Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 169 of 332
Found at i:55769649 original size:46 final size:46
Alignment explanation
Indices: 55769597--55769813 Score: 314
Period size: 46 Copynumber: 4.7 Consensus size: 46
55769587 AGTGTGCTCT
*
55769597 CTGATATGAAATGTGTAAGACCACGGTTGAAAGATACCATGGA-AAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAAC
*
55769643 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* *
55769689 CT-ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
*
55769734 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* * * *
55769780 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
55769814 CACTATGGCA
Statistics
Matches: 155, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
45 44 0.28
46 111 0.72
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
Found at i:55769755 original size:91 final size:92
Alignment explanation
Indices: 55769598--55769823 Score: 330
Period size: 91 Copynumber: 2.5 Consensus size: 92
55769588 GTGTGCTCTC
* * *
55769598 TGATATGAAATGTGTAAGACCACGGTTGAAAGATACCATGGAAACCTGATATGAAATGTATAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTATAAGA
*
55769663 CCATGGTTGAAAGATACCATGACAACC
66 CCATGGTTGAAAGATACCATGACAACA
* *
55769690 T-ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATAAAATGTGTAAGA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTATAAGA
55769754 CCATGGTTGAAAGATACCATGACAACA
66 CCATGGTTGAAAGATACCATGACAACA
* * * * *
55769781 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
55769824 TCATGTCAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
91 86 0.71
92 35 0.29
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.23
Consensus pattern (92 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTATAAGA
CCATGGTTGAAAGATACCATGACAACA
Found at i:55774441 original size:67 final size:67
Alignment explanation
Indices: 55774239--55774466 Score: 228
Period size: 67 Copynumber: 3.4 Consensus size: 67
55774229 CCGCTGGGAT
* * * * ** * * * *
55774239 AGTAAACACAAGGTATGCTGTGTAAGATCATGGCTTGGCTATGGTGACATAAACAGTTTGTCAAG
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTCTATCAAG
55774304 AC
66 AC
* * * * * *
55774306 AATAAACACAGGGTATGTTGTCTAAGACCATAGCTCGACTAT-AACAACATAGAGAGTCTATCAG
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTTGGCTATGGA-AACATAGAGAGTCTATCAA
55774370 GAC
65 GAC
* * *
55774373 AGTAAACATAGGGTATGATGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTCCATCAAG
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTCTATCAAG
55774438 AC
66 AC
* *
55774440 AG-AAA-ACATGTGTATGTTCTGTAAGAC
1 AGTAAACACA-GGGTATGTTGTGTAAGAC
55774467 TATAACTCGT
Statistics
Matches: 129, Mismatches: 29, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
65 2 0.02
66 18 0.14
67 108 0.84
68 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (67 bp):
AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTTGGCTATGGAAACATAGAGAGTCTATCAAG
AC
Found at i:55776407 original size:46 final size:46
Alignment explanation
Indices: 55776354--55776530 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55776344 TATTTGGGCA
55776354 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
55776400 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
55776445 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
55776493 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
55776531 CGGGTTACAT
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 4 0.04
46 64 0.57
47 29 0.26
48 4 0.04
50 5 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:55776509 original size:93 final size:93
Alignment explanation
Indices: 55776350--55776521 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55776340 GGGATATTTG
*
55776350 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
55776415 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
* * *
55776443 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
55776508 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55776522 GCTTATGGAC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:55776871 original size:138 final size:138
Alignment explanation
Indices: 55776623--55776881 Score: 491
Period size: 138 Copynumber: 1.9 Consensus size: 138
55776613 ACGGGTAAAG
*
55776623 TTCTATTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
1 TTCTACTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
55776688 CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATATAACACATCG
66 CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATATAACACATCG
55776753 GAATATAA
131 GAATATAA
*
55776761 TTCTACTCAAATGGAGGAATACTCGAGATGAAAGGAATGTATTGGTAAGTGTTGTGAAATGGATA
1 TTCTACTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
*
55776826 CTTTGAACAAGTATGTACTTAACCCTCGGGTTGAAAACTCAATATAACAACAATAT
66 CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATAT
55776882 GGTAAGATGA
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 118 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (138 bp):
TTCTACTCAAATGGAGGAATACTCGAGATGAAAAGAATGTATTGGTAAGTGTTGTGAAATGGATA
CTTTGAACAAGTATGTACTTAACCCTCAGGTTGAAAACTCAATATAACAACAATATAACACATCG
GAATATAA
Found at i:55781903 original size:20 final size:19
Alignment explanation
Indices: 55781878--55781925 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
55781868 CTTTTTTAGA
**
55781878 TTTTAATTTAATCCCTTTAT
1 TTTTAATTTAAT-AATTTAT
55781898 TTTTAAATTTAATAATTTAT
1 TTTT-AATTTAATAATTTAT
55781918 TTTTAATT
1 TTTTAATT
55781926 GGTCAACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTTAATAATTTAT
Found at i:55782457 original size:31 final size:30
Alignment explanation
Indices: 55782422--55782492 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
55782412 AGCTTTTTTT
*
55782422 TTTCTTTTTGTTTCGTATAATTTTGTAAGTA
1 TTTCTTTTTGTTTCGCA-AATTTTGTAAGTA
* *
55782453 TTTCTTTTCTTTTTCGCAATTTTTGTAAGTA
1 TTTCTTTT-TGTTTCGCAAATTTTGTAAGTA
55782484 TATT-TTTTT
1 T-TTCTTTTT
55782493 CTTTTTGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 1 0.03
31 25 0.71
32 9 0.26
ACGTcount: A:0.17, C:0.08, G:0.10, T:0.65
Consensus pattern (30 bp):
TTTCTTTTTGTTTCGCAAATTTTGTAAGTA
Found at i:55785677 original size:20 final size:20
Alignment explanation
Indices: 55785652--55785697 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
55785642 TGTTTAGTTA
*
55785652 AAAAGAAGATAAAGTAAAGG
1 AAAAGAAGAGAAAGTAAAGG
55785672 AAAAGAAGAGAAAGTAAAGG
1 AAAAGAAGAGAAAGTAAAGG
55785692 AAAAGA
1 AAAAGA
55785698 GAAGTGCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (20 bp):
AAAAGAAGAGAAAGTAAAGG
Found at i:55787710 original size:20 final size:20
Alignment explanation
Indices: 55787673--55787711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55787663 TTCCCTAATA
*
55787673 CAGAGCCACACGAGCGTGTC
1 CAGAGCCACACGACCGTGTC
*
55787693 CAGAGCCACACGTCCGTGT
1 CAGAGCCACACGACCGTGT
55787712 AAGACAGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.36, G:0.28, T:0.13
Consensus pattern (20 bp):
CAGAGCCACACGACCGTGTC
Found at i:55797718 original size:44 final size:44
Alignment explanation
Indices: 55797651--55797738 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
55797641 AGTACATGTA
* *
55797651 TCGCATCCATAATGAACTGGGACCAACTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
*
55797695 TCGCATCCATATTGAACTCGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
55797739 CTCATACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
Found at i:55808498 original size:48 final size:48
Alignment explanation
Indices: 55808435--55808532 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
55808425 TATCACGTAC
*
55808435 TTAAACCATTAGGCTTTCATATGGCATTTCACACCAATTTCATATCTA
1 TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTCATATCTA
55808483 TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTCATATCTA
1 TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTCATATCTA
55808531 TT
1 TT
55808533 CATCGTTATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (48 bp):
TTAAACCATTAGGCTTTCATATGGCATTCCACACCAATTTCATATCTA
Found at i:55811573 original size:40 final size:40
Alignment explanation
Indices: 55811527--55811651 Score: 109
Period size: 40 Copynumber: 3.2 Consensus size: 40
55811517 CGCCCAATGC
55811527 TAGTTGGATAAATCAACGATATCAAATGTGTGGCCAGCAA
1 TAGTTGGATAAATCAACGATATCAAATGTGTGGCCAGCAA
* * * **
55811567 TAGTTGGATAAAT---CGATAAT-GAGT-TGTGCCCAGCGC
1 TAGTTGGATAAATCAACGAT-ATCAAATGTGTGGCCAGCAA
* * * *
55811603 TAGTTGGGTAAACCAATGATATCAAATGTGT-GCCAAGCAT
1 TAGTTGGATAAATCAACGATATCAAATGTGTGGCC-AGCAA
55811643 TAGTTGGAT
1 TAGTTGGAT
55811652 GTACCAACAA
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
36 20 0.31
37 6 0.09
38 4 0.06
39 7 0.11
40 27 0.42
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (40 bp):
TAGTTGGATAAATCAACGATATCAAATGTGTGGCCAGCAA
Found at i:55811804 original size:76 final size:75
Alignment explanation
Indices: 55811517--55811819 Score: 336
Period size: 76 Copynumber: 4.0 Consensus size: 75
55811507 TAATGTTTTG
* * * * * * ** * *
55811517 CGCCCAATGCTAGTTGGATAAATCAACGATATCAAATGTGTGGCCAGCAATAGTTGGATAAATCG
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGT-GCCAGCACTAGTTGGATGTACCA
* *
55811582 ATAATGAGTTG
65 ACAATGAGTTA
* * * * * *
55811593 TGCCCAGCGCTAGTTGGGTAAACCAATGATATCAAATGTGTGCCAAGCATTAGTTGGATGTACCA
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTGCC-AGCACTAGTTGGATGTACCA
55811658 ACAATGAGTTA
65 ACAATGAGTTA
* * * *
55811669 CGCCCAACACTAGTCGGGTCAATCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTATCA
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTG-CCAGCACTAGTTGGATGTACCA
*
55811734 ACATTGAGTTA
65 ACAATGAGTTA
* * *
55811745 CGCCCAACGCTAGACGTGTAAACCGACGATATCAAATGTATGCCTAGCACTAGTTGGATGTACCA
1 CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTGCC-AGCACTAGTTGGATGTACCA
55811810 ACAATGAGTT
65 ACAATGAGTT
55811820 GCACCTAGCA
Statistics
Matches: 192, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
75 5 0.03
76 185 0.96
77 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (75 bp):
CGCCCAACGCTAGTCGGGTAAACCGACGATATCAAATGTGTGCCAGCACTAGTTGGATGTACCAA
CAATGAGTTA
Found at i:55811845 original size:152 final size:152
Alignment explanation
Indices: 55811533--55811847 Score: 396
Period size: 152 Copynumber: 2.1 Consensus size: 152
55811523 ATGCTAGTTG
* * * * **
55811533 GATAAATCAACGATATCAAATGTGTGGCCAGCAATAGTTGGATAAATCGATAATGAGTTGTGCCC
1 GATAAATCGACGATATCAAATGTGTGCCCAGCAATAGTTGGATAAATCAACAATGAGTTACGCCC
* ** * * *
55811598 AGCGCTAGTTGGGTAAACCAATGATATCAAATGTGTGCCAAGCATTAGTTGGATGTACCAACAAT
66 AACGCTAGACGGGTAAACCAACGATATCAAATGTATGCCAAGCACTAGTTGGATGTACCAACAAT
* *
55811663 GAGTTACGCCCAACACTAGTCG
131 GAGTTACACCCAACACTAGTCA
* * * ** *
55811685 GGTCAATCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTATCAACATTGAGTTACGCCC
1 GATAAATCGACGATATCAAATGTGTGCCCAGCAATAGTTGGATAAATCAACAATGAGTTACGCCC
* * *
55811750 AACGCTAGACGTGTAAACCGACGATATCAAATGTATGCCTAGCACTAGTTGGATGTACCAACAAT
66 AACGCTAGACGGGTAAACCAACGATATCAAATGTATGCCAAGCACTAGTTGGATGTACCAACAAT
* * *
55811815 GAGTTGCACCTAGCACTAGTCA
131 GAGTTACACCCAACACTAGTCA
55811837 GATAAATCGAC
1 GATAAATCGAC
55811848 AAATACATAC
Statistics
Matches: 135, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
152 135 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (152 bp):
GATAAATCGACGATATCAAATGTGTGCCCAGCAATAGTTGGATAAATCAACAATGAGTTACGCCC
