Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
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: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 14 of 18
Found at i:2266278 original size:168 final size:168
Alignment explanation
Indices: 2266004--2266446 Score: 527
Period size: 168 Copynumber: 2.6 Consensus size: 168
2265994 GGATCGAATT
* ** * * ** * *
2266004 GACAAGTCAACAAAAGATAAAAGATTTATCCGGGACTAAGTCGAC-AGGTAAACAAGGGATAAAG
1 GACAAGTCAACGAGGGATAAAGGATTTACCCGGGACTGGGTCGACGA-GTAAACAAAGGATAAAA
* * * * *
2266068 AAGTTAACCGGGATTGGAAAAATAAGTCAATAAAATATAAAAGGAAGTACCTGGAACCAAGCCCA
65 AAGTTAACCGGGATTGGAACAACAAGTCAACAAAAGATAAAAGGAAGTACCTAGAACCAAGCCCA
* * *
2266133 CAAGTGATTGAAGGATAAAAAGTTGACCAAGATTAAACC
130 CAAGGGAATGAAGGACAAAAAGTTGACCAAGATTAAACC
* *
2266172 GACAAGTCAACGAGGGATAAAGGATTTACCCGGGACTGGGCCGACGAGTAAATAAAGGATAAAAA
1 GACAAGTCAACGAGGGATAAAGGATTTACCCGGGACTGGGTCGACGAGTAAACAAAGGATAAAAA
* * * *
2266237 AGTTGACCGGGATTGGATCAACACA-TCAACAAAAGATAAAAGGAAGTACCTAGAACCAAGGCGA
66 AGTTAACCGGGATTGGAACAACA-AGTCAACAAAAGATAAAAGGAAGTACCTAGAACCAAGCCCA
* * * *
2266301 TAGGGGAATGAAGGACAAAAAGTTGACCAGGATTAAACT
130 CAAGGGAATGAAGGACAAAAAGTTGACCAAGATTAAACC
* *
2266340 GACAAGTCAACGAGGGATAAAGGAATTACCCGGGACTGGGTC-AGCGGGTAAACAAAGGATAAAG
1 GACAAGTCAACGAGGGATAAAGGATTTACCCGGGACTGGGTCGA-CGAGTAAACAAAGGATAAA-
* *
2266404 AAA-TTAACTGGGATT-GAACCGACAAGTCAACAAAAGATAAAAG
64 AAAGTTAACCGGGATTGGAA-CAACAAGTCAACAAAAGATAAAAG
2266447 ATTTATCCGA
Statistics
Matches: 234, Mismatches: 35, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
167 4 0.02
168 225 0.96
169 5 0.02
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.16
Consensus pattern (168 bp):
GACAAGTCAACGAGGGATAAAGGATTTACCCGGGACTGGGTCGACGAGTAAACAAAGGATAAAAA
AGTTAACCGGGATTGGAACAACAAGTCAACAAAAGATAAAAGGAAGTACCTAGAACCAAGCCCAC
AAGGGAATGAAGGACAAAAAGTTGACCAAGATTAAACC
Found at i:2266491 original size:168 final size:168
Alignment explanation
Indices: 2266051--2266493 Score: 456
Period size: 168 Copynumber: 2.6 Consensus size: 168
2266041 AAGTCGACAG
* * * * * *
2266051 GTAAACAAGGGATAAAGAAGTTAACCGGGATTGGAA-AAATA-AGTCAATAAAATATAAAAGGAA
1 GTAAACAAAGGATAAAAAAGTTAACCGGGATT-GAACCAACACA-TCAACAAAAGATAAAAGGAA
* * * *
2266114 GTACCTG-GAACCAAGCCCACAAGTG-ATTGAAGGATAAAAAGTTGACCAAGATTAAACCGACAA
64 GTACC-GAGAACCAAGGCGAC-AGGGAAATGAAGGATAAAAAGTTGACCAAGATTAAACCGACAA
* *
2266177 GTCAACGAGGGATAAAGGATTTACCCGGGACTGGGCCGACGA
127 GTCAACGAGGGATAAAGGAATTACCCGGGACTGGGCAGACGA
* * * *
2266219 GTAAATAAAGGATAAAAAAGTTGACCGGGATTGGATCAACACATCAACAAAAGATAAAAGGAAGT
1 GTAAACAAAGGATAAAAAAGTTAACCGGGATTGAACCAACACATCAACAAAAGATAAAAGGAAGT
* * * * * *
2266284 ACCTAGAACCAAGGCGATAGGGGAATGAAGGACAAAAAGTTGACCAGGATTAAACTGACAAGTCA
66 ACCGAGAACCAAGGCGACAGGGAAATGAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGTCA
*
2266349 ACGAGGGATAAAGGAATTACCCGGGACTGGGTCAG-CGG
131 ACGAGGGATAAAGGAATTACCCGGGACTGGG-CAGACGA
* * *
2266387 GTAAACAAAGGATAAAGAAA-TTAACTGGGATTGAACCGACA-AGTCAACAAAAGATAAAA-GAT
1 GTAAACAAAGGATAAA-AAAGTTAACCGGGATTGAACCAACACA-TCAACAAAAGATAAAAGGAA
* * * *
2266449 TTATCCGAG-ACTAAGTCGACAGGTAAAT-AAGGGATAAAAAAGTTG
64 GTA-CCGAGAACCAAGGCGACAGGGAAATGAA-GGAT-AAAAAGTTG
2266494 GTCGGGATTG
Statistics
Matches: 229, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
166 2 0.01
167 27 0.12
168 194 0.85
169 6 0.03
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.16
Consensus pattern (168 bp):
GTAAACAAAGGATAAAAAAGTTAACCGGGATTGAACCAACACATCAACAAAAGATAAAAGGAAGT
ACCGAGAACCAAGGCGACAGGGAAATGAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGTCA
ACGAGGGATAAAGGAATTACCCGGGACTGGGCAGACGA
Found at i:2266644 original size:249 final size:251
Alignment explanation
Indices: 2266163--2266695 Score: 569
Period size: 249 Copynumber: 2.1 Consensus size: 251
2266153 AGTTGACCAA
* * ** * * **
2266163 GATTAAACCGACAAGTCAACGAGGGATAAAGGATTTACCCGGGACTGGGCCGACGAGTAAATAAA
1 GATTGAACCGACAAGTCAACAAAAGATAAAAGATTTACCCGAGACTAAGCCGACGAGTAAATAAA
*
2266228 GGATAAAAAAGTTGACCGGGATTGGATCAACACATCAACAAAAGATAAAAGGAAGTACCTAGAAC
66 GGATAAAAAAGTTGACCGGGATTGGACCAACACATCAACAAAAGATAAAA-GAAGTACCTAGAAC
* * *
2266293 CAAGGCGATAGGGGAATGAAGGACAAAAAGTTGACCAGGATTAAACTGACAAGTCAACGAGGGAT
130 CAAGGCGACAGGGGAATGAAGGACAAAAAGTTGACCAGGATTAAACCGACAAGTCAACAAGGGAT
* * * *
2266358 AAAGGAATTACCCGGGACTGGGTCAGCGGGTAAACAAAGGATAAAGAAATTAA-CTGG
195 AAAGGAATTACCCGGGACTAGGCCAGCGGGCAAACAAAGGATAAAGAAATTAATC-AG
* *
2266415 GATTGAACCGACAAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGAC-AGGTAAATAA
1 GATTGAACCGACAAGTCAACAAAAGATAAAAGATTTACCCGAGACTAAGCCGACGA-GTAAATAA
* ** * * * * * *
2266479 GGGATAAAAAAGTTGGTCGGGATTGGACCGACA-AGTCAATAAAATAT-AAA-AAGTACTTGGGA
65 AGGATAAAAAAGTTGACCGGGATTGGACCAACACA-TCAACAAAAGATAAAAGAAGTACCTAGAA
* ** *
2266541 CCAA-GCTGACAGGTGAATGAAGGATTAAAAGTTGACC-GAGATTAAACCGACAAGTCAGCAAGG
129 CCAAGGC-GACAGGGGAATGAAGGACAAAAAGTTGACCAG-GATTAAACCGACAAGTCAACAAGG
* ** * * * *
2266604 GATAAAGGATTTACTTGGGGCTAGGCC-GATGGGCAAACAAAGGATAAAGAAGTTGATCAG
192 GATAAAGGAATTACCCGGGACTAGGCCAG-CGGGCAAACAAAGGATAAAGAAATTAATCAG
* * * *
2266664 GATTGGACCGAAAAATCAATAAAAGATAAAAG
1 GATTGAACCGACAAGTCAACAAAAGATAAAAG
2266696 GAAATACCTG
Statistics
Matches: 233, Mismatches: 42, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
248 4 0.02
249 133 0.57
250 1 0.00
251 5 0.02
252 90 0.39
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (251 bp):
GATTGAACCGACAAGTCAACAAAAGATAAAAGATTTACCCGAGACTAAGCCGACGAGTAAATAAA
GGATAAAAAAGTTGACCGGGATTGGACCAACACATCAACAAAAGATAAAAGAAGTACCTAGAACC
AAGGCGACAGGGGAATGAAGGACAAAAAGTTGACCAGGATTAAACCGACAAGTCAACAAGGGATA
AAGGAATTACCCGGGACTAGGCCAGCGGGCAAACAAAGGATAAAGAAATTAATCAG
Found at i:2266763 original size:249 final size:249
Alignment explanation
Indices: 2266306--2266766 Score: 522
Period size: 249 Copynumber: 1.9 Consensus size: 249
2266296 GGCGATAGGG
* *
2266306 GAATGAAGGACAAAAAGTTGACCAGGATTAAACTGACAAGTCAACGAGGGATAAAGGAATTACCC
1 GAATGAAGGACAAAAAGTTGACCAGGATTAAACCGACAAGTCAACAAGGGATAAAGGAATTACCC
* * * * * *
2266371 GGGACTGGGTCAGCGGGTAAACAAAGGATAAAGAAATTAACTGGGATTGAACCGACAAGTCAACA
66 GGGACTAGGCCAGCGGGCAAACAAAGGATAAAGAAATTAACTAGGATTGAACCGAAAAATCAACA
** * * ** *
2266436 AAAGATAAAAGATTTATCCGAGACTAAGTCGACAGGTAAATAAGGGATAAAAAAGTTGGTCGGGA
131 AAAGATAAAAGAAATATCCGAGACCAAGCCGACAGGTAAATAAGGGATAAAAAAGTTGACCGAGA
**
2266501 TTGGACCGACAAGTCAATAAAATATAAAAAGTACTTGGGACCAAGCTGACAGGT
196 TTAAACCGACAAGTCAATAAAATATAAAAAGTACTTGGGACCAAGCTGACAGGT
** * * *
2266555 GAATGAAGGATTAAAAGTTGACC-GAGATTAAACCGACAAGTCAGCAAGGGATAAAGGATTTACT
1 GAATGAAGGACAAAAAGTTGACCAG-GATTAAACCGACAAGTCAACAAGGGATAAAGGAATTACC
* * * * * *
2266619 TGGGGCTAGGCC-GATGGGCAAACAAAGGATAAAGAAGTTGA-TCAGGATTGGACCGAAAAATCA
65 CGGGACTAGGCCAG-CGGGCAAACAAAGGATAAAGAAATTAACT-AGGATTGAACCGAAAAATCA
* * *
2266682 ATAAAAGATAAAAGGAAATA-CCTGGGACCAAGCCTACAGG-AGAATGAA-GGAT-AAAAAGTTG
128 ACAAAAGATAAAA-GAAATATCC-GAGACCAAGCCGACAGGTA-AAT-AAGGGATAAAAAAGTTG
*
2266743 ACCGAGATTAAACTGACAAGTCAA
189 ACCGAGATTAAACCGACAAGTCAA
2266767 CGAGGGATAA
Statistics
Matches: 173, Mismatches: 32, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
248 3 0.02
249 144 0.83
250 24 0.14
251 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (249 bp):
GAATGAAGGACAAAAAGTTGACCAGGATTAAACCGACAAGTCAACAAGGGATAAAGGAATTACCC
GGGACTAGGCCAGCGGGCAAACAAAGGATAAAGAAATTAACTAGGATTGAACCGAAAAATCAACA
AAAGATAAAAGAAATATCCGAGACCAAGCCGACAGGTAAATAAGGGATAAAAAAGTTGACCGAGA
TTAAACCGACAAGTCAATAAAATATAAAAAGTACTTGGGACCAAGCTGACAGGT
Found at i:2266889 original size:417 final size:419
Alignment explanation
Indices: 2266005--2266865 Score: 1122
Period size: 417 Copynumber: 2.1 Consensus size: 419
2265995 GATCGAATTG
*
2266005 ACAAGTCAACAAAAGATAAAAGATTTATCCGGGACTAAGTCGACAGGTAAACAAGGGATAAAGAA
1 ACAAGTCAACAAAAGATAAAAGATTTATCCGGGACTAAGTCGACAGGTAAACAAGGGATAAAAAA
*
2266070 GTTAACCGGGATTGGAAAAATAAGTCAATAAAATATAAAAGGAAGTACCTGGAACCAAGCCCACA
66 GTTAACCGGGATTGGAAAAACAAGTCAATAAAATATAAAA-GAAGTACCTGGAACCAAGCCCACA
* *
2266135 AGTGATTGAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGTCAACGAGGGATAAAGGATTTA
130 AGTGAATGAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGTCAACAAGGGATAAAGGATTTA
* * * * * *
2266200 CCCGGGACTGGGCCGACGAGTAAATAAAGGATAAAAAAGTTGACCGGGATTGGATCAACACATCA
195 CCCGGGACTAGGCCGACGAGCAAACAAAGGATAAAAAAGTTGACCAGGATTGGACCAACAAATCA
* * * *
2266265 ACAAAAGATAAAAGGAAGTACCTAGAACCAAGGCGATAGGGGAATGAAGGACAAAAAGTTGACCA
260 ACAAAAGATAAAAGGAAATACCTAGAACCAAGCCGACAGGAGAATGAAGGACAAAAAGTTGACCA
** ** *
2266330 GGATTAAACTGACAAGTCAACGAGGGATAAAGGAATTACCCGGGACTGGGTCAGCGGGTAAACAA
325 GGATTAAACTGACAAGTCAACGAGGGATAAAGGAATTACCCAAGACTAAGTCAGCGAGTAAACAA
** *
2266395 AGGATAAAGAAATTAACTGGGATTGAACCG
390 AGGATAAAGAAATTAACCAGGATTGAACCA
* *
2266425 ACAAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAGGTAAATAAGGGATAAAAAA
1 ACAAGTCAACAAAAGATAAAAGATTTATCCGGGACTAAGTCGACAGGTAAACAAGGGATAAAAAA
*** *** * * ** *
2266490 GTTGGTCGGGATTGGACCGACAAGTCAATAAAATAT-AAA-AAGTACTTGGGACCAAGCTGACAG
66 GTTAACCGGGATTGGAAAAACAAGTCAATAAAATATAAAAGAAGTACCTGGAACCAAGCCCACAA
* * *
2266553 GTGAATGAAGGATTAAAAGTTGACCGAGATTAAACCGACAAGTCAGCAAGGGATAAAGGATTTAC
131 GTGAATGAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGTCAACAAGGGATAAAGGATTTAC
** * * * * *
2266618 TTGGGGCTAGGCCGATGGGCAAACAAAGGATAAAGAAGTTGATCAGGATTGGACCGAA-AAATCA
196 CCGGGACTAGGCCGACGAGCAAACAAAGGATAAAAAAGTTGACCAGGATTGGACC-AACAAATCA
* * * * *
2266682 ATAAAAGATAAAAGGAAATACCTGGGACCAAGCCTACAGGAGAATGAAGGATAAAAAGTTGACC-
260 ACAAAAGATAAAAGGAAATACCTAGAACCAAGCCGACAGGAGAATGAAGGACAAAAAGTTGACCA
* *
2266746 GAGATTAAACTGACAAGTCAACGAGGGATAAA-GATTTACCCAAGACTAAGTCGGCGAGTAAACA
325 G-GATTAAACTGACAAGTCAACGAGGGATAAAGGAATTACCCAAGACTAAGTCAGCGAGTAAACA
* * *
2266810 AAGGATAAA-AAAGTTGACCAGGATTGGATCA
389 AAGGATAAAGAAA-TTAACCAGGATTGAACCA
* *
2266841 ATAAGTCAACAAAAAATAGAAAGAT
1 ACAAGTCAACAAAAGATA-AAAGAT
2266866 GTACTTGGGA
Statistics
Matches: 380, Mismatches: 57, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
415 3 0.01
416 63 0.17
417 218 0.57
418 2 0.01
419 3 0.01
420 91 0.24
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.17
Consensus pattern (419 bp):
ACAAGTCAACAAAAGATAAAAGATTTATCCGGGACTAAGTCGACAGGTAAACAAGGGATAAAAAA
GTTAACCGGGATTGGAAAAACAAGTCAATAAAATATAAAAGAAGTACCTGGAACCAAGCCCACAA
GTGAATGAAGGATAAAAAGTTGACCAAGATTAAACCGACAAGTCAACAAGGGATAAAGGATTTAC
CCGGGACTAGGCCGACGAGCAAACAAAGGATAAAAAAGTTGACCAGGATTGGACCAACAAATCAA
CAAAAGATAAAAGGAAATACCTAGAACCAAGCCGACAGGAGAATGAAGGACAAAAAGTTGACCAG
GATTAAACTGACAAGTCAACGAGGGATAAAGGAATTACCCAAGACTAAGTCAGCGAGTAAACAAA
GGATAAAGAAATTAACCAGGATTGAACCA
Found at i:2266896 original size:167 final size:164
Alignment explanation
Indices: 2266415--2266902 Score: 541
Period size: 167 Copynumber: 2.9 Consensus size: 164
2266405 AATTAACTGG
* ** * *
2266415 GATTGAACCGACAAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGAC-AGGTAAATAA
1 GATTAAACCGACAAGTCAACAAGGGAT-AAAGATTTACCCGAGACTAAGTCGACGA-GTAAACAA
* * * * *
2266479 GGGATAAAAAAGTTGGTCGGGATTGGACCGACAAGTCAATAAAATATAAAA-AGTACTTGGGACC
64 AGGATAAAAAAGTTGATCAGGATTGGACC-AAAAGTCAATAAAAAATAAAAGAGTACTTGGGACC
* *
2266543 AAGCTGACAGGTGAATGAAGGATTAAAAGTTGACCGA
128 AAGCCGACAGGTGAATGAAGGATAAAAAGTTGACCGA
* ** * * * * * * *
2266580 GATTAAACCGACAAGTCAGCAAGGGATAAAGGATTTACTTGGGGCTAGGCCGATGGGCAAACAAA
1 GATTAAACCGACAAGTCAACAAGGGATAAA-GATTTACCCGAGACTAAGTCGACGAGTAAACAAA
* * * * *
2266645 GGATAAAGAAGTTGATCAGGATTGGACCGAAAAATCAATAAAAGATAAAAGGAAATACCTGGGAC
65 GGATAAAAAAGTTGATCAGGATTGGACC-AAAAGTCAATAAAAAATAAAA-G-AGTACTTGGGAC
* *
2266710 CAAGCCTACAGGAGAATGAAGGATAAAAAGTTGACCGA
127 CAAGCCGACAGGTGAATGAAGGATAAAAAGTTGACCGA
* * * *
2266748 GATTAAACTGACAAGTCAACGAGGGATAAAGATTTACCCAAGACTAAGTCGGCGAGTAAACAAAG
1 GATTAAACCGACAAGTCAACAAGGGATAAAGATTTACCCGAGACTAAGTCGACGAGTAAACAAAG
* * *
2266813 GATAAAAAAGTTGACCAGGATTGGATCAATAAGTCAACAAAAAATAGAAAGATGTACTTGGGACC
66 GATAAAAAAGTTGATCAGGATTGGACCAA-AAGTCAATAAAAAATA-AAAGA-GTACTTGGGACC
2266878 AAGCCGACAGGTGAATGAA-GATAAA
128 AAGCCGACAGGTGAATGAAGGATAAA
2266903 GGTTGATTGA
Statistics
Matches: 263, Mismatches: 52, Indels: 15
0.80 0.16 0.05
Matches are distributed among these distances:
164 3 0.01
165 88 0.33
166 9 0.03
167 89 0.34
168 74 0.28
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.18
Consensus pattern (164 bp):
GATTAAACCGACAAGTCAACAAGGGATAAAGATTTACCCGAGACTAAGTCGACGAGTAAACAAAG
GATAAAAAAGTTGATCAGGATTGGACCAAAAGTCAATAAAAAATAAAAGAGTACTTGGGACCAAG
CCGACAGGTGAATGAAGGATAAAAAGTTGACCGA
Found at i:2267018 original size:84 final size:83
Alignment explanation
Indices: 2266928--2267176 Score: 295
Period size: 84 Copynumber: 3.0 Consensus size: 83
2266918 AATTGACAAA
* * * *
2266928 TCACCATAAGGGTAATGGGCTAACCGAGGACTGAGCCGACAAGTAAACAATGGATGAAAGTTGAC
1 TCACCATAAGGGTAATGGGCT-ACCGAGGATTAAGCCGACAAGTAAACAATAGATGAAGGTTGAC
* *
2266993 CGGAGACTGAGCTGACAGT
65 CGGAGACTAAGCTGACAGG
* * * * *
2267012 TCACCATAAGAGTAATAGGTCTACCGAGGATTAAGCCGGCATGTAAACAATAGATGAAGGTTGAT
1 TCACCATAAGGGTAAT-GGGCTACCGAGGATTAAGCCGACAAGTAAACAATAGATGAAGGTTGAC
2267077 CGGAGACTAAGCTGACAGG
65 CGGAGACTAAGCTGACAGG
* * * * * *
2267096 TCACCATAAGGG--ATGGGTTTTACCGGGGATTAAGCTGATAGGTAAATAATAGATGAAGGTTGA
1 TCACCATAAGGGTAATGGG--CTACCGAGGATTAAGCCGACAAGTAAACAATAGATGAAGGTTGA
2267159 CCGGAGACTAAGCTGACA
64 CCGGAGACTAAGCTGACA
2267177 TGCCATTAAA
Statistics
Matches: 141, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
81 2 0.01
82 2 0.01
83 54 0.38
84 79 0.56
85 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (83 bp):
TCACCATAAGGGTAATGGGCTACCGAGGATTAAGCCGACAAGTAAACAATAGATGAAGGTTGACC
GGAGACTAAGCTGACAGG
Found at i:2267171 original size:41 final size:41
Alignment explanation
Indices: 2267054--2267176 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 41
2267044 AAGCCGGCAT
* *
2267054 GTAAACAATAGATGAAGGTTGATCGGAGACTAAGCTGACAG
1 GTAAATAATAGATGAAGGTTGACCGGAGACTAAGCTGACAG
* ** * * * *
2267095 GTCACCATAAGGGATG--GGTTTTACCGGGGATTAAGCTGATAG
1 GT-A-AATAATAGATGAAGG-TTGACCGGAGACTAAGCTGACAG
2267137 GTAAATAATAGATGAAGGTTGACCGGAGACTAAGCTGACA
1 GTAAATAATAGATGAAGGTTGACCGGAGACTAAGCTGACA
2267177 TGCCATTAAA
