Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 32 of 313
Found at i:10916899 original size:13 final size:13
Alignment explanation
Indices: 10916881--10916905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10916871 TACTAAATTT
10916881 TCATGGATTCAAG
1 TCATGGATTCAAG
10916894 TCATGGATTCAA
1 TCATGGATTCAA
10916906 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:10922178 original size:38 final size:38
Alignment explanation
Indices: 10922107--10922295 Score: 193
Period size: 38 Copynumber: 4.9 Consensus size: 38
10922097 ATTTGATGTG
* *
10922107 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
*
10922147 TATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGCAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* *
10922185 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
10922223 TATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
10922261 TATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGG
10922296 TGACTAGATT
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
37 2 0.02
38 90 0.69
39 13 0.10
40 25 0.19
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:10922216 original size:76 final size:77
Alignment explanation
Indices: 10922114--10922295 Score: 215
Period size: 76 Copynumber: 2.4 Consensus size: 77
10922104 GTGTATCCGG
* * * * *
10922114 GCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTG
1 GCTTAAAGTCCCGCAGGCT-TGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTG
10922179 GCAATATATC-CA
65 GCAATATATCTCA
* * *
10922191 GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTG
1 GCTTAAAGTCCCGCAGGCTT-GTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTG
* * *
10922255 GTATTATATCTGA
65 GCAATATATCTCA
*
10922268 GCTTAAAGTCCCGCAGGTTTTGTGCTGG
1 GCTTAAAGTCCCGCAGG-CTTGTGCTGG
10922296 TGACTAGATT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
75 1 0.01
76 56 0.64
77 13 0.15
78 16 0.18
79 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (77 bp):
GCTTAAAGTCCCGCAGGCTTGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGG
CAATATATCTCA
Found at i:10924856 original size:15 final size:15
Alignment explanation
Indices: 10924836--10924883 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
10924826 TCAAAGATGG
10924836 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
10924851 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
10924865 GTTTATGGATATAAA
1 GTTTATGGATATGAA
10924880 GTTT
1 GTTT
10924884 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:10924870 original size:14 final size:14
Alignment explanation
Indices: 10924830--10924873 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10924820 AAGGATTCAA
10924830 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
10924844 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
10924859 AGATGGGTTTATGG
1 AGATGGGTTTATGG
10924873 A
1 A
10924874 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:10924899 original size:29 final size:29
Alignment explanation
Indices: 10924830--10924889 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
10924820 AAGGATTCAA
*
10924830 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
10924859 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
10924888 AG
1 AG
10924890 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:10925899 original size:54 final size:54
Alignment explanation
Indices: 10925840--10925947 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
10925830 AATAAATTAA
*
10925840 CCTAGTAACTAGATTAATTAAAGAAGCAACTCGTTAAATTAAATTCATCAAATG
1 CCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAATTCATCAAATG
10925894 CCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAATTCATCAAATG
1 CCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAATTCATCAAATG
10925948 AACTCATTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (54 bp):
CCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAATTCATCAAATG
Found at i:10928467 original size:18 final size:18
Alignment explanation
Indices: 10928446--10928495 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
10928436 AAACTCTTTT
10928446 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
10928464 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
10928482 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
10928496 TTTGTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:10928496 original size:24 final size:24
Alignment explanation
Indices: 10928421--10928498 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
10928411 CTTGTTCACA
*
10928421 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
10928445 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
10928469 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
10928493 TTCTTT
1 TTCTTT
10928499 GTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:10929603 original size:11 final size:11
Alignment explanation
Indices: 10929587--10929612 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10929577 TTGTTTGAAA
10929587 TTTTTTTTCGT
1 TTTTTTTTCGT
10929598 TTTTTTTTCGT
1 TTTTTTTTCGT
10929609 TTTT
1 TTTT
10929613 AATGAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCGT
Found at i:10934218 original size:38 final size:38
Alignment explanation
Indices: 10934147--10934266 Score: 145
Period size: 38 Copynumber: 3.1 Consensus size: 38
10934137 ATTTGATGTG
* *
10934147 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
*
10934187 TATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* *
10934225 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
10934263 TATC
1 TATC
10934267 TGAGCTTAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
37 2 0.03
38 54 0.76
39 7 0.10
40 8 0.11
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:10934297 original size:40 final size:38
Alignment explanation
Indices: 10934147--10934298 Score: 135
Period size: 38 Copynumber: 3.9 Consensus size: 38
10934137 ATTTGATGTG
* * * *
10934147 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGG-AATTA
1 TATCC-GGCTTAAA-TCCCACAGGCTTTGTGCTGGTAA-TA
* ** *
10934187 TATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATA
1 TATCCGGCTTAAATCCCACAGGCTTTGTGCTGGTAATA
* * *
10934225 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
1 TATCCGGCTTAAATCCCACAGGCTTTGTGCTGGTAATA
* *
10934263 TATCTGAGCTTAAAGTCCCACAGGTTTTGTGCTGGT
1 TATCCG-GCTTAAA-TCCCACAGGCTTTGTGCTGGT
10934299 GACTAGATTC
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
38 57 0.59
39 15 0.16
40 24 0.25
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TATCCGGCTTAAATCCCACAGGCTTTGTGCTGGTAATA
Found at i:10935574 original size:55 final size:54
Alignment explanation
Indices: 10935465--10935646 Score: 215
Period size: 55 Copynumber: 3.4 Consensus size: 54
10935455 TTAGTTTACC
* * * * *
10935465 AAATTACCAAAATA-CCCTCGATTAGCAAAATTACCGAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTAGTTTGTA
10935519 AAATTACCAAAATACCCCTAGTTTGTAAAATTTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAA-TTACCAAAATACCCCTAGTTTGTA
* * * * * *
10935574 AAATTACCAAAATACACCTAGTTTGTGAAATTACTAAAATA-CGCTCGACTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
*
10935628 AAATTACCAAAGTACCCCT
1 AAATTACCAAAATACCCCT
10935647 GATTTACAGA
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 4 0.04
54 53 0.47
55 55 0.49
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:10935598 original size:82 final size:82
Alignment explanation
Indices: 10935465--10935699 Score: 221
Period size: 82 Copynumber: 2.9 Consensus size: 82
10935455 TTAGTTTACC
* * * *
10935465 AAATTACCAAAATA-CCCTCGATTAGCAAAATTACCGAAATACCCCTGGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTAGATTAGCAAAATTACCAAAATACACCTAGTTTGTAAAATTACCAA