AACGCTAGACGGGTAAACCAACGATATCAAATGTATGCCAAGCACTAGTTGGATGTACCAACAAT
GAGTTACACCCAACACTAGTCA
Found at i:55813148 original size:21 final size:22
Alignment explanation
Indices: 55813119--55813159 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
55813109 AACTCACTTA
*
55813119 AACTTAAATAATC-ATTCAATT
1 AACTAAAATAATCAATTCAATT
*
55813140 AACTAAAATTATCAATTCAA
1 AACTAAAATAATCAATTCAA
55813160 ATTTTACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (22 bp):
AACTAAAATAATCAATTCAATT
Found at i:55818227 original size:18 final size:18
Alignment explanation
Indices: 55818206--55818258 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
55818196 TTCTAGCATG
55818206 GAAGAACAAGATGAAGAT
1 GAAGAACAAGATGAAGAT
*
55818224 GAAG-ACAATGATGGAGAT
1 GAAGAACAA-GATGAAGAT
*
55818242 GAA-AATCAAGATCAAGA
1 GAAGAA-CAAGATGAAGA
55818259 GCATGATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.14
18 22 0.76
19 3 0.10
ACGTcount: A:0.53, C:0.08, G:0.26, T:0.13
Consensus pattern (18 bp):
GAAGAACAAGATGAAGAT
Found at i:55818561 original size:75 final size:76
Alignment explanation
Indices: 55818477--55818646 Score: 297
Period size: 76 Copynumber: 2.2 Consensus size: 76
55818467 AAAGTGTTTT
*
55818477 ATGAAAAAGTTGTTTGTATTGTA-TTTTTTGTTCATTTGACATCAATAAGATACTTATTTACAAT
1 ATGAAAAAGTTGTTTGTATTGTACTTTTTTGTTCATTTAACATCAATAAGATACTTATTTACAAT
55818541 TTATGAAAAAA
66 TTATGAAAAAA
*
55818552 ATGAAAAAGTTGTTTGCATTGTACTTTTTTGTTCATTTAACATCAATAAGATACTTATTTACAAT
1 ATGAAAAAGTTGTTTGTATTGTACTTTTTTGTTCATTTAACATCAATAAGATACTTATTTACAAT
55818617 TTATGAAAAAA
66 TTATGAAAAAA
* *
55818628 ATGAAAAAATTGTTGGTAT
1 ATGAAAAAGTTGTTTGTAT
55818647 ATTGTATTGT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 22 0.25
76 67 0.75
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (76 bp):
ATGAAAAAGTTGTTTGTATTGTACTTTTTTGTTCATTTAACATCAATAAGATACTTATTTACAAT
TTATGAAAAAA
Found at i:55818771 original size:65 final size:65
Alignment explanation
Indices: 55818651--55818774 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 65
55818641 TGGTATATTG
* * **
55818651 TATTGTATTTTTACATCAACAATTTACTTATTTATAGTTTATGAAGAAAATGAAAAAATCGCTTA
1 TATTATATTTTTACATCAACAATATACTTATTTATAGTTTACCAAGAAAATGAAAAAATCGCTTA
* * *
55818716 TATTATATTTTTACATTAATAATATACTTATTTATAGTTTACCCA-AAAATGGAAAAAAT
1 TATTATATTTTTACATCAACAATATACTTATTTATAGTTTACCAAGAAAAT-GAAAAAAT
55818775 TAATAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 5 0.10
65 46 0.90
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (65 bp):
TATTATATTTTTACATCAACAATATACTTATTTATAGTTTACCAAGAAAATGAAAAAATCGCTTA
Found at i:55820679 original size:39 final size:39
Alignment explanation
Indices: 55820612--55820868 Score: 372
Period size: 39 Copynumber: 6.5 Consensus size: 39
55820602 ACAAAGCATG
* * *
55820612 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
55820652 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
55820692 CGGGACTTAGCCCGGATATGACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
55820731 CGGGACTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
55820770 CGGGACTCAGCTCGGAAATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
55820809 TGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
55820848 TGGGATTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
55820869 TTCTCCATTA
Statistics
Matches: 201, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 180 0.90
40 21 0.10
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:55827162 original size:40 final size:39
Alignment explanation
Indices: 55827112--55827199 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 39
55827102 CAAATCCAAT
*
55827112 CACCACCACAAAGCATGCGAGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCATGCGAGACTTT-AGCCCGGATATAA
* *
55827152 TACCAGCACAAAGCCTGCGAGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCATGCGAGACTTTAGCCCGGATATAA
55827191 CACCAGCAC
1 CACCAGCAC
55827200 GAATGCCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 21 0.48
40 23 0.52
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (39 bp):
CACCAGCACAAAGCATGCGAGACTTTAGCCCGGATATAA
Found at i:55827196 original size:39 final size:39
Alignment explanation
Indices: 55827112--55827268 Score: 156
Period size: 39 Copynumber: 4.0 Consensus size: 39
55827102 CAAATCCAAT
* *
55827112 CACCACCAC-AAAGCATGCGAGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGAGAC-TT-AGCCCGGATATAA
*
55827152 TACCAGCAC-AAAGCCTGCGAGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGAGAC-TTAGCCCGGATATAA
* ** * * *
55827191 CACCAGCACGAATGCCTTTGGGACATAGCCCAGATATAA
1 CACCAGCACGAAAGCCTGCGAGACTTAGCCCGGATATAA
* * * *
55827230 CACCAGAACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGAGACTTAGCCCGGATATAA
55827269 TTCTCCATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 69 0.68
40 33 0.32
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGAGACTTAGCCCGGATATAA
Found at i:55830933 original size:39 final size:39
Alignment explanation
Indices: 55830878--55831153 Score: 417
Period size: 39 Copynumber: 7.1 Consensus size: 39
55830868 ATTATATTAT
* *
55830878 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * * *
55830917 TAGCACGAAGCTTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55830956 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* ** * *
55830995 TAGCACGAAGCCTGCGGGACTTCGGCCTGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
55831034 TAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
55831073 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
55831112 CAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55831151 CAG
1 CAG
55831154 TGTCTTGCAT
Statistics
Matches: 211, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 211 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:55830999 original size:78 final size:78
Alignment explanation
Indices: 55830870--55831150 Score: 474
Period size: 78 Copynumber: 3.6 Consensus size: 78
55830860 AACCCGAAAT
* * *
55830870 TATATTAT-CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCTAGCACGAAGCTTGCGG
1 TATATT-TCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCTAGCACGAAGCCTGCGG
55830934 GACTTTGGCCCGGA
65 GACTTTGGCCCGGA
55830948 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCTAGCACGAAGCCTGCGGG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCTAGCACGAAGCCTGCGGG
* *
55831013 ACTTCGGCCTGGA
66 ACTTTGGCCCGGA
* *
55831026 TATATTTCTAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCTAGCACGAAGCCTGCGGG
55831091 ACTTTGGCCCGGA
66 ACTTTGGCCCGGA
*
55831104 TATATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
55831151 CAGTGTCTTG
Statistics
Matches: 191, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
77 1 0.01
78 190 0.99
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.24
Consensus pattern (78 bp):
TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCTAGCACGAAGCCTGCGGG
ACTTTGGCCCGGA
Found at i:55833273 original size:59 final size:59
Alignment explanation
Indices: 55833176--55833293 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
55833166 AAGCTCTATA
*
55833176 ATACCTTACAAGTTTATAAGTATAAAAAGTGGGATAGCCTATTGCTTTACAAAGGATTT
1 ATACCTTACAAGTTTATAAGTATAAAAACTGGGATAGCCTATTGCTTTACAAAGGATTT
*
55833235 ATACTTTACAAGTTTATAAGTATAAAAACTGGGATAGCCTATTGCTTTACAAAGGATTT
1 ATACCTTACAAGTTTATAAGTATAAAAACTGGGATAGCCTATTGCTTTACAAAGGATTT
55833294 GCCTTTTCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (59 bp):
ATACCTTACAAGTTTATAAGTATAAAAACTGGGATAGCCTATTGCTTTACAAAGGATTT
Found at i:55834929 original size:43 final size:44
Alignment explanation
Indices: 55834856--55834984 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 44
55834846 TCTGGGACAT
* * ** *
55834856 GGCT-TTGGCATCGATACGTAATTACGTGTAAGACCATAG-CTG
1 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATAGTCTG
55834898 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCAT-GTCTG
1 GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATAGTCTG
*
55834941 GGACATGGCATTGGCATCGTTATGTGATCCCATGTAAGACCATA
1 GG-C-T---ATTGGCATCGATATGTGATCCCATGTAAGACCATA
55834985 TATGGGATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 5 0.07
43 33 0.45
44 1 0.01
45 1 0.01
48 33 0.45
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (44 bp):
GGCTATTGGCATCGATATGTGATCCCATGTAAGACCATAGTCTG
Found at i:55834966 original size:48 final size:48
Alignment explanation
Indices: 55834821--55835006 Score: 195
Period size: 48 Copynumber: 4.0 Consensus size: 48
55834811 CATTAGGGTT
* * *
55834821 ATATGCGATCCCATGCAAGACCATGTCTGGGACATGGCTTTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * ** *
55834869 ATACGTAATTACGTGTAAGACCATAG-CTGGG-C-T---ATTGGCATCG
1 ATATGTGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCG
55834912 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * * *
55834960 TTATGTGATCCCATGTAAGACCATATATGGGATATGGAATTTGCATC
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
55835007 CTACCATATG
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.29
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 73 0.65
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:55840698 original size:21 final size:21
Alignment explanation
Indices: 55840672--55840722 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
55840662 ACATTTTCAG
*
55840672 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCTTCTTCTACAGCAA
* *
55840693 CAACTTCCTCTTCTACAGCAG
1 CAACTTCTTCTTCTACAGCAA
55840714 CAACTTCTT
1 CAACTTCTT
55840723 TCTCAACAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (21 bp):
CAACTTCTTCTTCTACAGCAA
Found at i:55840699 original size:18 final size:18
Alignment explanation
Indices: 55840667--55840705 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
55840657 CCTTCACATT
** *
55840667 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCCTC
55840685 TTCAGCAACAACTTCCTC
1 TTCAGCAACAACTTCCTC
55840703 TTC
1 TTC
55840706 TACAGCAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (18 bp):
TTCAGCAACAACTTCCTC
Found at i:55840750 original size:39 final size:42
Alignment explanation
Indices: 55840669--55840751 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 42
55840659 TTCACATTTT
* *
55840669 CAGCAACTTCTTCTTCTTCAGCAACAACTTCCTCTTCTACAG
1 CAGCAACTTCTTCTTCTTCAACAACAACTTCCTCTTCAACAG
*
55840711 CAGCAACTTC-T-TTC-TCAACAACAA-TGTCCTCTTGAACAG
1 CAGCAACTTCTTCTTCTTCAACAACAACT-TCCTCTTCAACAG
55840750 CA
1 CA
55840752 AAAATACCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.03
39 22 0.59
40 3 0.08
41 1 0.03
42 10 0.27
ACGTcount: A:0.28, C:0.34, G:0.08, T:0.30
Consensus pattern (42 bp):
CAGCAACTTCTTCTTCTTCAACAACAACTTCCTCTTCAACAG
Found at i:55850664 original size:12 final size:12
Alignment explanation
Indices: 55850647--55850671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55850637 AGGCCTCTTG
55850647 AAAGTAATTCTA
1 AAAGTAATTCTA
55850659 AAAGTAATTCTA
1 AAAGTAATTCTA
55850671 A
1 A
55850672 GTTATGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAGTAATTCTA
Found at i:55856226 original size:26 final size:26
Alignment explanation
Indices: 55856209--55856258 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
55856199 TAAAATCATT
55856209 AAAATTTTACTAGGGGTAAAATAGTC
1 AAAATTTTACTAGGGGTAAAATAGTC
* *
55856235 AAAATTTTATTGGGGGTAAAATAG
1 AAAATTTTACTAGGGGTAAAATAG