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
40 8 0.13
41 23 0.38
42 23 0.38
43 7 0.11
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (41 bp):
GTAAATAATAGATGAAGGTTGACCGGAGACTAAGCTGACAG
Found at i:2267707 original size:85 final size:85
Alignment explanation
Indices: 2267485--2267939 Score: 334
Period size: 85 Copynumber: 5.4 Consensus size: 85
2267475 CAGACAGGTT
* * * * * * *
2267485 GATAAAGGAAGTCTCTCGGGTCTAAGCTGACGGGTAGACGGTGGAT-GAAGAAGTCTACT-AAGT
1 GATAAA-GAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGATTGATAAAAGAAGTCT-CTCGAGG
* **
2267548 CTAAGCTAACGGGCAGACGGTG
64 CTAAGCTGACGGGCAGACTATG
* * *
2267570 GATAAAGAA-TCTCCCGGGTCTAAGCCGACGGGTAGAC-AGTTGATAAAGGAAGTCTCTCGAGGC
1 GATAAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGA-TTGATAAAAGAAGTCTCTCGAGGC
*
2267633 TAAACTGACGGGCAGACTATG
65 TAAGCTGACGGGCAGACTATG
* * * **
2267654 GATAAAGAAGTCTCTCTAGTCTAAGCCGACGGGCAGACGATTGATAAAAGAAGTCTCCCGAGATT
1 GATAAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGATTGATAAAAGAAGTCTCTCGAGGCT
* *
2267719 AAGGC-GACGGGCAAACAATG
66 AA-GCTGACGGGCAGACTATG
* * * * ** * * *
2267739 GATGAAA-AAGTTTCCCGAGTTTAAGTCGACACGCAAACGATTGATAAAGGAAGTCTCTC-AGGA
1 GAT-AAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGATTGATAAAAGAAGTCTCTCGAGG-
* * * *
2267802 CTGAGCCGATGGGCA-AATAATG
64 CTAAGCTGACGGGCAGACT-ATG
* * * * * *
2267824 GATGAAGAAGTCTCTCGAGTCTAAGCCGATGGGTAGACGATTAAT-AAAGAAGTCTCCCAAGTCT
1 GATAAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGATTGATAAAAGAAGTCTCTCGAGGCT
* ** * * *
2267888 GAGCCAATGGGTAGACGATG
66 AAGCTGACGGGCAGACTATG
* * *
2267908 GTTGAAGAAGTCTCCCCGAGTCTAAGCCGACG
1 GATAAAGAAGTCT-CTCGAGTCTAAGCCGACG
2267940 AGCAGATTTA
Statistics
Matches: 296, Mismatches: 60, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
83 32 0.11
84 86 0.29
85 173 0.58
86 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (85 bp):
GATAAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGATTGATAAAAGAAGTCTCTCGAGGCT
AAGCTGACGGGCAGACTATG
Found at i:2267887 original size:42 final size:42
Alignment explanation
Indices: 2267306--2267945 Score: 339
Period size: 42 Copynumber: 15.1 Consensus size: 42
2267296 TGAGTGGACA
* ** *
2267306 GGCAGACGATGGGTGAAA-AAGTCT-CCGAGGTCTAAGCTAACA
1 GGCAGACGATGGAT-AAAGAAGTCTCCCGA-GTCTAAGCCGACG
* * ** * * * *
2267348 GCCAGATGAAAGATAAAGAAGTCTCTCGGGTCTAAGTCAACG
1 GGCAGACGATGGATAAAGAAGTCTCCCGAGTCTAAGCCGACG
* * * * *
2267390 AGCAGACGGTTGATAAAGGAAGTCTCCC-AGGACTAAGCCGATG
1 GGCAGACGATGGATAAA-GAAGTCTCCCGA-GTCTAAGCCGACG
* *** ** * *
2267433 GGCAGACAAAAAATGAAA-AAGT-T-TAGGGTCTAAGCCGATG
1 GGCAGACGATGGAT-AAAGAAGTCTCCCGAGTCTAAGCCGACG
* * * * *
2267473 GGCAGACAGGTTGATAAAGGAAGTCTCTCGGGTCTAAGCTGACG
1 GGCAGAC-GATGGATAAA-GAAGTCTCCCGAGTCTAAGCCGACG
* * * * ** **
2267517 GGTAGACGGTGGATGAAGAAGTCTACTAAGTCTAAGCTAACG
1 GGCAGACGATGGATAAAGAAGTCTCCCGAGTCTAAGCCGACG
* *
2267559 GGCAGACGGTGGATAAAGAA-TCTCCCGGGTCTAAGCCGACG
1 GGCAGACGATGGATAAAGAAGTCTCCCGAGTCTAAGCCGACG
* * * * * *
2267600 GGTAGAC-AGTTGATAAAGGAAGTCTCTCGAGGCTAAACTGACG
1 GGCAGACGA-TGGATAAA-GAAGTCTCCCGAGTCTAAGCCGACG
* * *
2267643 GGCAGACTATGGATAAAGAAGTCTCTCTAGTCTAAGCCGACG
1 GGCAGACGATGGATAAAGAAGTCTCCCGAGTCTAAGCCGACG
* *
2267685 GGCAGACGATTGATAAAAGAAGTCTCCCGAGAT-TAAGGCGACG
1 GGCAGACGATGGAT-AAAGAAGTCTCCCGAG-TCTAAGCCGACG
* * * * * *
2267728 GGCAAACAATGGATGAAA-AAGTTTCCCGAGTTTAAGTCGACA
1 GGCAGACGATGGAT-AAAGAAGTCTCCCGAGTCTAAGCCGACG
* * * * * * *
2267770 CGCAAACGATTGATAAAGGAAGTCTCTC-AGGACTGAGCCGATG
1 GGCAGACGATGGATAAA-GAAGTCTCCCGA-GTCTAAGCCGACG
* ** * * *
2267813 GGCAAATAATGGATGAAGAAGTCTCTCGAGTCTAAGCCGATG
1 GGCAGACGATGGATAAAGAAGTCTCCCGAGTCTAAGCCGACG
* ** * * * *
2267855 GGTAGACGATTAATAAAGAAGTCTCCCAAGTCTGAGCCAATG
1 GGCAGACGATGGATAAAGAAGTCTCCCGAGTCTAAGCCGACG
* * *
2267897 GGTAGACGATGGTTGAAGAAGTCTCCCCGAGTCTAAGCCGACG
1 GGCAGACGATGGATAAAGAAGTCT-CCCGAGTCTAAGCCGACG
*
2267940 AGCAGA
1 GGCAGA
2267946 TTTAAGGGCG
Statistics
Matches: 453, Mismatches: 122, Indels: 45
0.73 0.20 0.07
Matches are distributed among these distances:
40 22 0.05
41 38 0.08
42 220 0.49
43 148 0.33
44 25 0.06
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (42 bp):
GGCAGACGATGGATAAAGAAGTCTCCCGAGTCTAAGCCGACG
Found at i:2267928 original size:170 final size:170
Alignment explanation
Indices: 2267609--2267938 Score: 389
Period size: 170 Copynumber: 1.9 Consensus size: 170
2267599 GGGTAGACAG
* * *
2267609 TTGATAAAGGAAGTCTCTCGAGGCTAAACTGACGGGCAGACTATGGATAAAGAAGTCTCTCTAGT
1 TTGATAAAGGAAGTCTCTCGAGGCTAAACCGACGGGCAGAATATGGATAAAGAAGTCTCTCGAGT
* * * *
2267674 CTAAGCCGACGGGCAGACGATTGATAAAAGAAGTCTCCCGAGATTAAGGCGACGGGCAAACAATG
66 CTAAGCCGACGGGCAGACGATTAATAAAAGAAGTCTCCCAAGATTAAGCCAACGGGCAAACAATG
* * *
2267739 GATGAAAAAGTTTCCCGAGTTTAAGTCGACACGCAAACGA
131 GATGAAAAAGTTCCCCGAGTCTAAGCCGACACGCAAACGA
* * * *
2267779 TTGATAAAGGAAGTCTCTC-AGGACTGAGCCGATGGGCA-AATAATGGATGAAGAAGTCTCTCGA
1 TTGATAAAGGAAGTCTCTCGAGG-CTAAACCGACGGGCAGAAT-ATGGATAAAGAAGTCTCTCGA
* * * * * * *
2267842 GTCTAAGCCGATGGGTAGACGATTAAT-AAAGAAGTCTCCCAAG-TCTGAGCCAATGGGTAGACG
64 GTCTAAGCCGACGGGCAGACGATTAATAAAAGAAGTCTCCCAAGAT-TAAGCCAACGGGCAAACA
* *
2267905 ATGGTTGAAGAAGTCTCCCCGAGTCTAAGCCGAC
128 ATGGATGAAAAAGT-TCCCCGAGTCTAAGCCGAC
2267939 GAGCAGATTT
Statistics
Matches: 133, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
168 1 0.01
169 43 0.32
170 89 0.67
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (170 bp):
TTGATAAAGGAAGTCTCTCGAGGCTAAACCGACGGGCAGAATATGGATAAAGAAGTCTCTCGAGT
CTAAGCCGACGGGCAGACGATTAATAAAAGAAGTCTCCCAAGATTAAGCCAACGGGCAAACAATG
GATGAAAAAGTTCCCCGAGTCTAAGCCGACACGCAAACGA
Found at i:2268027 original size:43 final size:43
Alignment explanation
Indices: 2267941--2268190 Score: 251
Period size: 43 Copynumber: 5.9 Consensus size: 43
2267931 AAGCCGACGA
* *
2267941 GCAGATTTAAGGGCG-AGAAGTCTCT-GGGTCAAAGTCGACAG
1 GCAGACTTAAGGGCGAAGAAGTCTCTAGGGTCAAAGTCGATAG
* *
2267982 GCAAACTTAAGGGCAAAGAAGTCTCTAGGGTCAAAG-CTGATAG
1 GCAGACTTAAGGGCGAAGAAGTCTCTAGGGTCAAAGTC-GATAG
* * * * *
2268025 GCAGACTTAAAGGTGAAGAAGTCTCCAAGGTCAAAGTCGACAG
1 GCAGACTTAAGGGCGAAGAAGTCTCTAGGGTCAAAGTCGATAG
* * * *
2268068 GCAGACTTAAGCGG-GACGAAGTCTCTAAGGTCAAAATCGATAA
1 GCAGACTTAAG-GGCGAAGAAGTCTCTAGGGTCAAAGTCGATAG
* * * * *
2268111 GCAGACTTAAGGGGGAAAAAGTCTCCAGGGCCATA-TCCGATAG
1 GCAGACTTAAGGGCGAAGAAGTCTCTAGGGTCAAAGT-CGATAG
*
2268154 GTAGACTTAAGGGCGAAGAAGTCTGC-AGGGTCAAAGT
1 GCAGACTTAAGGGCGAAGAAGTCT-CTAGGGTCAAAGT
2268191 TGACAAGCAG
Statistics
Matches: 171, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
41 12 0.07
42 14 0.08
43 140 0.82
44 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (43 bp):
GCAGACTTAAGGGCGAAGAAGTCTCTAGGGTCAAAGTCGATAG
Found at i:2268153 original size:129 final size:127
Alignment explanation
Indices: 2267910--2268205 Score: 301
Period size: 129 Copynumber: 2.3 Consensus size: 127
2267900 AGACGATGGT
** * * * *
2267910 TGAAGAAGTCTCCCCGAGTCTAAGCCGAC-GAGCAGATTTAAGGGCGAGAAGTCTCTGGGTCAAA
1 TGAAGAAGTCTCCAAG-GTCAAAGTCGACAG-GCAGACTTAAGGGCGAGAAGTCTCTAGGTCAAA
* * * * *
2267974 GTCGACAGGCAAACTTAAGGGCAAAGAAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTAAAGG
64 ATCGACAAGCAAACTTAAGGGCAAAGAAGTCTCCAGGGCCAAAGCCGATAGGCAGACTTAAAGG
2268038 TGAAGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAAGCGG-GACGAAGTCTCTAAGGTCAA
1 TGAAGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAAG-GGCGA-GAAGTCTCT-AGGTCAA
* * * * * * *
2268102 AATCGATAAGCAGACTTAAGGGGGAAA-AAGTCTCCAGGGCCATATCCGATAGGTAGACTTAAGG
63 AATCGACAAGCAAACTTAA-GGGCAAAGAAGTCTCCAGGGCCAAAGCCGATAGGCAGACTTAAAG
2268166 G
127 G
* * * * *
2268167 CGAAGAAGTCTGCAGGGTCAAAGTTGACAAGCAGGACTT
1 TGAAGAAGTCTCCAAGGTCAAAGTCGACAGGCA-GACTT
2268206 GAGATGAAGC
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
127 22 0.16
128 26 0.19
129 80 0.58
130 11 0.08
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (127 bp):
TGAAGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTTAAGGGCGAGAAGTCTCTAGGTCAAAAT
CGACAAGCAAACTTAAGGGCAAAGAAGTCTCCAGGGCCAAAGCCGATAGGCAGACTTAAAGG
Found at i:2268304 original size:42 final size:42
Alignment explanation
Indices: 2268254--2268353 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
2268244 ACGAAAAGCA
* *
2268254 AAAG-AGTCTCCCGGGTCAAAGTC-GATGGGCAAATGATAGAT
1 AAAGAAGTCTCCCGGGTCAAAG-CAGATGGGCAAATAAAAGAT
* * * * * *
2268295 AAAGAAGTCTCTCGAGCCTAAGCAGATGGGTAGATAAAAGAT
1 AAAGAAGTCTCCCGGGTCAAAGCAGATGGGCAAATAAAAGAT
2268337 AAAGAAGTCTCCCGGGT
1 AAAGAAGTCTCCCGGGT
2268354 TTGAGCCAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 5 0.11
42 41 0.89
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (42 bp):
AAAGAAGTCTCCCGGGTCAAAGCAGATGGGCAAATAAAAGAT
Found at i:2268366 original size:42 final size:43
Alignment explanation
Indices: 2268320--2268420 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
2268310 GCCTAAGCAG
* * *
2268320 ATGGGTAGATAAAAGAT-AAAGAAGTCTCCCGGGTTTGAGCCA
1 ATGGGCAGACAAAAGATAAAAAAAGTCTCCCGGGTTTGAGCCA
* * *
2268362 ATGGGCAGACAAAGGGTAAAAAAAGTCTCCCGGGTTTGAGCCG
1 ATGGGCAGACAAAAGATAAAAAAAGTCTCCCGGGTTTGAGCCA
*
2268405 ACGGGCAGACAAAAGA
1 ATGGGCAGACAAAAGA
2268421 CCAAAAGCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 13 0.27
43 36 0.73
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.16
Consensus pattern (43 bp):
ATGGGCAGACAAAAGATAAAAAAAGTCTCCCGGGTTTGAGCCA
Found at i:2268563 original size:44 final size:44
Alignment explanation
Indices: 2268498--2268652 Score: 197
Period size: 44 Copynumber: 3.5 Consensus size: 44
2268488 ATGCAAATTG
* *
2268498 TTTGACCAGAGTGGTAGCCATACGTCAAATCGAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAA
* * * *
2268542 TCTGACCAGGGTGGTAACCATACGTCAGAT-AAGAATGAAGCAG-A
1 TTTGACCAGGGTGGTAACCATACGTCAAATCGA-AATGAA-AAGAA
* * *
2268586 TTTGACTAGGGTGGTAACCATACTTTAAATCGAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAA
2268630 TTTGACCAGGGTGGTAACCATAC
1 TTTGACCAGGGTGGTAACCATAC
2268653 ATCAGACAGG
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
43 3 0.03
44 87 0.94
45 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAA
Found at i:2268678 original size:44 final size:42
Alignment explanation
Indices: 2268498--2268679 Score: 116
Period size: 44 Copynumber: 4.1 Consensus size: 42
2268488 ATGCAAATTG
* * * * *
2268498 TTTGACCAGAGTGGTAGCCATACGTCA-AATCGAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAGAA-AGAAA-GAGAAG-A
* * * *
2268542 TCTGACCAGGGTGGTAACCATACGTCAGATAAGAATGAAGCAGA
1 TTTGACCAGGGTGGTAACCATACATCAGA-AAGAAAG-AGAAGA
* * * * *
2268586 TTTGACTAGGGTGGTAACCATACTTTA-AATCGAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAGAA-AGAAA-GAGAAG-A
* *
2268630 TTTGACCAGGGTGGTAACCATACATCAGACAGGAAAGAGGAGA
1 TTTGACCAGGGTGGTAACCATACATCAGA-AAGAAAGAGAAGA
2268673 GTTTGAC
1 -TTTGAC
2268680 TAGGCCCTAA
Statistics
Matches: 108, Mismatches: 21, Indels: 18
0.73 0.14 0.12
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 85 0.79
45 12 0.11
46 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (42 bp):
TTTGACCAGGGTGGTAACCATACATCAGAAAGAAAGAGAAGA
Found at i:2268678 original size:88 final size:89
Alignment explanation
Indices: 2268497--2268683 Score: 261
Period size: 88 Copynumber: 2.1 Consensus size: 89
2268487 AATGCAAATT
* * *
2268497 GTTTGACCAGAGTGGTAGCCATACGTCAAATCGAAATGAAAAGAATCTGACCAGGGTGGTAACCA
1 GTTTGACTAGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAATCTGACCAGGGTGGTAACCA
* * *
2268562 TACGTCAGATAAGAATGAAGCAGA
66 TACATCAGACAAGAAAGAAGCAGA
* * *
2268586 -TTTGACTAGGGTGGTAACCATACTTTAAATCGAAATGAAAAGAATTTGACCAGGGTGGTAACCA
1 GTTTGACTAGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAATCTGACCAGGGTGGTAACCA
* *
2268650 TACATCAGACAGGAAAG-AGGAGA
66 TACATCAGACAAGAAAGAAGCAGA
2268673 GTTTGACTAGG
1 GTTTGACTAGG
2268684 CCCTAACACT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
87 5 0.06
88 81 0.94
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.21
Consensus pattern (89 bp):
GTTTGACTAGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAATCTGACCAGGGTGGTAACCA
TACATCAGACAAGAAAGAAGCAGA
Found at i:2268824 original size:36 final size:36
Alignment explanation
Indices: 2268750--2268824 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
2268740 TAATATGGTT
* * *
2268750 AAACGAGGGAAGAAAAGAGTTTGGCCAGGTATAGTC
1 AAACGAGAGAAGAAAAGAGTTTGGACAGGTATAATC
* *
2268786 AAACGAGAGATGAAAAGAGTTT-GACTGGATATAATC
1 AAACGAGAGAAGAAAAGAGTTTGGACAGG-TATAATC
2268822 AAA
1 AAA
2268825 TAATGGTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (36 bp):
AAACGAGAGAAGAAAAGAGTTTGGACAGGTATAATC
Found at i:2272455 original size:21 final size:21
Alignment explanation
Indices: 2272422--2272471 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2272412 TTGCAAGTTG
*
2272422 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2272444 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2272465 AAATAAA
1 AAATAAA
2272472 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2274291 original size:15 final size:15
Alignment explanation
Indices: 2274271--2274301 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2274261 TAAAAATGTC
*
2274271 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2274286 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2274301 C
1 C
2274302 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2276547 original size:20 final size:20
Alignment explanation
Indices: 2276504--2276549 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2276494 AAATCTTTTG
2276504 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2276525 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2276545 CAAAA
1 CAAAA
2276550 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2278867 original size:20 final size:19
Alignment explanation
Indices: 2278812--2278867 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2278802 AAAACCCTTA
*
2278812 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
2278832 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
2278852 AATGTATCGATACATG
1 AAAGTATCGATACATG
2278868 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:2280449 original size:29 final size:26