*
10935529 AATACCCCTAG-TTTGTA
66 AATA-CCCTAGACTTGTA
* * * *
10935546 AAATTTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACACCTAGTTTGTGAAATTACTA
1 AAA-TTACCAAAATACCCCTAGATTAGCAAAATTACCAAAATACACCTAGTTTGTAAAATTACCA
* *
10935610 AAATACGCTCGACTTGTA
65 AAATACCCTAGACTTGTA
* * *** * **
10935628 AAATTACCAAAGTACCCCT-GATTTA-CAGAATTACCATTTTAC-CCTCAATTTACAAAATTACC
1 AAATTACCAAAATACCCCTAGA-TTAGCAAAATTACCAAAATACACCT-AGTTTGTAAAATTACC
10935690 AAAATACCCT
64 AAAATACCCT
10935700 TGTAGGGTAG
Statistics
Matches: 124, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
80 4 0.03
81 54 0.44
82 61 0.49
83 5 0.04
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (82 bp):
AAATTACCAAAATACCCCTAGATTAGCAAAATTACCAAAATACACCTAGTTTGTAAAATTACCAA
AATACCCTAGACTTGTA
Found at i:10935699 original size:27 final size:28
Alignment explanation
Indices: 10935465--10935699 Score: 180
Period size: 27 Copynumber: 8.6 Consensus size: 28
10935455 TTAGTTTACC
* * *
10935465 AAATTACCAAAATACCCTC-GATTAGCA
1 AAATTACCAAAATACCCTCTAATTTGTA
* **
10935492 AAATTACCGAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTCTAATTTGTA
*
10935519 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCTAATTTGTA
*
10935546 AAATTTACCAAAATACCC-CTAGTTTGTA
1 AAA-TTACCAAAATACCCTCTAATTTGTA
* * *
10935574 AAATTACCAAAATACAC-CTAGTTTGTG
1 AAATTACCAAAATACCCTCTAATTTGTA
* * * *
10935601 AAATTACTAAAATACGCTC-GACTTGTA
1 AAATTACCAAAATACCCTCTAATTTGTA
* * **
10935628 AAATTACCAAAGTACCC-CTGATTTACA
1 AAATTACCAAAATACCCTCTAATTTGTA
* *** **
10935655 GAATTACCATTTTACCCTC-AATTTACA
1 AAATTACCAAAATACCCTCTAATTTGTA
10935682 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
10935700 TGTAGGGTAG
Statistics
Matches: 174, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 143 0.82
28 29 0.17
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (28 bp):
AAATTACCAAAATACCCTCTAATTTGTA
Found at i:10935750 original size:27 final size:27
Alignment explanation
Indices: 10935691--10935752 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
10935681 AAAATTACCA
* *
10935691 AAATACCCTTGTAGGGTAGAAATTTTG
1 AAATACCCCTGTAGGGTAGAAATTCTG
10935718 AAATACCCCTGTAGGGTAG-AATTACTG
1 AAATACCCCTGTAGGGTAGAAATT-CTG
*
10935745 AGATACCC
1 AAATACCC
10935753 TTTAAGGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATTCTG
Found at i:10936401 original size:27 final size:27
Alignment explanation
Indices: 10936371--10936505 Score: 166
Period size: 27 Copynumber: 5.0 Consensus size: 27
10936361 ATTCTGTTAA
* *
10936371 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
10936398 GTGGCTATGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
10936425 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
10936452 GTGGCTCTGCCACAATATATGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
10936479 GTGACTCTGTCACAATATCTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
10936505 G
1 G
10936506 AAGCCATGCT
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.12
27 78 0.80
28 7 0.07
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:10936632 original size:6 final size:6
Alignment explanation
Indices: 10936623--10936743 Score: 61
Period size: 6 Copynumber: 19.8 Consensus size: 6
10936613 TTGCATTCAC
* * * *
10936623 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * *
10936673 ATTTTG ATTTTG ATTTTG ATT-TG ATTTTG ATTCTG -TCACCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
10936721 ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
10936744 AGTTCTAATA
Statistics
Matches: 89, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
5 9 0.10
6 69 0.78
7 8 0.09
8 3 0.03
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:10936680 original size:25 final size:25
Alignment explanation
Indices: 10936626--10936687 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
10936616 CATTCACATT
* * *
10936626 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTTTGATTCTGTCACCTAATA
*
10936651 CTGATTTTGATTCTGTCACCTAATT
1 CTGATTTTGATTCTGTCACCTAATA
*
10936676 TTGATTTTGATT
1 CTGATTTTGATT
10936688 TTGATTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (25 bp):
CTGATTTTGATTCTGTCACCTAATA
Found at i:10936697 original size:11 final size:11
Alignment explanation
Indices: 10936673--10936704 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
10936663 CTGTCACCTA
10936673 ATTTTGATTTTG
1 ATTTTGA-TTTG
10936685 ATTTTGATTTG
1 ATTTTGATTTG
10936696 ATTTTGATT
1 ATTTTGATT
10936705 CTGTCACCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.66
Consensus pattern (11 bp):
ATTTTGATTTG
Found at i:10945067 original size:14 final size:15
Alignment explanation
Indices: 10945035--10945076 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10945025 ATATGCAAAT
*
10945035 AAAAGAATTACTAGA
1 AAAAGAATTAATAGA
*
10945050 AAAAGGATTAATAGA
1 AAAAGAATTAATAGA
10945065 AAAA-AA-TAATAG
1 AAAAGAATTAATAG
10945077 TCTACATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 6 0.25
14 1 0.04
15 17 0.71
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.19
Consensus pattern (15 bp):
AAAAGAATTAATAGA
Found at i:10948872 original size:16 final size:16
Alignment explanation
Indices: 10948859--10948890 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10948849 GTGATTTTTT
10948859 AAATAATTATTTTTAA
1 AAATAATTATTTTTAA
10948875 AAATAATTATTTTTAA
1 AAATAATTATTTTTAA
10948891 GGATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATAATTATTTTTAA
Found at i:10948873 original size:14 final size:14
Alignment explanation
Indices: 10948854--10948890 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
10948844 TAGGTGTGAT
10948854 TTTTTAAATAATTA
1 TTTTTAAATAATTA
10948868 TTTTTAAAAATAATTA
1 TTTTT--AAATAATTA
10948884 TTTTTAA
1 TTTTTAA
10948891 GGATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTAAATAATTA
Found at i:10951458 original size:20 final size:21
Alignment explanation
Indices: 10951419--10951461 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10951409 AATTTGTAAC
10951419 TTAAAAAAAAACTTACATATA
1 TTAAAAAAAAACTTACATATA
* *
10951440 TTAATAAAAAA-TTATATATA
1 TTAAAAAAAAACTTACATATA
10951460 TT
1 TT
10951462 TCAGATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAAAAAAACTTACATATA
Found at i:10952666 original size:12 final size:12
Alignment explanation
Indices: 10952649--10952677 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10952639 AACAACCTTC
10952649 ACATAAGGCTTT
1 ACATAAGGCTTT
10952661 ACATAAGGCTTT
1 ACATAAGGCTTT
10952673 ACATA
1 ACATA
10952678 GGTAATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (12 bp):
ACATAAGGCTTT
Found at i:10953639 original size:43 final size:44
Alignment explanation
Indices: 10953578--10953766 Score: 217
Period size: 43 Copynumber: 4.4 Consensus size: 44
10953568 AAACCGCCAT
* * *
10953578 TATAGAATGTGACCTTTAGCGGCACTTTCTCT-ACTAACGCTGC
1 TATAGAACGTGACCTTTAGCGGCGCTTTCTCTCACAAACGCTGC
* * *
10953621 TATAGAACGTGACCTTTAGCGGCGCTTT-TCTGACAAATGCCGC
1 TATAGAACGTGACCTTTAGCGGCGCTTTCTCTCACAAACGCTGC
* * * * *
10953664 AATAGAACATGACCTTTAGCGACGCTTT-TCTCACAAACACTGT
1 TATAGAACGTGACCTTTAGCGGCGCTTTCTCTCACAAACGCTGC
* *
10953707 TATAGAACATGACCTTTAGCGGCGCTTTAC-CT-ACAAACGCTAC
1 TATAGAACGTGACCTTTAGCGGCGCTTT-CTCTCACAAACGCTGC
10953750 TATAGAACGTGACCTTT
1 TATAGAACGTGACCTTT
10953767 TGTGGCACTT
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
42 3 0.02
43 119 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
TATAGAACGTGACCTTTAGCGGCGCTTTCTCTCACAAACGCTGC
Found at i:10953964 original size:19 final size:19
Alignment explanation
Indices: 10953942--10953986 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10953932 AACCAAAAAT
*
10953942 AACAAATACAAATCCAACC
1 AACAAATACAAAGCCAACC
*
10953961 AACAAATACAAAGCCAGCC