55856259 GGATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (26 bp):
AAAATTTTACTAGGGGTAAAATAGTC
Found at i:55861203 original size:47 final size:46
Alignment explanation
Indices: 55861051--55861223 Score: 165
Period size: 47 Copynumber: 3.7 Consensus size: 46
55861041 TGTAACCCAC
* * ** *
55861051 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGCAGTTCACAT
*
55861097 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCTGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-TG--G-C-AGTTCACAT
* * *
55861147 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGG-CAGTTCACAT
* *
55861191 CCATAAGTGAACTCAGACTCAACTCAATGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
55861224 CGGATGCTTA
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
43 3 0.03
44 6 0.06
45 1 0.01
46 35 0.34
47 48 0.47
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGCAGTTCACAT
Found at i:55861223 original size:94 final size:93
Alignment explanation
Indices: 55861059--55861230 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 93
55861049 ACCCATAAGT
** *
55861059 GAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGCAGTTCACATCCATAAGTGAACTCGAACTCAACTCAA
*
55861124 CGAGTTCTGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
55861152 GAACTCGGACTCAACTCAACGAGTTTGGACATTTCACATCCATAAGTGAACTC-AGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGG-CAGTTCACATCCATAAGTGAACTCGA-ACTCAACTC
*
55861216 AATGAGTTCGGATGC
64 AACGAGTTCGGATGC
55861231 TTAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
93 27 0.39
94 42 0.61
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCAGTTCACATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55861683 original size:30 final size:30
Alignment explanation
Indices: 55861649--55861708 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55861639 CCTTAATACG
*
55861649 AACTTTGGTAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
55861679 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
55861709 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:55863011 original size:46 final size:44
Alignment explanation
Indices: 55862834--55863011 Score: 155
Period size: 46 Copynumber: 3.9 Consensus size: 44
55862824 ATAGGTTATT
* * *
55862834 ATGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCGTCATTGA-GACG
1 ATGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA-G
* * * * *
55862883 A-GAGCTAGTGAAAGACATGTTTGGGACATGCATCAGCCT-CAAG
1 ATGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAG
55862926 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
1 ATG--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
*
55862972 ATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 ATGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
55863012 ATCCTACCCC
Statistics
Matches: 110, Mismatches: 11, Indels: 19
0.79 0.08 0.14
Matches are distributed among these distances:
43 2 0.02
44 15 0.14
45 17 0.15
46 48 0.44
47 14 0.13
48 13 0.12
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (44 bp):
ATGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAG
Found at i:55864182 original size:21 final size:22
Alignment explanation
Indices: 55864143--55864183 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
55864133 TCGAATCTGT
55864143 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
55864165 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
55864184 ATGTCTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.44, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:55868569 original size:46 final size:46
Alignment explanation
Indices: 55868398--55868567 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
55868388 TGTAACCCGC
* * * *
55868398 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
55868444 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCTGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-G--GAC-ATTTGCAT
* * *
55868494 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
55868537 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
55868568 TTTGGATGCT
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 2 0.02
46 56 0.55
47 25 0.25
49 2 0.02
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:55873260 original size:46 final size:46
Alignment explanation
Indices: 55873174--55873341 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
55873164 ATTGCGAGCT
* * * *
55873174 AGTGTAAGACCATGTCTGGGATATGGCATCGGTATTGAGATGAGAACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGAG-ACC
55873222 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATG-AGA-CC
** *
55873268 AGTGTAAGA-CATGTCTGGTTCAT-CCATCGGCTACGAGATGAG-CC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGAGACC
55873312 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
55873342 AGCATTCTAC
Statistics
Matches: 103, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 53 0.51
47 14 0.14
48 9 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAGACC
Found at i:55878539 original size:20 final size:20
Alignment explanation
Indices: 55878501--55878540 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55878491 ATCATAAAAG
**
55878501 ATAAAAAAATAATTTAATTA
1 ATAAAAAAATAATAAAATTA
*
55878521 ATAAAAATATAATAAAATTA
1 ATAAAAAAATAATAAAATTA
55878541 TAGAAGGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAAAATAATAAAATTA
Found at i:55878903 original size:18 final size:18
Alignment explanation
Indices: 55878880--55878922 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
55878870 TTTTATAAAT
*
55878880 TATTTTTGAATCTTTATTC
1 TATTTTTGAAT-TTTAATC
*
55878899 T-TTTTAGAATTTTAATC
1 TATTTTTGAATTTTAATC
55878916 TATTTTT
1 TATTTTT
55878923 ATAGTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 7 0.35
18 12 0.60
19 1 0.05
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (18 bp):
TATTTTTGAATTTTAATC
Found at i:55885356 original size:40 final size:40
Alignment explanation
Indices: 55885319--55885543 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
55885309 GCTACTCGTT
* *
55885319 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
55885359 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55885399 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
55885439 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
55885478 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
55885519 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
55885544 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:55885503 original size:119 final size:120
Alignment explanation
Indices: 55885321--55885543 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
55885311 TACTCGTTCA
*
55885321 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
55885386 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
55885441 AATGCCTTTGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
55885503 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
55885544 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:55886738 original size:56 final size:56
Alignment explanation
Indices: 55886671--55886846 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
55886661 TATTAGTTTA
55886671 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
55886727 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
55886783 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
55886839 TTGCCCAT
1 TTGCCCAT
55886847 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:55895584 original size:38 final size:39
Alignment explanation
Indices: 55895461--55895598 Score: 206
Period size: 39 Copynumber: 3.5 Consensus size: 39
55895451 GTGTGAGATA
*
55895461 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
55895500 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * *
55895539 TATATCCGGGCTAAGTCCTGAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
55895577 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
55895599 CATGCTTTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 21 0.23
39 63 0.69
40 7 0.08
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:55899326 original size:18 final size:19
Alignment explanation
Indices: 55899303--55899342 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
55899293 TTTAATTTTC
55899303 TTTTAAA-AAAAAATGAGA
1 TTTTAAATAAAAAATGAGA
*
55899321 TTTTAAATAAAAAATGATA
1 TTTTAAATAAAAAATGAGA
55899340 TTT
1 TTT
55899343 ATTTCAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
TTTTAAATAAAAAATGAGA
Found at i:55906366 original size:29 final size:29
Alignment explanation
Indices: 55906312--55906367 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
55906302 TTTTTATTTG
*
55906312 ATTTAAATGGTTTTAAGTTTATATTTTTT
1 ATTTAAATGGTTTTAAGTTTAGATTTTTT
* * *
55906341 ATTTAAATTGTTTTGAGTTTGGATTTT
1 ATTTAAATGGTTTTAAGTTTAGATTTT
55906368 GAATTTAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (29 bp):
ATTTAAATGGTTTTAAGTTTAGATTTTTT
Found at i:55906373 original size:29 final size:28
Alignment explanation
Indices: 55906308--55906374 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
55906298 GGGTTTTTTA
*
55906308 TTTGATTTAAATGGTTTTAAGTTTATATT
1 TTTGATTTAAATGGTTTTAAGTTTAGA-T
* * * *
55906337 TTTTATTTAAATTGTTTTGAGTTTGGAT
1 TTTGATTTAAATGGTTTTAAGTTTAGAT
55906365 TTTGAATTTA
1 TTTG-ATTTA
55906375 GGATCGAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (28 bp):
TTTGATTTAAATGGTTTTAAGTTTAGAT
Found at i:55908776 original size:62 final size:62
Alignment explanation
Indices: 55908706--55908826 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
55908696 TTTTCAATAG
55908706 GAAAAATTAATTCTCTCTACGTGAAACAAAAAACTTGAGCTCTTAAGAAAATAAAATTTTTT
1 GAAAAATTAATTCTCTCTACGTGAAACAAAAAACTTGAGCTCTTAAGAAAATAAAATTTTTT
55908768 GAAAAATTAATTCTCTCTACGTGAAACAAAAAACTTGAGCTCTTAAGAAAATAAAATTT
1 GAAAAATTAATTCTCTCTACGTGAAACAAAAAACTTGAGCTCTTAAGAAAATAAAATTT
55908827 ACCCTCTAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (62 bp):
GAAAAATTAATTCTCTCTACGTGAAACAAAAAACTTGAGCTCTTAAGAAAATAAAATTTTTT
Found at i:55909111 original size:24 final size:24
Alignment explanation
Indices: 55909079--55909127 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
55909069 TTACCTTTGG
55909079 TATTAGATACAATTATATGTGTTA
1 TATTAGATACAATTATATGTGTTA
55909103 TATTAGATACAATTATATGTGTTA
1 TATTAGATACAATTATATGTGTTA
55909127 T
1 T
55909128 CTAGACCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (24 bp):
TATTAGATACAATTATATGTGTTA
Found at i:55916354 original size:52 final size:52
Alignment explanation
Indices: 55916292--55916393 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
55916282 ATGTATGCGG
* *
55916292 CATCCAAGCTCATTGAGTTGGT-TCGAGTTCATAATAGATGCGATATATGTGA
1 CATCCAAGCTCATTGAGTTGGTCT-GAGTTCAAAATAGATGCGATACATGTGA
* * *
55916344 CATCCGAGCTCGTTGAGTTGGTCTGAGTTCAAAATGGATGCGATACATGT
1 CATCCAAGCTCATTGAGTTGGTCTGAGTTCAAAATAGATGCGATACATGT
55916394 AATTGGGTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 43 0.98
53 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (52 bp):
CATCCAAGCTCATTGAGTTGGTCTGAGTTCAAAATAGATGCGATACATGTGA
Found at i:55918473 original size:27 final size:27
Alignment explanation
Indices: 55918436--55918640 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
55918426 TAAATTGTAC
*