Alignment explanation
Indices: 2280405--2280457 Score: 70
Period size: 29 Copynumber: 1.9 Consensus size: 26
2280395 CTATCTGCAC
2280405 TTTTCTTTTTCATTTCATGTTTTTTCCT
1 TTTTCTTTTTCATTTC-T-TTTTTTCCT
*
2280433 TTTTCCTTTTTCTTTTCTTTTTTTC
1 TTTT-CTTTTTCATTTCTTTTTTTC
2280458 ATCTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 7 0.30
28 5 0.22
29 11 0.48
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTCTTTTTCATTTCTTTTTTTCCT
Found at i:2281762 original size:20 final size:20
Alignment explanation
Indices: 2281736--2281790 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
2281726 CTACCAATTT
*
2281736 CATGTATCGATACAATTGGG
1 CATGTATCGATACAATTGAG
*
2281756 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
2281775 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2281791 ATATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:2287007 original size:170 final size:167
Alignment explanation
Indices: 2286461--2287057 Score: 511
Period size: 164 Copynumber: 3.6 Consensus size: 167
2286451 AAAAGTAAAT
* ** * ** * **
2286461 TAAATTTTTAAAAACTGAATTAATAAGAGTTTAATAATGATATTAGAT-ACATTTTAAAAATTTT
1 TAAATTTTTAAAAACTAAATTAATAAGAAATAAATAACAATATTTGATGA-ATTTTAAAAATTGA
* ** * * * *
2286525 AAACTTAA-AAAAAT-TTCTCTAAAAAAATTTATGGAGAA-AAAAAATCGTATTTT--AGAAAAA
65 AAAC-CAAGAAAAATCCCCTC-GAAAAAATTTACGGAGAAGAAAACATCGTATTTTAAAAAAAAA
** * * *
2286585 AAAATTTCAAG-GAAAAAAATCCAAAACTCAAGAAATTAAA
128 AAAATTTCAAGAG-AAAAAATTAAAAACTCATGAAAATGAA
** * * * ** *
2286625 TTTATTTTTTAAAAC-AGAATTAATATGAAACAAATAATGATGTTTGATGAATTTTAAAAATTGA
1 TAAATTTTTAAAAACTA-AATTAATAAGAAATAAATAACAATATTTGATGAATTTTAAAAATTGA
* * * * **
2286689 AAACCAAAAAAAATCCCCTCGAAAAAATTT---GAGAAGAAAATATTGTATTTTAAAGAAAGGAA
65 AAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGAAGAAAACATCGTATTTTAAAAAAAAAAA
*
2286751 AATTTCAAGAGAAAAAATTTAAAACTCATGAAAATGAA
130 AATTTCAAGAGAAAAAATTAAAAACTCATGAAAATGAA
** * * ** * *
2286789 TTTATTTTTTAAAACTGAATTAATAAGAAATAAATAATGATGTTTGATGAATTTCAAAAATTGAA
1 TAAATTTTTAAAAACTAAATTAATAAGAAATAAATAACAATATTTGATGAATTTTAAAAATTGAA
* *
2286854 AACCAAGAAACATCCCCTCGAAAAAATTTACGGAGTAGAAAACATCGTATTTTAGAAAAAAAAAA
66 AACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGAAGAAAACATCGTATTTT--AAAAAAAAAA
*
2286919 AGGAATTTCAA-AG-AAAAATTCAAAAACTGATGAAAATGAA
129 A--AATTTCAAGAGAAAAAATT-AAAAACTCATGAAAATGAA
** *
2286959 TAAATTTTTAAAAACTAAATTAATTTGAAATAAATGACAATATTTGATGAATTTTAAAAATT-AT
1 TAAATTTTTAAAAACTAAATTAATAAGAAATAAATAACAATATTTGATGAATTTTAAAAATTGA-
** * *
2287023 AAATTAAGAAAAATCCTCTCAAAAAAATTTACGGA
65 AAACCAAGAAAAATCCCCTCGAAAAAATTTACGGA
2287058 TAAAAAAATC
Statistics
Matches: 359, Mismatches: 56, Indels: 30
0.81 0.13 0.07
Matches are distributed among these distances:
161 5 0.01
162 13 0.04
163 2 0.01
164 192 0.53
165 5 0.01
167 18 0.05
169 16 0.04
170 100 0.28
171 8 0.02
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (167 bp):
TAAATTTTTAAAAACTAAATTAATAAGAAATAAATAACAATATTTGATGAATTTTAAAAATTGAA
AACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGAAGAAAACATCGTATTTTAAAAAAAAAAAA
ATTTCAAGAGAAAAAATTAAAAACTCATGAAAATGAA
Found at i:2288765 original size:21 final size:21
Alignment explanation
Indices: 2288724--2288767 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2288714 CTCCCCTTTA
* *
2288724 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2288745 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2288766 TC
1 TC
2288768 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2290591 original size:13 final size:13
Alignment explanation
Indices: 2290573--2290611 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2290563 ATAATCACCC
2290573 TGTATCGATACAA
1 TGTATCGATACAA
2290586 TGTATCGATACAA
1 TGTATCGATACAA
2290599 TGTATCGATACAA
1 TGTATCGATACAA
2290612 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2292710 original size:15 final size:15
Alignment explanation
Indices: 2292690--2292720 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2292680 TTTTCGTTTG
*
2292690 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2292705 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2292720 G
1 G
2292721 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2294553 original size:21 final size:21
Alignment explanation
Indices: 2294524--2294568 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2294514 AAGTTTTCAT
*
2294524 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2294544 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2294566 TTT
1 TTT
2294569 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2298694 original size:35 final size:35
Alignment explanation
Indices: 2298650--2298874 Score: 147
Period size: 35 Copynumber: 6.4 Consensus size: 35
2298640 AAAAACCTTT
* **
2298650 TCAATAAAAGCTTTTAAAGGCTCTAAAAAATATCC
1 TCAAGAAAAGCTTTTAAAATCTCTAAAAAATATCC
* * * * *
2298685 TCAAGAAAAG-TTAGTGAAATCTTTAAGAAAACATCT
1 TCAAGAAAAGCTT-TTAAAATCTCTAA-AAAATATCC
* * * *
2298721 TTAAGAGAGGTTTTTAAAGA-CTC-AAGAAAATATCC
1 TCAAGAAAAGCTTTTAAA-ATCTCTAA-AAAATATCC
* * * * *
2298756 TCCAGAGAGGCCTTTAAAATCTCTAAAAAAAATCC
1 TCAAGAAAAGCTTTTAAAATCTCTAAAAAATATCC
*
2298791 TCAA-AAAAGCTTTGAAACAT-TCTAAAAAATATCC
1 TCAAGAAAAGCTTTTAAA-ATCTCTAAAAAATATCC
* * * * *
2298825 TCAAAAAAAGCTTATAAAATCTCAAAAAAATGTCT
1 TCAAGAAAAGCTTTTAAAATCTCTAAAAAATATCC
2298860 TCAAGAGAAA-CTTTT
1 TCAAGA-AAAGCTTTT
2298875 GGAAACCATG
Statistics
Matches: 146, Mismatches: 34, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
34 31 0.21
35 88 0.60
36 24 0.16
37 3 0.02
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (35 bp):
TCAAGAAAAGCTTTTAAAATCTCTAAAAAATATCC
Found at i:2298852 original size:34 final size:33
Alignment explanation
Indices: 2298767--2298854 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 33
2298757 CCAGAGAGGC
2298767 CTTTAAAATCTCTAAAAAAAATCCTCAAAAAAG
1 CTTTAAAATCTCTAAAAAAAATCCTCAAAAAAG
*
2298800 CTTTGAAACAT-TCTAAAAAATATCCTCAAAAAAAG
1 CTTT-AAA-ATCTCTAAAAAAAATCCTC-AAAAAAG
2298835 CTTATAAAATCTC-AAAAAAA
1 CTT-TAAAATCTCTAAAAAAA
2298855 TGTCTTCAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
33 4 0.08
34 26 0.54
35 17 0.35
36 1 0.02
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (33 bp):
CTTTAAAATCTCTAAAAAAAATCCTCAAAAAAG
Found at i:2302209 original size:23 final size:22
Alignment explanation
Indices: 2302161--2302217 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
2302151 TTTTTTATTT
2302161 TTTATTTTA-TTTTAAAAATTA
1 TTTATTTTATTTTTAAAAATTA
* *
2302182 TTTATTTGATTTTTAAATAGTTA
1 TTTATTTTATTTTTAAA-AATTA
2302205 TTTATTTTATTTT
1 TTTATTTTATTTT
2302218 ACTTTGCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 8 0.26
22 7 0.23
23 16 0.52
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATTTTATTTTTAAAAATTA
Found at i:2302311 original size:24 final size:22
Alignment explanation
Indices: 2302277--2302337 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
2302267 ATTCATTAAG
*
2302277 TTATTAAATTTAATTAATAATAAT
1 TTATTATATTT-ATTAA-AATAAT
*
2302301 TTATTATATTT-TTAAAATATT
1 TTATTATATTTATTAAAATAAT
2302322 TGTATATATATTTATT
1 T-TAT-TATATTTATT
2302338 TGATGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.19
22 7 0.22
23 7 0.22
24 12 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTATATTTATTAAAATAAT
Found at i:2302500 original size:17 final size:17
Alignment explanation
Indices: 2302457--2302500 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
2302447 TTATTAAAAA
*
2302457 ATTTAAAAATAAATTAT
1 ATTTAAAAATAAATAAT
** *
2302474 AAATATAAATAAATAAT
1 ATTTAAAAATAAATAAT
2302491 ATTTAAAAAT
1 ATTTAAAAAT
2302501 TATAAATAAA
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAAATAAATAAT
Found at i:2302524 original size:20 final size:20
Alignment explanation
Indices: 2302463--2302524 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
2302453 AAAAATTTAA
* *
2302463 AAATAAATTATAAATATAAAT
1 AAATAAATTTTAAATA-ATAT
2302484 AAAT-AATATTTAAA-AATTAT
1 AAATAAAT-TTTAAATAA-TAT
2302504 AAATAAATTTTAAATAATAT
1 AAATAAATTTTAAATAATAT
2302524 A
1 A
2302525 TCAAAACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 1 0.03
20 20 0.57
21 14 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAAATTTTAAATAATAT
Found at i:2305824 original size:18 final size:18
Alignment explanation
Indices: 2305797--2305849 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 18
2305787 TAAAAAATTT
* *
2305797 TAATATAATTTTCATGTG
1 TAATAAAATTTTCACGTG
*
2305815 TAATAAAATTTTTAAAACGTG
1 TAATAAAA-TTTT--CACGTG
2305836 TAATAAAATTTTCA
1 TAATAAAATTTTCA
2305850 AAACGTACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 8 0.29
19 4 0.14
20 4 0.14
21 12 0.43
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (18 bp):
TAATAAAATTTTCACGTG
Found at i:2305838 original size:21 final size:21
Alignment explanation
Indices: 2305812--2305855 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2305802 TAATTTTCAT
*
2305812 GTGTAATAAAATTTTTAAAAC
1 GTGTAATAAAATTTTCAAAAC
2305833 GTGTAATAAAATTTTCAAAAC
1 GTGTAATAAAATTTTCAAAAC
2305854 GT
1 GT
2305856 ACATGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (21 bp):
GTGTAATAAAATTTTCAAAAC
Found at i:2306704 original size:21 final size:21
Alignment explanation
Indices: 2306657--2306703 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2306647 AGAAAATTAG
* *
2306657 TTAAAATTATATTCATTGTAA
1 TTAAAATTAAATTCAATGTAA
2306678 TTAAAATTAAATTCAATG-AA
1 TTAAAATTAAATTCAATGTAA
2306698 TTAAAA
1 TTAAAA
2306704 AAATTAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
TTAAAATTAAATTCAATGTAA
Found at i:2308167 original size:28 final size:28
Alignment explanation
Indices: 2308125--2308193 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 28
2308115 ATATTATATT
*
2308125 AAATTCAATTAATGAAGATGAATGAGATA
1 AAATT-AATTGATGAAGATGAATGAGATA
*
2308154 AAATTAATTGATGAAGATGAATGATATA
1 AAATTAATTGATGAAGATGAATGAGATA
2308182 AAATTAATTGAT
1 AAATTAATTGAT
2308194 TAAATTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.51, C:0.01, G:0.16, T:0.32
Consensus pattern (28 bp):
AAATTAATTGATGAAGATGAATGAGATA
Found at i:2309687 original size:18 final size:16
Alignment explanation
Indices: 2309643--2309707 Score: 62
Period size: 16 Copynumber: 4.0 Consensus size: 16
2309633 ATTATAATCG
* *
2309643 TATTTAAGATATTTTA
1 TATTTAATAAATTTTA
2309659 TATTTATATAAATTTTGA
1 TATTTA-ATAAATTTT-A
2309677 TATATTAAT-AA-TTTA
1 TAT-TTAATAAATTTTA
*
2309692 TATTAAATAAATTTTA
1 TATTTAATAAATTTTA
2309708 AAATATGTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
14 4 0.10
15 6 0.15
16 13 0.32
17 9 0.22
18 6 0.15
19 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TATTTAATAAATTTTA
Found at i:2312360 original size:19 final size:20
Alignment explanation
Indices: 2312336--2312387 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2312326 TTTAACTATT
2312336 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGATCAA-A
2312355 TGTATCGATACATGATCAAA
1 TGTATCGATACATGATCAAA
2312375 TGTATCGATACAT
1 TGTATCGATACAT
2312388 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGATCAAA
Found at i:2318569 original size:13 final size:13
Alignment explanation
Indices: 2318551--2318589 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2318541 ACAGCATTCT
2318551 TTGTATCGATACA
1 TTGTATCGATACA
2318564 TTGTATCGATACA
1 TTGTATCGATACA
*
2318577 GTGTATCGATACA
1 TTGTATCGATACA
2318590 AAGGGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2320736 original size:23 final size:23
Alignment explanation
Indices: 2320710--2320757 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2320700 AAAGGGGGAG
* *
2320710 ATTGTTAGGATCTTGGTTTTAAT
1 ATTGTTAGGATATTGATTTTAAT
*
2320733 ATTGTTAGGATATTGATTTTGAT
1 ATTGTTAGGATATTGATTTTAAT
2320756 AT
1 AT
2320758 AACAAAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (23 bp):
ATTGTTAGGATATTGATTTTAAT
Found at i:2321147 original size:13 final size:13
Alignment explanation
Indices: 2321129--2321154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2321119 ACACCAAAGT
2321129 ATGTATCGATACA
1 ATGTATCGATACA
2321142 ATGTATCGATACA
1 ATGTATCGATACA
2321155 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2321152 original size:33 final size:33
Alignment explanation
Indices: 2321110--2321174 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2321100 TAGCCAAACT
* *
2321110 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2321143 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2321175 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2327342 original size:13 final size:13
Alignment explanation
Indices: 2327324--2327360 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2327314 ACATTTTTCT
2327324 TTGTATCGATACA
1 TTGTATCGATACA
2327337 TTGTATCGATACA
1 TTGTATCGATACA
*
2327350 CTGTATCGATA
1 TTGTATCGATA
2327361 TAGGGGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2327526 original size:20 final size:20
Alignment explanation
Indices: 2327483--2327528 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2327473 AAATCTTTTG
2327483 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2327504 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2327524 CAAAA
1 CAAAA
2327529 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2329494 original size:23 final size:23
Alignment explanation
Indices: 2329452--2329499 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2329442 AAAGGGGGAG
*
2329452 ATTGTTAGGATCTCGGTTTTAAT
1 ATTGTTAGGATCTCGATTTTAAT
* *
2329475 ATTGTTAGGATCTTGATTTTGAT
1 ATTGTTAGGATCTCGATTTTAAT
2329498 AT
1 AT
2329500 AACAAAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (23 bp):
ATTGTTAGGATCTCGATTTTAAT
Found at i:2329888 original size:13 final size:13
Alignment explanation
Indices: 2329870--2329895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2329860 ACACCAAAGT
2329870 ATGTATCGATACA
1 ATGTATCGATACA
2329883 ATGTATCGATACA
1 ATGTATCGATACA
2329896 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2329893 original size:33 final size:33
Alignment explanation