1 AACAAATACAAAGCCAACC
10953980 AA-AAATA
1 AACAAATA
10953987 GAAAATCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.60, C:0.27, G:0.04, T:0.09
Consensus pattern (19 bp):
AACAAATACAAAGCCAACC
Found at i:10959849 original size:9 final size:9
Alignment explanation
Indices: 10959775--10959863 Score: 76
Period size: 9 Copynumber: 10.1 Consensus size: 9
10959765 TATGTATTAA
*
10959775 GTAAGTTAA
1 GTAAGTTAT
*
10959784 GTAAGTTTT
1 GTAAGTTAT
*
10959793 GTAAGTTTT
1 GTAAGTTAT
10959802 GTAAGTTAT
1 GTAAGTTAT
* *
10959811 GATATGATAT
1 G-TAAGTTAT
* *
10959821 AT-ATTTAT
1 GTAAGTTAT
10959829 GT-A-TTAT
1 GTAAGTTAT
*
10959836 GTAAGTTTT
1 GTAAGTTAT
10959845 GTAAGTTAT
1 GTAAGTTAT
10959854 GTAAGTTAT
1 GTAAGTTAT
10959863 G
1 G
10959864 ATATGATATA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
7 6 0.09
8 6 0.09
9 47 0.72
10 6 0.09
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:10960260 original size:160 final size:161
Alignment explanation
Indices: 10959899--10960333 Score: 658
Period size: 160 Copynumber: 2.7 Consensus size: 161
10959889 TAAATATTAT
10959899 TTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAGTTGA
1 TTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAGTTGA
* * * *
10959964 AAACTGTATAAGACGAAATGTCAACTTTGTTCCATAAAAAAATAAAAATAAAAATAAAATTTGAC
66 AAACCGTATAAGATGAAATGTCAACTTTGTTCCAT---GAAA-AAAAATAAAAATAAAAATTGAC
*
10960029 AATGCAGAAAATCACATGGAAAAAAAATTGTTTTAA
127 AATGCAGAAAATCACATGG-AAAAAAATTATTTTAA
* *
10960065 TTAAATAATATTTAAATAAATTAATCTAAATTATATTATTTAAAAAATTGTGTATAAAAAGTTGA
1 TTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAGTTGA
* * **
10960130 AAACCGTATAAGATGGAAATGTCAACTTTGATCCATGGAAAAAAATAAAAATAAAAATTGATGAT
66 AAACCGTATAAGAT-GAAATGTCAACTTTGTTCCATGAAAAAAAATAAAAATAAAAATTGACAAT
*
10960195 GTAGAAAATCACAT-G-AAAAAATTATTTTAA
130 GCAGAAAATCACATGGAAAAAAATTATTTTAA
** *
10960225 TTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAATTTTGTGTATAAACAGTTGA
1 TTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAGTTGA
*
10960290 AAACCGTATAAGATGAAATGTCAACTTTGTTCTATGAAAAAAAA
66 AAACCGTATAAGATGAAATGTCAACTTTGTTCCATGAAAAAAAA
10960334 AAGATTGAAC
Statistics
Matches: 248, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
159 27 0.11
160 88 0.35
162 1 0.00
163 35 0.14
164 2 0.01
166 75 0.30
167 20 0.08
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.33
Consensus pattern (161 bp):
TTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAGTTGA
AAACCGTATAAGATGAAATGTCAACTTTGTTCCATGAAAAAAAATAAAAATAAAAATTGACAATG
CAGAAAATCACATGGAAAAAAATTATTTTAA
Found at i:10960982 original size:32 final size:32
Alignment explanation
Indices: 10960946--10961010 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
10960936 TGTATGCATT
10960946 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
10960978 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
10961010 T
1 T
10961011 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:10965594 original size:7 final size:7
Alignment explanation
Indices: 10965582--10965737 Score: 86
Period size: 7 Copynumber: 21.9 Consensus size: 7
10965572 TTTGATCTTT
10965582 CCTAAAC
1 CCTAAAC
10965589 CCTAAA-
1 CCTAAAC
10965595 CCTCAAAC
1 CCT-AAAC
*
10965603 CATAAAC
1 CCTAAAC
*
10965610 TCTAAAC
1 CCTAAAC
* *
10965617 CATAAAT
1 CCTAAAC
10965624 CCTAAAC
1 CCTAAAC
*
10965631 CTTAAAC
1 CCTAAAC
10965638 CCTAAAC
1 CCTAAAC
10965645 CC-AAA-
1 CCTAAAC
10965650 CCTCAAGAC
1 CCT-AA-AC
10965659 CCTAAATC
1 CCTAAA-C
*
10965667 CC-AATC
1 CCTAAAC
*
10965673 TCTAAAC
1 CCTAAAC
10965680 CCATAAAC
1 CC-TAAAC
*
10965688 CTCAAAAC
1 C-CTAAAC
*
10965696 CATAAAC
1 CCTAAAC
* *
10965703 TCAAAACC
1 CCTAAA-C
10965711 CCTAAAC
1 CCTAAAC
**
10965718 TTTAAAC
1 CCTAAAC
**
10965725 TATAAAC
1 CCTAAAC
10965732 CCTAAA
1 CCTAAA
10965738 ATACTTAGAT
Statistics
Matches: 111, Mismatches: 27, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.02
6 8 0.07
7 73 0.66
8 24 0.22
9 4 0.04
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:10965716 original size:15 final size:15
Alignment explanation
Indices: 10965676--10965718 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
10965666 CCCAATCTCT
10965676 AAACCCATAAACCTCA
1 AAACCCATAAA-CTCA
10965692 AAA-CCATAAACTCA
1 AAACCCATAAACTCA
*
10965706 AAACCCCTAAACT
1 AAACCCATAAACT
10965719 TTAAACTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 7 0.28
15 15 0.60
16 3 0.12
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCATAAACTCA
Found at i:10968437 original size:37 final size:37
Alignment explanation
Indices: 10968387--10968465 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
10968377 TTATTACGAA
* * *
10968387 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
10968424 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
10968461 GTCTT
1 GTCTT
10968466 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:10968709 original size:49 final size:49
Alignment explanation
Indices: 10968584--10968936 Score: 606
Period size: 49 Copynumber: 7.3 Consensus size: 49
10968574 CCCTTCGGGA
* * * * *
10968584 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
10968631 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10968678 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10968727 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10968776 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10968825 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10968874 CTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10968923 CTTATCACATATAT
1 CTTATCACATATAT
10968937 GCATGTTCAC
Statistics
Matches: 291, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 43 0.15
49 247 0.85
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10974431 original size:46 final size:46
Alignment explanation
Indices: 10974381--10974479 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
10974371 CAAGATTGTG
*
10974381 TTAATTTTATTTGAATTAATTTATTAAACTATAACAAATGCTTGAC
1 TTAATTTTATTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
* * *
10974427 TTAATTTTGTTTGTATTAATTTATTAAACTATCACAAAGGCTTGAC
1 TTAATTTTATTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
10974473 TTAATTT
1 TTAATTT
10974480 AAAATTTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.47
Consensus pattern (46 bp):
TTAATTTTATTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
Found at i:10986005 original size:46 final size:46
Alignment explanation
Indices: 10985955--10986053 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
10985945 CAAGATTGTG
*
10985955 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAATGCTTGAC
1 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
* *
10986001 TTAATTTTGTTTGCATTAATTTATTAAACTATCACAAAGGCTTGAC
1 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
10986047 TTAATTT
1 TTAATTT
10986054 ATAATTTTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.46
Consensus pattern (46 bp):
TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
Found at i:10994835 original size:43 final size:43
Alignment explanation
Indices: 10994787--10994911 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
10994777 ATAGAGATGT
*
10994787 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
1 GATTACATGTAAGACCATGTCTGGGATA-TGGCATTGTATATGA
* * * * * *
10994830 GATTACGTGTAAGACCCTGTATTGGATAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGATA-TGGCATTGTATATGA
* * *
10994873 GATAACATGTAAGACCATATCTGGGATATGGCACTGTAT
1 GATTACATGTAAGACCATGTCTGGGATATGGCATTGTAT
10994912 GAGTTATATG
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 8 0.12
43 56 0.88
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGATATGGCATTGTATATGA
Found at i:10998459 original size:46 final size:46