55918436 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55918463 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
55918490 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55918516 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
55918544 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55918571 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
55918599 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55918626 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55918641 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55918497 original size:54 final size:54
Alignment explanation
Indices: 55918437--55918640 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
55918427 AAATTGTACA
* * *
55918437 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
55918491 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
55918545 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
55918600 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
55918641 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:55926620 original size:27 final size:27
Alignment explanation
Indices: 55926583--55926787 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
55926573 TAAATTGTAC
*
55926583 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55926610 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
55926637 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55926663 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
55926691 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55926718 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
55926746 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55926773 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55926788 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55926644 original size:54 final size:54
Alignment explanation
Indices: 55926584--55926787 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
55926574 AAATTGTACA
* * *
55926584 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
55926638 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
55926692 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
55926747 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
55926788 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:55932234 original size:27 final size:27
Alignment explanation
Indices: 55932197--55932250 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
55932187 TTGATCTGAA
*
55932197 GCTGCTTTTAAACTATCTCGAATCGTT
1 GCTGCTTTTAAACTATCTCAAATCGTT
55932224 GCTGCTTTTAAACTATCTCAAATCGTT
1 GCTGCTTTTAAACTATCTCAAATCGTT
55932251 TTTACTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (27 bp):
GCTGCTTTTAAACTATCTCAAATCGTT
Found at i:55932258 original size:27 final size:27
Alignment explanation
Indices: 55932201--55932259 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
55932191 TCTGAAGCTG
* *
55932201 CTTTTAAACTATCTCGAATCGTTGCTG
1 CTTTTAAACTATCTCAAATCGTTGCTA
**
55932228 CTTTTAAACTATCTCAAATCGTTTTTA
1 CTTTTAAACTATCTCAAATCGTTGCTA
55932255 CTTTT
1 CTTTT
55932260 TCTTCAGTCT
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:0.24, C:0.20, G:0.08, T:0.47
Consensus pattern (27 bp):
CTTTTAAACTATCTCAAATCGTTGCTA
Found at i:55940186 original size:42 final size:43
Alignment explanation
Indices: 55940118--55940201 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 43
55940108 TTAGTACCGC
55940118 ATTTCACCCGCAAACGGATGGTCAATTAGAG-GAAGTTATTCAG
1 ATTTCACCCGCAAACGGATGGTCAATTAGAGCG-AGTTATTCAG
*
55940161 ATTT-ACCTGCAAACGGATGGTCAATTAGAGCGAGTTATTCA
1 ATTTCACCCGCAAACGGATGGTCAATTAGAGCGAGTTATTCA
55940202 AATACTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 34 0.87
43 5 0.13
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (43 bp):
ATTTCACCCGCAAACGGATGGTCAATTAGAGCGAGTTATTCAG
Found at i:55942186 original size:40 final size:40
Alignment explanation
Indices: 55942092--55942186 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
55942082 CAACAAATCT
*
55942092 ACTATATTTGGCACTTAGTGTGCGGTTGGAGATAGCTTCG
1 ACTATATATGGCACTTAGTGTGCGGTTGGAGATAGCTTCG
* ** *
55942132 GCTATATACAGCACTTAGTGTGTGAGTTGGA-ATAGCTTCG
1 ACTATATATGGCACTTAGTGTGCG-GTTGGAGATAGCTTCG
* *
55942172 ACTTTATGTGGCACT
1 ACTATATATGGCACT
55942187 AAATATGCGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
40 38 0.86
41 6 0.14
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (40 bp):
ACTATATATGGCACTTAGTGTGCGGTTGGAGATAGCTTCG
Found at i:55973260 original size:50 final size:50
Alignment explanation
Indices: 55973127--55973316 Score: 211
Period size: 50 Copynumber: 3.8 Consensus size: 50
55973117 CAGGATATAT
* * * ** *
55973127 ATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATATCCG
1 ATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
* * * *
55973177 ATAACTTCGATCACATGTGTAGTACTCAGTGCAGGCTACTACGTGTATCAG
1 AT-AGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
* * *
55973228 ATAGTTAGGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAG
1 ATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
* ** *
55973278 ATAATT-GGTCGTATGTGTAGTACTACGTGCAGGCTACTA
1 ATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
55973317 TGCGTACCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 28 0.24
50 48 0.41
51 40 0.34
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
ATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
Found at i:55973330 original size:99 final size:101
Alignment explanation
Indices: 55973127--55973332 Score: 240
Period size: 101 Copynumber: 2.1 Consensus size: 101
55973117 CAGGATATAT
* * * *
55973127 ATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATATCCGATAACTTCGATCACA
1 ATAGTTAGGTCACATGTATAGTACTAAGTGCAGGCTACTACGCATATCCGATAACTTCGATCACA
* *
55973192 TGTGTAGTACTCAGTGCAGGCTACTACGTGTATCAG
66 TGTGTAGTACTCAGTGCAGGCTACTACGCGTACCAG
* ** * **
55973228 ATAGTTAGGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT-GGTCGT
1 ATAGTTAGGTCACATGTATAGTACTAAGTGCAGGCTACTACGCATATCC-GATAACTTCGATCAC
* *
55973290 ATGTGTAGTACT-ACGTGCAGGCTACTATGCGTACCGG
65 ATGTGTAGTACTCA-GTGCAGGCTACTACGCGTACCAG
55973327 ATAGTT
1 ATAGTT
55973333 TGGCTACATA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
98 1 0.01
99 40 0.45
100 4 0.04
101 44 0.49
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (101 bp):
ATAGTTAGGTCACATGTATAGTACTAAGTGCAGGCTACTACGCATATCCGATAACTTCGATCACA
TGTGTAGTACTCAGTGCAGGCTACTACGCGTACCAG
Found at i:55994706 original size:31 final size:31
Alignment explanation
Indices: 55994671--55994734 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
55994661 AAACTAAGAA
* *
55994671 TGCACAGATAATGGAATTGGGGAATTGCTTT
1 TGCACAGAGAATGGAATTAGGGAATTGCTTT
55994702 TGCACAGAGAATGGAATTAGGGAATTGCTTT
1 TGCACAGAGAATGGAATTAGGGAATTGCTTT
55994733 TG
1 TG
55994735 GAAAAAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.31
Consensus pattern (31 bp):
TGCACAGAGAATGGAATTAGGGAATTGCTTT
Found at i:56001683 original size:27 final size:27
Alignment explanation
Indices: 56001598--56001703 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
56001588 GCAAGCGTTC
* * *
56001598 TGGTGGCTCTGCCAGAAATACCTG-ATC
1 TGGTGGCTCTGCCA-CAATATCTGTATT
*
56001625 TGGTGGCTCTGCCACAAATATCTAT-TT
1 TGGTGGCTCTGCCAC-AATATCTGTATT
56001652 CTGGTGGCTCTGCCACAATATCTGTATT
1 -TGGTGGCTCTGCCACAATATCTGTATT
* *
56001680 TGGTGACTCTGTCACAATATCTGT
1 TGGTGGCTCTGCCACAATATCTGT
56001704 TCTGGCAGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 51 0.75
28 17 0.25
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTATT
Found at i:56001684 original size:55 final size:54
Alignment explanation
Indices: 56001595--56001701 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
56001585 GGAGCAAGCG
*
56001595 TTCTGGTGGCTCTGCCAGAAATACCTGATCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCAGAAATACCTGATCTGGTGACTCTGCCAC-AATATCTAT
* * * *
56001650 TTCTGGTGGCTCTGCCA-CAATATCTGTATTTGGTGACTCTGTCACAATATCT
1 TTCTGGTGGCTCTGCCAGAAATACCTG-ATCTGGTGACTCTGCCACAATATCT
56001702 GTTCTGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 14 0.30
55 32 0.70
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCAGAAATACCTGATCTGGTGACTCTGCCACAATATCTAT
Found at i:56009396 original size:28 final size:27
Alignment explanation
Indices: 56009330--56009434 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
56009320 GAGGAAGCGT
*
56009330 TCTGGTGGCTC-GCCAAAAATATCTG-A
1 TCTGGTGGCTCTGCC-ACAATATCTGTA
*
56009356 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
56009384 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
56009411 TCTGGTGACTTTGTCACAATATCT
1 TCTGGTGGCTCTGCCACAATATCT
56009435 ATTCTGGCAG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
26 12 0.17
27 41 0.59
28 17 0.24
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:56011899 original size:49 final size:47
Alignment explanation
Indices: 56011677--56012078 Score: 588
Period size: 47 Copynumber: 8.3 Consensus size: 47
56011667 CCCTTCGGGA
* * * * * *
56011677 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56011724 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56011771 CTTATCACATATATACACTTTCACATTCATCAACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATC-ACATCGGCCATTAGGC
56011819 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56011866 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56011915 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56011962 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56012011 CATTTATCACATATATACACTTTCATTCAATTCATCACATCGGCCATTAGGC
1 C--TTATCACATATATACACTTTCA--C-ATTCATCACATCGGCCATTAGGC
56012063 CTTATCACAATATATA
1 CTTATCAC-ATATATA
56012079 TACACTTTTC
Statistics
Matches: 324, Mismatches: 20, Indels: 18
0.90 0.06 0.05
Matches are distributed among these distances:
47 136 0.42
48 46 0.14
49 98 0.30
50 7 0.02
51 15 0.05
52 22 0.07
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56011969 original size:96 final size:96
Alignment explanation
Indices: 56011677--56012086 Score: 657
Period size: 96 Copynumber: 4.2 Consensus size: 96
56011667 CCCTTCGGGA
* * * * *
56011677 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56011740 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56011771 CTTATCAC--ATATATACACTTTCACATTCATCAACATCGGCTATTAGGCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATC-ACATTGGCCATTCGGCCTTATCACATATATA
56011834 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
56011866 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56011931 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
56011962 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCATTTATCACATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCC--TTATCACATATAT
56012027 ACACTTTCATTCAATTCATCACATCGGCCATTAGGC
64 ACACTTTCA--C-ATTCATCACATCGGCCATTAGGC
56012063 CTTATCACAATATATATACACTTT
1 CTTATCAC-ATATATATACACTTT
56012087 TCCACATTTA
Statistics
Matches: 294, Mismatches: 11, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
93 1 0.00
94 27 0.09
95 64 0.22
96 110 0.37
97 23 0.08
98 22 0.07
100 1 0.00
101 31 0.11
102 15 0.05
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56015575 original size:40 final size:40
Alignment explanation
Indices: 56015530--56015850 Score: 482
Period size: 40 Copynumber: 8.1 Consensus size: 40
56015520 CGAATACACG
* * * * *
