Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 80 of 131
Found at i:26829479 original size:16 final size:17
Alignment explanation
Indices: 26829458--26829489 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26829448 TGGTGGAATA
26829458 TAGCAAA-GAAAATGAG
1 TAGCAAATGAAAATGAG
26829474 TAGCAAATGAAAATGA
1 TAGCAAATGAAAATGA
26829490 TTCAAGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.16
Consensus pattern (17 bp):
TAGCAAATGAAAATGAG
Found at i:26831762 original size:46 final size:46
Alignment explanation
Indices: 26831598--26831773 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 46
26831588 TGGGCTTAAA
* * *** *
26831598 ATTCATGTATGCTCGAGTCCGCAACATATGCAGAAGCTTAAAACCC
1 ATTCATGTATTCTCGAGTCCGCAACATATGCAGGAGCTCGGAACCT
** * * * * * *
26831644 AAACCTGTATTATGGTGTCCGCAACATATACAAGAGCTCGGAACCT
1 ATTCATGTATTCTCGAGTCCGCAACATATGCAGGAGCTCGGAACCT
* * * * ** *
26831690 ATTCTTGTCTTCTTGAGTTCATAACATATGTAGGAGCTCGGAACCT
1 ATTCATGTATTCTCGAGTCCGCAACATATGCAGGAGCTCGGAACCT
*
26831736 ATTCATGTATTCTCGAGTCCGCAACATATGTAGGAGCT
1 ATTCATGTATTCTCGAGTCCGCAACATATGCAGGAGCT
26831774 TAAAACCTGG
Statistics
Matches: 97, Mismatches: 33, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
46 97 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (46 bp):
ATTCATGTATTCTCGAGTCCGCAACATATGCAGGAGCTCGGAACCT
Found at i:26832664 original size:16 final size:17
Alignment explanation
Indices: 26832639--26832670 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26832629 TTGTTTTTAT
26832639 TTTTATTTATTTTAACC
1 TTTTATTTATTTTAACC
26832656 TTTTA-TTATTTTAAC
1 TTTTATTTATTTTAAC
26832671 TTAGTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTTATTTTAACC
Found at i:26834310 original size:13 final size:13
Alignment explanation
Indices: 26834268--26834323 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
26834258 TAGATTCTTC
26834268 CTAAATATTATCA
1 CTAAATATTATCA
*
26834281 C-AAA-ATAATC-
1 CTAAATATTATCA
26834291 CTAAATATTATCA
1 CTAAATATTATCA
*
26834304 TTAAATATTATCA
1 CTAAATATTATCA
26834317 CTAAATA
1 CTAAATA
26834324 ATTTAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 1 0.03
11 8 0.22
12 8 0.22
13 19 0.53
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:26841653 original size:27 final size:27
Alignment explanation
Indices: 26841622--26842102 Score: 497
Period size: 27 Copynumber: 17.8 Consensus size: 27
26841612 TAAGCCCAAC
*
26841622 ATACCCCCGAAGGGTAAAATGATCAAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* *
26841649 ATACCCCCGAAGGGTAACATGA-CTAAA
1 ATACCCCCGAAGGGTAAAATGATC-GAA
* * * *
26841676 ATAACCTCGAAGGGTAAAATAACCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* *
26841703 ATACCCCCGAAGGTTAAAATGATTGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* * * *
26841730 ATACCCCCAAAAGGTAAAAT-AACTAAA
1 ATACCCCCGAAGGGTAAAATGATC-GAA
* * *
26841757 ATACCCTCAAAGGGTAAAATGA-CCAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* *
26841783 ACTACTCCCGAATGGTAAAATGA-CTGAA
1 A-TACCCCCGAAGGGTAAAATGATC-GAA
*
26841811 ATACCCCCGAAAGGTAAAATGATCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
** * *
26841838 ATACCTTCTAAGGGTAAAATGACCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
** * *
26841865 ATACCCTTGAAGGGTAAAATGACCAAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
26841892 ATACCCCCGAAGGGTAAAATGATCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* * *
26841919 ATACCCCCGAAAGGTAAAATAATTGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* * *
26841946 ATACCCTCGAAAGATAAAATGATCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
*
26841973 ATACCCCCAAAGGGTAAAATGATCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* *
26842000 ATACCCCCAAAGGTTAAAATGA-CTGAA
1 ATACCCCCGAAGGGTAAAATGATC-GAA
* *
26842027 ATACCCCCAAAGGGTAAAATGACCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
* * *
26842054 ATACCCCTGAAAGGTAAAATGACCGAA
1 ATACCCCCGAAGGGTAAAATGATCGAA
26842081 ATACCCCC-ATAGGGTAAAATGA
1 ATACCCCCGA-AGGGTAAAATGA
26842103 CTGTTATACC
Statistics
Matches: 385, Mismatches: 59, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
26 7 0.02
27 371 0.96
28 7 0.02
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.17
Consensus pattern (27 bp):
ATACCCCCGAAGGGTAAAATGATCGAA
Found at i:26842320 original size:26 final size:26
Alignment explanation
Indices: 26842291--26842345 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
26842281 TTTGCCACAT
*
26842291 ATACTTTTACTGGCAGCTTCGTTGCG
1 ATACTTTTACTGGCAGCTTCGCTGCG
*
26842317 ATACTTTTACTGGCAGCTTTGCTGCG
1 ATACTTTTACTGGCAGCTTCGCTGCG
26842343 ATA
1 ATA
26842346 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTTTTACTGGCAGCTTCGCTGCG
Found at i:26842476 original size:28 final size:28
Alignment explanation
Indices: 26842445--26842512 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
26842435 GTAATATTAT
* ** *
26842445 CACACTGTTATTGTATTGGGCTAAGGAC
1 CACACTGTTACTGTATCAGGCTAACGAC
*
26842473 CACACTGTTACTGTATCAGGCTAACGCC
1 CACACTGTTACTGTATCAGGCTAACGAC
26842501 CACACTG-TACTG
1 CACACTGTTACTG
26842513 ATACTAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (28 bp):
CACACTGTTACTGTATCAGGCTAACGAC
Found at i:26860095 original size:50 final size:50
Alignment explanation
Indices: 26860020--26860140 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
26860010 TCATATATTA
* ** * * *
26860020 TCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATAG
1 TCTTACAGGGGACCTCTCATATCGGTGCCAACGCCACGTCCCAGACATAG
* * * *
26860070 TCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCACGTCCTAGACATGG
1 TCTTACAGGGGACCTCTCATATCGGTGCCAACGCCACGTCCCAGACATAG
*
26860120 TCTTACATGGGACCTCTCATA
1 TCTTACAGGGGACCTCTCATA
26860141 ACCTCAATGA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TCTTACAGGGGACCTCTCATATCGGTGCCAACGCCACGTCCCAGACATAG
Found at i:26860564 original size:30 final size:30
Alignment explanation
Indices: 26860530--26860587 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
26860520 CCTCGACTCT
*
26860530 AACTTAGGCAAAATTATGATTTTGCCCCTA
1 AACTTAGACAAAATTATGATTTTGCCCCTA
** * *
26860560 AACTTTTACATAATTATGCTTTTGCCCC
1 AACTTAGACAAAATTATGATTTTGCCCC
26860588 AAAGCTCGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.38
Consensus pattern (30 bp):
AACTTAGACAAAATTATGATTTTGCCCCTA
Found at i:26863151 original size:26 final size:26
Alignment explanation
Indices: 26863117--26863178 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
26863107 CCTGTAAGTG
*
26863117 TTCTAAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
26863143 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
26863169 TTCTGAAACT
1 TTCTGAAACT
26863179 ACTGTAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:26872078 original size:189 final size:188
Alignment explanation
Indices: 26871735--26872111 Score: 646
Period size: 189 Copynumber: 2.0 Consensus size: 188
26871725 ACCCGAAATG
*
26871735 CAAAAAATGGGATCGACGAAAAACCAAAATTGCTTGCTATCGAACAATAAGAGAAATAAGAGAAA
1 CAAAAAATGGGATCGACGAAAAACCAAAATTGCTTGCTATCGAAAAATAAGAGAAATAAGAGAAA
*
26871800 ATGATGCAAAAAATTGTAGAGAAAAGAAATAAGGGTGTTATAATCTTGGAAATCAACAATCTGCA
66 ATGATGCAAAAAATTGTAGAGAAAAGAAATAAGGGTGTTATAATCTTGGAAATCAACAATCTACA
* * *
26871865 CTAAAATAGTTTTGGACAGCAGCAGTAGCCTAACTTTGAAAAATCATCTAAAATAGTA
131 CTAAAATAGTTTTAGACAGCAGCAGTAGCCTAAATTTAAAAAATCATCTAAAATAGTA
* * * *
26871923 CAAAAAATGGGATTCGGCGAAAAGCCAAAATTTCTTGCTGTCGAAAAATAAGAGAAATAAGAGAA
1 CAAAAAATGGGA-TCGACGAAAAACCAAAATTGCTTGCTATCGAAAAATAAGAGAAATAAGAGAA
*
26871988 AATGATGCAAAAAATTGTAGAGAAAGGAAATAAGGGTGTTATAATCTTGGAAATCAACAATCTAC
65 AATGATGCAAAAAATTGTAGAGAAAAGAAATAAGGGTGTTATAATCTTGGAAATCAACAATCTAC
*
26872053 ACTAAAATAGTTTTAGACAGCAGCAGTAGTCTAAATTTAAAAAATCATCTAAAATAGTA
130 ACTAAAATAGTTTTAGACAGCAGCAGTAGCCTAAATTTAAAAAATCATCTAAAATAGTA
26872112 GAAATTGAGT
Statistics
Matches: 177, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
188 12 0.07
189 165 0.93
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (188 bp):
CAAAAAATGGGATCGACGAAAAACCAAAATTGCTTGCTATCGAAAAATAAGAGAAATAAGAGAAA
ATGATGCAAAAAATTGTAGAGAAAAGAAATAAGGGTGTTATAATCTTGGAAATCAACAATCTACA
CTAAAATAGTTTTAGACAGCAGCAGTAGCCTAAATTTAAAAAATCATCTAAAATAGTA
Found at i:26874268 original size:178 final size:178
Alignment explanation
Indices: 26873969--26874327 Score: 700
Period size: 178 Copynumber: 2.0 Consensus size: 178
26873959 AAGTCTTCCT
26873969 CTTTGACTTTTGTTTCAATTTAACCCATTTTTGTAAAAGTTTGAATTCAGCACACCAACTTCATT
1 CTTTGACTTTTGTTTCAATTTAACCCATTTTTGTAAAAGTTTGAATTCAGCACACCAACTTCATT
26874034 CCTAATAAGAAAAATCCAAATTAAATAGCATTTTATCCGATAATTAGCCAAAAATAAATACATTA
66 CCTAATAAGAAAAATCCAAATTAAATAGCATTTTATCCGATAATTAGCCAAAAATAAATACATTA
26874099 AAATACAAATTTATCTTGCTATCAGGGGTTGTTACACCTTAAGTCACC
131 AAATACAAATTTATCTTGCTATCAGGGGTTGTTACACCTTAAGTCACC
*
26874147 CTTTGACTTTTGTTTCAATTTAACCCCTTTTTGTAAAAGTTTGAATTCAGCACACCAACTTCATT
1 CTTTGACTTTTGTTTCAATTTAACCCATTTTTGTAAAAGTTTGAATTCAGCACACCAACTTCATT
26874212 CCTAATAAGAAAAATCCAAATTAAATAGCATTTTATCCGATAATTAGCCAAAAATAAATACATTA
66 CCTAATAAGAAAAATCCAAATTAAATAGCATTTTATCCGATAATTAGCCAAAAATAAATACATTA
*
26874277 AAATACAAATTTATCTTGCTATCAGGGGTTGTTACACCTTAAGTCATC
131 AAATACAAATTTATCTTGCTATCAGGGGTTGTTACACCTTAAGTCACC
26874325 CTT
1 CTT
26874328 GTTAGGGAGT
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (178 bp):
CTTTGACTTTTGTTTCAATTTAACCCATTTTTGTAAAAGTTTGAATTCAGCACACCAACTTCATT
CCTAATAAGAAAAATCCAAATTAAATAGCATTTTATCCGATAATTAGCCAAAAATAAATACATTA
AAATACAAATTTATCTTGCTATCAGGGGTTGTTACACCTTAAGTCACC
Found at i:26877331 original size:2 final size:2
Alignment explanation
Indices: 26877319--26877349 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
26877309 AAGAACATAG
26877319 AT AT CAT 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
26877350 GTATTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26888420 original size:25 final size:25
Alignment explanation
Indices: 26888403--26888462 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
26888393 CAGCTCGAGA
* *
26888403 GAGCTTACTGATATTCAGTTTGCAT
1 GAGCTTACTGATATTCAGCTCGCAT
*
26888428 GAGCTTA-TCGATATTCAGCTCGTAT
1 GAGCTTACT-GATATTCAGCTCGCAT
26888453 GAGCTTACTG
1 GAGCTTACTG
26888463 TTTACAGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (25 bp):
GAGCTTACTGATATTCAGCTCGCAT
Found at i:26891655 original size:43 final size:43
Alignment explanation
Indices: 26891607--26891753 Score: 185
Period size: 43 Copynumber: 3.4 Consensus size: 43
26891597 TGTGATTTCG
26891607 TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACA
*
26891650 TGTAAGACCATGTCTAGGACATTGGCATCG-TAT-ATGATTTCA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATGA-GATTACA