Alignment explanation
Indices: 10998403--10998578 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
10998393 TATTTGGGCA
10998403 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10998449 TCTGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
10998494 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
10998542 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10998579 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
45 1 0.01
46 61 0.56
47 25 0.23
48 1 0.01
50 7 0.06
51 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10998558 original size:93 final size:93
Alignment explanation
Indices: 10998399--10998569 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
10998389 AGGATATTTG
* *
10998399 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
10998464 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* * *
10998492 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
*
10998557 TTGAGTCTGAGTT
66 TTGAGTCCGAGTT
10998570 CACTTATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:11001319 original size:15 final size:15
Alignment explanation
Indices: 11001299--11001367 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
11001289 GTATCTTGGG
11001299 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
11001314 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
11001329 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
11001344 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
11001359 TTTCTTTAT
1 TTTCTTTAT
11001368 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:11001368 original size:30 final size:30
Alignment explanation
Indices: 11001290--11001377 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
11001280 CATAATATCG
* * * *
11001290 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
11001320 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
11001350 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
11001378 TATTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:11003918 original size:93 final size:93
Alignment explanation
Indices: 11003759--11003929 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11003749 GGATGGTTGA
* *
11003759 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCCGAACTCGTTGAGT
11003824 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
11003852 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCCGAACTCGTTGAGT
11003917 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11003930 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:11003935 original size:46 final size:46
Alignment explanation
Indices: 11003763--11003937 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
11003753 GGTTGAGCAT
* * *
11003763 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*** * * * *
11003809 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
11003854 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
11003902 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11003938 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 32 0.30
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:11006492 original size:26 final size:26
Alignment explanation
Indices: 11006463--11006570 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11006453 TGGTACAAAT
11006463 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11006489 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11006515 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11006541 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11006567 TGAT
1 TGAT
11006571 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11008208 original size:27 final size:27
Alignment explanation
Indices: 11008170--11008310 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
11008160 AGGAAGCGTC
11008170 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
11008197 CTGGTGGCTATGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
11008223 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* * * *
11008251 CTAGTGGTTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
11008278 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
11008305 CTGGTG
1 CTGGTG
11008311 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:11008232 original size:54 final size:54
Alignment explanation
Indices: 11008167--11008310 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
11008157 TGGAGGAAGC
11008167 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCT
* * *
11008221 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGTTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCT
* *
11008275 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
11008311 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCT
Found at i:11008321 original size:27 final size:26
Alignment explanation
Indices: 11008170--11008328 Score: 131
Period size: 27 Copynumber: 5.9 Consensus size: 26
11008160 AGGAAGCGTC
* * *
11008170 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* * *
11008197 CTGGTGGCTATGCCACATATATCTGTC
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * *
11008224 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* **
11008251 CTAGTGGTTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
11008278 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
11008305 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
11008329 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:11008322 original size:81 final size:80
Alignment explanation
Indices: 11008180--11008328 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
11008170 CTGGTGGCTA
*
11008180 TGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCTGTCCTGGTGGCTATGCCACAATTA
1 TGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCTGTCCTGGTGACTATGCCACAA-TA
11008245 TCTGATCTAGTGGTTC
65 TCTGATCTAGTGGTTC
* * * *
11008261 TGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-TCGTCACAA
1 TGCCACAAT-TATCTGATCTGGTGGCTATGCCACATATATCTGT-CCTGGTGACTAT-GCCACAA
11008323 TATCTG
63 TATCTG
11008329 GCAGCCTCGC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
80 17 0.28
81 43 0.72
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (80 bp):
TGCCACAATTATCTGATCTGGTGGCTATGCCACATATATCTGTCCTGGTGACTATGCCACAATAT
CTGATCTAGTGGTTC
Found at i:11010573 original size:290 final size:288
Alignment explanation
Indices: 11010020--11010598 Score: 1045
Period size: 290 Copynumber: 2.0 Consensus size: 288
11010010 TGCTATAATG
11010020 AGTGGCAATCGATGTTTGCGACTAGTTACACCAACAATAAACAATATTTGTTTTAGTTTTTTAAG
1 AGTGGCAATCGATGTTTGCGACTAGTTACACCAACAATAAACAATATTTGTTTTAGTTTTTTAAG
**
11010085 TGTCACATATTTTCATTTTTCATATTTTAAAAATCAATTTTTATTTTTTTAACCTGTTGGGGATA
66 TGTCACATATTTTCATTTTTCATATTTTAAAAATCAATTTTTATTTTTTTAACCTGTTGGAAATA
11010150 AACTCGATTAAATAACGAATAAGTAAAATAATAAAGAAATCGAAAAAATCAAACACAAATATTTT
131 AACTCGATTAAATAACGAATAAGTAAAATAATAAAGAAATCGAAAAAATCAAACACAAATATTTT
11010215 ACGTGAAAAAAAACTCTTCAAAGAAGATAAAAAACCATGGGTAAATATAATTTCACTATAACAAA
196 ACGTGAAAAAAAACTCTTCAAAGAAGATAAAAAACCATGGGTAAATATAATTTCACTATAAC--A
11010280 AAAAAATGAAGAGTACAAAGATGGAGATAA
259 AAAAAATGAAGAGTACAAAGATGGAGATAA
* *
11010310 AGTGGCAATCGATGTTTGCTACTAGTTACACCAACACTAAACAATATTTGTTTTAGTTTTTTAAG
1 AGTGGCAATCGATGTTTGCGACTAGTTACACCAACAATAAACAATATTTGTTTTAGTTTTTTAAG
11010375 TGTCACATATTTTCATTTTTCATATTTTAAAAATCAATTTTTATTTTTTTAACCTGTTGGAAATA
66 TGTCACATATTTTCATTTTTCATATTTTAAAAATCAATTTTTATTTTTTTAACCTGTTGGAAATA
* *
11010440 AACTCGATTAAATAACGAATAAGTAAAATAATAAAGAAATCGAAAAGATCGAACACAAATATTTT
131 AACTCGATTAAATAACGAATAAGTAAAATAATAAAGAAATCGAAAAAATCAAACACAAATATTTT
11010505 ACGTG-AAAAAAACATCTTCAAAGAAGAT-AAAAACCATGGGTAAATATAATTTCACTATAACGA