56015530 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *** * *
56015570 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56015610 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56015650 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56015690 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
56015730 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
56015770 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56015810 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
56015849 TC
1 TC
56015851 GTCGAGACCT
Statistics
Matches: 261, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
39 4 0.02
40 257 0.98
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:56015973 original size:38 final size:38
Alignment explanation
Indices: 56015904--56015978 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
56015894 GAATTTTAAT
*
56015904 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
56015942 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
56015979 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:56018486 original size:47 final size:47
Alignment explanation
Indices: 56018408--56018815 Score: 638
Period size: 47 Copynumber: 8.6 Consensus size: 47
56018398 CCCTTCGGGA
* * * * * *
56018408 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56018455 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56018502 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56018549 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56018596 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56018645 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56018692 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56018741 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56018787 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
56018816 TATTCAAATA
Statistics
Matches: 336, Mismatches: 19, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
46 18 0.05
47 209 0.62
48 19 0.06
49 90 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56018646 original size:96 final size:96
Alignment explanation
Indices: 56018408--56018815 Score: 709
Period size: 96 Copynumber: 4.3 Consensus size: 96
56018398 CCCTTCGGGA
* * * * *
56018408 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56018471 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56018502 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56018565 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
56018596 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56018661 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
56018692 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56018757 ACTTTCACATTCATCACAT-GGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
56018787 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
56018816 TATTCAAATA
Statistics
Matches: 299, Mismatches: 11, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 91 0.30
95 40 0.13
96 167 0.56
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56018664 original size:143 final size:141
Alignment explanation
Indices: 56018408--56018815 Score: 656
Period size: 143 Copynumber: 2.9 Consensus size: 141
56018398 CCCTTCGGGA
* * * * * *
56018408 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
56018473 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
56018538 GGCTATTAGGC
131 GGCCATTAGGC
* *
56018549 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
*
56018614 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56018679 TCGGCCATTAGGC
129 TCGGCCATTAGGC
56018692 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56018757 ACTTTCACATTCATCACA-TGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
64 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
56018816 TATTCAAATA
Statistics
Matches: 247, Mismatches: 14, Indels: 9
0.91 0.05 0.03
Matches are distributed among these distances:
141 47 0.19
142 19 0.08
143 117 0.47
144 19 0.08
145 45 0.18
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:56022928 original size:50 final size:49
Alignment explanation
Indices: 56022807--56022991 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 49
56022797 TGAGGTCGCA
* ** ** *
56022807 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAA-TT-GGTCACG
* **
56022858 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT-GGTCACG
* * *
56022908 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACG
* * *
56022957 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
56022992 GATAGCTTTG
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 37 0.32
50 46 0.40
51 32 0.28
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACG
Found at i:56028727 original size:49 final size:47
Alignment explanation
Indices: 56028554--56028763 Score: 269
Period size: 47 Copynumber: 4.4 Consensus size: 47
56028544 CCCTTCGGGA
* * * *
56028554 CTTATCACATTTATACACTTCCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
56028601 CTTATCACATATATACACTTTCGCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
56028648 CTTGTCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
56028695 CTTATCACGCATATATATACTTTCACATTCATCACATTGTCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
56028744 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
56028764 GTACATCAAT
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
46 1 0.01
47 101 0.71
49 40 0.28
50 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56028755 original size:96 final size:94
Alignment explanation
Indices: 56028575--56028757 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 94
56028565 TATACACTTC
*
56028575 CACATCCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCGCATTCATCACATTGGC
1 CACATCCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
* * * *
56028640 CATTCGGCCTTGTCTCATATATGCATGTT
66 CACTCGGCCCTATCACATATATGCATGTT
* * *
56028669 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCACATTG
1 CACATCCATCACATCGGCCATTCGGCCTTATCA--CATATATACACTTTCACATTCATCACATTG
*
56028734 TCCACTCGGCCCTATCACATATAT
64 GCCACTCGGCCCTATCACATATAT
56028758 ATACTTGTAC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 31 0.40
96 47 0.60
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (94 bp):
CACATCCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
CACTCGGCCCTATCACATATATGCATGTT
Found at i:56031412 original size:40 final size:40
Alignment explanation
Indices: 56031355--56031684 Score: 203
Period size: 40 Copynumber: 8.3 Consensus size: 40
56031345 CGAATACACG
* * *
56031355 TCACCAGCATGATTGCTCTTCGGGACCTAGACCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATA
* *** *
56031395 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATA
* *
56031435 TCACTAGCACGAATGCTCTTC-GGACCTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACC-TAGCCCGGATATA
* * * *
56031475 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA
1 TCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATA
* * * * * *
56031515 GTAACTC-GCACAAATGC-CTTCGGGACTTAACCTGGATTTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACCTAGCCCGGATATA
* * * *
56031555 GTAACTC-GCACCAATGC-CTTCGGG-CTTAGCCTGGA-ATTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACCTAGCCCGGATA-TA
* * * * *
56031594 GTAACTC-GCACAAATGC-CTTC-GGATCTTAGTCCGGATACA
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CCTAGCCCGGATATA
* * * *
56031634 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATA
*
56031674 TCACTAGCACG
1 TCACCAGCACG
56031685 GCCGACCACT
Statistics
Matches: 239, Mismatches: 40, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
38 2 0.01
39 45 0.19
40 173 0.72
41 19 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATA
Found at i:56031655 original size:79 final size:79
Alignment explanation
Indices: 56031372--56031671 Score: 304
Period size: 80 Copynumber: 3.8 Consensus size: 79
56031362 CATGATTGCT
* * * * * ** *
56031372 CTTCGGGACCTAGACCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA-T
1 CTTC-GGACTTAGACCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAGT
* * *
56031436 CACTAGCACGAATGC
65 AACTCGCACAAATGC
* *
56031451 TCTTCGGACCTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAG
1 -CTTCGGA-CTTAGACCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAG
56031516 TAACTCGCACAAATGC
64 TAACTCGCACAAATGC
** * * ** *
56031532 CTTCGGGACTTA-ACCTGGATTTAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCTGGA-ATT
1 CTTC-GGACTTAGACC-GGATACA-TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-T
56031593 AGTAACTCGCACAAATGC
62 AGTAACTCGCACAAATGC
*
56031611 CTTCGGATCTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 CTTCGGA-CTTAGACCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
56031672 CATCACTAGC
Statistics
Matches: 179, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
78 16 0.09
79 53 0.30
80 81 0.45
81 29 0.16
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGACTTAGACCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAGTA
ACTCGCACAAATGC
Found at i:56034213 original size:23 final size:23
Alignment explanation
Indices: 56034174--56034235 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
56034164 CTTATATTAA
* *
56034174 TAATTAATTAACCTTAATTAACT
1 TAATTAATTAACATTAAATAACT
56034197 TAATTAATT-ACAATTAAATAACTT
1 TAATTAATTAAC-ATTAAATAAC-T
56034221 TAATCATAATTAACA
1 TAAT--TAATTAACA
56034236 AAATTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 17 0.53
24 5 0.16
26 6 0.19
27 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATTAATTAACATTAAATAACT
Found at i:56039302 original size:25 final size:25
Alignment explanation
Indices: 56039263--56039319 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
56039253 GTAAGGAGGG
56039263 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
*
56039287 GATAAGGGGAGAAGATTTAGGAGTT
1 GATAAGGGGAGAAGATTTAGGAGCT
56039312 GATCAAGG
1 GAT-AAGG
56039320 AGCAAGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.17
25 21 0.70
26 4 0.13
ACGTcount: A:0.37, C:0.04, G:0.39, T:0.21
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:56040753 original size:27 final size:27
Alignment explanation
Indices: 56040713--56040823 Score: 152
Period size: 27 Copynumber: 4.1 Consensus size: 27
56040703 AGGAAGCATC
* *
56040713 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
56040740 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
56040767 CTGGTGGCTTTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
56040794 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
56040820 CTGG
1 CTGG
56040824 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 13 0.17
27 62 0.83
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:56040797 original size:54 final size:53
Alignment explanation
Indices: 56040713--56040823 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
56040703 AGGAAGCATC
* *
56040713 CTGGTGGCTATGCCACATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
56040767 CTGGTGGCTTTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
56040820 CTGG
1 CTGG
56040824 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:56043816 original size:68 final size:63
Alignment explanation
Indices: 56043704--56043951 Score: 191
Period size: 68 Copynumber: 3.8 Consensus size: 63