* * * *
26891692 TATAAGA-CACTGTCT-GAGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCA-TGTCTAG-GACATTGGCATCGATATGAGATTACA
*
26891735 TGTAAGACCATATCTAGGA
1 TGTAAGACCATGTCTAGGA
26891754 TATGGATTTG
Statistics
Matches: 89, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
41 4 0.04
42 32 0.36
43 50 0.56
44 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTACA
Found at i:26899234 original size:43 final size:43
Alignment explanation
Indices: 26899186--26899329 Score: 186
Period size: 43 Copynumber: 3.4 Consensus size: 43
26899176 GATTTCGTAG
26899186 AAGACCATGTCTAGGACATTGGCATCGATATGAGATTACATGT
1 AAGACCATGTCTAGGACATTGGCATCGATATGAGATTACATGT
* *
26899229 AAGACCATGTCTAGGACATTGGCATCG-TAT-ATGATTTCATAT
1 AAGACCATGTCTAGGACATTGGCATCGATATGA-GATTACATGT
* * * *
26899271 AAGA-CACTGTCTGGGACAATGGCATCGATATGTGATAACATGT
1 AAGACCA-TGTCTAGGACATTGGCATCGATATGAGATTACATGT
*
26899314 AAGACCATATCTAGGA
1 AAGACCATGTCTAGGA
26899330 TATGGCTTTG
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
41 3 0.03
42 33 0.38
43 48 0.56
44 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
AAGACCATGTCTAGGACATTGGCATCGATATGAGATTACATGT
Found at i:26899335 original size:42 final size:42
Alignment explanation
Indices: 26899186--26899348 Score: 177
Period size: 43 Copynumber: 3.9 Consensus size: 42
26899176 GATTTCGTAG
* *
26899186 AAGACCATGTCTAGGACATTGGCATCGATATGAGATTACATGT
1 AAGACCATGTCTAGGACATTGGCATCG-TATGTGATAACATGT
* ** *
26899229 AAGACCATGTCTAGGACATTGGCATCGTATATGATTTCATAT
1 AAGACCATGTCTAGGACATTGGCATCGTATGTGATAACATGT
* *
26899271 AAGA-CACTGTCTGGGACAATGGCATCGATATGTGATAACATGT
1 AAGACCA-TGTCTAGGACATTGGCATCG-TATGTGATAACATGT
* * * *
26899314 AAGACCATATCTAGGATA-TGGCTTTGTATGTGATA
1 AAGACCATGTCTAGGACATTGGCATCGTATGTGATA
26899349 TATGTGTTTC
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 11 0.11
42 39 0.38
43 50 0.49
44 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
AAGACCATGTCTAGGACATTGGCATCGTATGTGATAACATGT
Found at i:26904528 original size:16 final size:16
Alignment explanation
Indices: 26904507--26904563 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
26904497 ATTTACTTCG
26904507 TTTTTATTTAGTTTTA
1 TTTTTATTTAGTTTTA
* ** **
26904523 TTTTTATATTCGCGCTCG
1 TTTTTAT-TTAG-TTTTA
26904541 TTTTTATTTAGTTTTA
1 TTTTTATTTAGTTTTA
26904557 TTTTTAT
1 TTTTTAT
26904564 ATTCGCGTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
16 15 0.52
17 6 0.21
18 8 0.28
ACGTcount: A:0.16, C:0.07, G:0.09, T:0.68
Consensus pattern (16 bp):
TTTTTATTTAGTTTTA
Found at i:26904543 original size:34 final size:34
Alignment explanation
Indices: 26904504--26904570 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
26904494 TTTATTTACT
26904504 TCGTTTTTATTTAGTTTTATTTTTATATTCGCGC
1 TCGTTTTTATTTAGTTTTATTTTTATATTCGCGC
26904538 TCGTTTTTATTTAGTTTTATTTTTATATTCGCG
1 TCGTTTTTATTTAGTTTTATTTTTATATTCGCG
26904571 TATTTGAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63
Consensus pattern (34 bp):
TCGTTTTTATTTAGTTTTATTTTTATATTCGCGC
Found at i:26905176 original size:29 final size:28
Alignment explanation
Indices: 26905128--26905194 Score: 98
Period size: 29 Copynumber: 2.4 Consensus size: 28
26905118 AAGAATAAGA
* *
26905128 AATTTCATTAGGTTACTTTAGGTTAATT
1 AATTTCATTAGATTAATTTAGGTTAATT
26905156 AATTTCCATTAGATTAATTTAGGTTAATT
1 AATTT-CATTAGATTAATTTAGGTTAATT
*
26905185 AATTTAATTA
1 AATTTCATTA
26905195 CGTTGTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 9 0.26
29 26 0.74
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.49
Consensus pattern (28 bp):
AATTTCATTAGATTAATTTAGGTTAATT
Found at i:26905187 original size:14 final size:14
Alignment explanation
Indices: 26905144--26905190 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
26905134 ATTAGGTTAC
26905144 TTTAGGTTAATTAA
1 TTTAGGTTAATTAA
***
26905158 TTTCCATTAGATTAA
1 TTTAGGTTA-ATTAA
26905173 TTTAGGTTAATTAA
1 TTTAGGTTAATTAA
26905187 TTTA
1 TTTA
26905191 ATTACGTTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (14 bp):
TTTAGGTTAATTAA
Found at i:26905916 original size:16 final size:17
Alignment explanation
Indices: 26905889--26905937 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
26905879 CAGAATTGAT
*
26905889 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
26905906 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
* *
26905922 TTAATTAAAATTAATT
1 TTGA-GAAAATTAATT
26905938 TATAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 13 0.48
17 5 0.19
18 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:26907154 original size:53 final size:53
Alignment explanation
Indices: 26907044--26907156 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 53
26907034 GTAGACTGAC
* * * * * ** *
26907044 GGTGGTCTGACGATGATGAACGATGGCAAGGGTTGGTAGTGGAGGTTGATGAT
1 GGTGGTCTAACGATGATGAACGATGGCAAAGGTCGGTAGTAGAGGCTGACAAA
* *
26907097 GGTGGTCTAAC-AGTGATGAATGATGGTAAAGGTCGGTAGTAGAGGCTGACAAA
1 GGTGGTCTAACGA-TGATGAACGATGGCAAAGGTCGGTAGTAGAGGCTGACAAA
26907150 GGTGGTC
1 GGTGGTC
26907157 GGTAAGGTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
52 1 0.02
53 48 0.98
ACGTcount: A:0.26, C:0.09, G:0.41, T:0.25
Consensus pattern (53 bp):
GGTGGTCTAACGATGATGAACGATGGCAAAGGTCGGTAGTAGAGGCTGACAAA
Found at i:26930757 original size:30 final size:31
Alignment explanation
Indices: 26930721--26930782 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
26930711 TATTAGTATA
*
26930721 GTGTGGGCCTTAGCCCATTACAGTAA-CAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
26930751 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
26930782 G
1 G
26930783 CAATGTAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (31 bp):
GTGTGGGCCTTAGCCCAATACAGTAATCAGT
Found at i:26931128 original size:27 final size:26
Alignment explanation
Indices: 26931098--26931159 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 26
26931088 TTTCAACTCC
26931098 TAGGGGTATAACAGTCATTTTACCCT
1 TAGGGGTATAACAGTCATTTTACCCT
**
26931124 ATAGGGGTATTTCAGTCATTTTACCCT
1 -TAGGGGTATAACAGTCATTTTACCCT
26931151 TAGGGGTAT
1 TAGGGGTAT
26931160 TTCGCTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (26 bp):
TAGGGGTATAACAGTCATTTTACCCT
Found at i:26931195 original size:27 final size:27
Alignment explanation
Indices: 26931111--26931306 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 27
26931101 GGGTATAACA
* *
26931111 GTCATTTTACCCTAT-AGGGGTATTTCA
1 GTCATTTTACCCT-TCAAGGGTATTTCG
*
26931138 GTCATTTTACCCTT-AGGGGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCG
* * *
26931164 CTCATTTTACCTTTCAAGGGTATTTTG
1 GTCATTTTACCCTTCAAGGGTATTTCG
*
26931191 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCG
*
26931218 ATCATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCG
* * *
26931245 ATCATTTTACCCTTCAAAGGTATTTTG
1 GTCATTTTACCCTTCAAGGGTATTTCG
26931272 GTCATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCG
26931299 GTCATTTT
1 GTCATTTT
26931307 CCCATGAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
26 24 0.16
27 128 0.84
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCAAGGGTATTTCG
Found at i:26940272 original size:20 final size:21
Alignment explanation
Indices: 26940234--26940273 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26940224 TAACCTTCAA
26940234 AAAAATTCAAGATAGTTTTCC
1 AAAAATTCAAGATAGTTTTCC
*
26940255 AAAAATTCCAGATA-TTTTC
1 AAAAATTCAAGATAGTTTTC
26940274 AAACCCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAAATTCAAGATAGTTTTCC
Found at i:26941407 original size:15 final size:15
Alignment explanation
Indices: 26941369--26941408 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
26941359 AGAGATGAGT
26941369 AAAGAAGAGA-AAAG
1 AAAGAAGAGAGAAAG
*
26941383 AAAAAAGAGAGAAAG
1 AAAGAAGAGAGAAAG
*
26941398 AAAGATGAGAG
1 AAAGAAGAGAG
26941409 GATTCAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (15 bp):
AAAGAAGAGAGAAAG
Found at i:26948607 original size:137 final size:138
Alignment explanation
Indices: 26948369--26948634 Score: 360
Period size: 137 Copynumber: 1.9 Consensus size: 138
26948359 ATGGGTTTGC
* ** *
26948369 TCACACAAGTTGTCAGTCGAAATGTAAGCTACACAATACTACTCACACAAGATGTCGAGTATCTG
1 TCACACAAGCTGTCAGTCGAAACATAAGCTACACAATACTACTCACACAAGATGTCAAGTATCTG
* *
26948434 CAACTAATATCGAACCTCAGCCATCGGTAGGACATTCAAGACCAACAATTGAAACATGGTAACCT
66 CAACTAATACCGAACCTCAGCCATCGGTAGGACATTCAAGACCAACAATCGAAACATGGTAACCT
26948499 GGGTCTAA
131 GGGTCTAA
* ** * *
26948507 TCACACAAGCTGTCAGTCGGAACAT-AGCTACACGGTGCTACTCACACAAGCTGTCAAGTATCTG
1 TCACACAAGCTGTCAGTCGAAACATAAGCTACACAATACTACTCACACAAGATGTCAAGTATCTG
* *
26948571 CAACTAATGCCGGAA-CTCTA-CCAAT-GGTAGGACATTCAAGACCAACACTCGAAACATGGTAA
66 CAACTAATACC-GAACCTC-AGCC-ATCGGTAGGACATTCAAGACCAACAATCGAAACATGGTAA
26948633 CC
128 CC
26948635 CTAATGACAA
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
137 85 0.76
138 27 0.24
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (138 bp):
TCACACAAGCTGTCAGTCGAAACATAAGCTACACAATACTACTCACACAAGATGTCAAGTATCTG
CAACTAATACCGAACCTCAGCCATCGGTAGGACATTCAAGACCAACAATCGAAACATGGTAACCT
GGGTCTAA
Found at i:26952741 original size:13 final size:12
Alignment explanation
Indices: 26952724--26952753 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
26952714 TAATAATAGT
26952724 AAAAGAAAAGAA
1 AAAAGAAAAGAA
26952736 AGAAAGAAAAGAA
1 A-AAAGAAAAGAA
26952749 AAAAG
1 AAAAG
26952754 GAGAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:26958592 original size:19 final size:22
Alignment explanation
Indices: 26958554--26958595 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
26958544 GTTAGTGTAA
26958554 TTAAATTGTACATATATATGTT
1 TTAAATTGTACATATATATGTT
26958576 TTAAATTG-A-AT-TATATGTT
1 TTAAATTGTACATATATATGTT
26958595 T
1 T
26958596 CTGAAGTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 1 0.05
22 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (22 bp):
TTAAATTGTACATATATATGTT
Found at i:26966902 original size:26 final size:26
Alignment explanation
Indices: 26966873--26966925 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
26966863 TTTCGACAAA
26966873 TTGAGTTTGGATATGCTTTGTGTGCT
1 TTGAGTTTGGATATGCTTTGTGTGCT
26966899 TTGAGTTTGGATATGCTTTGTGTGCT
1 TTGAGTTTGGATATGCTTTGTGTGCT
26966925 T
1 T
26966926 ACCTTAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.08, G:0.30, T:0.51
Consensus pattern (26 bp):
TTGAGTTTGGATATGCTTTGTGTGCT
Found at i:26970753 original size:7 final size:7
Alignment explanation
Indices: 26970741--26970773 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
26970731 TAAAAACATA
26970741 AATTTGG
1 AATTTGG
26970748 AATTTGG
1 AATTTGG
26970755 AATTTGG
1 AATTTGG