196 ACGTGAAAAAAAAC-TCTTCAAAGAAGATAAAAAACCATGGGTAAATATAATTTCACTATAAC-A
*
11010568 AAAAAATGAAGAGTACAAAGATTGAGATAA
259 AAAAAATGAAGAGTACAAAGATGGAGATAA
11010598 A
1 A
11010599 ATTAAACCCC
Statistics
Matches: 280, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
288 31 0.11
289 41 0.15
290 208 0.74
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (288 bp):
AGTGGCAATCGATGTTTGCGACTAGTTACACCAACAATAAACAATATTTGTTTTAGTTTTTTAAG
TGTCACATATTTTCATTTTTCATATTTTAAAAATCAATTTTTATTTTTTTAACCTGTTGGAAATA
AACTCGATTAAATAACGAATAAGTAAAATAATAAAGAAATCGAAAAAATCAAACACAAATATTTT
ACGTGAAAAAAAACTCTTCAAAGAAGATAAAAAACCATGGGTAAATATAATTTCACTATAACAAA
AAAATGAAGAGTACAAAGATGGAGATAA
Found at i:11012013 original size:14 final size:13
Alignment explanation
Indices: 11011996--11012030 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
11011986 CTGTTTTTGC
11011996 TTTCTTTCTTTTTT
1 TTTCTTT-TTTTTT
11012010 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
11012023 TGTTCTTT
1 T-TTCTTT
11012031 GGGGTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:11021201 original size:35 final size:35
Alignment explanation
Indices: 11021155--11021225 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
11021145 TAATAAACAC
*
11021155 TTAATCAAAATTGTACCTTTTTGATACGTCTAGGA
1 TTAATCAAAATTATACCTTTTTGATACGTCTAGGA
11021190 TTAATCAAAATTATACCTTTTTGATACGTCTAGGA
1 TTAATCAAAATTATACCTTTTTGATACGTCTAGGA
11021225 T
1 T
11021226 GAACGCTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (35 bp):
TTAATCAAAATTATACCTTTTTGATACGTCTAGGA
Found at i:11033556 original size:40 final size:40
Alignment explanation
Indices: 11033512--11033773 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
11033502 GCTCCTCGTT
* *
11033512 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
11033552 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
11033592 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
11033631 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
11033670 CAAATGCCTTC-GGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
11033709 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
11033750 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11033774 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:11038907 original size:13 final size:13
Alignment explanation
Indices: 11038889--11038914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11038879 TGATAAATAA
11038889 AAATAGAAGTAGC
1 AAATAGAAGTAGC
11038902 AAATAGAAGTAGC
1 AAATAGAAGTAGC
11038915 TTTTTTAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (13 bp):
AAATAGAAGTAGC
Found at i:11043438 original size:3 final size:3
Alignment explanation
Indices: 11043430--11043458 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11043420 TGACTTAAAA
11043430 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
11043459 AGAGCTTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:11044575 original size:21 final size:22
Alignment explanation
Indices: 11044534--11044580 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
11044524 CACATTTCTT
11044534 TTTTGTCTATCTTTTTGTTTTG
1 TTTTGTCTATCTTTTTGTTTTG
* *
11044556 TTTTGTCT-TGTTTTTTTTTTG
1 TTTTGTCTATCTTTTTGTTTTG
11044577 TTTT
1 TTTT
11044581 TACATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.02, C:0.06, G:0.13, T:0.79
Consensus pattern (22 bp):
TTTTGTCTATCTTTTTGTTTTG
Found at i:11044581 original size:22 final size:23
Alignment explanation
Indices: 11044533--11044581 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
11044523 TCACATTTCT
11044533 TTTTTGTCTATCTTTTTGTTTTG
1 TTTTTGTCTATCTTTTTGTTTTG
* *
11044556 -TTTTGTCT-TGTTTTTTTTTTG
1 TTTTTGTCTATCTTTTTGTTTTG
11044577 TTTTT
1 TTTTT
11044582 ACATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.02, C:0.06, G:0.12, T:0.80
Consensus pattern (23 bp):
TTTTTGTCTATCTTTTTGTTTTG
Found at i:11044803 original size:26 final size:26
Alignment explanation
Indices: 11044755--11044807 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11044745 ATAGAGGGAA
*
11044755 TTAAATTATCAAAAAATGTCAATTTT
1 TTAAATTATCAAAAAATGACAATTTT
*
11044781 TTAAATTATCAGAATAA-GACAATTTT
1 TTAAATTATCA-AAAAATGACAATTTT
11044807 T
1 T
11044808 AGAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (26 bp):
TTAAATTATCAAAAAATGACAATTTT
Found at i:11047136 original size:27 final size:27
Alignment explanation
Indices: 11047106--11047283 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
11047096 ATATTGAGCC
* *
11047106 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
11047133 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
11047160 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
11047188 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11047215 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
11047242 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
11047269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11047284 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11047218 original size:55 final size:54
Alignment explanation
Indices: 11047106--11047283 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
11047096 ATATTGAGCC
* * * * *
11047106 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
11047160 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
11047215 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
11047269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11047284 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:11055140 original size:27 final size:27
Alignment explanation
Indices: 11055110--11055287 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
11055100 ATATTGAGCC
* *
11055110 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
11055137 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
11055164 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
11055192 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
11055219 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
11055246 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
11055273 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11055288 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:11055222 original size:55 final size:54
Alignment explanation
Indices: 11055110--11055287 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
11055100 ATATTGAGCC
* * * * *
11055110 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
11055164 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
11055219 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
11055273 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11055288 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:11059669 original size:30 final size:30
Alignment explanation
Indices: 11059630--11059732 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
11059620 AGCCAAAGCT
* *
11059630 ATCCTTTTTCATAATTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
* *** *
11059660 ATCCCTTTTCACAATTCGACAATCATCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
* * *
11059690 ATCCCTTTTCATAATTTGATGGCCG-AAGCC
1 ATCCCTTTTCATAATTCGATGGTCGTCA-CC
11059720 ATCCCTTTTCATA
1 ATCCCTTTTCATA
11059733 GAGAAATAGC
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 1 0.02
30 56 0.98
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:11059752 original size:30 final size:30
Alignment explanation
Indices: 11059715--11059793 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
11059705 TTGATGGCCG
11059715 AAGCCATCCCTTTTCATAGAGAAATAGCCA
1 AAGCCATCCCTTTTCATAGAGAAATAGCCA
* * * * *
11059745 AATCCAT-CTTATTTCATAGATAGATAGCTA
1 AAGCCATCCCT-TTTCATAGAGAAATAGCCA
11059775 AAGCCATCCCTTTTCATAG
1 AAGCCATCCCTTTTCATAG
11059794 TTCAATGGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 2 0.05