56043694 GATGGTATGC
** * * *
56043704 AGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGTGTACAAGAGAGCTACAAGACATTATG
1 AGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTGTACAAGAGAGCTAC-AG--A-TAT-
56043768 ATAT
60 ATAT
* *
56043772 AGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGATATATGT
1 AGCTAGGTCACATGGGTGGTACTATGTGTACACCATGT-GTACAAGAGAGCTAC-AGATATATAT
* * * * * *
56043836 AGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAG-ACAAGAGAGCTACTAGATA-A
1 AGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGT-GTACAAGAGAGCTAC-AGATATA
56043899 -ACT
61 TA-T
* * *
56043902 GGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 AGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGC
56043952 CGAACTATAT
Statistics
Matches: 147, Mismatches: 26, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 24 0.16
65 3 0.02
66 24 0.16
67 30 0.20
68 45 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (63 bp):
AGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGCTACAGATATATAT
Found at i:56050585 original size:27 final size:26
Alignment explanation
Indices: 56050550--56050661 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
56050540 TGCATGGCTG
* *
56050550 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
56050576 CCAGATACAGATAATCATGGTAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
56050604 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
56050631 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
56050658 CCAG
1 CCAG
56050662 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.72
28 14 0.19
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:56052105 original size:24 final size:24
Alignment explanation
Indices: 56052078--56052148 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
56052068 CTAGATTTCC
**
56052078 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
56052102 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
56052126 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
56052149 CTCCTTACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:56057089 original size:54 final size:54
Alignment explanation
Indices: 56056995--56057106 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
56056985 TGCATGGCTG
* * *
56056995 CCAGAACAAATAATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAACCA
1 CCAGAACAAATAATGTGACAAAGCCACCAGATACAAATAATTGTGGCAGAACCA
* * * * *
56057049 CCAGAACAGATATATGTGGCAAAGCCACCAGGT-CAAATAATTGTGGCATAGCCA
1 CCAGAACAAATA-ATGTGACAAAGCCACCAGATACAAATAATTGTGGCAGAACCA
56057103 CCAG
1 CCAG
56057107 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.17
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAAAGCCACCAGATACAAATAATTGTGGCAGAACCA
Found at i:56057093 original size:27 final size:27
Alignment explanation
Indices: 56056995--56057109 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 27
56056985 TGCATGGCTG
* * * *
56056995 CCAGAACAAATAA-TGTGACAGAGTCA
1 CCAGGACAAATAATTGTGGCAAAGCCA
* *
56057021 CCAGATACAGATAATTGTGGCAGAA-CCA
1 CCAG-GACAAATAATTGTGGCA-AAGCCA
* *
56057049 CCAGAACAGAT-ATATGTGGCAAAGCCA
1 CCAGGACAAATAAT-TGTGGCAAAGCCA
* *
56057076 CCAGGTCAAATAATTGTGGCATAGCCA
1 CCAGGACAAATAATTGTGGCAAAGCCA
56057103 CCAGGAC
1 CCAGGAC
56057110 GCTTCCTCCA
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
26 8 0.11
27 49 0.68
28 14 0.19
29 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGGACAAATAATTGTGGCAAAGCCA
Found at i:56058276 original size:24 final size:24
Alignment explanation
Indices: 56058249--56058295 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
56058239 CTAGATTTCC
*
56058249 TCCCTTATCTACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
56058273 TCCCTTATCAACTTCTTAATCCT
1 TCCCTTATCAACTCCTAAATCCT
56058296 CTCCTTACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.40
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:56064129 original size:30 final size:30
Alignment explanation
Indices: 56064093--56064154 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
56064083 AATCGAAAGT
*
56064093 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATTTAAACTAGC
56064123 TTTGGCACTAAGTGTGCAATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATTTAAACTAGC
56064153 TT
1 TT
56064155 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCAATTTAAACTAGC
Found at i:56068443 original size:42 final size:42
Alignment explanation
Indices: 56068384--56068545 Score: 159
Period size: 42 Copynumber: 3.8 Consensus size: 42
56068374 GGGATTACAA
* *
56068384 AGACTATGTACAAGACCATATCTGGGATATGGCATCTG-TATG
1 AGACTACGTATAAGACCATATCTGGGATATGGCATC-GATATG
*
56068426 AGACTACGTATAAGACCATATCTGGGATATGGCATCGAGATG
1 AGACTACGTATAAGACCATATCTGGGATATGGCATCGATATG
* * * * * *
56068468 AAACTTCGTGTAAGACCATAGT-TGGGCTATTGGCATGGATACG
1 AGACTACGTATAAGACCATA-TCTGGGATA-TGGCATCGATATG
* * *
56068511 AGA-TCCCTTGTAAGACCATATCTGGGATATGGCAT
1 AGACT-ACGTATAAGACCATATCTGGGATATGGCAT
56068546 TGGTATGGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 68 0.67
43 32 0.32
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
AGACTACGTATAAGACCATATCTGGGATATGGCATCGATATG
Found at i:56070726 original size:48 final size:48
Alignment explanation
Indices: 56070655--56071033 Score: 256
Period size: 48 Copynumber: 7.9 Consensus size: 48
56070645 ATTTGGGTGA
* *
56070655 TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACAT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * * *
56070703 TATGTGTGCTAGGGTAAGACCATGTTTGGGACATGGCGTCGGCCACGA-
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-AT
* * * * * * *
56070751 TATGAGAGCCAGTTTAAGACAATGTATAGGACATGGCATCGG-CA-TT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * *
56070797 GATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACAT
1 --TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * * *** * * *
56070847 TACGAGAGCCAAAATAAGATCATGTCTGGGACATCGTATCGG---CAT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * *
56070892 TGAGACGAGAGCTAGTGTAGGACCATGTCTGGGACATGGCATCGG---CAT
1 T---ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
* * * **
56070940 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA-
1 T---ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-ACAT
* * * * *
56070991 CATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGGATCGGC
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
56071034 AATTCACCCT
Statistics
Matches: 262, Mismatches: 56, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
45 4 0.02
47 2 0.01
48 251 0.96
49 3 0.01
50 1 0.00
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT
Found at i:56070927 original size:144 final size:144
Alignment explanation
Indices: 56070652--56070982 Score: 394
Period size: 144 Copynumber: 2.3 Consensus size: 144
56070642 GACATTTGGG
* * * * * ***
56070652 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGTGTGCTAGGG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAGAGCCAAAA
* * * * * *
56070717 TAAGACCATGTTTGGGACATGGCGTCGGCCACGATATGAGAGCCAGTTTAAGACAATGTATAGGA
66 TAAGACCATGTCTGGGACATCGCATCGGCCACGAGACGAGAGCCAGTGTAAGACAATGTATAGGA
56070782 CATGGCATCGGCAT
131 CATGGCATCGGCAT
* *
56070796 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACATTACGAGAGCCAAAA
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAGAGCCAAAA
* * * * * * * *
56070861 TAAGATCATGTCTGGGACATCGTATCGG-CATTGAGACGAGAGCTAGTGTAGGACCATGTCTGGG
66 TAAGACCATGTCTGGGACATCGCATCGGCCA-CGAGACGAGAGCCAGTGTAAGACAATGTATAGG
56070925 ACATGGCATCGGCAT
130 ACATGGCATCGGCAT
* * * *
56070940 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATC
56070983 AGCCTTGACA
Statistics
Matches: 156, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
143 2 0.01
144 154 0.99
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAGAGCCAAAA
TAAGACCATGTCTGGGACATCGCATCGGCCACGAGACGAGAGCCAGTGTAAGACAATGTATAGGA
CATGGCATCGGCAT
Found at i:56071009 original size:144 final size:140
Alignment explanation
Indices: 56070662--56071034 Score: 368
Period size: 144 Copynumber: 2.6 Consensus size: 140
56070652 TGATATGTGC
* * * *
56070662 GCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGTGTGCTAGGGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC---ATGTGAGCCAGAGTAAGACCATG
* * * *
56070727 TTTGGGACATGGCGTCGGCCACGATATGAGAGCCAGTTTAAGACAATGTATAGGACATGGCATCG
63 TTTGGGACATGGCATCGG-CACGAGACGAGAGCCAGTGTAAGACAATGTATAGGACATGGCATCG
* * * *
56070792 GCATTGATATGTGC
127 GCATTGAGACGAGA
* * * * * *
56070806 GCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCACATTACGAGAGCCAAAATAAGATCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-T--GTGAGCCAGAGTAAGACCATG
* * * * * * * * *
56070871 TCTGGGACATCGTATCGGCATTGAGACGAGAGCTAGTGTAGGACCATGTCTGGGACATGGCATCG
63 TTTGGGACATGGCATCGGCA-CGAGACGAGAGCCAGTGTAAGACAATGTATAGGACATGGCATCG
56070936 GCATTGAGACGAGA
127 GCATTGAGACGAGA
* *
56070950 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGACATGTGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC---ACATGTGAGCCAGAGTAAGACCATG
* *
56071015 TTTGGAACATGGGATCGGCA
63 TTTGGGACATGGCATCGGCA
56071035 ATTCACCCTC
Statistics
Matches: 183, Mismatches: 39, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
141 1 0.01
142 1 0.01
143 2 0.01
144 175 0.96
146 1 0.01
147 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (140 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGTGAGCCAGAGTAAGACCATGTTT
GGGACATGGCATCGGCACGAGACGAGAGCCAGTGTAAGACAATGTATAGGACATGGCATCGGCAT
TGAGACGAGA
Found at i:56071034 original size:96 final size:96
Alignment explanation
Indices: 56070665--56071026 Score: 349
Period size: 96 Copynumber: 3.8 Consensus size: 96
56070655 TATGTGCGCT
* * * *
56070665 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCA--CATTATGTGTGCTAGGGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-TATGTGAGCTAGTGTAAGACCATGT
* * *
56070728 TTGGGACATGGCGTCGGCCA-CGATATGAGAGCC
64 CTGGGACATGGCGTCGGCCATTGA-ACGAGAGCC
* * * * *
56070761 AGTTTAAGACAATGTATAGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
*
56070826 GGGACATGGCGTTGGCCACATT--ACGAGAGCC
66 GGGACATGGCGTCGG-C-CATTGAACGAGAGCC
*** * * * * * * *
56070857 AAAATAAGATCATGTCTGGGACATCGTATCGGCATTGAGACGAGAGCTAGTGTAGGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
* *
56070922 GGGACATGGCATCGG-CATTGAGACGAGAGCT
66 GGGACATGGCGTCGGCCATTGA-ACGAGAGCC
* * * * *
56070953 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGACATGTGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
*
56071018 GGAACATGG
66 GGGACATGG
56071027 GATCGGCAAT
Statistics
Matches: 214, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
93 4 0.02
95 2 0.01
96 204 0.95
97 2 0.01
98 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGAGCTAGTGTAAGACCATGTCT
GGGACATGGCGTCGGCCATTGAACGAGAGCC
Found at i:56074677 original size:33 final size:33
Alignment explanation
Indices: 56074636--56074705 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
56074626 ACAGTGTTTT
*
56074636 CTAA-GATAGACTTGAGATCTGGTTATTACAAG
1 CTAAGGATAGACTTGAGATCCGGTTATTACAAG
*
56074668 CTAAGGATAGACTTGAGATCCGGTTATTACCAG
1 CTAAGGATAGACTTGAGATCCGGTTATTACAAG
56074701 CTAAG
1 CTAAG
56074706 AGTTAAGGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 4 0.11
33 31 0.89
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (33 bp):
CTAAGGATAGACTTGAGATCCGGTTATTACAAG