26970762 AATTTGG
1 AATTTGG
26970769 AATTT
1 AATTT
26970774 TGGGTATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (7 bp):
AATTTGG
Found at i:26979417 original size:41 final size:41
Alignment explanation
Indices: 26979383--26979502 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 41
26979373 GGGGCATGTG
*
26979383 TATGCAATTCAAGGGTATC-ATAGTACAAATAGGGGCACATA
1 TATGCAATTCAAGGGTACCGA-AGTACAAATAGGGGCACATA
* * * *
26979424 TGTGCAATTTAGGGGTACCGAAGTACAAATAGGGGCACTTA
1 TATGCAATTCAAGGGTACCGAAGTACAAATAGGGGCACATA
* * * *
26979465 TGTACAATT-TAGGGATACCGAAGTACAAACAGGGGCAC
1 TATGCAATTCAAGGG-TACCGAAGTACAAATAGGGGCAC
26979503 GAATGTGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.04
41 64 0.94
42 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.23
Consensus pattern (41 bp):
TATGCAATTCAAGGGTACCGAAGTACAAATAGGGGCACATA
Found at i:26979436 original size:21 final size:21
Alignment explanation
Indices: 26979412--26979478 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
26979402 ATAGTACAAA
*
26979412 TAGGGGCACATATGTGCAATT
1 TAGGGGCACATATGTACAATT
* ** * *
26979433 TAGGGGTACCGAAGTACAA-A
1 TAGGGGCACATATGTACAATT
*
26979453 TAGGGGCACTTATGTACAATT
1 TAGGGGCACATATGTACAATT
26979474 TAGGG
1 TAGGG
26979479 ATACCGAAGT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (21 bp):
TAGGGGCACATATGTACAATT
Found at i:26979458 original size:20 final size:20
Alignment explanation
Indices: 26979433--26979499 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
26979423 ATGTGCAATT
26979433 TAGGGGTACCGAAGTACAAA
1 TAGGGGTACCGAAGTACAAA
* ** * *
26979453 TAGGGGCACTTATGTACAATT
1 TAGGGGTACCGAAGTACAA-A
*
26979474 TAGGGATACCGAAGTACAAA
1 TAGGGGTACCGAAGTACAAA
*
26979494 CAGGGG
1 TAGGGG
26979500 CACGAATGTG
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (20 bp):
TAGGGGTACCGAAGTACAAA
Found at i:26979490 original size:21 final size:21
Alignment explanation
Indices: 26979428--26979492 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
26979418 CACATATGTG
26979428 CAATTTAGGGGTACCGAAGTA
1 CAATTTAGGGGTACCGAAGTA
* * ** *
26979449 CAA-ATAGGGGCACTTATGTA
1 CAATTTAGGGGTACCGAAGTA
*
26979469 CAATTTAGGGATACCGAAGTA
1 CAATTTAGGGGTACCGAAGTA
26979490 CAA
1 CAA
26979493 ACAGGGGCAC
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (21 bp):
CAATTTAGGGGTACCGAAGTA
Found at i:26981500 original size:27 final size:27
Alignment explanation
Indices: 26981470--26981542 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
26981460 AGTCAGCCAC
26981470 AAAGGCTTACATTTTATGGATCACCAA
1 AAAGGCTTACATTTTATGGATCACCAA
* * * *
26981497 AAAGGCTTCCATTTTTTAGATCACCAT
1 AAAGGCTTACATTTTATGGATCACCAA
*
26981524 AAAGG-TTTCAATTTTATGG
1 AAAGGCTTAC-ATTTTATGG
26981543 GGTGTTCACA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
AAAGGCTTACATTTTATGGATCACCAA
Found at i:26987620 original size:57 final size:60
Alignment explanation
Indices: 26987499--26987639 Score: 146
Period size: 57 Copynumber: 2.4 Consensus size: 60
26987489 TTTCTTATAC
* * * * *
26987499 ATTTTAA-TTTTAATTTGAATTTTAGATTTTGTTTTAAAGTTCAACTTATGTTTTAAACTTAA
1 ATTTTAAGTTTTAATTAGATTTTTAGA--TTGTTTT-AAGCTCAACTTATATTTTAAACCTAA
*
26987561 ATTTTAAGTTTTAATTAGATTTTTAGA-TGTTTT-AGCTCAA-TTATATTTTAAGCCTAA
1 ATTTTAAGTTTTAATTAGATTTTTAGATTGTTTTAAGCTCAACTTATATTTTAAACCTAA
* * *
26987618 ATTTGAAGCTCTAATTAGATTT
1 ATTTTAAGTTTTAATTAGATTT
26987640 AAAATTCTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
57 33 0.48
58 6 0.09
60 6 0.09
62 7 0.10
63 17 0.25
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (60 bp):
ATTTTAAGTTTTAATTAGATTTTTAGATTGTTTTAAGCTCAACTTATATTTTAAACCTAA
Found at i:26987859 original size:18 final size:19
Alignment explanation
Indices: 26987838--26987873 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26987828 TCAAGTCTAG
26987838 TTAGATTT-TAATTTTAAA
1 TTAGATTTATAATTTTAAA
*
26987856 TTAGATTTATATTTTTAA
1 TTAGATTTATAATTTTAA
26987874 TTCAATTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
TTAGATTTATAATTTTAAA
Found at i:26987910 original size:98 final size:98
Alignment explanation
Indices: 26987722--26987948 Score: 287
Period size: 98 Copynumber: 2.3 Consensus size: 98
26987712 GTCCTAGCCA
* * *
26987722 TTAGA-TTTTAAGTTTAGCTAGATTTTAAGGTTAAATTGGATTTTAGATTTTAAATCCAATTAGA
1 TTAGATTTTTAAGTCTAGTTAGATTTTAAGGTTAAATTAGATTTTAGATTTTAAATCCAATTAGA
* *
26987786 TTGTAAGTTTAAATTTTAGGATTAAATTAGATT
66 TTATAAGTTTAAATTCTAGGATTAAATTAGATT
** * * *
26987819 TTAGATTTTTCAAGTCTAGTTAGATTTTAATTTTAAATTAGA-TTTATATTTTTAATTCAATTAG
1 TTAGATTTTT-AAGTCTAGTTAGATTTTAAGGTTAAATTAGATTTTAGATTTTAAATCCAATTAG
* *
26987883 GTTATAAGTTTAAATTCTAGGTTTAAATTAGATT
65 ATTATAAGTTTAAATTCTAGGATTAAATTAGATT
* *
26987917 TTATATTTTTTTAAGTGTAGTTAGATTTTAAG
1 TTAGA--TTTTTAAGTCTAGTTAGATTTTAAG
26987949 TTAGAAATCT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
97 5 0.05
98 57 0.51
99 44 0.40
100 5 0.05
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (98 bp):
TTAGATTTTTAAGTCTAGTTAGATTTTAAGGTTAAATTAGATTTTAGATTTTAAATCCAATTAGA
TTATAAGTTTAAATTCTAGGATTAAATTAGATT
Found at i:26988151 original size:18 final size:17
Alignment explanation
Indices: 26988110--26988148 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
26988100 ATTTTTCAAA
*
26988110 ATTTTAAGTTTAATTAG
1 ATTTTAAGCTTAATTAG
26988127 ATTTTAAGCTTAACTT-G
1 ATTTTAAGCTTAA-TTAG
26988144 ATTTT
1 ATTTT
26988149 TAATAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (17 bp):
ATTTTAAGCTTAATTAG
Found at i:26991164 original size:154 final size:154
Alignment explanation
Indices: 26990884--26991179 Score: 412
Period size: 154 Copynumber: 1.9 Consensus size: 154
26990874 TTGATAATTT
* *
26990884 TTAGCATGTTGGAATGATTAAATTGTATTGAAATTAGTCGTAGTTGTTCTAGCAATGAATGTGGC
1 TTAGCATGTTGGAATGATTAAATTGTATTGAAATTAGTCGTAGTTGCTCTAGCAACGAATGTGGC
* * *
26990949 ATCCCGTAGCTCAAACCCAACGATTAGGTCGGGTATGGGGTGTTACATTGCTGATCATTTTATGT
66 ATACCGTAGCTCAAACCCAACAATTAGGTCAGGTATGGGGTGTTACATTGCTGATCATTTTATGT
26991014 GGTAATAGATTATGAAGTGTATTG
131 GGTAATAGATTATGAAGTGTATTG
* * *
26991038 TTAGCATGTTGGAGTGATTAAATTGTATTGAAATTAGTTGTAGTTGCTCTAGTAACGAATGTGGC
1 TTAGCATGTTGGAATGATTAAATTGTATTGAAATTAGTCGTAGTTGCTCTAGCAACGAATGTGGC
** ** * ** * * * *
26991103 ATATTGTAGCTCGGACTCGGCAATTGGGTTAGGTATGGGGTGTTATATTGCTGGTCATTTTATGT
66 ATACCGTAGCTCAAACCCAACAATTAGGTCAGGTATGGGGTGTTACATTGCTGATCATTTTATGT
*
26991168 GGTAGTAGATTA
131 GGTAATAGATTA
26991180 AGCATGAGAA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
154 122 1.00
ACGTcount: A:0.26, C:0.10, G:0.27, T:0.37
Consensus pattern (154 bp):
TTAGCATGTTGGAATGATTAAATTGTATTGAAATTAGTCGTAGTTGCTCTAGCAACGAATGTGGC
ATACCGTAGCTCAAACCCAACAATTAGGTCAGGTATGGGGTGTTACATTGCTGATCATTTTATGT
GGTAATAGATTATGAAGTGTATTG
Found at i:26994794 original size:9 final size:9
Alignment explanation
Indices: 26994777--26994813 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26994767 TGAGTTTTCG
26994777 AATTCGAAT
1 AATTCGAAT
*
26994786 AACTCGAAT
1 AATTCGAAT
*
26994795 AATTTGAAT
1 AATTCGAAT
26994804 AATTCGAAT
1 AATTCGAAT
26994813 A
1 A
26994814 TCAAACTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26995715 original size:5 final size:5
Alignment explanation
Indices: 26995698--26995728 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
26995688 GAACAAATAT
*
26995698 ATTCG ATTTG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
26995729 ATTCCATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (5 bp):
ATTCG
Found at i:26996185 original size:20 final size:19
Alignment explanation
Indices: 26996142--26996225 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 19
26996132 AAATTAAGAT
* * *
26996142 AAAATGATTTTAACGAAGGC
1 AAAATGATTTCAAC-ATGTC
*
26996162 AAAATGATTTCAACCAAT-TT
1 AAAATGATTTCAA-C-ATGTC
* *
26996182 AAAATAATTTTAACATGTC
1 AAAATGATTTCAACATGTC
*
26996201 AAAATGATTTCAAACAAGTC
1 AAAATGATTTC-AACATGTC
26996221 AAAAT
1 AAAAT
26996226 TGCTCTAGGC
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.04
19 11 0.22
20 35 0.70
21 2 0.04
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.30
Consensus pattern (19 bp):
AAAATGATTTCAACATGTC
Found at i:26996225 original size:39 final size:40
Alignment explanation
Indices: 26996142--26996225 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
26996132 AAATTAAGAT
* * * *
26996142 AAAATGATTTTAACGAAGGCAAAATGATTTCAACCAATTT
1 AAAATAATTTTAACGAAGGCAAAATGATTTCAAACAAGTC
* *
26996182 AAAATAATTTTAAC-ATGTCAAAATGATTTCAAACAAGTC
1 AAAATAATTTTAACGAAGGCAAAATGATTTCAAACAAGTC
26996221 AAAAT
1 AAAAT
26996226 TGCTCTAGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.30
Consensus pattern (40 bp):
AAAATAATTTTAACGAAGGCAAAATGATTTCAAACAAGTC
Found at i:27000461 original size:25 final size:25
Alignment explanation
Indices: 27000433--27000490 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
27000423 GTTACTAATT
27000433 TCAGCTCT-TATGAGCTTACCGATAC
1 TCAGCT-TGTATGAGCTTACCGATAC
* *
27000458 TCAGCTTGTATGAGCTTACCGTTAT
1 TCAGCTTGTATGAGCTTACCGATAC
27000483 TCAGCTTG
1 TCAGCTTG
27000491 GAGGAGCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (25 bp):
TCAGCTTGTATGAGCTTACCGATAC
Found at i:27000497 original size:25 final size:25
Alignment explanation
Indices: 27000444--27000513 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
27000434 CAGCTCTTAT
* * * *
27000444 GAGCTTACCGATACTCAGCTTGTAT
1 GAGCTTACCGTTATTCAGCTTGGAG
27000469 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCGTTATTCAGCTTGGAG
* **
27000494 GAGCTGACATTTATTCAGCT
1 GAGCTTACCGTTATTCAGCT
27000514 CGAAGAAGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTTGGAG
Found at i:27007308 original size:20 final size:19
Alignment explanation
Indices: 27007283--27007345 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
27007273 ACAATTTTAA
*
27007283 AACCAAGATAAAATTATTTT
1 AACCAAG-TAAAATCATTTT
* * *
27007303 AACCAAGTCATAATGATTTC
1 AACCAAGT-AAAATCATTTT
27007323 AACCAAGTTAAAATCATTTT
1 AACCAAG-TAAAATCATTTT
27007343 AAC
1 AAC
27007346 ATATCAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (19 bp):
AACCAAGTAAAATCATTTT
Found at i:27007363 original size:40 final size:40
Alignment explanation
Indices: 27007283--27007370 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
27007273 ACAATTTTAA
* * *
27007283 AACCAAGATAAAATTATTTTAACCAAGTCATAATGATTTC
1 AACCAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTC
27007323 AACCAAGTTAAAATCATTTTAA-CATA-TCAAAATGATTTTC
1 AACCAAGTTAAAATCATTTTAACCA-AGTCAAAATGA-TTTC
*
27007363 AAACAAGT
1 AACCAAGT
27007371 CAGAATTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (40 bp):
AACCAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTC
Found at i:27017243 original size:33 final size:33
Alignment explanation
Indices: 27017201--27017293 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
27017191 TCATGATGCC
* *
27017201 AAGCATTATTATGGGGATGGACCCTTCCTATTT
1 AAGCATTATTATCGGGATGAACCCTTCCTATTT
* * *
27017234 AAGCATTATTATCGAGATGAATCCGTCCTATTT
1 AAGCATTATTATCGGGATGAACCCTTCCTATTT
* *
27017267 AGGCATTATTATTGGGATGAACCCTTC
1 AAGCATTATTATCGGGATGAACCCTTC
27017294 ATGATGCCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (33 bp):
AAGCATTATTATCGGGATGAACCCTTCCTATTT
Found at i:27044124 original size:26 final size:26
Alignment explanation
Indices: 27044071--27044125 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
27044061 TCAGTACAGT
* * **
27044071 GTGGGCCTTAGCCCATTATGGTAACA
1 GTGGGCCTAAGCCCAATACAGTAACA
*
27044097 GTGGGCCTAAGCCCAATACAGTATCA
1 GTGGGCCTAAGCCCAATACAGTAACA
27044123 GTG
1 GTG
27044126 TGGTGCATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
GTGGGCCTAAGCCCAATACAGTAACA
Found at i:27044575 original size:26 final size:26
Alignment explanation
Indices: 27044544--27044630 Score: 129
Period size: 26 Copynumber: 3.3 Consensus size: 26
27044534 ACCCTTCGGG
*
27044544 GATAATTTACCCATTGAGGGTATTTT
1 GATAATTTACCCATTGAGGGTATTTC
* ** *
27044570 GGTAATTTATGCATTGAGAGTATTTC
1 GATAATTTACCCATTGAGGGTATTTC
27044596 GATAATTTACCCATTGAGGGTATTTC
1 GATAATTTACCCATTGAGGGTATTTC
27044622 GATAATTTA
1 GATAATTTA
27044631 GGACCATTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (26 bp):
GATAATTTACCCATTGAGGGTATTTC
Found at i:27051357 original size:27 final size:27
Alignment explanation
Indices: 27051325--27051376 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
27051315 GTACAATATA
*
27051325 TGTGGCAAAGTCACCAGTAACAGTAAT
1 TGTGGCAAAGCCACCAGTAACAGTAAT
* *
27051352 TGTGGCAGAGCCACCAGTATCAGTA
1 TGTGGCAAAGCCACCAGTAACAGTA
27051377 CTTCCTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGTAACAGTAAT
Found at i:27051610 original size:26 final size:26
Alignment explanation
Indices: 27051556--27051696 Score: 174
Period size: 26 Copynumber: 5.4 Consensus size: 26
27051546 TACCCTTTGG
** *
27051556 GGGTATTTTAGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAA-TTTACCCATCGA
*
27051583 GGGTATTTCGGTAATTTACCCATTGA
1 GGGTATTTCGGTAATTTACCCATCGA
* ** *
27051609 GGTTATTTTTGTAATTTACCTATCGA
1 GGGTATTTCGGTAATTTACCCATCGA
* *
27051635 GGGTATTTTGCTAATTTACCCATCGA
1 GGGTATTTCGGTAATTTACCCATCGA
*
27051661 GGGTATTTCAGTAATTTACCCATCGA
1 GGGTATTTCGGTAATTTACCCATCGA
27051687 GGGTATTTCG
1 GGGTATTTCG
27051697 ATAACTTAGA
Statistics
Matches: 97, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 85 0.88
27 12 0.12
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTACCCATCGA
Found at i:27051642 original size:52 final size:52
Alignment explanation
Indices: 27051556--27051696 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 52
27051546 TACCCTTTGG
* *
27051556 GGGTATTTTAGTAATTTTACCCT-TCGAGGGTATTTCGGTAATTTACCCATTGA
1 GGGTATTTTAGTAA-TTTA-CCTATCGAGGGTATTTCGCTAATTTACCCATCGA
* * *
27051609 GGTTATTTTTGTAATTTACCTATCGAGGGTATTTTGCTAATTTACCCATCGA
1 GGGTATTTTAGTAATTTACCTATCGAGGGTATTTCGCTAATTTACCCATCGA
* *
27051661 GGGTATTTCAGTAATTTACCCATCGAGGGTATTTCG
1 GGGTATTTTAGTAATTTACCTATCGAGGGTATTTCG
27051697 ATAACTTAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
51 3 0.04
52 62 0.81
53 12 0.16
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.41
Consensus pattern (52 bp):
GGGTATTTTAGTAATTTACCTATCGAGGGTATTTCGCTAATTTACCCATCGA
Found at i:27057589 original size:24 final size:24
Alignment explanation
Indices: 27057524--27057642 Score: 152
Period size: 25 Copynumber: 4.9 Consensus size: 24
27057514 GCATCCCCGA
27057524 AACAATGGAAAGGTTGAAAAGGAT
1 AACAATGGAAAGGTTGAAAAGGAT
*
27057548 AACAAATGGAGAA-TTTGAAAAGGAT
1 AAC-AATGGA-AAGGTTGAAAAGGAT
*
27057573 AACAATGGAAAGGTTGAAAATGAT
1 AACAATGGAAAGGTTGAAAAGGAT
*
27057597 AACAAATGGAGAA-GTTGAAAATGAT
1 AAC-AATGGA-AAGGTTGAAAAGGAT
*
27057622 AACAATGGAAAGATTGAAAAG
1 AACAATGGAAAGGTTGAAAAG
27057643 TATAGCAAGG
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
23 4 0.05
24 35 0.42
25 41 0.49
26 4 0.05
ACGTcount: A:0.52, C:0.04, G:0.25, T:0.18
Consensus pattern (24 bp):
AACAATGGAAAGGTTGAAAAGGAT
Found at i:27057598 original size:49 final size:49
Alignment explanation
Indices: 27057524--27057642 Score: 202
Period size: 49 Copynumber: 2.4 Consensus size: 49
27057514 GCATCCCCGA
*
27057524 AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAATTTGAAAAGGAT
1 AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAAGTTGAAAAGGAT
* *
27057573 AACAATGGAAAGGTTGAAAATGATAACAAATGGAGAAGTTGAAAATGAT
1 AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAAGTTGAAAAGGAT
*
27057622 AACAATGGAAAGATTGAAAAG
1 AACAATGGAAAGGTTGAAAAG
27057643 TATAGCAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.52, C:0.04, G:0.25, T:0.18
Consensus pattern (49 bp):
AACAATGGAAAGGTTGAAAAGGATAACAAATGGAGAAGTTGAAAAGGAT
Found at i:27059384 original size:51 final size:50
Alignment explanation
Indices: 27059276--27059455 Score: 209
Period size: 51 Copynumber: 3.6 Consensus size: 50
27059266 GATACACGTG
* * * *
27059276 GTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACATA
1 GTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGGTACACATA
27059326 GTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCCGGTACACATA
1 GTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGGTACACATA
* * * * * *
27059377 GTAGCCTGCACATAATACTACACATGTGACCATTATCTAT-CGATACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCCGGTACACATA
* * *
27059428 GTAGCCTGTACTTAGTACCACACACGTG
1 GTAGCCTGCACATAGTACTACACACGTG
27059456 TTTATAGGCA
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
50 32 0.29
51 78 0.70
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
GTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGGTACACATA
Found at i:27061083 original size:50 final size:51
Alignment explanation
Indices: 27060906--27061089 Score: 185
Period size: 51 Copynumber: 3.6 Consensus size: 51
27060896 TATAAACACG
* * * * * * *
27060906 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGTTCACA
1 TGTGTAGTACTATGTGCAGGCTACTAAGTGTAACAGAAAGCT-TTGATCACA
* * * * *
27060957 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAGGCTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTAAGTGTAACAGAAAGCTTTGATCACA
*
27061008 TGTGTAGTACTATGTGCAGGCTACTAAGTG-AACAGGAAAG-TTTGATCACC
1 TGTGTAGTACTATGTGCAGGCTACTAAGTGTAACA-GAAAGCTTTGATCACA
* * *
27061058 TGTGTAGTACTATGTGAAGACTACTATGTGTA
1 TGTGTAGTACTATGTGCAGGCTACTAAGTGTA
27061090 TTGAATGATA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
50 38 0.34
51 71 0.63
52 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTAAGTGTAACAGAAAGCTTTGATCACA
Found at i:27064248 original size:42 final size:43
Alignment explanation
Indices: 27064201--27064287 Score: 167
Period size: 42 Copynumber: 2.0 Consensus size: 43
27064191 TTTTGTCTAT
27064201 CTGAAGCAGCTTTCAAACAATCACGGATTACTTTC-CTTTTTC
1 CTGAAGCAGCTTTCAAACAATCACGGATTACTTTCACTTTTTC
27064243 CTGAAGCAGCTTTCAAACAATCACGGATTACTTTCACTTTTTC
1 CTGAAGCAGCTTTCAAACAATCACGGATTACTTTCACTTTTTC
27064286 CT
1 CT
27064288 CAGTTTCTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 35 0.80
43 9 0.20
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (43 bp):
CTGAAGCAGCTTTCAAACAATCACGGATTACTTTCACTTTTTC
Found at i:27072201 original size:51 final size:49
Alignment explanation
Indices: 27072072--27072264 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 49
27072062 ATTATTATCA
* * * * *
27072072 TTCGATACACGTAGTAGCCTTCACATAGTACTACTCACGTGATCAAACTT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAC-C
* *
27072122 TTCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTAACCAAAGCC
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CC
* * * *
27072172 TTCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACC
* * *
27072223 TATCGATACATGTAGTAGCCTGCACTTAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
27072265 TTTATAGGCA
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 43 0.36
51 76 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACC
Found at i:27077820 original size:12 final size:11
Alignment explanation
Indices: 27077803--27077849 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 11
27077793 TTAAGTTAAA
*
27077803 TAAAATATATGT
1 TAAAAT-TAAGT
27077815 TAAAATTAAGT
1 TAAAATTAAGT
27077826 TAATAATTAAGT
1 TAA-AATTAAGT
27077838 TAAAATGTAAGT
1 TAAAAT-TAAGT
27077850 ACATAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (11 bp):
TAAAATTAAGT
Found at i:27078724 original size:45 final size:44
Alignment explanation
Indices: 27078630--27078747 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 44
27078620 CATTGTTTGA
* * * *
27078630 GAAAAGGAAAAGACCATTATTGAAAGAAATCATGGTATTATAATC
1 GAAAA-GAAAAGACCATGATTGAAAGATATCATGGCACTATAATC
* *
27078675 GAAAAGAAAAATACCATGATTGAAAGATATCATGGCACTA-AATTT
1 GAAAAG-AAAAGACCATGATTGAAAGATATCATGGCACTATAA-TC
* * *
27078720 GAAAAGGAAAGACCAAGGTTGAAAGATA
1 GAAAAGAAAAGACCATGATTGAAAGATA
27078748 CTATGACATC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 21 0.34
45 40 0.66
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.21
Consensus pattern (44 bp):
GAAAAGAAAAGACCATGATTGAAAGATATCATGGCACTATAATC
Found at i:27080433 original size:132 final size:133
Alignment explanation
Indices: 27080235--27080500 Score: 525
Period size: 132 Copynumber: 2.0 Consensus size: 133
27080225 ATCCCTAAAA
27080235 AGGACCCTCGAGACCCTAAAACATGCAACGAAAATAGTTCGGGTCCAAACCGGGAACATTAAAAA
1 AGGACCCTCGAGACCCTAAAACATGCAACGAAAATAGTTCGGGTCCAAACCGGGAACATTAAAAA
27080300 TTTTCTGAAAACTTAAATAAATCAAAATAAATTATTTCACTATTCACAATAAAACTG-CCACTTG
66 TTTTCTGAAAACTTAAATAAATCAAAATAAATTATTTCACTATTCACAATAAAACTGTCCACTTG
27080364 CAT
131 CAT
27080367 AGGACCCTCGAGACCCTAAAACATGCAACGAAAATAGTTCGGGTCCAAACCGGGAACATTAAAAA
1 AGGACCCTCGAGACCCTAAAACATGCAACGAAAATAGTTCGGGTCCAAACCGGGAACATTAAAAA
27080432 TTTTCTGAAAACTTAAATAAATCAAAATAAATTATTTCACTATTCACAATAAAACTGTCCACTTG
66 TTTTCTGAAAACTTAAATAAATCAAAATAAATTATTTCACTATTCACAATAAAACTGTCCACTTG
27080497 CAT
131 CAT
27080500 A
1 A
27080501 ACAGTCACTA
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 122 0.92
133 11 0.08
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.24
Consensus pattern (133 bp):
AGGACCCTCGAGACCCTAAAACATGCAACGAAAATAGTTCGGGTCCAAACCGGGAACATTAAAAA
TTTTCTGAAAACTTAAATAAATCAAAATAAATTATTTCACTATTCACAATAAAACTGTCCACTTG
CAT
Found at i:27096923 original size:112 final size:112
Alignment explanation
Indices: 27096743--27096968 Score: 418