30 36 0.90
31 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (30 bp):
AAGCCATCCCTTTTCATAGAGAAATAGCCA
Found at i:11059812 original size:30 final size:30
Alignment explanation
Indices: 11059778--11059849 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
11059768 ATAGCTAAAG
11059778 CCATCCCTTTTCATAGTTCAATGGTCGTCA
1 CCATCCCTTTTCATAGTTCAATGGTCGTCA
* **
11059808 CCATCCCTTTTTATAGTTTTATGGTCGTCA
1 CCATCCCTTTTCATAGTTCAATGGTCGTCA
*
11059838 CAATCCCTTTTC
1 CCATCCCTTTTC
11059850 TTGGTCGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTCAATGGTCGTCA
Found at i:11077349 original size:30 final size:30
Alignment explanation
Indices: 11077218--11077326 Score: 200
Period size: 30 Copynumber: 3.6 Consensus size: 30
11077208 TGGCAGCACG
11077218 TCCCTTTTCATAATTTGATGGTCGTCACCA
1 TCCCTTTTCATAATTTGATGGTCGTCACCA
11077248 TCCCTTTTCATAATTTGATGGTCGTCACCA
1 TCCCTTTTCATAATTTGATGGTCGTCACCA
* *
11077278 TCCCTTTTCGTAATTCGATGGTCGTCACCA
1 TCCCTTTTCATAATTTGATGGTCGTCACCA
11077308 TCCCTTTTCATAATTTGAT
1 TCCCTTTTCATAATTTGAT
11077327 TGCCGAAGCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.41
Consensus pattern (30 bp):
TCCCTTTTCATAATTTGATGGTCGTCACCA
Found at i:11077365 original size:30 final size:30
Alignment explanation
Indices: 11077331--11077410 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
11077321 TTTGATTGCC
* *
11077331 GAAGCCGTCCCTTTTCATAGAGCAATAGGT
1 GAAGCCATCCCTTTTCATAGAGCAATAGCT
* *
11077361 GAAGCCATCCCTTTTCATAGATCGATAGCT
1 GAAGCCATCCCTTTTCATAGAGCAATAGCT
* *
11077391 AAAGCTATCCCTTTTCATAG
1 GAAGCCATCCCTTTTCATAG
11077411 TTCAATGGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (30 bp):
GAAGCCATCCCTTTTCATAGAGCAATAGCT
Found at i:11077431 original size:30 final size:30
Alignment explanation
Indices: 11077397--11077466 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
11077387 AGCTAAAGCT
* *
11077397 ATCCCTTTTCATAGTTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
* * * **
11077427 ATCCCTTTTCGTAGTTTGATGGTCAACACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
11077457 ATCCCTTTTC
1 ATCCCTTTTC
11077467 TTGATCGATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:11077461 original size:60 final size:60
Alignment explanation
Indices: 11077218--11077466 Score: 231
Period size: 60 Copynumber: 4.2 Consensus size: 60
11077208 TGGCAGCACG
** **
11077218 TCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAATTTGATGGTCGTCACCA
1 TCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAATTTGATGGTCGAAACCA
* * * * * *
11077278 TCCCTTTTCGTAATTCGATGGTCGTCACCATCCCTTTTCATAATTTGATTGCCGAAGCCG
1 TCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAATTTGATGGTCGAAACCA
* * * * * *
11077338 TCCCTTTTCATAGA-GCAATAGGT-G-AAGCCATCCCTTTTCATAGA-TCGATAG-CTAAAGCTA
1 TCCCTTTTCATA-ATTCAAT-GGTCGTCA-CCATCCCTTTTCATA-ATTTGATGGTCGAAA-CCA
* * *
11077398 TCCCTTTTCATAGTTCAATGGTCGTCACCATCCCTTTTCGTAGTTTGATGGTC-AACACCA
1 TCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAATTTGATGGTCGAA-ACCA
11077458 TCCCTTTTC
1 TCCCTTTTC
11077467 TTGATCGATA
Statistics
Matches: 152, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
59 7 0.05
60 137 0.90
61 8 0.05
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (60 bp):
TCCCTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAATTTGATGGTCGAAACCA
Found at i:11080223 original size:29 final size:29
Alignment explanation
Indices: 11080160--11080227 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
11080150 TAATCAACCG
*
11080160 CGCACACTTAGTGCCACGTACTTTAAACT
1 CGCACACTTAGTGCCACGCACTTTAAACT
* * **
11080189 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCACGCACTTT-AAACT
11080218 CGCACACTTA
1 CGCACACTTA
11080228 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCACGCACTTTAAACT
Found at i:11080339 original size:174 final size:174
Alignment explanation
Indices: 11080049--11080376 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
11080039 AACTCAAGGT
* *
11080049 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
11080114 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCACGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCACGT
11080179 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
11080223 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
11080288 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCACGT
*
11080353 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
11080377 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCACGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:11080368 original size:29 final size:30
Alignment explanation
Indices: 11080329--11080407 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
11080319 CTTAATAATC
11080329 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
11080359 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
11080388 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
11080408 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:11088270 original size:39 final size:39
Alignment explanation
Indices: 11088153--11088362 Score: 280
Period size: 39 Copynumber: 5.3 Consensus size: 39
11088143 GCTCCTCGTT
* * *
11088153 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
11088193 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
11088233 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
11088272 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* *
11088311 CAAATGCCTTCGGGCTTAGCCCGGAATTAGCATCTCGTA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
11088350 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11088363 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 110 0.70
40 45 0.29
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:11088323 original size:78 final size:78
Alignment explanation
Indices: 11088153--11088414 Score: 286
Period size: 78 Copynumber: 3.3 Consensus size: 78
11088143 GCTCCTCGTT
* * * * *
11088153 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAAT-TCGCACAAATGCCTTTGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCC
* *
11088216 GGATTTAGTAACTCGCA
63 AGAATTAGT-ACTCGCA
11088233 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCAGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCAGA
11088297 ATTAGTATCTCGCA
66 ATTAGTA-CTCGCA
* * * *
11088311 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGCATCTCGTACAAATGCCTTCGGATCTTAGTCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG-GCTTAGCCCAG
*
11088375 ATATT-GTCACTTAGCA
65 A-ATTAGT-AC-TCGCA
11088391 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11088415 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
77 1 0.01
78 81 0.50
79 56 0.35
80 24 0.15
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCAGA
ATTAGTACTCGCA
Found at i:11088398 original size:117 final size:119
Alignment explanation
Indices: 11088153--11088411 Score: 282
Period size: 118 Copynumber: 2.2 Consensus size: 119
11088143 GCTCCTCGTT
* * ** *
11088153 CAAATGCCTTCGGGACATAACCC-GGTTATAGTAAT-TCGCACAAATGCCTTTGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
* * * *
11088216 GGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGAATTAGCAACTCGCACAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTAGCA
*
11088272 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
* * * *
11088335 AATTAGCATCTCGTACAAATGCCTTCGGATCTTAGTCCAGATATT-GTCA-CTTAGCA
66 AATTAGCAACTCGCACAAATGCCTTCGG-GCTTAGCCCAGA-ATTAGT-ATC-TAGCA
11088391 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
11088412 GGACAGCATT
Statistics
Matches: 119, Mismatches: 14, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
117 44 0.37
118 50 0.42
119 25 0.21