Found at i:56082680 original size:39 final size:39
Alignment explanation
Indices: 56082516--56082676 Score: 95
Period size: 39 Copynumber: 4.1 Consensus size: 39
56082506 TATAATGATA
* *
56082516 ATAATAATAATATTAAAGTAAAGTA-AATAATAATACTATAT
1 ATAATAATAA-ATTAAAGT-AA-TACAAAAACAATACTATAT
* * * *
56082557 ATAAT-ATATATGTATA-TAATAGAAATACACACTACTATA-
1 ATAATAATAAAT-TAAAGTAATACAAA-A-ACAATACTATAT
* *
56082596 ATAATAATAAA-TATAGAAATACAAAAAGCAA-A-TATAAT
1 ATAATAATAAATTAAAGTAATACAAAAA-CAATACTAT-AT
* *
56082634 AAAAATATTAAATTAAAGTAATA-AAAAACAATACTATAT
1 -ATAATAATAAATTAAAGTAATACAAAAACAATACTATAT
56082673 ATAA
1 ATAA
56082677 ATATATATAC
Statistics
Matches: 93, Mismatches: 14, Indels: 29
0.68 0.10 0.21
Matches are distributed among these distances:
36 3 0.03
37 5 0.05
38 17 0.18
39 33 0.35
40 30 0.32
41 5 0.05
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (39 bp):
ATAATAATAAATTAAAGTAATACAAAAACAATACTATAT
Found at i:56082807 original size:3 final size:3
Alignment explanation
Indices: 56082799--56082852 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
56082789 AATAGGGGCG
*
56082799 ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA
56082847 ATA ATA
1 ATA ATA
56082853 GTAGTCAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 34 0.74
4 11 0.24
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:56082940 original size:3 final size:3
Alignment explanation
Indices: 56082927--56083009 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
56082917 GAGGGCATAT
56082927 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
56082971 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
56083010 AAAAATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:56082951 original size:12 final size:12
Alignment explanation
Indices: 56082927--56083010 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
56082917 GAGGGCATAT
56082927 ATAATAT-AATA
1 ATAATATAAATA
56082938 ATAATATAAATA
1 ATAATATAAATA
56082950 ATAATATATACATGA
1 ATAATATA-A-AT-A
56082965 GA-AATA-ATAATA
1 -ATAATATA-AATA
56082977 ATAATATAAATA
1 ATAATATAAATA
* *
56082989 ATAGTAAAAATA
1 ATAATATAAATA
*
56083001 ATAAAATAAA
1 ATAATATAAA
56083011 AAAATAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:56082971 original size:21 final size:18
Alignment explanation
Indices: 56082932--56082991 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
56082922 CATATATAAT
*
56082932 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
56082950 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
56082971 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
56082989 ATA
1 ATA
56082992 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:56083477 original size:13 final size:13
Alignment explanation
Indices: 56083419--56083450 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
56083409 AGTGGTTGGG
56083419 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
56083432 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
56083445 GTGGTT
1 GTGGTT
56083451 AGAGTGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.41
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:56083806 original size:44 final size:44
Alignment explanation
Indices: 56083750--56085155 Score: 338
Period size: 44 Copynumber: 32.0 Consensus size: 44
56083740 TTCTTCGATC
* * *
56083750 TGTTCCCCATAAACCCAGGGATGCCAAATCTACTGTCTTCAACT
1 TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* *
56083794 TGTTCCCTATAAACACTGGGATGCCAAATCTGCTATCTTCAACT
1 TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * *
56083838 TGTTCCCTATAAGCATAGGGATGCC--ATGCTGA-AATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTCAACT
* * * ** * * *
56083880 CTGCTTCACC-GTAAGCACAGGAATGTTAGATCTGCTATCTTCGA-T
1 -TG-TTC-CCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * *
56083925 ATGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * *
56083970 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGA-AATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTCAACT
* * * * * * * **
56084012 CTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGA-T
1 -TG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * * ** * *
56084057 CTATTCCCTTTAAGCACAGGGATGCCAAATATGTTGTTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
** ** * *
56084102 TGTTCCCTATAGGCACAGGGATGCCATGT-TGA-AATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAATCT-ACTATCTTCAACT
* * * * * * * *
56084144 CTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-T
1 -TG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * * * *
56084189 CTATTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* ** * * *
56084234 TGTTCCCTACAGGCACATGGATGCC--ATGCTGA-AATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTCAACT
* * * * * * * *
56084276 CTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-T
1 -TG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * * * *
56084321 CTATTCCCTATAAGCACTGGGATGCCAAATATGCTATTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * * *
56084366 TGTTCCCTATAAGCACAGGGATGGC--ATGCTGA-AATATTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTCAACT
* * * * * * * * **
56084408 CTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGA-T
1 -TG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * * *
56084453 CTATTCCCTATAAGCACTGGGATGCCAAATCTACTGTTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * * *
56084498 TGTTTCCTATAAGCACAGGGATGCC--ATGCTGA-AATATTCGATCT
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTC-AACT
** * * * * * * * *
56084542 ACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* ** *
56084585 CTGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGT-TCTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCT-TCAACT
* * **
56084630 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGA-AATCTTTGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTCAACT
* * * * * * *
56084672 CTGCTTCACC-GTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-T
1 -TG-TTC-CCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * * *
56084717 CTGTTCCCTATAAGCACAAGGATGCCAAATCTGCTGTTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
** * **
56084762 TGTTCCCTATAAGTACAGGGATGCC--ATGCTGA-AATCTTTGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTCAACT
* * * * * * *
56084804 CTGCTTCACTGTAAGCACATGAATGCCAGATCTACTATCTTCGA-T
1 -TG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
** * * *
56084849 CTGTTCCCTATAAGTACAGGGATGCAAAATCTGCTATTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * ** *
56084894 AGTTCCCTATAAGCACAGGGATGCC--ATGCTAAAATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CTACTATCTTCAACT
* * * * * * * * *
56084936 CTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGA-T
1 -TG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * * *
56084981 CTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
** * *
56085026 TGTTCCCTATAAGTACAGGGATGCC--ATGCTGA-AATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTATCTTCAACT
* * * * * * * *
56085068 CTGCTTCACTGTAAGCACAGGAATGTCAGATCTATTATCTTCGA-T
1 -TG-TTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
* * *
56085113 CTGTTCCCTATAAACACAGGGATGCCTAATCTGCAATCTTCAA
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAA
56085156 TCTGCTCTCC
Statistics
Matches: 1022, Mismatches: 259, Indels: 162
0.71 0.18 0.11
Matches are distributed among these distances:
42 27 0.03
43 91 0.09
44 750 0.73
45 136 0.13
46 18 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
TGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT
Found at i:56085155 original size:132 final size:132
Alignment explanation
Indices: 56083794--56085146 Score: 2211
Period size: 132 Copynumber: 10.2 Consensus size: 132
56083784 GTCTTCAACT
* * * * *
56083794 TGTTCCCTATAAACACTGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCATAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* *
56083859 TGCCATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTTAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
*
56083924 TA
131 TC
56083926 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
56083991 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTTGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084056 TC
131 TC
* * * * *
56084058 TATTCCCTTTAAGCACAGGGATGCCAAATATGTTGTTTTCAACTTGTTCCCTATAGGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
56084123 TGCCATGTTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084188 TC
131 TC
* * * * *
56084190 TATTCCCTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAGGCACATGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
56084255 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084320 TC
131 TC
* * * *
56084322 TATTCCCTATAAGCACTGGGATGCCAAATATGCTATTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* * * *
56084387 TGGCATGCTGAAATATTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCAATCTTTGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084452 TC
131 TC
* * * *
56084454 TATTCCCTATAAGCACTGGGATGCCAAATCTACTGTTTTCAACTTGTTTCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* *
56084519 TGCCATGCTGAAATATTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084584 TC
131 TC
* *
56084586 TGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTCTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* *
56084651 TGCCATGCTGAAATCTTTGATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084716 TC
131 TC
* *
56084718 TGTTCCCTATAAGCACAAGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGTACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* * * *
56084783 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACATGAATGCCAGATCTACTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084848 TC
131 TC
* * * *
56084850 TGTTCCCTATAAGTACAGGGATGCAAAATCTGCTATTTTCAACTAGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* *
56084915 TGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56084980 TC
131 TC
*
56084982 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGTACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
**
56085047 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTATTATCTTCGA
66 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
56085112 TC
131 TC
* *
56085114 TGTTCCCTATAAACACAGGGATGCCTAATCTGC
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
56085147 AATCTTCAAT
Statistics
Matches: 1140, Mismatches: 81, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 1140 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
TC
Found at i:56085562 original size:204 final size:205
Alignment explanation
Indices: 56085171--56085648 Score: 715
Period size: 204 Copynumber: 2.3 Consensus size: 205
56085161 TCTCCGCCGC
** * * * * *
56085171 TACAGAGACACCAAATTATCTTGGATTTGCTTCAATGTAAACACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGAATTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* * * *
56085236 TCTTCGATTTGCTCCTTATAAGCACAAAGATGGCAAACCATCTTGGATCTGCTTTAGTATAAACA
66 TCTTCAATTTGCTCCTTATAAGCACAAAGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
*
56085301 TTTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGT
131 TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGT
*
56085366 TCTCTGACAA
196 TCTCTAACAA
* * *