Period size: 112 Copynumber: 2.0 Consensus size: 112
27096733 CGCAAAAAAA
27096743 AAATCATGCATTATATATGATATATTTTTTTGTCATATATAATTTATGAAATGATATTTCAGACA
1 AAATCATGCATTATATATGATATATTTTTTTGTCATATATAATTTATGAAATGATATTTCAGACA
27096808 TAGCTAAGTTATTGAAAGAAAATAATTATTTTTTCTCAAATCCGTATT
66 TAGCTAAGTTATTGAAAGAAAATAATTA-TTTTTCTCAAATCCGTATT
*
27096856 AAATCATGCATTATATATGATAT-TTTTTTTGTCATATATAATTTATGACATGATATTTCAGACA
1 AAATCATGCATTATATATGATATATTTTTTTGTCATATATAATTTATGAAATGATATTTCAGACA
*
27096920 TAGCTAAGTTATTGAAAGAAAATAATTATTTTTCTCAAATCCGTGTT
66 TAGCTAAGTTATTGAAAGAAAATAATTATTTTTCTCAAATCCGTATT
27096967 AA
1 AA
27096969 TAATTTATTA
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
111 20 0.18
112 68 0.61
113 23 0.21
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (112 bp):
AAATCATGCATTATATATGATATATTTTTTTGTCATATATAATTTATGAAATGATATTTCAGACA
TAGCTAAGTTATTGAAAGAAAATAATTATTTTTCTCAAATCCGTATT
Found at i:27098696 original size:23 final size:22
Alignment explanation
Indices: 27098652--27098696 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
27098642 TATAAAAACT
*
27098652 AAACCCCAAAATTTGAAAACAA
1 AAACCCCAAAACTTGAAAACAA
27098674 AAACCCTCAAAACTT-AAACACAA
1 AAACCC-CAAAACTTGAAA-ACAA
27098697 TATTATCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCCCAAAACTTGAAAACAA
Found at i:27102057 original size:19 final size:21
Alignment explanation
Indices: 27102012--27102060 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
27102002 TCACCCTCAA
27102012 TCTCTTTTTGCTCTTTTTCAT
1 TCTCTTTTTGCTCTTTTTCAT
* *
27102033 TCTCTTTTTTCT-TTTTTGAT
1 TCTCTTTTTGCTCTTTTTCAT
27102053 T-TCTTTTT
1 TCTCTTTTT
27102061 CTGTCTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 11 0.42
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.73
Consensus pattern (21 bp):
TCTCTTTTTGCTCTTTTTCAT
Found at i:27106540 original size:73 final size:73
Alignment explanation
Indices: 27106457--27106604 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
27106447 TTCTAATCTC
27106457 ATCAAGGATTTGCATTAATATTTTCTTAAAATATTAACCATTCAAGATATTAATAATCTTATACA
1 ATCAAGGATTTGCATTAATATTTTCTTAAAATATTAACCATTCAAGATATTAATAATCTTATACA
27106522 AAATTTTT
66 AAATTTTT
27106530 ATCAAGGATTTGCATTAATATTTTCTTAAAATATTAACCATTCAAGATATTAATAATCTTATACA
1 ATCAAGGATTTGCATTAATATTTTCTTAAAATATTAACCATTCAAGATATTAATAATCTTATACA
27106595 AAATTTTT
66 AAATTTTT
27106603 AT
1 AT
27106605 TTCGAAAACA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (73 bp):
ATCAAGGATTTGCATTAATATTTTCTTAAAATATTAACCATTCAAGATATTAATAATCTTATACA
AAATTTTT
Found at i:27106584 original size:35 final size:35
Alignment explanation
Indices: 27106470--27106584 Score: 94
Period size: 35 Copynumber: 3.2 Consensus size: 35
27106460 AAGGATTTGC
27106470 ATTAATATTTTCTTAAAATATTAACCATTCAAGAT
1 ATTAATATTTTCTTAAAATATTAACCATTCAAGAT
* * ***
27106505 ATTAATA--ATCTTATACAAAATT-TTTA-TCAAGGATTT
1 ATTAATATTTTCTTA-A-AATATTAACCATTCAA-GA--T
27106541 GCATTAATATTTTCTTAAAATATTAACCATTCAAGAT
1 --ATTAATATTTTCTTAAAATATTAACCATTCAAGAT
27106578 ATTAATA
1 ATTAATA
27106585 ATCTTATACA
Statistics
Matches: 59, Mismatches: 10, Indels: 22
0.65 0.11 0.24
Matches are distributed among these distances:
33 9 0.15
34 4 0.07
35 19 0.32
36 1 0.02
37 1 0.02
38 12 0.20
39 4 0.07
40 9 0.15
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (35 bp):
ATTAATATTTTCTTAAAATATTAACCATTCAAGAT
Found at i:27110320 original size:17 final size:17
Alignment explanation
Indices: 27110298--27110330 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27110288 TACACTAATG
*
27110298 AATACAAATAATCAATT
1 AATACAAATAAGCAATT
27110315 AATACAAATAAGCAAT
1 AATACAAATAAGCAAT
27110331 ACAATACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (17 bp):
AATACAAATAAGCAATT
Found at i:27110561 original size:18 final size:18
Alignment explanation
Indices: 27110540--27110585 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
27110530 ATAAAATAAA
*
27110540 ATAAAATAATGTACATAC
1 ATAAAATAATGTAAATAC
*
27110558 ATAAAAATAA-GTAAATAT
1 AT-AAAATAATGTAAATAC
27110576 ATAAAATAAT
1 ATAAAATAAT
27110586 AATAGTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 10 0.42
19 7 0.29
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAAAATAATGTAAATAC
Found at i:27110594 original size:6 final size:6
Alignment explanation
Indices: 27110527--27110623 Score: 51
Period size: 6 Copynumber: 16.2 Consensus size: 6
27110517 ATAACAGTAT
* *
27110527 ATAATA A-AATA A-AATA A-AATA AT-GTA CATACATA AAAATA AGTAAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA -ATA-ATA ATAATA A-T-AATA
* ** * *
27110575 TATAA-A ATAATA ATAGTA ATACCA ATAATA ACAATA GTAATA ATAATA
1 -ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
27110623 A
1 A
27110624 ACTAAATAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
5 21 0.30
6 37 0.53
7 4 0.06
8 7 0.10
9 1 0.01
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (6 bp):
ATAATA
Found at i:27110622 original size:21 final size:21
Alignment explanation
Indices: 27110571--27110623 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
27110561 AAAATAAGTA
*
27110571 AATATATAA-AATAATAATAGT
1 AATA-ATAATAATAACAATAGT
**
27110592 AATACCAATAATAACAATAGT
1 AATAATAATAATAACAATAGT
27110613 AATAATAATAA
1 AATAATAATAA
27110624 ACTAAATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (21 bp):
AATAATAATAATAACAATAGT
Found at i:27112118 original size:44 final size:43
Alignment explanation
Indices: 27112064--27112187 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 43
27112054 GATTCGTTGT
* *
27112064 CTTCAGTCTGCTCCGCTGTAACTTCAGAGAGATAAGGCT-GATGG
1 CTTCAATCTGCTCCACTGTAACTTCAG-GAGATAAGGCTAG-TGG
*
27112108 CTTCAATCTGCTCCACTGTAACTTAAGGGAGATAAGGCTAGTGG
1 CTTCAATCTGCTCCACTGTAACTTCA-GGAGATAAGGCTAGTGG
* *
27112152 CTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAG
1 CTTCAATCTGCTCCACTGTAACTTCAGG-AGATAAG
27112188 ATCCGCCATA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.03
44 67 0.94
45 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGTAACTTCAGGAGATAAGGCTAGTGG
Found at i:27112295 original size:143 final size:143
Alignment explanation
Indices: 27112108--27113465 Score: 1833
Period size: 143 Copynumber: 9.5 Consensus size: 143
27112098 AGGCTGATGG
* * * * *
27112108 CTTCAATCTGCTCCACTGTAACTTAAGGGAGATAAGGCTAGTGGCTTCAATCTGCTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
**
27112173 CTTCAGGAAGATAAGATCCGCCATAATTTAG-AGCTTTAATCTGTTCCACACCAACTTCAGGGAA
66 CTTCAGGAAGATAAGATCCGCCATAATTT-GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA
*
27112237 ATAAGATCCGCTAT
130 ATAAGATCCGCTGT
* * * *
27112251 CTTCAGTCTGCTCCGTTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTACAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* *
27112316 CTTCAGGAAGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCCACTGCAACTTCAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
*
27112381 TAAGATCCGTTGT
131 TAAGATCCGCTGT
* * *
27112394 CTTTAGTCTGCTCCGATGAAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * *
27112459 CTTCAAGAAGATAATATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
27112524 TAAGATCCGCTGT
131 TAAGATCCGCTGT
* * * * * *
27112537 CTTCAGCCTACTCTGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTACAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * *
27112602 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCGTTAATATGTTCCATTGCAACTTCAGAGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
*
27112667 TAAGATCTGCTGT
131 TAAGATCCGCTGT
*
27112680 CTTCAGTCTGTTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * * *
27112745 CTTCAGGAAGATGAGATCCACCATAATTTAG-AGCTTTAATTTGTTCCACTACAACTTTAGGGAA
66 CTTCAGGAAGATAAGATCCGCCATAATTT-GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA
27112809 ATAAGATCC-CTTGT
130 ATAAGATCCGC-TGT
** * * *
27112823 CTTCAGTCTGCTCCATTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTACAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* ** *
27112888 CTTTAGGAAGATAAGATCCGCCATAATTTGTATATTTAATCTGTTCCACTGCAACTTCAAGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
*
27112953 TAAGATCCGTTGT
131 TAAGATCCGCTGT
* * * *
27112966 CTTCAGTCTACTCCGATGTAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * * *
27113031 CTTCAAGAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTATTCCACTACAAATTCAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
* **
27113096 TAATATTTGCTGT
131 TAAGATCCGCTGT
*
27113109 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCCT-CTTCACTACA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT-CTGCTTCACTGCA
* * * *
27113173 ACTTCAAGAAGATAAGATCCGCCATAATTTGTAGCTTTAATATGTTCCACTGCAACTTTAGAGAA
65 ACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA
* *
27113238 ATAAGATCTGCTAT
130 ATAAGATCCGCTGT
* * * * *
27113252 CTTTAGTCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATTTGCTTCACTGCCA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * * * *
27113317 CTTCAGGAAGATAAAATCGGCCATAATTTGTAGCTTTAATCTGCTCCACTACAATTTTAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
* *
27113382 TATGATCCGTTGT
131 TAAGATCCGCTGT
** * * * * ** * **
27113395 CTTCAGTCTGCTCCATTACAACTTCAGGGAGGTAAGACTTGTATCTTCAACCTGCCCCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
27113460 CTTCAG
66 CTTCAG
27113466 AGGGATAAGG
Statistics
Matches: 1069, Mismatches: 139, Indels: 14
0.87 0.11 0.01
Matches are distributed among these distances:
142 4 0.00
143 1062 0.99
144 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
TAAGATCCGCTGT
Found at i:27112463 original size:44 final size:44
Alignment explanation
Indices: 27112413--27112756 Score: 122
Period size: 44 Copynumber: 7.3 Consensus size: 44
27112403 GCTCCGATGA
27112413 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGC
* * * * * * *
27112457 AACTTCAAGAAGATAATATCCGCCATAATTTGTAGCTTTAATCT-ATTCCACTGC
1 AACTTCAGGGAGAT-A-A---GGC-----TGGTGGCTTCAATCTGCTT-CACTGC
* * * * * ** * *
27112511 AACTTCAGGGAAATAAGATCCGCTGTCTTCAGCCTAC-TCTGCTGC
1 AACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTTC-ACTGC
* * *
27112556 AACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTAC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGC
* * * * *
27112600 AACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCGTT-AATATG-TTCCATTGC
1 AACTTCAGGGAGATAAG----G-C-----TGGTGGC-TTCAATCTGCTT-CACTGC
* * * * * * *
27112654 AACTTCAGAGAAATAAGATCTGCTGTCTTCAGTCTG-TTCCGCTGC
1 AACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTT-CACTGC
27112699 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGC
*
27112743 AACTTCAGGAAGAT
1 AACTTCAGGGAGAT
27112757 GAGATCCACC
Statistics