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGCAACTCGCACAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTAGCA
Found at i:11096268 original size:40 final size:40
Alignment explanation
Indices: 11096224--11096406 Score: 173
Period size: 40 Copynumber: 4.6 Consensus size: 40
11096214 GCTCCTCGTT
*
11096224 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
11096264 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
11096304 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * * *
11096343 CAAATGCCTTC-GGATCTTAGTCTGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
*
11096384 C-AA-GCCTTCGGGACATAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
11096407 ACATCATTCA
Statistics
Matches: 118, Mismatches: 15, Indels: 21
0.77 0.10 0.14
Matches are distributed among these distances:
38 3 0.03
39 42 0.36
40 64 0.54
41 8 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:11096341 original size:39 final size:40
Alignment explanation
Indices: 11096224--11096355 Score: 189
Period size: 40 Copynumber: 3.3 Consensus size: 40
11096214 GCTCCTCGTT
*
11096224 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
11096264 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
11096304 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
11096343 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11096356 ATCTTAGTCT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
39 36 0.43
40 46 0.55
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:11096403 original size:79 final size:81
Alignment explanation
Indices: 11096224--11096407 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
11096214 GCTCCTCGTT
*
11096224 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
11096288 GATTTAGTAACTCGCA
66 GATTTAGTAACTAGCA
* **
11096304 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
11096365 TGGATATT-GTCACTTAGCA
64 CGGAT-TTAGTAAC-TAGCA
11096384 C-AA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
11096408 CATCATTCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
78 14 0.16
79 54 0.60
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACATAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTAGCA
Found at i:11101696 original size:43 final size:42
Alignment explanation
Indices: 11101535--11101707 Score: 118
Period size: 43 Copynumber: 4.1 Consensus size: 42
11101525 ACATAAAGCT
* * * * *
11101535 CATACAATTCC-ATATCCCAGATATGGTCTTACATGTTATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* * * * * *
11101576 CATATCGATGCCACTGTCCTAGACAGGGTCTTATACGAAATCA
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* * * * *
11101619 AATA-ATGATGCCAATGACCAAAACACGG-CTTTACACGTAATCA
1 CATACA--ATGCCAATGTCCCAGACATGGTC-TTACACGTAATCA
* *
11101662 CAGTACAATTCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 CA-TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
11101705 CAT
1 CAT
11101708 CTCGATAGCC
Statistics
Matches: 97, Mismatches: 27, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
41 4 0.04
42 7 0.07
43 82 0.85
44 3 0.03
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (42 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
Found at i:11105697 original size:20 final size:20
Alignment explanation
Indices: 11105672--11105786 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
11105662 TTGTACGAGA
11105672 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
*
11105692 TTTGCAC-TCTAGTGCCCCTG
1 TTTGCACTTC-GGTGCCCCTG
* * * ** *
11105712 TATACACTTTGGTATCCTTG
1 TTTGCACTTCGGTGCCCCTG
* * *
11105732 TTCGCACTACGGTGCCCTTG
1 TTTGCACTTCGGTGCCCCTG
*
11105752 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCCTG
*
11105772 TCTGCACTTCGGTGC
1 TTTGCACTTCGGTGC
11105787 TCTAGTTATG
Statistics
Matches: 70, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
19 4 0.06
20 64 0.91
21 2 0.03
ACGTcount: A:0.10, C:0.31, G:0.22, T:0.37
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:11108508 original size:68 final size:67
Alignment explanation
Indices: 11108436--11108585 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
11108426 CATCATGTGT
* * * *
11108436 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
11108498 ATGTAG
62 ATGTAG
** * *
11108504 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
11108569 AG
66 AG
11108571 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
11108586 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:11108541 original size:64 final size:64
Alignment explanation
Indices: 11108460--11108643 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
11108450 AGACATTATG
* *
11108460 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
11108524 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
11108589 AA
63 AA
* * * *
11108591 ACTG--GCTAGGTCTCATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
11108644 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:11115863 original size:5 final size:5
Alignment explanation
Indices: 11115853--11115889 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
11115843 TAAACATGTG
11115853 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11115890 GAACAGACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11116081 original size:24 final size:24
Alignment explanation
Indices: 11116039--11116090 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11116029 CATCAAAGTC
* *
11116039 AAATATATTATGCAAATAAATGCT
1 AAATATATTATACAAATAAATACT
**
11116063 AAATATATTATACTCATAAATACT
1 AAATATATTATACAAATAAATACT
11116087 AAAT
1 AAAT
11116091 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACAAATAAATACT
Found at i:11124212 original size:79 final size:79
Alignment explanation
Indices: 11124081--11124238 Score: 262
Period size: 79 Copynumber: 2.0 Consensus size: 79
11124071 TGGCACTTTT
* *
11124081 AAGGTAAACAACACCCGATTAAAACCTTATTTTGATGAGATTGATAGTAGGAATGAGGAGAATAA
1 AAGGTAAACAACACCCGATTAAAACCTTATTTTGATGAGATTGACAGCAGGAATGAGGAGAATAA
11124146 ACTCCTCAAACCAC
66 ACTCCTCAAACCAC
* * * *
11124160 AAGGTAAACAACACCTGATTAAAATCTTATTTTGATGAGATTGACAGCAGGAATGGGGAGTATAA
1 AAGGTAAACAACACCCGATTAAAACCTTATTTTGATGAGATTGACAGCAGGAATGAGGAGAATAA
11124225 ACTCCTCAAACCAC
66 ACTCCTCAAACCAC
11124239 CATGACCATT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (79 bp):
AAGGTAAACAACACCCGATTAAAACCTTATTTTGATGAGATTGACAGCAGGAATGAGGAGAATAA
ACTCCTCAAACCAC
Found at i:11124617 original size:55 final size:55
Alignment explanation
Indices: 11124494--11124623 Score: 143
Period size: 55 Copynumber: 2.4 Consensus size: 55
11124484 TGCAATATGG
* ** * * *
11124494 CCGTGGTCGAGCCTGCCAAAACACCACAGGCGTGCGACACGCCTGTGTGGAAGAA
1 CCGTGGTCGAACCTGTTAAAACACCACAGGCGTGCGACACGCCCGTGTCGAACAA
* * * * * * *
11124549 CCATGGACAAACCTGTTAAAACAGCACGGGCGTGCGACACGCCCGTGTCTAACAC
1 CCGTGGTCGAACCTGTTAAAACACCACAGGCGTGCGACACGCCCGTGTCGAACAA
11124604 CCGTGGTCGAACCTGTTAAA
1 CCGTGGTCGAACCTGTTAAA
11124624 TGAACACGGG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTTAAAACACCACAGGCGTGCGACACGCCCGTGTCGAACAA
Found at i:11124632 original size:55 final size:55
Alignment explanation
Indices: 11124511--11124636 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 55
11124501 CGAGCCTGCC
* * * * *
11124511 AAAACACCACAGGCGTGCGACACGCCTGTGTGGAAGAACCATGGACAAACCTGTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGACAAACCTGTT
* * * * * *
11124566 AAAACAGCACGGGCGTGCGACACGCCCGTGTCTAACACCCGTGGTCGAACCTGTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGACAAACCTGTT
**
11124621 AAATGAACACGGGCGT
1 AAAACAACACGGGCGT
11124637 AGGGCTTGAA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGACAAACCTGTT
Found at i:11137445 original size:5 final size:5
Alignment explanation
Indices: 11137435--11137467 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11137425 AAAATTTGTG