Indices: 2329851--2329915 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2329841 TAGCCAAACT
* *
2329851 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2329884 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2329916 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2330976 original size:33 final size:32
Alignment explanation
Indices: 2330938--2331000 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
2330928 CACCTTCAGA
*
2330938 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
2330971 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
2331001 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:2330977 original size:13 final size:13
Alignment explanation
Indices: 2330959--2330983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2330949 ATAATGCACA
2330959 GTATCGATACATT
1 GTATCGATACATT
2330972 GTATCGATACAT
1 GTATCGATACAT
2330984 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2333818 original size:16 final size:17
Alignment explanation
Indices: 2333797--2333830 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2333787 TTTATGATTA
2333797 TTAA-TTTTAATTTTTT
1 TTAATTTTTAATTTTTT
*
2333813 TTAATTTTTGATTTTTT
1 TTAATTTTTAATTTTTT
2333830 T
1 T
2333831 GATTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTAATTTTTAATTTTTT
Found at i:2334436 original size:20 final size:21
Alignment explanation
Indices: 2334411--2334450 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2334401 TGTTGTTTGT
2334411 TGATATGATGTT-ATTTTTTC
1 TGATATGATGTTGATTTTTTC
*
2334431 TGATATGATTTTGATTTTTT
1 TGATATGATGTTGATTTTTT
2334451 TCATATAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.03, G:0.15, T:0.62
Consensus pattern (21 bp):
TGATATGATGTTGATTTTTTC
Found at i:2334456 original size:20 final size:20
Alignment explanation
Indices: 2334413--2334456 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2334403 TTGTTTGTTG
*
2334413 ATATGATGTTATTTTTTCTG
1 ATATGATGTTATTTTTTCTC
*
2334433 ATATGATTTTGATTTTTT-TC
1 ATATGATGTT-ATTTTTTCTC
2334453 ATAT
1 ATAT
2334457 AGACATAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (20 bp):
ATATGATGTTATTTTTTCTC
Found at i:2335965 original size:155 final size:153
Alignment explanation
Indices: 2335498--2336001 Score: 462
Period size: 156 Copynumber: 3.2 Consensus size: 153
2335488 CGAAGGTAGT
* * * * *
2335498 CCCTAAAAGCATTTTGATAATTTTCTTAGGATTGAGTTTGATGTAGTC-CCTAGGATGTTTTTAT
1 CCCTAAAAGCATTTTCATAATTTTCTTAGAATCGAGTTTGATGTAGTCACC-AAGATGCTTTTAT
* * * * *
2335562 GCCAAAAGGTGTACATTTAGGATAAGTTCACCCTTATATGATCATTTTT-AAGTCATTTAGGGTT
65 GACAAAA-GTGTGCATTTAAGATAAGTTCA-CCTTTTATGATCGTTTTTGAA-TCATTTAGGGTT
* *
2335626 ATCGAGATACTTTCATGTTGAAAGTATA
127 ATCGAGATACTTTTATG-TCAAAGTATA
* * * *
2335654 CCCTAAAAGCATTTTCATAATTTT-TCTAGAATCGAGTTTGATGTACTAACTAAGATGCTATTAT
1 CCCTAAAAGCATTTTCATAATTTTCT-TAGAATCGAGTTTGATGTAGTCACCAAGATGCTTTTAT
* * ** * * * * ** *
2335718 GGAAAAAAATAAGCATTTATGATAGGTTCACCCTTTTATGATTGTTTTTGAGTTTTTTAGGGTTG
65 -GACAAAAGTGTGCATTTAAGATAAGTTCA-CCTTTTATGATCGTTTTTGAATCATTTAGGGTTA
* *
2335783 TCGAGATATTTTTATGTTAAAGGTATA
128 TCGAGATACTTTTATGTCAAA-GTATA
* * * * *
2335810 CCCT-AAAGACATTTTCATAATTTTCTTAAAACCGAGTCTGACGTAGTCACCGAGATGCTTTTAT
1 CCCTAAAAG-CATTTTCATAATTTTCTTAGAATCGAGTTTGATGTAGTCACCAAGATGCTTTTAT
* * * * * *
2335874 GTCAAAAGTGTGCATTTAAGATACGTTTACCTTTCTATGATCGTTTTTGAATCCTTTAGGTTTAC
65 GACAAAAGTGTGCATTTAAGATAAGTTCACCTTT-TATGATCGTTTTTGAATCATTTAGGGTTAT
2335939 CGAGATACTTTTATGTCAAAGATATA
129 CGAGATACTTTTATGTCAAAG-TATA
* *
2335965 CCCTAAAGGTATTTT-AGTAATTTT-TCTAGAATCGAGT
1 CCCTAAAAGCATTTTCA-TAATTTTCT-TAGAATCGAGT
2336002 CCAATATATT
Statistics
Matches: 279, Mismatches: 57, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
154 8 0.03
155 100 0.36
156 163 0.58
157 8 0.03
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (153 bp):
CCCTAAAAGCATTTTCATAATTTTCTTAGAATCGAGTTTGATGTAGTCACCAAGATGCTTTTATG
ACAAAAGTGTGCATTTAAGATAAGTTCACCTTTTATGATCGTTTTTGAATCATTTAGGGTTATCG
AGATACTTTTATGTCAAAGTATA
Found at i:2338759 original size:14 final size:14
Alignment explanation
Indices: 2338740--2338766 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2338730 TTATTAAAAA
2338740 AATGGGGTTGGAGG
1 AATGGGGTTGGAGG
2338754 AATGGGGTTGGAG
1 AATGGGGTTGGAG
2338767 TGTCCCCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.56, T:0.22
Consensus pattern (14 bp):
AATGGGGTTGGAGG
Found at i:2341043 original size:20 final size:20
Alignment explanation
Indices: 2341018--2341142 Score: 117
Period size: 20 Copynumber: 5.7 Consensus size: 20
2341008 TTTTAACTAG
2341018 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2341038 ATGTATCGATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACAT-T--G------AA-A-A
*
2341069 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
*
2341089 ATGTATCGATACATT-AATAC
1 ATGTATCGATACATTGAA-AA
2341109 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2341129 ATGTATCGATACAT
1 ATGTATCGATACAT
2341143 CTGAGTAAGA
Statistics
Matches: 88, Mismatches: 4, Indels: 26
0.75 0.03 0.22
Matches are distributed among these distances:
19 2 0.02
20 60 0.68
21 3 0.03
22 2 0.02
23 1 0.01
28 1 0.01
29 2 0.02
30 2 0.02
31 15 0.17
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2341075 original size:51 final size:46
Alignment explanation
Indices: 2341018--2341155 Score: 153
Period size: 40 Copynumber: 3.0 Consensus size: 46
2341008 TTTTAACTAG
2341018 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCT-GGT---AAAATA-A
* *
2341069 ATGTATCGATACATTGAAGAATGTATCGATACA--T--T--AATAC
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGTAAAATAA
2341109 ATGTATCGATACATTGAAAAATGTATCGATACATCTGAGTAAGAATA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTG-GTAA-AATA
2341156 TGACTTTTTC
Statistics
Matches: 76, Mismatches: 3, Indels: 19
0.78 0.03 0.19
Matches are distributed among these distances:
40 32 0.42
41 4 0.05
42 1 0.01
45 1 0.01
46 1 0.01
48 4 0.05
49 1 0.01
51 32 0.42
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (46 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGTAAAATAA
Found at i:2342169 original size:28 final size:28
Alignment explanation
Indices: 2342037--2342676 Score: 564
Period size: 28 Copynumber: 22.1 Consensus size: 28
2342027 TTTTTTAAAA
*
2342037 AAAGA-TGCCACTAACTTGTGTGAGCTTTG
1 AAAGAGTGCCACTGACTTGTG-G-GCTTTG
**
2342066 AAAAGAGTTGCCACCAACTCGTGTGGGCTTTG
1 -AAAGAG-TGCCACTGACT--TGTGGGCTTTG
* *
2342098 AAAAGAGTTACCACT-AGCTTATGGGCTTTG
1 -AAAGAG-TGCCACTGA-CTTGTGGGCTTTG
*
2342128 AAAAGAGTTCCACTGACTTGTGGGCTTTG
1 -AAAGAGTGCCACTGACTTGTGGGCTTTG
*
2342157 AAAGTGTGCCACTGACTTGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
2342185 AAAG-GATGTCATTAACTTATGGGCTTTG
1 AAAGAG-TGCCACTGACTTGTGGGCTTTG
*
2342213 AAAAGAGTGCC-CTTGACTTGTAGGCTTTG
1 -AAAGAGTGCCAC-TGACTTGTGGGCTTTG
* *
2342242 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTG
*
2342270 AAAAGAGTGACACTGACTTGTGGGCTTTG
1 -AAAGAGTGCCACTGACTTGTGGGCTTTG
* *
2342299 AAAGGGTGCCACTGACTTGCATGGGCTTTA
1 AAAGAGTGCCACTGACTTG--TGGGCTTTG
* *
2342329 AAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTG
* *
2342357 AAAGGGTGCCACTGACTCGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTG
* *
2342385 AAAG-GATGCCACTGATTTGTAGGCTTTG
1 AAAGAG-TGCCACTGACTTGTGGGCTTTG
** *
2342413 AAAAGAGTTGCCACCAACTCGTGGGCTTTG
1 -AAAGAG-TGCCACTGACTTGTGGGCTTTG
2342443 AAAG-GATGCCACTGACTTGTGGGCTTTG
1 AAAGAG-TGCCACTGACTTGTGGGCTTTG
* *
2342471 AAAAGAGTTGCCA-TCGATTTGTGTGGGATTTG
1 -AAAGAG-TGCCACT-GA-CT-TGTGGGCTTTG
* * *
2342503 AAA-AGATACCACTAATTTGTGGGCTTTG
1 AAAGAG-TGCCACTGACTTGTGGGCTTTG
*
2342531 AAAAGAATTGCCA-TCGACTCGTGTGGGCTTTG
1 -AAAG-AGTGCCACT-GACT--TGTGGGCTTTG
2342563 AAA-AGATGCCACTGACTTGTGGGCTTTG
1 AAAGAG-TGCCACTGACTTGTGGGCTTTG
*
2342591 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTG
* *
2342619 AAAG-GATGCTACTGACTTGTAGGCTTTG
1 AAAGAG-TGCCACTGACTTGTGGGCTTTG
* * *
2342647 AAAGGGTGTCACTGACTTATGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTG
2342675 AA
1 AA
2342677 GAGATGAACG
Statistics
Matches: 514, Mismatches: 62, Indels: 70
0.80 0.10 0.11
Matches are distributed among these distances:
27 3 0.01
28 259 0.50
29 86 0.17
30 98 0.19
31 11 0.02
32 52 0.10
33 1 0.00
34 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
AAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:2342358 original size:58 final size:58
Alignment explanation
Indices: 2342035--2342676 Score: 552
Period size: 58 Copynumber: 11.0 Consensus size: 58
2342025 TTTTTTTTAA
* * * ** *
2342035 AAAAAGATGCCACTAACTTGTGTGAGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTG-G-GCTTTG-AAAG-GGTGCCACTGACTTG-GTGGGCTTTG
* * * * *
2342098 AAAAGAGTTACCACT-AGCTTATGGGCTTTGAAAAGAGTTCCACTGACTT-GTGGGCTTTG
1 AAAAG-GATGCCACTGA-CTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGGTGGGCTTTG
* * * * *
2342157 -AAAGTG-TGCCACTGACTTGTGGGCTTTGAAAGGATGTCATTAACTT-ATGGGCTTTG
1 AAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTG
* *
2342213 AAAA-GAGTGCC-CTTGACTTGTAGGCTTTGAAAGGGTGCCACTAACTT-GTGGGCTTTG
1 AAAAGGA-TGCCAC-TGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTG
* *
2342270 AAAA-GAGTGACACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCATGGGCTTT-
1 AAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG-GTGGGCTTTG
* * *
2342328 AAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGAC-TCGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTG
* * * ** *
2342385 -AAAGGATGCCACTGATTTGTAGGCTTTGAAAAGAGTTGCCACCAAC-TCGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACTTGGTGGGCTTTG
* * *
2342443 -AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCA-TCGATTTGTGTGGGATTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACT-GACTTG-GTGGGCTTTG
* * * ** *
2342503 AAAA-GATACCACTAATTTGTGGGCTTTGAAAAGAATTGCCA-TCGACTCGTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACT-GACTTG-GTGGGCTTTG
2342563 AAAA-GATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-GTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTG
* * * *
2342619 -AAAGGATGCTACTGACTTGTAGGCTTTGAAAGGGTGTCACTGACTT-ATGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTG
2342675 AA
1 AA
2342677 GAGATGAACG
Statistics
Matches: 493, Mismatches: 65, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
55 4 0.01
56 112 0.23
57 112 0.23
58 117 0.24
59 25 0.05
60 83 0.17
61 11 0.02
62 11 0.02
63 6 0.01
64 12 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (58 bp):
AAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTG
Found at i:2342385 original size:86 final size:84
Alignment explanation
Indices: 2342042--2342673 Score: 572
Period size: 86 Copynumber: 7.2 Consensus size: 84
2342032 TAAAAAAAGA
* * * *
2342042 TGCCACTAACTTGTGTGAGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTT
1 TGCCACTGACTTGTG-G-GCTTT-AAAAG-GGTGCCACTAACT--TGTGGGCTTTG-AAAG-GAT
* * *
2342107 ACCACT-AGCTTATGGGCTTTGAAAAGAG
58 GCCACTGA-CTTGTGGGCTTTG-AAAGGG
* * * * * * *
2342135 TTCCACTGACTTGTGGGCTTTGAAAGTGTGCCACTGACTTGTGGGCTTTGAAAGGATGTCATTAA
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGA
* *
2342200 CTTATGGGCTTTGAAAAGAG
66 CTTGTGGGCTTTG-AAAGGG
* * * *
2342220 TGCC-CTTGACTTGTAGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGACACT
1 TGCCAC-TGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACT
2342284 GACTTGTGGGCTTTGAAAGGG
64 GACTTGTGGGCTTTGAAAGGG
* * *
2342305 TGCCACTGACTTGCATGGGCTTTAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACT
1 TGCCACTGACTTG--TGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACT
* *
2342370 GACTCGTGGGCTTTGAAAGGA
64 GACTTGTGGGCTTTGAAAGGG
* * * * *
2342391 TGCCACTGATTTGTAGGCTTTGAAAAGAGTTGCCACCAACTCGTGGGCTTTGAAAGGATGCCACT
1 TGCCACTGACTTGTGGGCTTT-AAAAG-GGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACT
*
2342456 GACTTGTGGGCTTTGAAAAGAGT
64 GACTTGTGGGCTTTG-AAAG-GG
* * * * * *
2342479 TGCCA-TCGATTTGTGTGGGATTTGAAAA-GATACCACTAATTTGTGGGCTTTGAAAAGAATTGC
1 TGCCACT-GA-CT-TGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGA-TGC
* *
2342542 CA-TCGACTCGTGTGGGCTTTGAAAAGA
60 CACT-GACT--TGTGGGCTTTGAAAGGG
* * *
2342569 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCTACTGA
1 TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGA
*
2342634 CTTGTAGGCTTTGAAAGGG
66 CTTGTGGGCTTTGAAAGGG
* *
2342653 TGTCACTGACTTATGGGCTTT
1 TGCCACTGACTTGTGGGCTTT
2342674 GAAGAGATGA
Statistics
Matches: 454, Mismatches: 64, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
84 41 0.09
85 95 0.21
86 114 0.25
87 62 0.14
88 56 0.12
89 18 0.04
90 34 0.07
91 9 0.02
92 12 0.03
93 13 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (84 bp):
TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGA
CTTGTGGGCTTTGAAAGGG
Found at i:2342523 original size:60 final size:60
Alignment explanation
Indices: 2342036--2342649 Score: 455
Period size: 57 Copynumber: 10.5 Consensus size: 60
2342026 TTTTTTTAAA
* * *
2342036 AAAAGATGCCACTAACTTGTGTGAGCTTTGAAAAGAGTTGCCA-CCAACTCGTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTG-G-GCTTTGAAAAGAGTTGCCATCGAA-TTGTGTGGGCTTTG
* * *
2342098 AAAAGAGTTACCACT-AGCTTATGGGCTTTGAAAAGAGTT-CCA-CTG-ACT-TGTGGGCTTTG
1 AAAAGA--TGCCACTGA-CTTGTGGGCTTTGAAAAGAGTTGCCATC-GAATTGTGTGGGCTTTG
* * * * * *
2342157 -AAAGTGTGCCACTGACTTGTGGGCTTTG-AAAG-GATGTCAT-TAACT-TATGGGCTTTG
1 AAAAG-ATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGAATTGTGTGGGCTTTG
* * * *
2342213 AAAAGAGTGCC-CTTGACTTGTAGGCTTTG-AAAG-GGTGCCA-CTAACT-TGTGGGCTTTG
1 AAAAGA-TGCCAC-TGACTTGTGGGCTTTGAAAAGAGTTGCCATCGAATTGTGTGGGCTTTG
* * * **
2342270 AAAAGAGTGACACTGACTTGTGGGCTTTG-AAAG-GGTGCCA-CTGACTTGCATGGGCTTT-
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATC-GAATTGTGTGGGCTTTG
* * * * *
2342328 AAAAGGGTGCCACTGACTTATGGGCTTTG-AAAG-GGTGCCA-CTG-ACT-CGTGGGCTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATC-GAATTGTGTGGGCTTTG
* * * * * *
2342385 AAAGGATGCCACTGATTTGTAGGCTTTGAAAAGAGTTGCCA-CCAACT-CGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGAATTGTGTGGGCTTTG
* * *