Matches: 210, Mismatches: 61, Indels: 58
0.64 0.19 0.18
Matches are distributed among these distances:
44 77 0.37
45 61 0.29
46 1 0.00
48 1 0.00
49 4 0.02
50 2 0.01
52 1 0.00
53 5 0.02
54 56 0.27
55 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGC
Found at i:27112715 original size:45 final size:45
Alignment explanation
Indices: 27112651--27113330 Score: 137
Period size: 44 Copynumber: 14.4 Consensus size: 45
27112641 TATGTTCCAT
* * * * *
27112651 TGCAACTTCAGAGAAATAAGATCTGCTGTCTTCAGTCTG-TTCCGC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTT-CAC
* *
27112696 TGCAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTCAC
* * ** * *
27112740 TGCAACTTCAGGAAGATGAGATCCACCATAATTTAGAGCTTTAATTTG-TTCCAC
1 TGCAACTTCAGGGAGATAAGAT----C-T--GCT-G-GCTTCAATCTGCTT-CAC
* * * * * * * *
27112794 TACAACTTTAGGGAAATAAGATC-CCTTGTCTTCAGTCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATCTGC-TGGCTTCAATCTGCTTCAC
* * * *
27112839 TGTAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTTCTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTCAC
* * * * ** *
27112883 TACAACTTTAGGAAGATAAGATCCGCCATAATTTGTATATTTAATCTG-TTCCAC
1 TGCAACTTCAGGGAGATAAGATCTG-C------TG--GCTTCAATCTGCTT-CAC
* * * * * * * *
27112937 TGCAACTTCAAGGAAATAAGATCCGTTGTCTTCAGTCTACTCCGA-
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC-AC
* * * *
27112982 TGTAACTTCAGAGAGATAAG-GCTGGTGGCTTCAATCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTCAC
* * * * *
27113026 TGCAACTTCAAGAAGATAAGATCCGTCATAATTTGTAGCTTTAATCT-ATTCCAC
1 TGCAACTTCAGGGAGATAAGATCTG-C------TG--GCTTCAATCTGCTT-CAC
* * * * * * * * *
27113080 TACAAATTCAGGGAAATAATATTTGCTGTCTTCAGTCTGCTCCGC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTCAC
* *
27113125 TGCAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCCT-CTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAAT-CTGCTTCAC
* * * * * *
27113169 TACAACTTCAAGAAGATAAGATCCGCCATAATTTGTAGCTTTAATATG-TTCCAC
1 TGCAACTTCAGGGAGATAAGATCTG-C------TG--GCTTCAATCTGCTT-CAC
* * * ** * * *
27113223 TGCAACTTTAGAGAAATAAGATCTGCTATCTTTAGTCTG-TTCCGC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTT-CAC
* * * *
27113268 TGCAACTTTAGGGAGATAAG-GCTGGTGGCTTCAATTTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTCAC
* *
27113312 TGCCACTTCAGGAAGATAA
1 TGCAACTTCAGGGAGATAA
27113331 AATCGGCCAT
Statistics
Matches: 441, Mismatches: 139, Indels: 111
0.64 0.20 0.16
Matches are distributed among these distances:
43 1 0.00
44 156 0.35
45 135 0.31
46 5 0.01
47 6 0.01
49 1 0.00
50 2 0.00
52 7 0.02
53 12 0.03
54 116 0.26
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTCAC
Found at i:27115762 original size:23 final size:23
Alignment explanation
Indices: 27115719--27115763 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27115709 GCCTCTCCTT
*
27115719 TTTTCCTTTTTCTTATCTTTTTC
1 TTTTCCTTTTTCTCATCTTTTTC
*
27115742 TTTTCTTTTTTCATCAT-TTTTT
1 TTTTCCTTTTTC-TCATCTTTTT
27115764 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTCCTTTTTCTCATCTTTTTC
Found at i:27119271 original size:17 final size:17
Alignment explanation
Indices: 27119249--27119281 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27119239 TAAACTAATG
*
27119249 AATACAAATAATCAATT
1 AATACAAATAAGCAATT
27119266 AATACAAATAAGCAAT
1 AATACAAATAAGCAAT
27119282 ACAATACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (17 bp):
AATACAAATAAGCAATT
Found at i:27119416 original size:27 final size:27
Alignment explanation
Indices: 27119384--27119442 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
27119374 TTAACACAAA
* * *
27119384 TAAAATTTAACAAGTTTTATAATAAAT
1 TAAAATGTAAAAAGTTTTAGAATAAAT
27119411 TAAAATGTAAAAAGTTTTAGAATAAAT
1 TAAAATGTAAAAAGTTTTAGAATAAAT
*
27119438 AAAAA
1 TAAAA
27119443 AAACATACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.34
Consensus pattern (27 bp):
TAAAATGTAAAAAGTTTTAGAATAAAT
Found at i:27119872 original size:16 final size:17
Alignment explanation
Indices: 27119844--27119877 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27119834 ATACAAATTA
27119844 TATATATAAAATAGTAT
1 TATATATAAAATAGTAT
*
27119861 TATATA-AAAATATTAT
1 TATATATAAAATAGTAT
27119877 T
1 T
27119878 GATTTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TATATATAAAATAGTAT
Found at i:27120058 original size:23 final size:23
Alignment explanation
Indices: 27120015--27120060 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
27120005 GAAAAAGAAT
*
27120015 TAAAATAACAGTATATAATAAAA
1 TAAAATAACAGTACATAATAAAA
*
27120038 TAAAATAA-TGTACATACATAAAA
1 TAAAATAACAGTACATA-ATAAAA
27120061 ATAAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAACAGTACATAATAAAA
Found at i:27120063 original size:19 final size:18
Alignment explanation
Indices: 27120039--27120077 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
27120029 ATAATAAAAT
*
27120039 AAAATAATGTACATACATA
1 AAAATAA-GTAAATACATA
*
27120058 AAAATAAGTAAATATATA
1 AAAATAAGTAAATACATA
27120076 AA
1 AA
27120078 CTAATAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATAAGTAAATACATA
Found at i:27123922 original size:2 final size:2
Alignment explanation
Indices: 27123917--27123944 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27123907 ACACACACAC
27123917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27123945 TTGCATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27124210 original size:3 final size:3
Alignment explanation
Indices: 27124202--27124239 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
27124192 CTGCATTTCA
*
27124202 TTC TTC TTC TTC TAC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
27124240 TTTTTTCGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:27124532 original size:6 final size:7
Alignment explanation
Indices: 27124513--27124558 Score: 58
Period size: 7 Copynumber: 6.3 Consensus size: 7
27124503 GTCTTGATTC
27124513 TTAAAAA
1 TTAAAAA
27124520 TTAAAAA
1 TTAAAAA
27124527 TTAAAAA
1 TTAAAAA
27124534 TTAAAAA
1 TTAAAAA
27124541 CTTCATAAAA
1 -TT-A-AAAA
27124551 -TAAAAA
1 TTAAAAA
27124557 TT
1 TT
27124559 TATTTTTCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 4 0.11
7 23 0.66
8 3 0.09
9 1 0.03
10 4 0.11
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAAAA
Found at i:27125285 original size:74 final size:75
Alignment explanation
Indices: 27125206--27125355 Score: 284
Period size: 74 Copynumber: 2.0 Consensus size: 75
27125196 AATACATTTG
*
27125206 ATGTTAGATAAAAAGAAAAATGTATATTTATTTATTTATAATTTTGTATGTATTTTTTTC-AAAA
1 ATGTTAGATAAAAAGAAAAATGTATATTTATTTATTTATAATTTTGTATGTATTTTTATCAAAAA
27125270 TTAAATCTTT
66 TTAAATCTTT
27125280 ATGTTAGATAAAAAGAAAAATGTATATTTATTTATTTATAATTTTGTATGTATTTTTATCAAAAA
1 ATGTTAGATAAAAAGAAAAATGTATATTTATTTATTTATAATTTTGTATGTATTTTTATCAAAAA
27125345 TTAAATCTTT
66 TTAAATCTTT
27125355 A
1 A
27125356 AATATTTTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 59 0.80
75 15 0.20
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (75 bp):
ATGTTAGATAAAAAGAAAAATGTATATTTATTTATTTATAATTTTGTATGTATTTTTATCAAAAA
TTAAATCTTT
Found at i:27127461 original size:2 final size:2
Alignment explanation
Indices: 27127454--27127486 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27127444 TATGTATATG
27127454 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
27127487 CGCAAGCGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27128461 original size:3 final size:3
Alignment explanation
Indices: 27128453--27128479 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27128443 AAGAGAAATG
27128453 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
27128480 ATGAACAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:27136670 original size:23 final size:24
Alignment explanation
Indices: 27136639--27136737 Score: 98
Period size: 23 Copynumber: 4.3 Consensus size: 24
27136629 AGTGTTATTG
* * *
27136639 ATCAGTGGTAGCTTCAGCTACAAT
1 ATCAATGGTAGCTACGGCTACAAT
*
27136663 -TCAATGGTAGCTACGCCTA-AAT
1 ATCAATGGTAGCTACGGCTACAAT
* *
27136685 ATCAGTGGTAGCTTCGGCTAC-AT
1 ATCAATGGTAGCTACGGCTACAAT
* *
27136708 TTCAGTGGTAGCTACGGCTAC-AT
1 ATCAATGGTAGCTACGGCTACAAT
27136731 ATCAATG
1 ATCAATG
27136738 TGACACTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
22 3 0.05
23 59 0.95
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATCAATGGTAGCTACGGCTACAAT
Found at i:27136692 original size:46 final size:46
Alignment explanation
Indices: 27136639--27136734 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
27136629 AGTGTTATTG
27136639 ATCAGTGGTAGCTTCAGCTACAATTCAATGGTAGCTACGCCTAAAT
1 ATCAGTGGTAGCTTCAGCTACAATTCAATGGTAGCTACGCCTAAAT
* * * * *
27136685 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAATTCAATGGTAGCTACGCCTAAAT
27136731 ATCA
1 ATCA
27136735 ATGTGACACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCAGCTACAATTCAATGGTAGCTACGCCTAAAT
Found at i:27146383 original size:25 final size:25
Alignment explanation
Indices: 27146355--27146412 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
27146345 TGTGTAAATG
*
27146355 GTAAGCTCCTCTGAACTGAATAACA
1 GTAAGCTCCTCTGAACTAAATAACA
* **
27146380 GTAA-CTTCCTCTGAGCTAAATAATG
1 GTAAGC-TCCTCTGAACTAAATAACA
27146405 GTAAGCTC
1 GTAAGCTC
27146413 ATACGAGCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 1 0.04
25 25 0.93
26 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (25 bp):
GTAAGCTCCTCTGAACTAAATAACA
Found at i:27146420 original size:25 final size:25
Alignment explanation
Indices: 27146392--27146451 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
27146382 AACTTCCTCT
*
27146392 GAGCTAAATAATGGTAAGCTCATAC
1 GAGCTAAATAATGGTAAGCTCATAA
* * *
27146417 GAGCTGAGTAATGGTAAGCTTATAA
1 GAGCTAAATAATGGTAAGCTCATAA
27146442 GAGCTGAAAT
1 GAGCT-AAAT
27146452 CGATAACACT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (25 bp):
GAGCTAAATAATGGTAAGCTCATAA
Found at i:27146795 original size:18 final size:18
Alignment explanation
Indices: 27146774--27146816 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
27146764 GTCCAACACA
* *
27146774 CATTTTTAGCAAAATTAC
1 CATTTTGAGAAAAATTAC
*
27146792 CATTTTGGGAAAAATTAC
1 CATTTTGAGAAAAATTAC
27146810 CATTTTG
1 CATTTTG
27146817 CTCATATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (18 bp):
CATTTTGAGAAAAATTAC
Found at i:27148134 original size:18 final size:18
Alignment explanation
Indices: 27148075--27148137 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
27148065 TTTAATTTTT
*
27148075 ATTATTATTTTCATTACT-
1 ATTATTA-TTTGATTACTG
*
27148093 ATTATTATTTGTTTTACTG
1 ATTATTATTTG-ATTACTG
27148112 A-TATTATTATGATTA-TG
1 ATTATTATT-TGATTACTG
27148129 ATTATTATT
1 ATTATTATT