56085376 TACATAGATGCCAAATCATCTTAG-ATTACTTTAACGTAAGCACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGAATTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* *
56085440 TCTTCAATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
66 TCTTCAATTTGCTCCTTATAAGCACAAAGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
* * * *
56085505 TCTGAAGGTTGGATCTGCTATGTGTCTGCCTTCCGTCGAAGTGGAGATGCTAGACTTCAATTTGT
131 TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGT
56085570 TCTCTAACAA
196 TCTCTAACAA
* * * *
56085580 TACAGAGATGCCAAATCATCTTAGAATTGCTTCAACGTAAACACGTGAAAGCTAAGTCAACTATG
1 TACAGAGATGCCAAATCATCTTAGAATTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
56085645 TCTT
66 TCTT
56085649 TGATCTGCTC
Statistics
Matches: 243, Mismatches: 29, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
204 186 0.77
205 57 0.23
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (205 bp):
TACAGAGATGCCAAATCATCTTAGAATTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
TCTTCAATTTGCTCCTTATAAGCACAAAGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
TCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGT
TCTCTAACAA
Found at i:56085921 original size:61 final size:65
Alignment explanation
Indices: 56085806--56085927 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 65
56085796 TGTATCCGTG
56085806 TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
1 TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
* *
56085871 TTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
56085928 TTATTGTAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
61 31 0.56
62 1 0.02
63 1 0.02
64 1 0.02
65 21 0.38
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (65 bp):
TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
Found at i:56090325 original size:19 final size:20
Alignment explanation
Indices: 56090301--56090347 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
56090291 AGTGAAAGTT
56090301 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
56090320 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
56090340 -AATGCAAA
1 TAATGCAAA
56090348 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:56093187 original size:3 final size:3
Alignment explanation
Indices: 56093174--56093244 Score: 51
Period size: 3 Copynumber: 23.3 Consensus size: 3
56093164 GAGGGCATAT
56093174 ATA AT- ATA ATA ATA A-A ATA ATA ATA TATA CATGA GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA
* *
56093220 ATA AT- ATAA ATA ATA GTA AAA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA A
56093245 AAAAAATAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
2 7 0.13
3 39 0.71
4 7 0.13
5 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:56093230 original size:18 final size:17
Alignment explanation
Indices: 56093174--56093262 Score: 80
Period size: 18 Copynumber: 5.2 Consensus size: 17
56093164 GAGGGCATAT
56093174 ATAAT-ATAATAATAAA
1 ATAATAATAATAATAAA
56093190 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-A-AA
56093211 ATAATAATAATAATATAA
1 ATAATAATAATAATA-AA
* *
56093229 ATAATAGTAAAAATAAA
1 ATAATAATAATAATAAA
56093246 A-AA-AATAA-AA-AAA
1 ATAATAATAATAATAAA
56093259 ATAA
1 ATAA
56093263 AAAAAAGCTC
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
13 4 0.06
14 4 0.06
15 4 0.06
16 7 0.11
17 6 0.10
18 19 0.30
19 4 0.06
20 4 0.06
21 11 0.17
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAATAAA
Found at i:56093255 original size:8 final size:9
Alignment explanation
Indices: 56093237--56093268 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
56093227 AAATAATAGT
56093237 AAAAATAAA
1 AAAAATAAA
56093246 AAAAATAAA
1 AAAAATAAA
56093255 AAAAATAAA
1 AAAAATAAA
56093264 AAAAA
1 AAAAA
56093269 GCTCTCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAATAAA
Found at i:56093678 original size:13 final size:13
Alignment explanation
Indices: 56093660--56093753 Score: 106
Period size: 13 Copynumber: 7.2 Consensus size: 13
56093650 AGTGGTTGGG
56093660 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
*
56093673 GTGGTTTAGTGTA
1 GTGGTTTAGTGGA
56093686 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
56093699 GTGGTTAGAGTAGTTGGA
1 GTGGTT----TAG-TGGA
56093717 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
56093730 GTGG--T--TGGA
1 GTGGTTTAGTGGA
56093739 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
56093752 GT
1 GT
56093754 AAAGATATTT
Statistics
Matches: 70, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
9 8 0.11
11 2 0.03
13 44 0.63
14 3 0.04
17 3 0.04
18 10 0.14
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:56093720 original size:31 final size:30
Alignment explanation
Indices: 56093649--56093736 Score: 112
Period size: 31 Copynumber: 3.0 Consensus size: 30
56093639 TAGGCAAATG
* *
56093649 GAGTGGTTGGGGTGGTTTAGTGGAGTGGTT
1 GAGTAGTTGGAGTGGTTTAGTGGAGTGGTT
*
56093679 ---TAG-TGTAGTGGTTTAGTGGAGTGGTT
1 GAGTAGTTGGAGTGGTTTAGTGGAGTGGTT
56093705 AGAGTAGTTGGAGTGGTTTAGTGGAGTGGTT
1 -GAGTAGTTGGAGTGGTTTAGTGGAGTGGTT
56093736 G
1 G
56093737 GAGTGGTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 21 0.43
27 2 0.04
30 4 0.08
31 22 0.45
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.38
Consensus pattern (30 bp):
GAGTAGTTGGAGTGGTTTAGTGGAGTGGTT
Found at i:56093736 original size:22 final size:22
Alignment explanation
Indices: 56093669--56093753 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 22
56093659 GGTGGTTTAG
*
56093669 TGGAGTGGTTTAGTGTAGTGGT
1 TGGAGTGGTTTAGTGGAGTGGT
* ** * * *
56093691 T-TAGTGGAGTGGTTAGAGTAGT
1 TGGAGTGGTTTAG-TGGAGTGGT
56093713 TGGAGTGGTTTAGTGGAGTGGT
1 TGGAGTGGTTTAGTGGAGTGGT
56093735 TGGAGTGGTTTAGTGGAGT
1 TGGAGTGGTTTAGTGGAGT
56093754 AAAGATATTT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
21 7 0.15
22 34 0.71
23 7 0.15
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (22 bp):
TGGAGTGGTTTAGTGGAGTGGT
Found at i:56094796 original size:33 final size:33
Alignment explanation
Indices: 56094749--56094817 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
56094739 ATTCGGCTGC
*
56094749 GGGGCTAATTCAACCTCTTTATTAGCTTGCTCT
1 GGGGATAATTCAACCTCTTTATTAGCTTGCTCT
* *
56094782 GGGGATAATTCAACCTCTTTATTATCTTGGTCT
1 GGGGATAATTCAACCTCTTTATTAGCTTGCTCT
56094815 GGG
1 GGG
56094818 CAGTCTCTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (33 bp):
GGGGATAATTCAACCTCTTTATTAGCTTGCTCT
Found at i:56100091 original size:43 final size:43
Alignment explanation
Indices: 56100030--56100115 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
56100020 TGAGTAAGTT
56100030 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
1 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
56100073 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
1 CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
56100116 TTATACTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (43 bp):
CTAGCTATGAAAATGATTTTGGGATGATATTGTAATCGTTGAC
Found at i:56107714 original size:42 final size:42
Alignment explanation
Indices: 56107624--56107735 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
56107614 TAGGGATTAC
* * * * *
56107624 TAAGACTATGTATAAAACCATGTCTAGGATATGAAATCTATA
1 TAAGACTATGTGTAAGACCATATCTGGGATATGAAATCGATA
* * **
56107666 TGAGACTATGTGTACGACCATATCTGGGATATGGGATCGATA
1 TAAGACTATGTGTAAGACCATATCTGGGATATGAAATCGATA
*
56107708 TAAGACT-TCGTGTAAGACCATAGCTGGG
1 TAAGACTAT-GTGTAAGACCATATCTGGG
56107736 CAATTGGCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.02
42 56 0.98
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (42 bp):
TAAGACTATGTGTAAGACCATATCTGGGATATGAAATCGATA
Found at i:56107985 original size:15 final size:16
Alignment explanation
Indices: 56107959--56107988 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56107949 GTGAACCCTC
56107959 GGTAAGGTTATGATTG
1 GGTAAGGTTATGATTG
56107975 GGTAA-GTTATGATT
1 GGTAAGGTTATGATT
56107989 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (16 bp):
GGTAAGGTTATGATTG
Found at i:56112489 original size:28 final size:28
Alignment explanation
Indices: 56112434--56112493 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
56112424 ACCACGTCAT
*
56112434 CTAAGTGAAATAAGTCCATGGCTATGTG
1 CTAAGTGAAATAAGTCCATGGATATGTG
56112462 CTAAGTGAAATAAGTCCATGGA-ATTGTG
1 CTAAGTGAAATAAGTCCATGGATA-TGTG
56112490 CTAA
1 CTAA
56112494 CTGATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
CTAAGTGAAATAAGTCCATGGATATGTG
Found at i:56112582 original size:51 final size:50
Alignment explanation
Indices: 56112521--56112668 Score: 208
Period size: 51 Copynumber: 2.9 Consensus size: 50
56112511 TGAATCTTAG
* *
56112521 GAATAAAATAGCTTTGGACACAAGTGTGATACTATGTGAAGGCTACTTTGT
1 GAATAAAATAGCTTTGGACACAA-TGTGGTACTATGTGAAGGCCACTTTGT
* * *
56112572 GAATATAATAGCTTTGGACATAACTGTGGTACTATGTGAAGGCCATTTTGT
1 GAATAAAATAGCTTTGGACACAA-TGTGGTACTATGTGAAGGCCACTTTGT
56112623 GAATAAAATAGCTTTGG-CTACAATGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAT-GTGGTACTATGTGAAGGCCAC
56112669 CGTGTATCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 2 0.02
51 84 0.98
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (50 bp):
GAATAAAATAGCTTTGGACACAATGTGGTACTATGTGAAGGCCACTTTGT
Found at i:56117035 original size:47 final size:47
Alignment explanation
Indices: 56116972--56117207 Score: 384
Period size: 47 Copynumber: 5.0 Consensus size: 47
56116962 ATGATAGTAT
*
56116972 GGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56117019 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56117066 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56117113 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * *
56117159 GGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 GGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56117207 G
1 G
56117208 TCCCGAAGGG
Statistics
Matches: 178, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
46 5 0.03
47 171 0.96
48 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:56117384 original size:37 final size:37
Alignment explanation
Indices: 56117326--56117404 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56117316 CCGAGCTCTA
* * *
56117326 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
56117363 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
56117400 AAGAC
1 AAGAC
56117405 TTCGTAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:56118895 original size:39 final size:40
Alignment explanation
Indices: 56118615--56118877 Score: 381
Period size: 40 Copynumber: 6.7 Consensus size: 40
56118605 GAGAATTGAG
56118615 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
56118654 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
56118693 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTACT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
56118733 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
56118773 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGAGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
56118813 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* *
56118853 GGTGTTATATCCGGGCT-AGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
56118878 AGAGTAATCA
Statistics
Matches: 202, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 64 0.32
40 138 0.68
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Done.