2342443 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGATTTGTGTGGGATTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGAATTGTGTGGGCTTTG
* * * * * *
2342503 AAAAGATACCACTAATTTGTGGGCTTTGAAAAGAATTGCCATCGACTCGTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGAATTGTGTGGGCTTTG
* *
2342563 AAAAGATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCA-CTG-ACT-TGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATC-GAATTGTGTGGGCTTTG
* * *
2342619 AAAGGATGCTACTGACTTGTAGGCTTTGAAA
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAA
2342650 GGGTGTCACT
Statistics
Matches: 464, Mismatches: 63, Indels: 55
0.80 0.11 0.09
Matches are distributed among these distances:
55 2 0.00
56 85 0.18
57 113 0.24
58 112 0.24
59 27 0.06
60 86 0.19
61 5 0.01
62 21 0.05
63 2 0.00
64 11 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (60 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGAATTGTGTGGGCTTTG
Found at i:2343913 original size:11 final size:10
Alignment explanation
Indices: 2343895--2343947 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 10
2343885 GACCTCTTTC
2343895 TGTTTTTTTAT
1 TGTTTTTTT-T
*
2343906 TATTTTTTTCT
1 TGTTTTTTT-T
2343917 TGGTTTTTTTT
1 T-GTTTTTTTT
2343928 TG--TTTTTT
1 TGTTTTTTTT
2343936 TGTTTTTTTT
1 TGTTTTTTTT
2343946 TG
1 TG
2343948 GTATGAAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.22
10 9 0.25
11 12 0.33
12 7 0.19
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.83
Consensus pattern (10 bp):
TGTTTTTTTT
Found at i:2346599 original size:21 final size:21
Alignment explanation
Indices: 2346573--2346614 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2346563 TGTTGACTTG
2346573 GCAATCATGTCATCAACATAA
1 GCAATCATGTCATCAACATAA
2346594 GCAATCATGTCATCAACATAA
1 GCAATCATGTCATCAACATAA
2346615 ACCTCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.24
Consensus pattern (21 bp):
GCAATCATGTCATCAACATAA
Found at i:2360708 original size:135 final size:135
Alignment explanation
Indices: 2360466--2360736 Score: 461
Period size: 135 Copynumber: 2.0 Consensus size: 135
2360456 TGATAAATTC
* *
2360466 TCTCTAGACCACTCATCCACCTTTATTATACTTCATGTCATACCCATACTCACTTAGCCATAAGC
1 TCTCTAGACCACTCATCCACCTTCATTATACTTCATGTCATACCCAAACTCACTTAGCCATAAGC
* ** *
2360531 ATCCATCTATTATGAAGCTGTTTGTGATGATATCTTAATGTGAGACTTCACATATAAGATGGCTT
66 ATCCATCTATTATAAAGCTGTTCATGATGATATCTAAATGTGAGACTTCACATATAAGATGGCTT
2360596 GATCT
131 GATCT
*
2360601 TCTCTAGACCACTCATCCACCTTCATTATACTTCATGTCATACTCAAACTCACTTAGCCATAAGC
1 TCTCTAGACCACTCATCCACCTTCATTATACTTCATGTCATACCCAAACTCACTTAGCCATAAGC
* *
2360666 ATCCATCTATTATAAAGCTGTTCATGATTATATCTAAATGTGAGACTTCACATATAAGATGGTTT
66 ATCCATCTATTATAAAGCTGTTCATGATGATATCTAAATGTGAGACTTCACATATAAGATGGCTT
2360731 GATCT
131 GATCT
2360736 T
1 T
2360737 ACAAGTCTAA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 127 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (135 bp):
TCTCTAGACCACTCATCCACCTTCATTATACTTCATGTCATACCCAAACTCACTTAGCCATAAGC
ATCCATCTATTATAAAGCTGTTCATGATGATATCTAAATGTGAGACTTCACATATAAGATGGCTT
GATCT
Found at i:2361042 original size:10 final size:10
Alignment explanation
Indices: 2361027--2361058 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
2361017 GTTCTCATAA
2361027 TTATAATTCT
1 TTATAATTCT
2361037 TTATAATTCT
1 TTATAATTCT
2361047 TTATAATTCT
1 TTATAATTCT
2361057 TT
1 TT
2361059 TGTAAGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATAATTCT
Found at i:2364412 original size:30 final size:30
Alignment explanation
Indices: 2364376--2364438 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2364366 CTCTGTTTGA
** *
2364376 TGTACCTATTTATTTTGTTGTATAGTTATT
1 TGTACCTATTTATTTCATTGTATAGTGATT
2364406 TGTACCTATTTATTTCATTGTATAGTGATT
1 TGTACCTATTTATTTCATTGTATAGTGATT
2364436 TGT
1 TGT
2364439 TTCTTTCACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.08, G:0.14, T:0.57
Consensus pattern (30 bp):
TGTACCTATTTATTTCATTGTATAGTGATT
Found at i:2366189 original size:2 final size:2
Alignment explanation
Indices: 2366176--2366207 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2366166 TATGCAAGCA
*
2366176 AT AT AC 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
2366208 TATGTAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2366475 original size:13 final size:14
Alignment explanation
Indices: 2366452--2366480 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2366442 ATAACATTAA
2366452 TTTATTAATAATAG
1 TTTATTAATAATAG
2366466 TTTATT-ATAATAG
1 TTTATTAATAATAG
2366479 TT
1 TT
2366481 ATTTACGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTTATTAATAATAG
Found at i:2367038 original size:38 final size:38
Alignment explanation
Indices: 2366982--2367069 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
2366972 TAGGAGACGG
* *
2366982 GACGATGAAGGCGACAGTAGTGGGAAATACCTGCGATC
1 GACGATGAAGGCGACAGTAGTGGGAAACACCTACGATC
* *
2367020 GACGATGAAGGCGTCAGTAGTGGGAAACACCTATGATC
1 GACGATGAAGGCGACAGTAGTGGGAAACACCTACGATC
2367058 GACGATGAAGGC
1 GACGATGAAGGC
2367070 AATGGTAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.32, C:0.18, G:0.34, T:0.16
Consensus pattern (38 bp):
GACGATGAAGGCGACAGTAGTGGGAAACACCTACGATC
Found at i:2367650 original size:13 final size:13
Alignment explanation
Indices: 2367596--2367659 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
2367586 TCAAATTTTA
2367596 AAATTTAAAATTT
1 AAATTTAAAATTT
2367609 AAATTCTAAAAATATGAAT
1 AAATT-T-AAAAT-T---T
* *
2367628 AAAATCAAAATTT
1 AAATTTAAAATTT
2367641 AAATTTAAAATTT
1 AAATTTAAAATTT
2367654 AAATTT
1 AAATTT
2367660 TTATGCCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 23 0.56
14 1 0.02
15 5 0.12
16 2 0.05
17 5 0.12
19 5 0.12
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:2369116 original size:17 final size:17
Alignment explanation
Indices: 2369084--2369124 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2369074 ATAGCTACAC
2369084 AATAAA-AAAAATTGAA
1 AATAAATAAAAATTGAA
2369100 TAATAAATAAAAA-TGAA
1 -AATAAATAAAAATTGAA
2369117 AA-AAATAA
1 AATAAATAA
2369125 TTTCGTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 2 0.09
17 10 0.43
18 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (17 bp):
AATAAATAAAAATTGAA
Found at i:2371475 original size:20 final size:20
Alignment explanation
Indices: 2371432--2371481 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2371422 TTTCACAATT
* *
2371432 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTGCAA
2371452 TGTATCGATACATT-TCGCAA
1 TGTATCGATACATTGT-GCAA
2371472 TGTATCGATA
1 TGTATCGATA
2371482 TATCCAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTGTGCAA
Found at i:2374019 original size:32 final size:28
Alignment explanation
Indices: 2373948--2374005 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
2373938 TTTCCAATCT
* *
2373948 CGTTATTTTCGAGGGGATACTCCAACCC
1 CGTTATTTCCAAGGGGATACTCCAACCC
2373976 CGTTATTTCCAAGGGGATACTCCAACCC
1 CGTTATTTCCAAGGGGATACTCCAACCC
2374004 CG
1 CG
2374006 GTTTTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (28 bp):
CGTTATTTCCAAGGGGATACTCCAACCC
Found at i:2374134 original size:79 final size:79
Alignment explanation
Indices: 2373963--2374338 Score: 447
Period size: 79 Copynumber: 4.7 Consensus size: 79
2373953 TTTTCGAGGG
** * *
2373963 GATACTCCAACCCCGTTA-TTTCCAAGGGGATACTCCAACCCCGGTTTTTATTTCCAAAACGCTG
1 GATACTCCAACCCCGTTATTTTTGAA-GGGATACTCCAACCTCGG-TTTTATTTCCAAAACACTG
* *
2374027 ATTTTCCATAATCGGA
64 ATTTTTCACAATCGGA
* * * * * *
2374043 GATACTCCAACCCAGTTATTTTCGAAGGGATACTCCAATCTTGGTTTTATTTCAAAAACATTGAT
1 GATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGAT
*
2374108 TTTTTACAATCGGA
66 TTTTCACAATCGGA
* *
2374122 GATACTCTAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGAT
1 GATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGAT
*
2374187 TTTTCATAATC-GA
66 TTTTCACAATCGGA
* * * *
2374200 GGATACTCCAATCTCGTTATTTTTG-AGGAGATACTCCAACCCCAGTTTTATTTCCAAAACA-TC
1 -GATACTCCAACCCCGTTATTTTTGAAGG-GATACTCCAACCTCGGTTTTATTTCCAAAACACT-
*
2374263 AATTTTTCACAATCGGA
63 GATTTTTCACAATCGGA
* *
2374280 GATACTCCAACCCCGTTATTTTTG-AGGAGATACTCCAACTCTAGGTTTTATCTCCAAAA
1 GATACTCCAACCCCGTTATTTTTGAAGG-GATACTCCAAC-CTCGGTTTTATTTCCAAAA
2374339 TATTAAACTT
Statistics
Matches: 255, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
78 5 0.02
79 195 0.76
80 49 0.19
81 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGAT
TTTTCACAATCGGA
Found at i:2374187 original size:158 final size:158
Alignment explanation
Indices: 2373963--2374338 Score: 506
Period size: 158 Copynumber: 2.4 Consensus size: 158
2373953 TTTTCGAGGG
*** * *
2373963 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTTATTTCCAAAACGCTGA
1 GATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGG-TTTTATTTCCAAAACACTGA
* ***
2374028 TTTTCCATAATCG-GAGATACTCCAA-CCCAGTTATTTTCGAAGG-GATACTCCAATCTTGGTTT
65 TTTTCCATAATCGAG-GATACTCCAATCCC-GTTATTTTCG-AGGAGATACTCCAACCCCAGTTT
** *
2374090 TATTTCAAAAACATTGATTTTTTACAATCGGA
127 TATTTCAAAAACATCAATTTTTCACAATCGGA
*
2374122 GATACTCTAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGAT
1 GATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGAT
* * *
2374187 TTTTCATAATCGAGGATACTCCAATCTCGTTATTTTTGAGGAGATACTCCAACCCCAGTTTTATT
66 TTTCCATAATCGAGGATACTCCAATCCCGTTATTTTCGAGGAGATACTCCAACCCCAGTTTTATT
*
2374252 TCCAAAACATCAATTTTTCACAATCGGA
131 TCAAAAACATCAATTTTTCACAATCGGA
* * *
2374280 GATACTCCAACCCCGTTATTTTTGAGGAGATACTCCAACTCTAGGTTTTATCTCCAAAA
1 GATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAAC-CTCGGTTTTATTTCCAAAA
2374339 TATTAAACTT
Statistics
Matches: 192, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
157 3 0.02
158 130 0.68
159 59 0.31
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (158 bp):
GATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGAT
TTTCCATAATCGAGGATACTCCAATCCCGTTATTTTCGAGGAGATACTCCAACCCCAGTTTTATT
TCAAAAACATCAATTTTTCACAATCGGA
Found at i:2379066 original size:52 final size:51
Alignment explanation
Indices: 2378981--2379104 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
2378971 ATATGAAAAG
* *
2378981 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
2379032 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
2379084 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2379105 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:2379117 original size:51 final size:51
Alignment explanation
Indices: 2378981--2379124 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
2378971 ATATGAAAAG
*
2378981 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2379033 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2379084 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2379125 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2379131 original size:13 final size:13
Alignment explanation
Indices: 2379113--2379137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2379103 CAAAGATCAG
2379113 TGTATCGATACAA
1 TGTATCGATACAA
2379126 TGTATCGATACA
1 TGTATCGATACA
2379138 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2379215 original size:33 final size:33
Alignment explanation
Indices: 2379178--2379244 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2379168 AGTAGCTTAA
2379178 ATTGTATCGATACAAAAAATTATGTATCGATAC
1 ATTGTATCGATACAAAAAATTATGTATCGATAC
* **
2379211 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAATTATGTATCGATAC
2379244 A
1 A
2379245 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAATTATGTATCGATAC
Found at i:2379218 original size:13 final size:13
Alignment explanation
Indices: 2379200--2379224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2379190 CAAAAAATTA
2379200 TGTATCGATACAT
1 TGTATCGATACAT
2379213 TGTATCGATACA
1 TGTATCGATACA
2379225 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2380236 original size:49 final size:49
Alignment explanation
Indices: 2380061--2380304 Score: 283
Period size: 49 Copynumber: 4.8 Consensus size: 49
2380051 GTGATAAAGA
* * * *
2380061 TGCCAATATG-TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCT-GATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * *
2380115 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
*
2380168 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
2380217 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
2380266 TGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
2380305 GAAGGGTTGC
Statistics
Matches: 170, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
49 88 0.52
51 1 0.01
52 39 0.23
53 6 0.04
54 1 0.01
55 34 0.20
56 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:2380435 original size:30 final size:30
Alignment explanation
Indices: 2380325--2380690 Score: 249
Period size: 30 Copynumber: 12.5 Consensus size: 30
2380315 CACCGACTTG
* * * *
2380325 TGTGGGCTTTGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2380355 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2380382 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2380410 TGTGGGCTTTTGAAAAATATGCCACTAACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* * *
2380440 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2380470 TGTGGGC---TG-AAAAGAGTGCTA-TAGAGT
1 TGTGGGCTTTTGAAAAAGA-TGCCACT-GACT
* ** * *
2380497 TGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTT----TTGAAAAAGA-TGCCACTGACT
* * *
2380532 TGTGGAC-TTTGGAAAAGATGCCACCGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
** * * *
2380561 TGTGGGCTTCGGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* *
2380591 TGTGGGC-TTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
* * *
2380618 TGTGGGCTTTCGAAAAAAATGCCACCGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
*
2380648 TGTGGGC-TTTGAAAAAAATGCCACTGACT
1 TGTGGGCTTTTGAAAAAGATGCCACTGACT
*
2380677 TGTGGACTTTTGAA
1 TGTGGGCTTTTGAA
2380691 GGGTGATGAA
Statistics
Matches: 270, Mismatches: 46, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
26 5 0.02
27 56 0.21
28 33 0.12
29 46 0.17
30 108 0.40
34 2 0.01
35 20 0.07
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAAGATGCCACTGACT
Found at i:2380563 original size:29 final size:29
Alignment explanation
Indices: 2380514--2380686 Score: 170
Period size: 29 Copynumber: 5.9 Consensus size: 29
2380504 TTACAAAAGA
* * *
2380514 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
2380544 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2380573 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
2380602 -AAGGTTGCCACTGACTTGTGGGCTTTCGA
1 AAAAGATGCCACTGACTTGTGGGCTTT-GG
* * *
2380631 AAAAAATGCCACCGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2380660 AAAAAATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
2380687 TGAAGGGTGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.17
28 2 0.02
29 51 0.42
30 47 0.39
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:2380633 original size:57 final size:57
Alignment explanation
Indices: 2380297--2380660 Score: 279
Period size: 57 Copynumber: 6.2 Consensus size: 57
2380287 CCAGCTATAT
* * * *
2380297 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAAGGGTGCCACTGATTTG
1 TGGGCTTTGAA-GGTTGCCACTGAC-T-TGTGGGCTTTCGAAAAGGGTGCCACTGACTTG
* *
2380357 TGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT--TAAAGGTTGCCACTGACTTG
1 TGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTCGAAAAGGGTGCCACTGACTTG
** * * *
2380412 TGGGCTTTTGAAAAATATGCCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTG
1 TGGGC-TTTG-AAGGT-TGCCACTGACTTGTGGGCTTTCGAAAAGGGTGCCACTGACTTG
*** * * * * * * *
2380472 TGGGCTGAAAAGAG-TGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTG
1 TGGGCTTTGAAG-GTTGCCACT-GACTTGTGGGCTTTC----G-AAAAGGGTGCCACTGACTTG
* * * * *
2380534 TGGACTTTGGAAAAGATGCCACCGACTTGTGGGC-TTCGGAAAAGGGTGCCACTGATTTG
1 TGGGCTTT-G-AAGGTTGCCACTGACTTGTGGGCTTTC-GAAAAGGGTGCCACTGACTTG
*** *
2380593 TGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTCGAAAAAAATGCCACCGACTTG
1 TGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTCGAAAAGGGTGCCACTGACTTG
2380650 TGGGCTTTGAA
1 TGGGCTTTGAA
2380661 AAAAATGCCA
Statistics
Matches: 238, Mismatches: 49, Indels: 37
0.73 0.15 0.11
Matches are distributed among these distances:
55 22 0.09
56 5 0.02
57 74 0.31
58 27 0.11
59 37 0.16
60 33 0.14
61 1 0.00
62 21 0.09
63 3 0.01
64 15 0.06
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTCGAAAAGGGTGCCACTGACTTG
Found at i:2382132 original size:1 final size:1
Alignment explanation
Indices: 2382128--2382239 Score: 98
Period size: 1 Copynumber: 112.0 Consensus size: 1
2382118 CCGGACCCCC
* * * * * * * **
2382128 TTTTTTTGTTTTTGTTTGTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTCATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
2382193 TTTGTTTTTTTTTGTTTTGTTTTTTTGTTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2382240 GGAGGACGTC
Statistics
Matches: 84, Mismatches: 27, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:2382151 original size:13 final size:12
Alignment explanation
Indices: 2382128--2382239 Score: 124
Period size: 12 Copynumber: 9.2 Consensus size: 12
2382118 CCGGACCCCC
2382128 TTTTTTTGTTTT
1 TTTTTTTGTTTT
*
2382140 TGTTTGTTG-TTT
1 T-TTTTTTGTTTT
2382152 TTTTTTTGTTTT
1 TTTTTTTGTTTT
2382164 TTTTGTTT-TTTT
1 TTTT-TTTGTTTT
**
2382176 GTTTTTTTCATTT
1 -TTTTTTTGTTTT
2382189 TTTTTTTG--TT
1 TTTTTTTGTTTT
2382199 TTTTTTTGTTTT
1 TTTTTTTGTTTT
2382211 GTTTTTTTGTTTTT
1 -TTTTTTTG-TTTT
2382225 TTTTTTTGTTTT
1 TTTTTTTGTTTT
2382237 TTT
1 TTT
2382240 GGAGGACGTC
Statistics
Matches: 87, Mismatches: 4, Indels: 18
0.80 0.04 0.17
Matches are distributed among these distances:
10 10 0.11
11 6 0.07
12 35 0.40
13 32 0.37
14 4 0.05
ACGTcount: A:0.01, C:0.01, G:0.11, T:0.88
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:2382197 original size:51 final size:50
Alignment explanation
Indices: 2382136--2382231 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 50
2382126 CCTTTTTTTG
2382136 TTTTTGTTTGTTGTTTTTT-TTTTGTTTTTTTTGTTTTTTTGTTTTTTTCAT
1 TTTTTGTTTGTTGTTTTTTGTTTTG-TTTTTTTGTTTTTTT-TTTTTTTCAT
* *
2382187 TTTTTTTTTGTTTTTTTTTGTTTTGTTTTTTTGTTTTTTTTTTTT
1 TTTTTGTTTGTTGTTTTTTGTTTTGTTTTTTTGTTTTTTTTTTTT
2382232 GTTTTTTTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
50 5 0.12
51 32 0.76
52 5 0.12
ACGTcount: A:0.01, C:0.01, G:0.10, T:0.88
Consensus pattern (50 bp):
TTTTTGTTTGTTGTTTTTTGTTTTGTTTTTTTGTTTTTTTTTTTTTTCAT
Found at i:2396173 original size:52 final size:51
Alignment explanation
Indices: 2396088--2396211 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
2396078 ATATGAAAAG
* *
2396088 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
2396139 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
2396191 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2396212 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:2396322 original size:33 final size:33
Alignment explanation
Indices: 2396285--2396351 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2396275 AGTAGCTTAA
2396285 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2396318 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2396351 A
1 A
2396352 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2396325 original size:13 final size:13
Alignment explanation
Indices: 2396307--2396331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2396297 CAAAAAAATA
2396307 TGTATCGATACAT
1 TGTATCGATACAT
2396320 TGTATCGATACA
1 TGTATCGATACA
2396332 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2405735 original size:15 final size:15
Alignment explanation
Indices: 2405715--2405745 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2405705 ACTTTGATTG
2405715 CACCAATAATATAGT
1 CACCAATAATATAGT
2405730 CACCAATAATATAGT
1 CACCAATAATATAGT
2405745 C
1 C
2405746 GAATACGAGG
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:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (15 bp):
CACCAATAATATAGT
Found at i:2408449 original size:61 final size:61
Alignment explanation
Indices: 2408348--2408975 Score: 646
Period size: 61 Copynumber: 10.3 Consensus size: 61
2408338 AACCTTTTAT
* * * * * *
2408348 CCTTTCAGTCCTCAAAGAGCA-G-TACATTTTCCTTTCAAAGCCCACGCAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * *
2408407 CCTTTTAGTCTTCAAAGAGCTA-GATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGC-AGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
2408468 -CTTTCAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * ** *
2408528 CATTTCAGTCCTCGAAGAGCAAGACACCTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * *
2408588 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTAAT-CTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTT--TCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * *
2408650 CCTTTCAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTAAAACCCACACGAGTTGCTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * * ** *
2408711 CATTTTAGTCCTCGAAGAGCAAGAAACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
2408772 -CTTTCTATTCCTTAAAGAGTAGGATGCCTTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTT-TAGTCCTCAAAGAGCAGGATGCC--TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* *
2408835 ACTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * ** * ** *** *
2408896 -CATTTCGATCCTTGAAGAACAGGACACCTTTT--TCGAAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAG-TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* *
2408955 CCTTCTAGTCCTTAAAGAGCA
1 CCTTTTAGTCCTCAAAGAGCA
2408976 TGACGCACTT
Statistics
Matches: 478, Mismatches: 77, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
59 53 0.11
60 108 0.23
61 218 0.46
62 44 0.09
63 51 0.11
64 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:2408698 original size:183 final size:182
Alignment explanation
Indices: 2408350--2408993 Score: 831
Period size: 183 Copynumber: 3.5 Consensus size: 182
2408340 CCTTTTATCC
* * * *
2408350 TTTCAGTCCTCAAAGAGC-AGTACA--TTTTCCTTTCAAAGCCCACGCAAGTTGGTGGCACCTTT
1 TTTCAGTCCTCGAAGAGCAAG-ACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
2408412 TAGTCTTCAAAGAGCTA-GATGCCTTT-TCCTTTTAAAGCCTACACAAGTTGGTGGCACTTTCAG
65 TAGTCCTCAAAGAGC-AGGACGCCTTTAT-CTTTTAAAGCCCACACGAGTTGGTGGCACTTTCAG
* *
2408475 TCCTTAAAGAGTAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACA
128 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACA
2408530 TTTCAGTCCTCGAAGAGCAAGACACCTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCCTT-
1 TTTCAGTCCTCGAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
*
2408593 TAGTCCTCAAAGAGCAGGACGCCTTTAATCTTTTAAAGCCCACACGAGTTAGTGGCACCTTTCAG
65 TAGTCCTCAAAGAGCAGGACGCCTTT-ATCTTTTAAAGCCCACACGAGTTGGTGGCA-CTTTCAG
* * *
2408658 TCCTCAAAGAGCATGATGCCTTTTTCTTTTAAAACCCACACGAGTTGCTGGCACA
128 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACA
* * *
2408713 TTTTAGTCCTCGAAGAGCAAGAAACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCT
1 TTTCAGTCCTCGAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * * *
2408778 ATTCCTTAAAGAGTAGGATGCCTTTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCAACTTTTAG
66 AGTCCTCAAAGAGCAGGACGCC--TTTATCTTTTAAAGCCCACACGAGTTGGTGGC-ACTTTCAG
2408843 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACA
128 TCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACA
* * * ***
2408898 TTTC-GATCCTTGAAGAACAGGACACCTTTT--TCGAAAAGCCCACACAAGTTGGTGGCACCTTC
1 TTTCAG-TCCTCGAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
2408960 TAGTCCTTAAAGAGCATGACGCACTTTATTTTTT
65 TAGTCCTCAAAGAGCAGGACGC-CTTTATCTTTT
2408994 TTCCTTTGTC
Statistics
Matches: 408, Mismatches: 41, Indels: 28
0.86 0.09 0.06
Matches are distributed among these distances:
180 21 0.05
181 41 0.10
182 50 0.12
183 145 0.36
184 39 0.10
185 108 0.26
186 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (182 bp):
TTTCAGTCCTCGAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
AGTCCTCAAAGAGCAGGACGCCTTTATCTTTTAAAGCCCACACGAGTTGGTGGCACTTTCAGTCC
TCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACA
Found at i:2409139 original size:46 final size:45
Alignment explanation
Indices: 2409070--2409660 Score: 469
Period size: 46 Copynumber: 13.6 Consensus size: 45
2409060 GCGTGCCTTT
* *
2409070 TTCTTTTCCCTTTTGTCCTCAAAGAGCATGACATA-TTCCATTTCC
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTT-CATTTCC
*
2409115 TTCTTTTCCCTTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCC
1 TTCTTTTCCC-TTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
* *
2409161 TGT-TTTTCCCTTCTAGTCCTCAAAGAGCAGGACACACTTTATTCTCC
1 T-TCTTTTCCCTT-TTGTCCTCAAAGAGCAGGACACACTTCATT-TCC
* * * * *
2409208 -T-TTTT-CC-TTTATCCTCAAAGAGTAGGACACACTTAACTTCT
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
** *
2409249 TTCTTTT-CC-TTTGTCCTCAAAGAGCAGGATGCGCTT--TTT-C
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
*
2409289 --CTTTTCTCTTTTGTCCTCAAAGAGCAGGACACA-TTCCATTTCC
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTT-CATTTCC
* *
2409332 TTCATTTTCCCTTTTGTCCTCAAAAAGCAGGACACACTTAACTTT-C
1 TTC-TTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCA-TTTCC
* * * *
2409378 TTCTTTT-TC-TTTGTCCTCAAAGAGCAGG--AC-GTGCCTTT--
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
* * * *
2409416 TCCTTTTCTCTTTTGCCCTCAAAGAGCAGGACACA-TTCCATTTTC
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTT-CATTTCC
2409461 TTCTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
1 TTC-TTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
* * * *
2409507 TTATTTTCCCTTTTGTCCAT-AAAGAGTAGGACGCACTTTATTCTCC
1 TTCTTTTCCCTTTTGTCC-TCAAAGAGCAGGACACACTTCATT-TCC
* * * *
2409553 -T-TTTT-CC-TTTGTCCTCAAGGAGCAAGACGCA-TT--TTGTTC
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATT-TCC
* * * * *
2409592 TCCTTTTTCC-TTTATCCTCAAAAAGTAGGACACACTTCATTTCC
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
* *
2409636 TT-TTTT-TC-TTTGTCCTCGAAGAGCA
1 TTCTTTTCCCTTTTGTCCTCAAAGAGCA
2409661 AGACGTACTG
Statistics
Matches: 446, Mismatches: 63, Indels: 77
0.76 0.11 0.13
Matches are distributed among these distances:
38 11 0.02
39 12 0.03
40 40 0.09
41 13 0.03
42 85 0.19
43 60 0.13
44 10 0.02
45 61 0.14
46 141 0.32
47 13 0.03
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.40
Consensus pattern (45 bp):
TTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCC
Found at i:2409327 original size:217 final size:214
Alignment explanation
Indices: 2408955--2409407 Score: 632
Period size: 217 Copynumber: 2.1 Consensus size: 214
2408945 GTTGGTGGCA
* * * *
2408955 CCTTCTAGTCCTTAAAGAGCATGACGCACTTTATTTTTTTTCCTTTGTCCTCAAAGAACAAGACA
1 CCTTCTAGTCCTCAAAGAGCAGGACACACTTTATTTTTTTTCCTTTATCCTCAAAGAACAAGACA
* *
2409020 CACTGAGCTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGGCGTGCCTTTTTCTTTTCCCTTTTG
66 CACTGAACTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGGCATGCCTTTTTCTTTTCCCTTTTG
* * * *
2409085 TCCTCAAAGAGCATGACATATTCCATTTCCTTC-TTTTCCCTTTTTGTCCTCAAAGAGCAGGACG
131 TCCTCAAAGAGCAGGACACATTCCATTTCCTTCATTTTCCC-TTTTGTCCTCAAAAAGCAGGACA
* *
2409149 CACTTCA-TTTCCTGTTTTT
195 CACTTAACTTTCCTCTTTTT
** *
2409168 CCCTTCTAGTCCTCAAAGAGCAGGACACACTTTATTCTCCTTTTTCCTTTATCCTCAAAGAGTAG
1 -CCTTCTAGTCCTCAAAGAGCAGGACACACTTTATT-T--TTTTTCCTTTATCCTCAAAGAACAA
* *
2409233 GACACACTTAACTTCTTTCTTTTCCTTTGTCCTCAAAGAGCA-GG-ATGCGCTTTTTCCTTTTCT
62 GACACACTGAACTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGGCATGC-CTTTTT-CTTTTCC
2409296 CTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTCATTTTCCCTTTTGTCCTCAAAAAGCA
125 CTTTTGTCCTCAAAGAGCAGGACACATTCCATTTCCTTCATTTTCCCTTTTGTCCTCAAAAAGCA
*
2409361 GGACACACTTAACTTTCTTCTTTTT
190 GGACACACTTAACTTTCCTCTTTTT
2409386 -CTT-T-GTCCTCAAAGAGCAGGAC
1 CCTTCTAGTCCTCAAAGAGCAGGAC
2409408 GTGCCTTTTC
Statistics
Matches: 214, Mismatches: 18, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
214 50 0.23
215 5 0.02
216 11 0.05
217 131 0.61
218 17 0.08
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.38
Consensus pattern (214 bp):
CCTTCTAGTCCTCAAAGAGCAGGACACACTTTATTTTTTTTCCTTTATCCTCAAAGAACAAGACA
CACTGAACTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGGCATGCCTTTTTCTTTTCCCTTTTG
