317717 GATCTTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.15
12 18 0.69
13 4 0.15
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:30326591 original size:17 final size:17
Alignment explanation
Indices: 30326558--30326604 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
30326548 GCTCAAGCTC
30326558 CTTTGTTTGCTTTTCTTG
1 CTTTGTTTGC-TTTCTTG
*
30326576 CTTTATTTGCTTTCTTG
1 CTTTGTTTGCTTTCTTG
*
30326593 TTTTGTTTGCTT
1 CTTTGTTTGCTT
30326605 GAGGACAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.02, C:0.15, G:0.15, T:0.68
Consensus pattern (17 bp):
CTTTGTTTGCTTTCTTG
Found at i:30326867 original size:30 final size:30
Alignment explanation
Indices: 30326831--30326925 Score: 190
Period size: 30 Copynumber: 3.2 Consensus size: 30
30326821 CTACTTCGTG
30326831 AGTGTGTAGGAAACCTTTAGAAGTTGAACA
1 AGTGTGTAGGAAACCTTTAGAAGTTGAACA
30326861 AGTGTGTAGGAAACCTTTAGAAGTTGAACA
1 AGTGTGTAGGAAACCTTTAGAAGTTGAACA
30326891 AGTGTGTAGGAAACCTTTAGAAGTTGAACA
1 AGTGTGTAGGAAACCTTTAGAAGTTGAACA
30326921 AGTGT
1 AGTGT
30326926 AAAGTTGATC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (30 bp):
AGTGTGTAGGAAACCTTTAGAAGTTGAACA
Found at i:30328766 original size:14 final size:14
Alignment explanation
Indices: 30328747--30328776 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30328737 ATCTAATAAA
30328747 AAATCCATGTATAC
1 AAATCCATGTATAC
30328761 AAATCCATGTATAC
1 AAATCCATGTATAC
30328775 AA
1 AA
30328777 TAATTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (14 bp):
AAATCCATGTATAC
Found at i:30331164 original size:23 final size:23
Alignment explanation
Indices: 30331122--30331166 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30331112 ATTAATTAAG
*
30331122 AAAGAAATTTATATGTATATATA
1 AAAGAAATTTAAATGTATATATA
30331145 AAAGAAATTTAAATAG-ATATAT
1 AAAGAAATTTAAAT-GTATATAT
30331167 TCCTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAGAAATTTAAATGTATATATA
Found at i:30334324 original size:19 final size:19
Alignment explanation
Indices: 30334289--30334327 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30334279 AATTTAGTCC
30334289 TTTATTCATTCTTTTTATT
1 TTTATTCATTCTTTTTATT
*
30334308 TTTA-TCATTTTTATTTATT
1 TTTATTCATTCTT-TTTATT
30334327 T
1 T
30334328 ATTTTTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTCATTCTTTTTATT
Done.