27148138 GTCATTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.16
18 29 0.76
19 3 0.08
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (18 bp):
ATTATTATTTGATTACTG
Found at i:27148215 original size:25 final size:25
Alignment explanation
Indices: 27148156--27148215 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
27148146 TTTTATTTGT
*
27148156 TTTTCT-TTTTAGTTTTATTTTTTA
1 TTTTCTATTTTAGTTTTATTTTCTA
**
27148180 TGCT-TAGTTTTAGTTTTATTTTCTA
1 TTTTCTA-TTTTAGTTTTATTTTCTA
27148205 TTTTCTATTTT
1 TTTTCTATTTT
27148216 TATTTTCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.04
24 2 0.07
25 23 0.82
26 2 0.07
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (25 bp):
TTTTCTATTTTAGTTTTATTTTCTA
Found at i:27148221 original size:6 final size:6
Alignment explanation
Indices: 27148155--27148221 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
27148145 ATTTTATTTG
* * ** * *
27148155 TTTTTC TTTTTA GTTTTA TTTTTTA TGCTTA GTTTTA GTTTTA TTTTCTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA
27148205 TTTTCTA TTTTTA TTTT
1 TTTT-TA TTTTTA TTTT
27148222 CTTAGACTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
6 32 0.64
7 18 0.36
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:27148235 original size:26 final size:26
Alignment explanation
Indices: 27148202--27148270 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
27148192 GTTTTATTTT
*
27148202 CTAT-TTTCTATTTTTAT-TTTCTTAGA
1 CTATATTTCTATTTTTATCTTT-TGA-A
27148228 CT-TATTTC-ATTTCTTATCTTTTGAA
1 CTATATTTCTATTT-TTATCTTTTGAA
*
27148253 CTATATTTTTATTTTTAT
1 CTATATTTCTATTTTTAT
27148271 GGTTTTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
25 8 0.22
26 21 0.58
27 7 0.19
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (26 bp):
CTATATTTCTATTTTTATCTTTTGAA
Found at i:27151541 original size:43 final size:43
Alignment explanation
Indices: 27151506--27151683 Score: 189
Period size: 43 Copynumber: 4.1 Consensus size: 43
27151496 AGACGAGGAC
* * **
27151506 CTTTAGCGGCGCTTTCTCCACAAATGCCGCTAAAGAATCTG-T
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGACCCTGAT
* *
27151548 GCTTTAGCCGCGCTTTCTCTACAAACGCCGCAAAAGACCCCT-AT
1 -CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGA-CCCTGAT
* * *
27151592 CTTTAGCGGCGCTTTCTCCACAAACGCTGCAAAAGACCTTTAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGACCCTGAT
* ** * **
27151635 CTTTAGCGGCGCTTTCTACACAAACGTTGCTAAAGACCCTTCT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGACCCTGAT
27151678 CTTTAG
1 CTTTAG
27151684 TGGCATTTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
42 3 0.03
43 111 0.95
44 3 0.03
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGACCCTGAT
Found at i:27151639 original size:86 final size:86
Alignment explanation
Indices: 27151506--27151683 Score: 216
Period size: 86 Copynumber: 2.1 Consensus size: 86
27151496 AGACGAGGAC
* * *
27151506 CTTTAGCGGCGCTTTCTCCACAAATGCCGCTAAAGAATCTGTGCTTTAGCCGCGCTTTCT-CTAC
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGAACCTGTGCTTTAGCCGCGCTTTCTAC-AC
27151570 AAACGCCGCAAAAGACCCCTAT
65 AAACGCCGCAAAAGACCCCTAT
* * * *
27151592 CTTTAGCGGCGCTTTCTCCACAAACGCTGCAAAAG-ACCTTTATCTTTAGCGGCGCTTTCTACAC
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGAACCTGT-GCTTTAGCCGCGCTTTCTACAC
** * * *
27151656 AAACGTTGCTAAAGACCCTTCT
65 AAACGCCGCAAAAGACCCCTAT
27151678 CTTTAG
1 CTTTAG
27151684 TGGCATTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 4 0.05
86 73 0.94
87 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTCTCCACAAACGCCGCAAAAGAACCTGTGCTTTAGCCGCGCTTTCTACACA
AACGCCGCAAAAGACCCCTAT
Found at i:27152088 original size:21 final size:21
Alignment explanation
Indices: 27152059--27152135 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
27152049 TTTTACGCTG
27152059 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
27152080 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* * *
27152101 CTCTGCTTCCTTCGTTGCAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
27152122 CTCTGCTTCTCTCG
1 CTCTGCTTCCCTCG
27152136 TTGCCGCATC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.05, C:0.42, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:27152136 original size:21 final size:21
Alignment explanation
Indices: 27152059--27152150 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
27152049 TTTTACGCTG
* *
27152059 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGTTGCAGC
* *
27152080 CTCTACTTCCCTCGCTT-TAGC
1 CTCTGCTTCCCTCG-TTGCAGC
*
27152101 CTCTGCTTCCTTCGTTGCAGC
1 CTCTGCTTCCCTCGTTGCAGC
* *
27152122 CTCTGCTTCTCTCGTTGCCGC
1 CTCTGCTTCCCTCGTTGCAGC
*
27152143 ATCTGCTT
1 CTCTGCTT
27152151 TAAGCTGCTG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
20 2 0.03
21 57 0.95
22 1 0.02
ACGTcount: A:0.05, C:0.40, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGTTGCAGC
Found at i:27152287 original size:66 final size:66
Alignment explanation
Indices: 27152121--27152290 Score: 191
Period size: 66 Copynumber: 2.6 Consensus size: 66
27152111 TTCGTTGCAG
* * * * * * *
27152121 CCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCCGGAGTTCTTCATACTTTCGTTA
27152185 AA
65 AA
* * * *
27152187 CCTCGGCTTCTTTCGCTGCTGCATCCGCTTTAAGTTGTAGCCGGAGTTCTTCATATCTTT-TTTA
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCCGGAGTTCTTCATA-CTTTCGTTA
27152251 AA
65 AA
* *
27152253 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
27152291 GTAATTTGCT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCCGGAGTTCTTCATACTTTCGTTAA
A
Found at i:27165164 original size:83 final size:83
Alignment explanation
Indices: 27164946--27165175 Score: 211
Period size: 83 Copynumber: 2.8 Consensus size: 83
27164936 GTAATTGCCC
* * * **
27164946 CGTTTTAAG-AGCATTAAATATATATTTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACCT
1 CGTTTTAAGAAACATTAAA-ACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAG
* *
27165010 TACTGAATAGAAACGGTGC
65 TACTGAAGAGAAACGGTGA
* ** * * *
27165029 CGTTTTAAGAAACTTTAATCCATAGTT-CTGGCGTTTTCCT-G-AAAAACACCACT-AAAATTTC
1 CGTTTTAAGAAACATTAAAACATAATTGC-GGCGTTTT--TAGCAAAAACGCCACTAAAAATTAC
*
27165090 AAGTCCTGAAGAGAAACGGTGA
63 -AGTACTGAAGAGAAACGGTGA
* *
27165112 CGTTTTGAA-AAACATTAAAACATAATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTACA
1 CGTTTT-AAGAAACATTAAAACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAA-AAATTACA
27165176 CTCCTCTTCT
Statistics
Matches: 115, Mismatches: 21, Indels: 21
0.73 0.13 0.13
Matches are distributed among these distances:
81 1 0.01
82 9 0.08
83 87 0.76
84 12 0.10
85 6 0.05
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (83 bp):
CGTTTTAAGAAACATTAAAACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAGT
ACTGAAGAGAAACGGTGA
Found at i:27165586 original size:83 final size:83
Alignment explanation
Indices: 27165373--27165589 Score: 201
Period size: 83 Copynumber: 2.6 Consensus size: 83
27165363 ATAATTGCCC
* * * * **
27165373 CGTTTTAAG-AACCTTAAATATATATTTGCGGCATTTTTAGCAAAAACGCCACTAAAAATTACCT
1 CGTTTTAAGAAACATTAAA-ACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAG
* *
27165437 TACTGAATAGAAACGGTGT
65 TACTGAAGAGAAACGGTGA
* ** * ** *
27165456 CGTTTTAAGAAACTTTAATCCATAGTT-CTGGCG-TTTTCCCGAAAAACGCCACT-AAAATTTCA
1 CGTTTTAAGAAACATTAAAACATAATTGC-GGCGTTTTTAGC-AAAAACGCCACTAAAAATTAC-
*
27165518 AGTCCTGAAGAGAAACGGTGA
63 AGTACTGAAGAGAAACGGTGA
*
27165539 CGTTTTGAA-AAACATTAAAACATAATTGCGGCGTTTTTAGCATAAACGCCA
1 CGTTTT-AAGAAACATTAAAACATAATTGCGGCGTTTTTAGCAAAAACGCCA
27165590 TTAATAGATT
Statistics
Matches: 106, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
82 13 0.12
83 78 0.74
84 15 0.14
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (83 bp):
CGTTTTAAGAAACATTAAAACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAGT
ACTGAAGAGAAACGGTGA
Found at i:27165710 original size:427 final size:428
Alignment explanation
Indices: 27164915--27165799 Score: 1628
Period size: 427 Copynumber: 2.1 Consensus size: 428
27164905 NNNNNNNNNN
* * *
27164915 TTCCTTATAATGTGGTCCTGCGTAATTGCCCCGTTTTAAGAGCATTAAATATATATTTGCGGCGT
1 TTCCTTATAATGTGGTCCTGCATAATTGCCCCGTTTTAAGAACATTAAATATATATTTGCGGCAT
27164980 TTTTAGCAAAAACGCCACTAAAAATTACCTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
66 TTTTAGCAAAAACGCCACTAAAAATTACCTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
*
27165045 AATCCATAGTTCTGGCGTTTTCCTGAAAAACACCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
131 AATCCATAGTTCTGGCGTTTTCCCGAAAAACACCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
27165110 GACGTTTTGAAAAACATTAAAACATAATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
196 GACGTTTTGAAAAACATTAAAACATAATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
* *
27165175 ACTCCTCTTCTGAAACGGTGCCGTTCTGAGAAATTATAATACATATTTACGGTGTTTTCCCAAAA
261 ACTCCTCTTCTGAAACGGTGCCGTTCTGAGAAATTATAATACATATTAACGGCGTTTTCCCAAAA
*
27165240 AACGCCACAAATTAAATTAAATTTCTAAATGGGAACGACGTCGTTTTGAAAAAAATGGGTACATA
326 AACGCCACAAATTAAATTAAATTTCTAAATGGGAACGACGTCGTTTTAAAAAAAATGGGTACATA
27165305 GTTGCGGCGTTTCTATGAAAACGCCACTAATG-TTTTT
391 GTTGCGGCGTTTCTATGAAAACGCCACTAATGTTTTTT
*
27165342 TTCCTTATAATGTGGTCCTGCATAATTGCCCCGTTTTAAGAACCTTAAATATATATTTGCGGCAT
1 TTCCTTATAATGTGGTCCTGCATAATTGCCCCGTTTTAAGAACATTAAATATATATTTGCGGCAT
*
27165407 TTTTAGCAAAAACGCCACTAAAAATTACCTTACTGAATAGAAACGGTGTCGTTTTAAGAAACTTT
66 TTTTAGCAAAAACGCCACTAAAAATTACCTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
*
27165472 AATCCATAGTTCTGGCGTTTTCCCGAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
131 AATCCATAGTTCTGGCGTTTTCCCGAAAAACACCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
*
27165537 GACGTTTTGAAAAACATTAAAACATAATTGCGGCGTTTTTAGCATAAACGCCATTAATAGATTAC
196 GACGTTTTGAAAAACATTAAAACATAATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
*
27165602 ACTCCTCTTCTGAAACGGTGCCGTTCTGAGAAATTATAATACATATTAACGGCGTTTTCCCAGAA
261 ACTCCTCTTCTGAAACGGTGCCGTTCTGAGAAATTATAATACATATTAACGGCGTTTTCCCAAAA
27165667 AACGCCACAAATTAAATTAAATTTCTAAATGGGAACGACGTCGTTTTAAAAAAAATGGGTACATA
326 AACGCCACAAATTAAATTAAATTTCTAAATGGGAACGACGTCGTTTTAAAAAAAATGGGTACATA
* *
27165732 GTTGCGGCGTTTCTATGCAAATGCCACTAATGTTTTTT
391 GTTGCGGCGTTTCTATGAAAACGCCACTAATGTTTTTT
*
27165770 TTCCTTATAATGTGGTCCTGCTTAATTGCC
1 TTCCTTATAATGTGGTCCTGCATAATTGCC
27165800 AAAATTAAAT
Statistics
Matches: 442, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
427 408 0.92
428 34 0.08
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (428 bp):
TTCCTTATAATGTGGTCCTGCATAATTGCCCCGTTTTAAGAACATTAAATATATATTTGCGGCAT
TTTTAGCAAAAACGCCACTAAAAATTACCTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