TCCTCAAAGAGCAGGACACATTCCATTTCCTTCATTTTCCCTTTTGTCCTCAAAAAGCAGGACAC
ACTTAACTTTCCTCTTTTT
Found at i:2409366 original size:129 final size:128
Alignment explanation
Indices: 2409071--2409779 Score: 569
Period size: 129 Copynumber: 5.6 Consensus size: 128
2409061 CGTGCCTTTT
* * *
2409071 TCTTTTCCCTTTTGTCCTCAAAGAGCATGACATA-TTCCATTTCCTTCTTTTCCCTTTTTGTCCT
1 TCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTT-CATTTCTTTCTTTT-CC--TTTGTCCT
* *
2409135 CAAAGAGCAGGACGCACTTCATTTCCTGTTTTTCCCTTCTAGTCCTCAAAGAGCAGGACACACTT
62 CAAAGAGCAGGACGCACTT-ATTTCC---TTTTCTCTT-TTGTCCTCAAAGAGCAGGACACA-TT
*
2409200 TATTCTCC
121 CATTCTCC
* * * *
2409208 T-TTTT-CC-TTTATCCTCAAAGAGTAGGACACACTTAACTTCTTTCTTTTCCTTTGTCCTCAAA
1 TCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCTTTCTTTTCCTTTGTCCTCAAA
* *
2409270 GAGCAGGATGCGCTT-TTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACATTCCATT-TCC
66 GAGCAGGACGCACTTATTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACATT-CATTCTCC
* * *
2409332 TTCATTTTCCCTTTTGTCCTCAAAAAGCAGGACACACTTAACTTTC-TTCTTTTTCTTTGTCCTC
1 -TC-TTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCA-TTTCTTTCTTTTCCTTTGTCCTC
** * * *
2409396 AAAGAGCAGGACGTGCCT-TTTCCTTTTCTCTTTTGCCCTCAAAGAGCAGGACACATTCCATTTT
63 AAAGAGCAGGACGCACTTATTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACATT-CATTCT
*
2409460 CT
127 CC
* *
2409462 TCTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTATTTTCCCTTTTGTCCAT
1 TC-TTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCTTTCTTTT-CC-TTTGTCC-T
* * * * * **
2409527 -AAAGAGTAGGACGCACTTTATTCTCCTTTT-TCCTTTGTCCTCAAGGAGCAAGACGCATTTTGT
62 CAAAGAGCAGGACGCAC-TTATT-TCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACA-TTCAT
2409590 TCTCC
124 TCTCC
* * * *
2409595 T-TTTT-CC-TTTATCCTCAAAAAGTAGGACACACTTCATTTCCTTT-TTTT-CTTTGTCCTCGA
1 TCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTT-CTTTCTTTTCCTTTGTCCTCAA
* * * * * * *
2409655 AGAGCA--A-G-ACGTA-CT-GTTTTCAC-TTTGTCCTC-AAGAAGCAGGACACTTTCCTT-T-T
65 AGAGCAGGACGCACTTATTTCCTTTTCTCTTTTGTCCTCAAAG-AGCAGGACACATTCATTCTCC
* * *
2409710 TCTTTCTTCC-TTTGTCCTCAAGGAGCAGGACCCA-TTCA-TTC--TCTTTTCCTTTGTCCTCAA
1 TCTTT-TCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCTTTCTTTTCCTTTGTCCTCAA
* *
2409770 AAAGTAGGAC
65 AGAGCAGGAC
2409780 CCCCTTCCAT
Statistics
Matches: 478, Mismatches: 65, Indels: 77
0.77 0.10 0.12
Matches are distributed among these distances:
113 1 0.00
114 4 0.01
115 17 0.04
116 6 0.01
117 12 0.03
118 42 0.09
119 2 0.00
121 2 0.00
122 2 0.00
123 1 0.00
124 6 0.01
125 27 0.06
126 21 0.04
127 5 0.01
128 6 0.01
129 182 0.38
130 11 0.02
131 49 0.10
132 2 0.00
133 31 0.06
134 40 0.08
135 4 0.01
136 4 0.01
137 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (128 bp):
TCTTTTCCCTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCTTTCTTTTCCTTTGTCCTCAAA
GAGCAGGACGCACTTATTTCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACACATTCATTCTCC
Found at i:2409637 original size:346 final size:346
Alignment explanation
Indices: 2408998--2409660 Score: 894
Period size: 346 Copynumber: 1.9 Consensus size: 346
2408988 TTTTTTTTCC
* *
2408998 TTTGTCCTCAAAGAACAAGACACACTGAGCTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGGCG
1 TTTGTCCTCAAAGAACAAGACACACTGAACTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGACG
* * * *
2409063 TGCCTTTTTCTTTTCCCTTTTGTCCTCAAAGAGCATGACATATTCCATTTCCTTCTTTTCCCTTT
66 TGCCTTTTCCTTTTCCCTTTTGCCCTCAAAGAGCAGGACACATTCCATTTCCTTCTTTTCCCTTT
*
2409128 TTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTGTTTTTCCCTTCTAGTCCTCAAAGAGCAGGA
131 TTGTCCTCAAAGAGCAGGACACACTTCATTTCCTGTTTTTCCCTTCTAGTCCTCAAAGAGCAGGA
* * *
2409193 CACACTTTATTCTCCTTTTTCCTTTATCCTCAAAGAGTAGGACACACTTAACTTCTTTCTTTTCC
196 CACACTTTATTCTCCTTTTTCCTTTATCCTCAAAGAGCAAGACACACTTAACTTCTCTCTTTTCC
* * ** *
2409258 TTTGTCCTCAAAGAGCAGGATGCGCTTTTTCC-TTTTCTCTTTTGTCCTCAAAGAGCAGGACACA
261 TTTATCCTCAAAAAGCAGGACACACTTTTTCCTTTTTCTC-TTTGTCCTCAAAGAGCAGGACACA
2409322 TTCCATTTCCTTCATTTTCCCT
325 TTCCATTTCCTTCATTTTCCCT
* * *
2409344 TTTGTCCTCAAA-AAGCAGGACACACTTAACTT-TCTTCTTTTTCTTTGTCCTCAAAGAGCAGGA
1 TTTGTCCTCAAAGAA-CAAGACACACTGAACTTCT-TTCTTTTCCTTTGTCCTCAAAGAGCAGGA
* *
2409407 CGTGCCTTTTCCTTTTCTCTTTTGCCCTCAAAGAGCAGGACACATTCCATTTTCTTCTTTTTCCC
64 CGTGCCTTTTCCTTTTCCCTTTTGCCCTCAAAGAGCAGGACACATTCCATTTCCTTC-TTTTCCC
*
2409472 -TTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCT-TATTTTCCCTT-TTGTCCAT-AAAGAG
128 TTTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTGT-TTTTCCCTTCTAGTCC-TCAAAGAG
* * * * * ***
2409533 TAGGACGCACTTTATTCTCCTTTTTCCTTTGTCCTCAAGGAGCAAGACGCA-TTTTGTTCTC-CT
191 CAGGACACACTTTATTCTCCTTTTTCCTTTATCCTCAAAGAGCAAGACACACTTAACTTCTCTC-
* * *
2409596 TTTTCCTTTATCCTCAAAAAGTAGGACACACTTCATTTCCTTTTTTTCTTTGTCCTCGAAGAGCA
255 TTTTCCTTTATCCTCAAAAAGCAGGACACACTT--TTTCCTTTTTCTCTTTGTCCTCAAAGAGCA
2409661 AGACGTACTG
Statistics
Matches: 276, Mismatches: 32, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
343 1 0.00
344 33 0.12
345 59 0.21
346 170 0.62
347 13 0.05
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (346 bp):
TTTGTCCTCAAAGAACAAGACACACTGAACTTCTTTCTTTTCCTTTGTCCTCAAAGAGCAGGACG
TGCCTTTTCCTTTTCCCTTTTGCCCTCAAAGAGCAGGACACATTCCATTTCCTTCTTTTCCCTTT
TTGTCCTCAAAGAGCAGGACACACTTCATTTCCTGTTTTTCCCTTCTAGTCCTCAAAGAGCAGGA
CACACTTTATTCTCCTTTTTCCTTTATCCTCAAAGAGCAAGACACACTTAACTTCTCTCTTTTCC
TTTATCCTCAAAAAGCAGGACACACTTTTTCCTTTTTCTCTTTGTCCTCAAAGAGCAGGACACAT
TCCATTTCCTTCATTTTCCCT
Found at i:2409737 original size:42 final size:39
Alignment explanation
Indices: 2409127--2409779 Score: 180
Period size: 42 Copynumber: 15.5 Consensus size: 39
2409117 CTTTTCCCTT
* *
2409127 TTTGTCCTCAA-AGAGCAGGACGCACTTCATTTCCTGTTTTTCCC
1 TTTGTCCTCAAGA-AGCAGGACACA-TTCA-TT-CT-CTTTT-CC
*
2409171 TTCTAGTCCTCAA-AGAGCAGGACACACTTTATTCTCCTTTTTCC
1 TT-T-GTCCTCAAGA-AGCAGGACACA-TTCATTCT-C-TTTTCC
* * *
2409215 TTTATCCTCAA-AGAGTAGGACACACTTAACTTCTTTCTTTTCC
1 TTTGTCCTCAAGA-AGCAGGACACA-TTCA-TTC--TCTTTTCC
* *
2409258 TTTGTCCTCAA-AGAGCAGGATGCGC-TT-TTTC-CTTTTCTC
1 TTTGTCCTCAAGA-AGCAGGA--CACATTCATTCTCTTTTC-C
2409297 TTTTGTCCTCAA-AGAGCAGGACACATTCCATTTCCTTCATTTTCCC
1 -TTTGTCCTCAAGA-AGCAGGACACATT-CA-TT-C-TC-TTTT-CC
* * *
2409343 TTTTGTCCTCAAAAAGCAGGACACACTTAACTTTCTTCTTTTTC
1 -TTTGTCCTCAAGAAGCAGGACACA-TT--CATTC-TCTTTTCC
* *
2409387 TTTGTCCTCAA-AGAGCAGGACGTGCCTT--TTC-CTTTTCTC
1 TTTGTCCTCAAGA-AGCAGGAC--ACATTCATTCTCTTTTC-C
*
2409426 TTTTGCCCTCAA-AGAGCAGGACACATTCCATTTTCTTCTTTTTCCC
1 -TTTGTCCTCAAGA-AGCAGGACACATT-CA--TTC-TC-TTTT-CC
*
2409472 TTTTGTCCTCAA-AGAGCAGGACACACTTCATTTCCTTATTTTCCC
1 -TTTGTCCTCAAGA-AGCAGGACACA-TTCA-TT-C-TCTTTT-CC
* * * *
2409517 TTTTGTCCATAAAG-AGTAGGACGCACTTTATTCTCCTTTTTCC
1 -TTTGTCC-TCAAGAAGCAGGACACA-TTCATTCT-C-TTTTCC
* * * **
2409560 TTTGTCCTCAAGGAGCAAGACGCATTTTGTTCTCCTTTTTCC
1 TTTGTCCTCAAGAAGCAGGACACA-TTCATTCT-C-TTTTCC
* * * * *
2409602 TTTATCCTCAAAAAGTAGGACACACTTCATTTCCTTTTTTTC
1 TTTGTCCTCAAGAAGCAGGACACA-TTCA-TT-CTCTTTTCC
* * *
2409644 TTTGTCCTCGAAG-AGCA--AGAC-GT-A--CTGTTTTCAC
1 TTTGTCCTC-AAGAAGCAGGACACATTCATTCTCTTTTC-C
* * *
2409678 TTTGTCCTCAAGAAGCAGGACACTTTCCTTTTTCTTTCTTCC
1 TTTGTCCTCAAGAAGCAGGACACATT-CATTCTC-TT-TTCC
* *
2409720 TTTGTCCTCAAGGAGCAGGACCCATTCATTCTCTTTTCC
1 TTTGTCCTCAAGAAGCAGGACACATTCATTCTCTTTTCC
* *
2409759 TTTGTCCTCAAAAAGTAGGAC
1 TTTGTCCTCAAGAAGCAGGAC
2409780 CCCCTTCCAT
Statistics
Matches: 487, Mismatches: 65, Indels: 119
0.73 0.10 0.18
Matches are distributed among these distances:
33 9 0.02
34 14 0.03
36 3 0.01
37 2 0.00
38 17 0.03
39 26 0.05
40 48 0.10
41 13 0.03
42 121 0.25
43 63 0.13
44 20 0.04
45 48 0.10
46 93 0.19
47 9 0.02
48 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (39 bp):
TTTGTCCTCAAGAAGCAGGACACATTCATTCTCTTTTCC
Found at i:2409797 original size:39 final size:37
Alignment explanation
Indices: 2409712--2409797 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 37
2409702 TTCCTTTTTC
**
2409712 TTTC-TTCCTTTGTCCTCAAGGAGCAGGACCCATTCA
1 TTTCTTTCCTTTGTCCTCAAAAAGCAGGACCCATTCA
* *
2409748 TTCTCTTTTCCTTTGTCCTCAAAAAGTAGGACCCCCTTCCA
1 TT-TC-TTTCCTTTGTCCTCAAAAAGCAGGA-CCCATT-CA
2409789 TTTCTTTCC
1 TTTCTTTCC
2409798 CCTTCTAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
36 2 0.05
37 2 0.05
39 26 0.63
40 7 0.17
41 4 0.10
ACGTcount: A:0.17, C:0.33, G:0.12, T:0.38
Consensus pattern (37 bp):
TTTCTTTCCTTTGTCCTCAAAAAGCAGGACCCATTCA
Found at i:2410215 original size:83 final size:83
Alignment explanation
Indices: 2410066--2410232 Score: 253
Period size: 83 Copynumber: 2.0 Consensus size: 83
2410056 AGAGGGGCAG
* * * ** * **
2410066 CTGTAGACACCTAATTTTGTTCGGGCCAATTTTTTTCGGTAACCTGAAGCATGCTTGGATGGAGG
1 CTGTAGACACCTAATTTTGTCCAGGCCAATTTCTTTCGACAACCTGAAGCATGCTTAGATAAAGG
*
2410131 GATCGAAAGGTATGGGGA
66 GATCAAAAGGTATGGGGA
2410149 CTGTAGACACCTAATTTTGTCCAGGCCAATTTCTTTCGACAACCTGAAGCATGCTTAGATAAAGG
1 CTGTAGACACCTAATTTTGTCCAGGCCAATTTCTTTCGACAACCTGAAGCATGCTTAGATAAAGG
2410214 GATCAAAAGGTATGGGGA
66 GATCAAAAGGTATGGGGA
2410232 C
1 C
2410233 GAATATCACC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (83 bp):
CTGTAGACACCTAATTTTGTCCAGGCCAATTTCTTTCGACAACCTGAAGCATGCTTAGATAAAGG
GATCAAAAGGTATGGGGA
Found at i:2412982 original size:27 final size:28
Alignment explanation
Indices: 2412935--2412999 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
2412925 TCCATAATCA
*
2412935 GGATACTCCAACCCTGTTATTTTTGAGG
1 GGATACTCCAACCCTGTTATTTCTGAGG
* *
2412963 GGGTACTTCAA-CCTGTTATTTCTGAGG
1 GGATACTCCAACCCTGTTATTTCTGAGG
2412990 GGATACTCCA
1 GGATACTCCA
2413000 TTCTCGGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 23 0.72
28 9 0.28
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (28 bp):
GGATACTCCAACCCTGTTATTTCTGAGG
Found at i:2413118 original size:79 final size:79
Alignment explanation
Indices: 2412977--2413213 Score: 273
Period size: 79 Copynumber: 3.0 Consensus size: 79
2412967 ACTTCAACCT
* * * * *
2412977 GTTATTTCTGAGGGGATACTCCATTCTCGGTTTTGTTTCTAAAATATCGATTTTCCACAATCGGG
1 GTTATTTCTGAGGGGATACTTCAATCTCGATTTTATTTCTAAAATATCGATTTTCCATAATCGGG
2413042 GATACTCCAACCCC
66 GATACTCCAACCCC
* * *
2413056 GTTAATTTC-GAGGGGATACTTGAATCTCGATTTTATTT-TCAAAACATTGATTTTCCATAATCG
1 GTT-ATTTCTGAGGGGATACTTCAATCTCGATTTTATTTCT-AAAATATCGATTTTCCATAATCG
* **
2413119 GGGATACTCAAACCTT
64 GGGATACTCCAACCCC
* * * * *
2413135 GTTATTTCTGAAGGGATAC-TCAAACCCTGATTTTATTTCTAAAATACCGATTTTCCATAATCGA
1 GTTATTTCTGAGGGGATACTTCAATCTC-GATTTTATTTCTAAAATATCGATTTTCCATAATCGG
*
2413199 GGATATTCCAACCCC
65 GGATACTCCAACCCC
2413214 AGTTCTATTT
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 11 0.08
79 113 0.87
80 6 0.05
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (79 bp):
GTTATTTCTGAGGGGATACTTCAATCTCGATTTTATTTCTAAAATATCGATTTTCCATAATCGGG
GATACTCCAACCCC
Found at i:2413274 original size:51 final size:49
Alignment explanation
Indices: 2413146--2413280 Score: 128
Period size: 51 Copynumber: 2.7 Consensus size: 49
2413136 TTATTTCTGA
* * * *
2413146 AGGGATACTCAAACCCTGATTTTATTTCTAAAATACCGATTTTCCATAAT
1 AGGGATACTC-AACCCCGATTTTATTTCCAAAATACCAATTTTCCACAAT
* * * *
2413196 CGAGGATATTCCAACCCC-AGTTCTATTTCCAAAATACCAATTTTCCACCATT
1 AG-GGATACT-CAACCCCGA-TTTTATTTCCAAAATACCAATTTTCCA-CAAT
*
2413248 AGGGATACTGCAACCCCGATTTTATTTTCAAAA
1 AGGGATACT-CAACCCCGATTTTATTTCCAAAA
2413281 CATTGATTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
50 2 0.03
51 60 0.90
52 5 0.07
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (49 bp):
AGGGATACTCAACCCCGATTTTATTTCCAAAATACCAATTTTCCACAAT
Found at i:2413367 original size:130 final size:130
Alignment explanation
Indices: 2413199--2413502 Score: 407
Period size: 130 Copynumber: 2.3 Consensus size: 130
2413189 CCATAATCGA
* * * * **
2413199 GGATATTCCAACCCCAGTTCTATTTCCAAAATACCAATTTTCCACCATTAG-GGATACTGCAACC
1 GGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACCA-TAGAAAATACTGCAACC
* *
2413263 CCGATTTTATTTTCAAAACATTGA-TTTTCTATAATCGGGGATACTCCAA-CCCTGTTATTTCTG
65 CCGATTTTATTTCCAAAACATTGATTTTTC-ATAATCGGGGATACTCCAATCCC-GTTATTTCTA
2413326 AAG
128 AAG
* * * * *
2413329 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACCATCGAAAATACTGTAACCT
1 GGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACCATAGAAAATACTGCAACCC
* *
2413394 CGATTTTATTTCCAGAACATTGATTTTTCATAATTGGGGATACTCCAATCCCGTTATTTCTAAAG
66 CGATTTTATTTCCAAAACATTGATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCTAAAG
* *
2413459 GGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCA
1 GGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCA
2413503 TAGTCAGGGA
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
129 2 0.01
130 142 0.93
131 8 0.05
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (130 bp):
GGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACCATAGAAAATACTGCAACCC
CGATTTTATTTCCAAAACATTGATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCTAAAG
Found at i:2413483 original size:79 final size:79
Alignment explanation
Indices: 2413389--2413551 Score: 202
Period size: 79 Copynumber: 2.1 Consensus size: 79
2413379 AAAATACTGT
* * ** * ** *
2413389 AACCTCGATTTTATTTCCAGAACATTGATTTTTCATAATTGGGGATACTCCAATCC-CGTTATTT
1 AACCCCGATTTTATTTCCAAAACATCAATTTTCCATAATCAGGGATACT-CAAGCCTCGTTATTT
2413453 CTAAAGGGATACTCC
65 CTAAAGGGATACTCC
* *
2413468 AACCCCGATTTTATTTCCAAAACATCAATTTTCCATAGTCAGGGATACTCTAGCCTCGTTATTTC
1 AACCCCGATTTTATTTCCAAAACATCAATTTTCCATAATCAGGGATACTCAAGCCTCGTTATTTC
* *
2413533 TGAGGGGATACTCC
66 TAAAGGGATACTCC
2413547 AACCC
1 AACCC
2413552 TGTCTTTATC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 4 0.06
79 67 0.94
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
AACCCCGATTTTATTTCCAAAACATCAATTTTCCATAATCAGGGATACTCAAGCCTCGTTATTTC
TAAAGGGATACTCC
Found at i:2417803 original size:52 final size:52
Alignment explanation
Indices: 2417723--2417864 Score: 223
Period size: 52 Copynumber: 2.7 Consensus size: 52
2417713 TGAAACTTTA
* *
2417723 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTT
1 CCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
*
2417775 CCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