AATCCATAGTTCTGGCGTTTTCCCGAAAAACACCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
GACGTTTTGAAAAACATTAAAACATAATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
ACTCCTCTTCTGAAACGGTGCCGTTCTGAGAAATTATAATACATATTAACGGCGTTTTCCCAAAA
AACGCCACAAATTAAATTAAATTTCTAAATGGGAACGACGTCGTTTTAAAAAAAATGGGTACATA
GTTGCGGCGTTTCTATGAAAACGCCACTAATGTTTTTT
Found at i:27166322 original size:21 final size:21
Alignment explanation
Indices: 27166293--27166340 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27166283 TTAATTCTAT
*
27166293 TCCCTAACCCCTAAACCTTAAA
1 TCCCTAACCCCTAAACCAT-AA
*
27166315 TCCC-AACCCTTAAACCATAA
1 TCCCTAACCCCTAAACCATAA
27166335 TCCCTA
1 TCCCTA
27166341 GTCCTTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (21 bp):
TCCCTAACCCCTAAACCATAA
Found at i:27167286 original size:42 final size:41
Alignment explanation
Indices: 27167240--27167483 Score: 255
Period size: 41 Copynumber: 5.9 Consensus size: 41
27167230 TAAAATATCC
* * *
27167240 TTAGCAGCGCTTTTCCATAAAACGCTGCTAAATACCCCAGCA
1 TTAGCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCCCAGCA
27167282 TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGA-CCCAGCA
1 TTAGCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCCCAGCA
* * **
27167323 TTAGCGGCGCTTTTTCACAAAACGCCGCTAAAGGCCAAAGCA
1 TTAGCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCCCAGCA
* * *
27167365 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAG-CCCATAGAA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCC-CAGCA
* * *
27167406 TTAGCGGCGCTTATT-CAAAAATGCCGCTAAAG-CCTACAACA
1 TTAGCGGCGCTT-TTCCAAAAACGCCGCTAAAGACC-CCAGCA
*
27167447 TTAGCGGCGCTTCTT-AATAAAACGCCGCTAAAGACCC
1 TTAGCGGCGCTT-TTCCA-AAAACGCCGCTAAAGACCC
27167484 GAAAGGTAGG
Statistics
Matches: 174, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
40 2 0.01
41 103 0.59
42 67 0.39
43 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCA
Found at i:27167409 original size:83 final size:81
Alignment explanation
Indices: 27167240--27167483 Score: 280
Period size: 83 Copynumber: 3.0 Consensus size: 81
27167230 TAAAATATCC
* * * * ** *
27167240 TTAGCAGCGCTTTTCCATAAAACGCTGCTAAATACCCCAGCATTAGCGGCGCTTTTCCAGAAAAC
1 TTAGCGGCGCTTTTTCA-AAAACGCCGCTAAA-GCCAAAGCATTAGCGGCGCTTTTACAGAAAAC
*
27167305 GCCGCTAAAGACCCAGCA
64 GCCGCTAAAGACCCAGAA
27167323 TTAGCGGCGCTTTTTCACAAAACGCCGCTAAAGGCCAAAGCATTAGCGGCGCTTTTACA-AAAAC
1 TTAGCGGCGCTTTTTCA-AAAACGCCGCTAAA-GCCAAAGCATTAGCGGCGCTTTTACAGAAAAC
27167387 GCCGCTAAAG-CCCATAGAA
64 GCCGCTAAAGACCC--AGAA
* * *
27167406 TTAGCGGCGCTTATTCAAAAATGCCGCTAAAGCCTACAA-CATTAGCGGCGCTTCTTA-ATAAAA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCC-A-AAGCATTAGCGGCGCTT-TTACAGAAAA
27167469 CGCCGCTAAAGACCC
63 CGCCGCTAAAGACCC
27167484 GAAAGGTAGG
Statistics
Matches: 142, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
81 6 0.04
82 44 0.31
83 89 0.63
84 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (81 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAAGCATTAGCGGCGCTTTTACAGAAAACGC
CGCTAAAGACCCAGAA
Found at i:27167713 original size:40 final size:39
Alignment explanation
Indices: 27167517--27167710 Score: 271
Period size: 39 Copynumber: 4.9 Consensus size: 39
27167507 TTTGCTTTGG
* * *
27167517 TTTTTTGCGGCGTTTTTTCTTAAAACCACCGCTAATGGTTC
1 TTTTTAGCGGCGTTTTAT-TTAAAA-CGCCGCTAATGGTTC
27167558 TTTTTAGCGGCGTTTTATTTAAAACGCCGCTAATGGTTC
1 TTTTTAGCGGCGTTTTATTTAAAACGCCGCTAATGGTTC
27167597 TTTTTAGCGGCGTTTTATTTAAAACGCCGCTAATGGTTC
1 TTTTTAGCGGCGTTTTATTTAAAACGCCGCTAATGGTTC
* *
27167636 TTTTTAGCGGCGTTTTATTTAAAACGCCGCTAATGCTCC
1 TTTTTAGCGGCGTTTTATTTAAAACGCCGCTAATGGTTC
* * * * *
27167675 TATTTTAGCTGCGTTTTGTTAAAAACACCGCGAATG
1 T-TTTTAGCGGCGTTTTATTTAAAACGCCGCTAATG
27167711 CTCGATTTTT
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 91 0.64
40 35 0.25
41 16 0.11
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTATTTAAAACGCCGCTAATGGTTC
Found at i:27168235 original size:26 final size:26
Alignment explanation
Indices: 27168204--27168304 Score: 157
Period size: 26 Copynumber: 3.9 Consensus size: 26
27168194 AACACACCAA
* *
27168204 TATCGCAGGAAAGCTGCCAGTAATAG
1 TATCGCAGTAGAGCTGCCAGTAATAG
* *
27168230 TATCGCAGTAGAGCTGCTAGTAACAG
1 TATCGCAGTAGAGCTGCCAGTAATAG
27168256 TATCGCAGTAGAGCTGCCAGTAATAG
1 TATCGCAGTAGAGCTGCCAGTAATAG
*
27168282 TATCGCAGCAGAGCTGCCAGTAA
1 TATCGCAGTAGAGCTGCCAGTAA
27168305 CAATATGCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (26 bp):
TATCGCAGTAGAGCTGCCAGTAATAG
Found at i:27168502 original size:27 final size:27
Alignment explanation
Indices: 27168472--27168662 Score: 169
Period size: 27 Copynumber: 7.0 Consensus size: 27
27168462 GGCGTATAAT
27168472 AGTCATTTTACCCTATGGGGATATTTC
1 AGTCATTTTACCCTATGGGGATATTTC
*
27168499 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGATATTTC
*
27168526 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGATATTTC
27168553 -GATCATTTTACCCTATAGGGG-TATTT-
1 AG-TCATTTTACCCTAT-GGGGATATTTC
* ** * * *
27168579 TGATCATTTTTACTATATGAGAAAATTTC
1 AG-TCA-TTTTACCCTATGGGGATATTTC
* * *
27168608 GGTCATTTTACCCTAT-GAGAGTATTTT
1 AGTCATTTTACCCTATGGGGA-TATTTC
27168635 AGTCATTTTTACCCTATAGGGG-TATTTC
1 AGTCA-TTTTACCCTAT-GGGGATATTTC
27168663 GATCATGTAT
Statistics
Matches: 137, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
26 2 0.01
27 96 0.70
28 36 0.26
29 1 0.01
30 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGATATTTC
Found at i:27168534 original size:54 final size:53
Alignment explanation
Indices: 27168477--27168668 Score: 208
Period size: 55 Copynumber: 3.5 Consensus size: 53
27168467 ATAATAGTCA
27168477 TTTTACCCTATGGGGATATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCA-
1 TTTTACCCTATGGGGATATTTC-GTCATTTTACCCTATGGGGGTATTT-GATCAT
* *
27168531 TTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGATCAT
1 TTTTACCCTATGGGGATATTTCG-TCATTTTACCCTATGGGGGTA-TTTGATCAT
** * * * * * *
27168586 TTTTACTATATGAGAAAATTTCGGTCATTTTACCCTATGAGAGTATTTTAGTCAT
1 TTTTACCCTATGGGGATATTTC-GTCATTTTACCCTATGGGGGTATTTGA-TCAT
27168641 TTTTACCCTATAGGGG-TATTTCGATCAT
1 TTTTACCCTAT-GGGGATATTTCG-TCAT
27168669 GTATTGACCT
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
53 1 0.01
54 51 0.45
55 59 0.52
56 3 0.03
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (53 bp):
TTTTACCCTATGGGGATATTTCGTCATTTTACCCTATGGGGGTATTTGATCAT
Found at i:27184268 original size:19 final size:19
Alignment explanation
Indices: 27184246--27184287 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27184236 ATTAAAATGT
* *
27184246 AAAAATTAAATTAAAACAA
1 AAAAATAAAAATAAAACAA
*
27184265 AAAAATAAAAATAAAAGAA
1 AAAAATAAAAATAAAACAA
27184284 AAAA
1 AAAA
27184288 TAGCTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATAAAAATAAAACAA
Found at i:27184286 original size:25 final size:25
Alignment explanation
Indices: 27184223--27184286 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
27184213 TGCCAAAAGC
** **
27184223 AAATAAAAGAAAAATTAAAATGTAA
1 AAATAAAAGAAAAACAAAAAAATAA
* **
27184248 AAATTAAATTAAAACAAAAAAATAA
1 AAATAAAAGAAAAACAAAAAAATAA
27184273 AAATAAAAGAAAAA
1 AAATAAAAGAAAAA
27184287 ATAGCTAAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (25 bp):
AAATAAAAGAAAAACAAAAAAATAA
Found at i:27192836 original size:13 final size:13
Alignment explanation
Indices: 27192818--27192842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27192808 CCCCATGGAG
27192818 ATACACTCGGTTT
1 ATACACTCGGTTT
27192831 ATACACTCGGTT
1 ATACACTCGGTT
27192843 GAATAAACCC
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:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (13 bp):
ATACACTCGGTTT
Found at i:27194919 original size:82 final size:81
Alignment explanation
Indices: 27194777--27195152 Score: 386
Period size: 82 Copynumber: 4.6 Consensus size: 81
27194767 TATACAGACC
* * *
27194777 ATTTTA-CCTTTAAGGGTATTTC-GATAATTTTACCCTTCGAGGGTATCTCTATAATTTTACCCT
1 ATTTTACCCTTCAAGGGTATTTCAG-TAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCT
27194840 TCAAGGGTATTTCGGTA
65 TCAAGGGTATTTCGGTA
* * * * *
27194857 ATGTATAACCTTCTAGGGTATTT-TGATAATTTTACCCTTCAAGGGTATTTCGATAATTTTACCC
1 AT-TTTACCCTTCAAGGGTATTTCAG-TAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCC
* *
27194921 TTTGAA-GGTATTTCGATA
64 -TTCAAGGGTATTTCGGTA
*
27194939 ATTTTGCCCTTCAAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTTACCCT
1 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAA-TTTTACCCT
** **
27195004 TTGAGGGTATTTTTGTA
65 TCAAGGGTATTTCGGTA
* * * *
27195021 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCTTTCGAGGATATTTC-AGTAATTTTTCCCT
1 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGA-TAATTTTACCCT
* * * *
27195085 TCAGGGGTAATTCAGTC
65 TCAAGGGTATTTCGGTA
** * * * *
27195102 ATTTTACCCTT-TGGAGGTAATTCGGTCATTTTACCCTTCGAGGGTAATTCG
1 ATTTTACCCTTCAAG-GGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCG
27195153 GTCATTTCAC
Statistics
Matches: 247, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
80 3 0.01
81 110 0.45
82 130 0.53
83 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTT
CAAGGGTATTTCGGTA
Found at i:27194951 original size:109 final size:107
Alignment explanation
Indices: 27194777--27195147 Score: 410
Period size: 109 Copynumber: 3.4 Consensus size: 107
27194767 TATACAGACC
*
27194777 ATTTTA-CCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATCTCTATAATTTTACCCTT
1 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTC-ATAATTTTACCCTT
* * *
27194841 CAAGGGTATTTCGGTAATGTATAACCTTCTAGGGTATTTTGATA
65 CAAGGGTATTTCAGTAAT-TATAACCTTCGAGGGTATTTCGATA
* * * *
27194885 ATTTTACCCTTCAAGGGTATTTCGATAATTTTACCCTTTGAAGGTATTTCGATAATTTTGCCCTT
1 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTC-ATAATTTTACCCTT
* *
27194950 CAAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATA
65 CAAGGGTATTTCAGTAATTATAACCTTCGAGGGTATTTCGATA
* * *
27194993 ATTTTTACCCTTTGAGGGTATTTTTG-TAATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCT
1 A-TTTTACCCTTTAAGGGTA-TTTCGATAATTTTACCCTTCGAGGGTATTTCA-TAATTTTACCC
* * * ** * *
27195057 TTCGAGGATATTTCAGTAATTTTTCCCTTC-AGGGGTAATTC-AGTC
63 TTCAAGGGTATTTCAGTAATTATAACCTTCGA-GGGTATTTCGA-TA
* * * *
27195102 ATTTTACCCTTT-GGAGGTAATTCGGTCATTTTACCCTTCGAGGGTA
1 ATTTTACCCTTTAAG-GGTATTTCGATAATTTTACCCTTCGAGGGTA
27195148 ATTCGGTCAT
Statistics
Matches: 228, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
107 4 0.02
108 66 0.29
109 154 0.68
110 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.43
Consensus pattern (107 bp):
ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCATAATTTTACCCTTC
AAGGGTATTTCAGTAATTATAACCTTCGAGGGTATTTCGATA
Done.