**
2417827 CCTGCATGTATCGATACA-AATATCAGTGTATCGATACA
1 CCTGCATGTATCGATACATTTTAT-AGTGTATCGATACA
2417865 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 3 0.04
52 80 0.96
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
Found at i:2417871 original size:13 final size:13
Alignment explanation
Indices: 2417853--2417877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2417843 CAAATATCAG
2417853 TGTATCGATACAA
1 TGTATCGATACAA
2417866 TGTATCGATACA
1 TGTATCGATACA
2417878 TTTGGGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2417970 original size:19 final size:18
Alignment explanation
Indices: 2417930--2417977 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
2417920 AGTGATACAT
*
2417930 TGTATCGATAC-AACTTA
1 TGTATCGATACAAACTCA
2417947 TGTATCGATACAACACTCA
1 TGTATCGATACAA-ACTCA
2417966 TGTATCGATACA
1 TGTATCGATACA
2417978 TTGTATCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 11 0.39
18 1 0.04
19 16 0.57
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (18 bp):
TGTATCGATACAAACTCA
Found at i:2417984 original size:13 final size:13
Alignment explanation
Indices: 2417966--2417990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2417956 ACAACACTCA
2417966 TGTATCGATACAT
1 TGTATCGATACAT
2417979 TGTATCGATACA
1 TGTATCGATACA
2417991 AATCATTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2418890 original size:49 final size:49
Alignment explanation
Indices: 2418722--2419311 Score: 829
Period size: 49 Copynumber: 11.8 Consensus size: 49
2418712 CGAAGAATGA
* ** * *
2418722 CAATGTGCTGATTCATGGCCAGCGACATTTAAACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGC
* * **
2418775 CAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
* *
2418828 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
2418877 CAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
2418926 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
2418978 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
2419027 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
2419076 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
2419125 CGATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
2419177 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
2419226 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
2419275 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
2419312 GGAAATGCCA
Statistics
Matches: 483, Mismatches: 46, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
49 319 0.66
52 101 0.21
53 59 0.12
54 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:2418995 original size:150 final size:148
Alignment explanation
Indices: 2418722--2419311 Score: 842
Period size: 150 Copynumber: 3.9 Consensus size: 148
2418712 CGAAGAATGA
* ** * *
2418722 CAATGTGCTGATTCATGGCCAGCGACATTTAAACTTGAAGATGAGAAGAATGCCAATGTGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGCCAATGTGCTGAT
* * **
2418787 TCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
62 TCAAGGCCAGCGACATT-GGACTTAAAGATGA--AAGGTGCCAATATGCTGATTCAAGGCCAGCG
*
2418852 ATATTGGACTTAAAGATGAAGGTGC
124 ACATTGGACTTAAAGATGAAGGTGC
* *
2418877 CAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
2418942 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATT
66 GGCCAGCGACATTGGACTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT
*
2419007 GGACTTAAAGATGAAGGTGT
129 GGACTTAAAGATGAAGGTGC
2419027 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
2419092 GGCCAGCGACATTGGACTTAAAGATG-AAGGTGCCGATGTGCTGATTCAAGGCCAGCGACATTGG
66 GGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
*
2419156 ACTTAAAGATGACAAAGGCGC
131 ACTTAAAGATG---AAGGTGC
* * * *
2419177 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
2419242 GGCCAGCGACATTGGACTTAAAGAT-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
66 GGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
2419306 ACTTAA
131 ACTTAA
2419312 GGAAATGCCA
Statistics
Matches: 401, Mismatches: 28, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
147 44 0.11
150 287 0.72
151 30 0.07
152 5 0.01
154 11 0.03
155 24 0.06
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (148 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
ACTTAAAGATGAAGGTGC
Found at i:2419067 original size:199 final size:199
Alignment explanation
Indices: 2418722--2419311 Score: 930
Period size: 199 Copynumber: 2.9 Consensus size: 199
2418712 CGAAGAATGA
* ** * * ** *
2418722 CAATGTGCTGATTCATGGCCAGCGACATTTAAACTTGAAGATGA-GAAGAATGCCAATGTGCTGA
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGACAAAG-GCGCCAATATGCTGA
* * * * ** * *
2418786 TTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGC
64 TTCAAGGCTAGCGATATT-GGACTTAAAGAT---GAAGGTGTCAATGTGCTGATTCAAGGCCAGC
* * *
2418851 GATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAG
125 GACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
2418916 ATGAAGGTGC
190 ATGAAGGTGC
2418926 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
2418991 CAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATT
66 CAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATT
2419056 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
131 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
2419121 GTGC
196 GTGC
*
2419125 CGATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
2419190 CAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATT
66 CAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATT
*
2419255 GGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
131 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
2419312 GGAAATGCCA
Statistics
Matches: 364, Mismatches: 21, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
199 286 0.79
202 10 0.03
203 39 0.11
204 29 0.08
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (199 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
CAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATT
GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
GTGC
Found at i:2419421 original size:65 final size:64
Alignment explanation
Indices: 2419317--2419832 Score: 647
Period size: 65 Copynumber: 8.0 Consensus size: 64
2419307 CTTAAGGAAA
* * * **
2419317 TGCCACCAACTTGTGTGGGCTTTTGAGAAGGGTTGCCACCGACTTATGTGGGCTTTGGAGGGGGT
1 TGCCACCAACTTGTGTGGGC-TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
**
2419382 TGCCACCAACTTGTGTGGGCTTTAGAAAAAAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
* * ** *
2419447 TGCCACCGACTTGTGTGGGCTTTGGAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAAAAGGGT
* * * * * * *
2419512 TGCCACCGACTTATGTGGGCTTTGAAAAGAGTTGCCATCGACTTGTGTGAGCTTTG-GAGGGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGG-GT
* * * *
2419576 TGCCATCGACTTGTGTGGGCTTTAGAAAAAGGTTGCTACCGACTTGTGTGGGCTTTGAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
* * **** * *
2419641 TGCCATCGACTTGTGTGGGCTTTGGCGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAAAAGGGT
* * *
2419706 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTAGGCTTTGGAAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
*
2419770 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGG
1 TGCCACCAACTTGTGTGGGCTTT-GAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGG
2419833 AGAAAGATGC
Statistics
Matches: 388, Mismatches: 56, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
63 2 0.01
64 108 0.28
65 275 0.71
66 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (64 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
Found at i:2419484 original size:97 final size:97
Alignment explanation
Indices: 2419317--2419832 Score: 861
Period size: 97 Copynumber: 5.3 Consensus size: 97
2419307 CTTAAGGAAA
* * *
2419317 TGCCACCAACTTGTGTGGGCTTTTGAGAAGGGTTGCCACCGACTTATGTGGGCTTTGGAGGGGGT
1 TGCCACCGACTTGTGTGGGC-TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGT
*
2419382 TGCCACCAACTTGTGTGGGCTTTAGAAAAAAGT
65 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
2419415 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGTT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGTT
*
2419480 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
66 GCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
* * * * *
2419512 TGCCACCGACTTATGTGGGCTTTGAAAAGAGTTGCCATCGACTTGTGTGAGCTTTGGAGGGAGTT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGTT
* *
2419577 GCCATCGACTTGTGTGGGCTTTAGAAAAAGGT
66 GCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
* * *
2419609 TGCTACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCATCGACTTGTGTGGGCTTTGGCGGGGGTT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGTT
2419674 GCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
66 GCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
* * *
2419706 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTAGGCTTTGGAAGGGGTT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGTT
2419771 GCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
66 GCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
2419803 TGCCACCGACTTGTGTGGGCTTTGAAAAGG
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGG
2419833 AGAAAGATGC
Statistics
Matches: 392, Mismatches: 26, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
97 373 0.95
98 19 0.05
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (97 bp):
TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGGGGGTT
GCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
Found at i:2419937 original size:68 final size:67
Alignment explanation
Indices: 2419860--2420309 Score: 371
Period size: 68 Copynumber: 7.0 Consensus size: 67
2419850 TTGTGGACTT
*
2419860 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTCGG-C-TTA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAG-ATGCCACG-AGTTGT-GGACTTTA
2419923 AAAGG
63 AAAGG
* *
2419928 AAAAAGGTGCCACAGAGTTGTGGTCTTTAAAAGG-----G-TGCCACGGAGTTGTGGACTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGATGCCAC-GAGTTGTGGACTTTAAA
2419987 AGG
65 AGG
* * * * *
2419990 AAAAAGAATGCCACGCAGTTGTGGGC-TTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAA
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGATGCCAC-GAGTTGTGGACTTTAA
2420054 AA-G
64 AAGG
*
2420057 -----GGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGTAGTTGTGGGC-TTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAG-ATGCCACG-AGTTGTGGACTTTAA
2420116 AAGG
64 AAGG
* * *
2420120 AAAAAGGTGCCACGGAGGTGTGGGCTTT--AA--AAAGAG-TGCCACAGAGTTGTGGACTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGATGCCAC-GAGTTGTGGACTTT-AA
2420180 AA-G
64 AAGG
* * * * *
2420183 AAAAAGGTGCCACAGAGTCGTGGACTTT-GAA-G-AAAAGATGCCACTGAGTCGTGGACTTTAGA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGATGCCAC-GAGTTGTGGACTTTAAA
2420245 A-G
65 AGG
* * ** * * * *
2420247 AAAAAGATGTCACTAAGTCGTGGACTTT-GAA-GAAAAAGATGCCACTAAGTCGTGGACTTTAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGATGCCAC-GAGTTGTGGACTTTAAA
2420310 GAAAAGAGAT
Statistics
Matches: 324, Mismatches: 32, Indels: 55
0.79 0.08 0.13
Matches are distributed among these distances:
60 2 0.01
61 29 0.09
62 59 0.18
63 60 0.19
64 47 0.15
65 47 0.15
66 2 0.01
67 2 0.01
68 76 0.23
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (67 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGATGCCACGAGTTGTGGACTTTAAAA
GG
Found at i:2419968 original size:28 final size:28
Alignment explanation
Indices: 2419928--2420085 Score: 131
Period size: 28 Copynumber: 5.2 Consensus size: 28
2419918 GCTTAAAAGG
* *
2419928 AAAAAGGTGCCACAGAGTTGTGGTCTTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTT
*
2419956 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTT
*
2419984 AAAAGGAAAAAGAATGCCAC-GCAGTTGTGGGC-TT
1 AAAAGG-----G--TGCCACAG-AGTTGTGGACTTT
2420018 AAAAGGAACAAGGTGCCACAGAGTTGTGGACTTT
1 AAAA-G-----GGTGCCACAGAGTTGTGGACTTT
*
2420052 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTT
2420080 AAAAGG
1 AAAAGG
2420086 AAAAAGAATG
Statistics
Matches: 108, Mismatches: 6, Indels: 32
0.74 0.04 0.22
Matches are distributed among these distances:
28 59 0.55
33 17 0.16
34 14 0.13
35 17 0.16
40 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (28 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTT
Found at i:2420069 original size:192 final size:194
Alignment explanation
Indices: 2419816--2420240 Score: 602
Period size: 192 Copynumber: 2.2 Consensus size: 194
2419806 CACCGACTTG
**
2419816 TGTGGGCTTTGAAAAGGAGAAAGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
1 TGTGGGCTTTGAAAAGGAGAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
*
2419881 GGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGT
66 GGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGG
* * *
2419946 TGTGGTCTTT-AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGAAAAAGAATGCCACGCAGT
131 TGTGGGCTTTAAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGAATGCCACGCAGT
*
2420009 TGTGGGC-TT-AAAAGGA-ACAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTT
1 TGTGGGCTTTGAAAAGGAGA-AAGATGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTT
* * *
2420071 GTGGACTTTAAAAGGAAAAAGAATGCCACGTAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACGGA
64 GTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGA
*
2420136 GGTGTGGGCTTTAAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAG-GTGCCACAG-A
129 GGTGTGGGCTTTAAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGAATGCCAC-GCA
2420199 GT
193 GT
* * * *
2420201 CGTGGACTTTG--AA-GA-AAAGATGCCACTGAGTCGTGGACTT
1 TGTGGGCTTTGAAAAGGAGAAAGATGCCACAGAGTTGTGGACTT
2420241 TAGAAGAAAA
Statistics
Matches: 209, Mismatches: 16, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
189 2 0.01
190 20 0.10
191 29 0.14
192 111 0.53
193 43 0.21
194 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (194 bp):
TGTGGGCTTTGAAAAGGAGAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
GGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGG
TGTGGGCTTTAAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGAATGCCACGCAGT
Done.