*
11137435 AAAAT AAAAT AAAAT AATAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11137468 GAACAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:11140803 original size:23 final size:23
Alignment explanation
Indices: 11140773--11140819 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11140763 AAATTTTTGC
11140773 AATGAAAATTATTTTCTATACAT
1 AATGAAAATTATTTTCTATACAT
11140796 AATGAAAATTATTTTCTATACAT
1 AATGAAAATTATTTTCTATACAT
11140819 A
1 A
11140820 CATTAAACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
AATGAAAATTATTTTCTATACAT
Found at i:11143244 original size:15 final size:15
Alignment explanation
Indices: 11143224--11143254 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11143214 TGCAGTCTCA
11143224 AATTTTCAGCAATAT
1 AATTTTCAGCAATAT
11143239 AATTTTCAGCAATAT
1 AATTTTCAGCAATAT
11143254 A
1 A
11143255 CAACTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTTTCAGCAATAT
Found at i:11147854 original size:46 final size:47
Alignment explanation
Indices: 11147801--11147909 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 47
11147791 TATCAGTTCA
* **
11147801 TAAGAGCTTATTGTTCTCAG-TCATTGGAGCTTACCGTTTTAGCTTG
1 TAAGAGCTTACTGTTCTCAGCTCATCAGAGCTTACCGTTTTAGCTTG
* *
11147847 TAAGAGCTTACTGTTCTCAGCTCGTCAGAGCTTACCGTTTTAGC-TC
1 TAAGAGCTTACTGTTCTCAGCTCATCAGAGCTTACCGTTTTAGCTTG
*
11147893 AATAGAGCTTACTGTTC
1 TA-AGAGCTTACTGTTC
11147910 ATTAGCCAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 21 0.38
47 34 0.62
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (47 bp):
TAAGAGCTTACTGTTCTCAGCTCATCAGAGCTTACCGTTTTAGCTTG
Found at i:11147904 original size:23 final size:23
Alignment explanation
Indices: 11147827--11147892 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
11147817 TCAGTCATTG
*
11147827 GAGCTTACCGTTTTAGCTTGTAA
1 GAGCTTACCGTTTTAGCTCGTAA
* * *
11147850 GAGCTTACTGTTCTCAGCTCGTCA
1 GAGCTTACCGTT-TTAGCTCGTAA
11147874 GAGCTTACCGTTTTAGCTC
1 GAGCTTACCGTTTTAGCTC
11147893 AATAGAGCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.36
Consensus pattern (23 bp):
GAGCTTACCGTTTTAGCTCGTAA
Found at i:11151432 original size:49 final size:49
Alignment explanation
Indices: 11151366--11152042 Score: 1149
Period size: 49 Copynumber: 14.0 Consensus size: 49
11151356 ATGATAGTAT
11151366 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151415 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151464 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151513 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151562 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151611 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151660 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* *
11151709 GGCGTAATGGCCGATGTGATGAATGTGAAAGCTG-AT-GA-ATGTGAAAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAG-TGTATATATATGTGATAG
* *
11151756 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151805 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
11151854 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
11151903 GGCGTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * *
11151950 GGCCTAATGACAGATGTGATGAATGTGAAAGTG--TATATATGTGACAG
1 GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * *
11151997 GGCCG-AGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 GG-CGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
11152043 AGTCCTGAAG
Statistics
Matches: 599, Mismatches: 22, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 2 0.00
47 125 0.21
48 4 0.01
49 466 0.78
50 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.32, T:0.30
Consensus pattern (49 bp):
GGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:11151744 original size:16 final size:16
Alignment explanation
Indices: 11151725--11151755 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11151715 ATGGCCGATG
11151725 TGATGAATGTGAAAGC
1 TGATGAATGTGAAAGC
11151741 TGATGAATGTGAAAG
1 TGATGAATGTGAAAG
11151756 TGCCTAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (16 bp):
TGATGAATGTGAAAGC
Found at i:11152219 original size:37 final size:37
Alignment explanation
Indices: 11152163--11152241 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
11152153 CCGAGCTTTA
* * *
11152163 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
11152200 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
11152237 AAGAC
1 AAGAC
11152242 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:11153400 original size:195 final size:193
Alignment explanation
Indices: 11153060--11153448 Score: 679
Period size: 195 Copynumber: 2.0 Consensus size: 193
11153050 GGTCGTGTGA
* *
11153060 CCCAAGTCAGTATGTATGCTCTGTTTTTACACGACCTAAGACACGGGCGTGTTTGGAGCCGTTTG
1 CCCAAGTCAGTATGTATGCTCTGTTTTTACACAACCTAAGACACGGGCGTGTTTGGAGCCGTGTG
* *
11153125 AGGTATACGGCCTGTTCACTCGGGCGTGGGGTCCCTGTATGTTTGAAGTTTTCCTAAGTTTTCAA
66 AGGCATACGGCCTGTTCACTCGGGCGTGGGGTCCCTGTATGTTTGAAATTTTCCTAAGTTTTCAA
*
11153190 AACTTTCACATGTTATCGGTTTAGTCCCGAACCACTTCTAAAGCATGTTTAAGGCATCGTAGG
131 AACTTTCACATGTTATCGGTTTAGTCCCAAACCACTTCTAAAGCATGTTTAAGGCATCGTAGG
*
11153253 CCCAAGTCAGTATGTATGCTCTGTTTTTTTATACAACCTAAGACACGGGCGTGTTTGGAGCCGTG
1 CCCAAGTCAGTATGTATGCTCTG--TTTTTACACAACCTAAGACACGGGCGTGTTTGGAGCCGTG
11153318 TGAGGCATACGGCCTGTTCACTCGGGCGTGGGGTCCCTGTATGTTTGAAATTTTCCTAAGTTTTC
64 TGAGGCATACGGCCTGTTCACTCGGGCGTGGGGTCCCTGTATGTTTGAAATTTTCCTAAGTTTTC
* * *
11153383 AAAATTTTTATATGTTATCGGTTTAGTCCCAAACCACTTCTAAAGCATGTTTAAGGCATCGTAGG
129 AAAACTTTCACATGTTATCGGTTTAGTCCCAAACCACTTCTAAAGCATGTTTAAGGCATCGTAGG
11153448 C
1 C
11153449 TATTATAAGG
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
193 23 0.12
195 162 0.88
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (193 bp):
CCCAAGTCAGTATGTATGCTCTGTTTTTACACAACCTAAGACACGGGCGTGTTTGGAGCCGTGTG
AGGCATACGGCCTGTTCACTCGGGCGTGGGGTCCCTGTATGTTTGAAATTTTCCTAAGTTTTCAA
AACTTTCACATGTTATCGGTTTAGTCCCAAACCACTTCTAAAGCATGTTTAAGGCATCGTAGG
Found at i:11160732 original size:55 final size:55
Alignment explanation
Indices: 11160667--11160796 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
11160657 CTCGTGTTCA
* * *
11160667 TTTAATAGGTTCGACCACGAG-TGTTAGACACGGACGTGTCGCACGCCCGTGCTGT
1 TTTAACAGGTTCGACCACG-GTTCTTACACACGGACGTGTCGCACGCCCGTGCTGT
* * * *
11160722 TTTAACAGGTTC-ATCCATGGTTCTTCCACACGGGCGTGTCGCACGCCCGTGGTGT
1 TTTAACAGGTTCGA-CCACGGTTCTTACACACGGACGTGTCGCACGCCCGTGCTGT
** *
11160777 TTTGGCAGGCTCGACCACGG
1 TTTAACAGGTTCGACCACGG
11160797 CCATATCGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 2 0.03
55 58 0.95
56 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGTTCTTACACACGGACGTGTCGCACGCCCGTGCTGT
Found at i:11161105 original size:71 final size:71
Alignment explanation
Indices: 11160989--11161130 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
11160979 TTGCCTCCCG
11160989 AGAAGCGTTTATTTATAGTCTAAGCTCGACTTACCTCTTCGATGAATGGTCATGGTGGTTTGAGG
1 AGAAGCGTTTATTTATAGTCTAAGCTCGACTTACCTCTTCGATGAATGGTCATGGTGGTTTGAGG
11161054 AGTTTA
66 AGTTTA
11161060 AGAAGCGTTTATTTATAGTCTAAGCTCGACTTACCTCTTCGATGAATGGTCATGGTGGTTTGAGG
1 AGAAGCGTTTATTTATAGTCTAAGCTCGACTTACCTCTTCGATGAATGGTCATGGTGGTTTGAGG
11161125 AGTTTA
66 AGTTTA
11161131 TACTCCTCAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (71 bp):
AGAAGCGTTTATTTATAGTCTAAGCTCGACTTACCTCTTCGATGAATGGTCATGGTGGTTTGAGG
AGTTTA
Found at i:11163834 original size:13 final size:13
Alignment explanation
Indices: 11163816--11163842 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11163806 ACGCCCGTGT
11163816 GTGCAAGCCCCAC
1 GTGCAAGCCCCAC
11163829 GTGCAAGCCCCAC
1 GTGCAAGCCCCAC
11163842 G
1 G
11163843 CCCGTGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.44, G:0.26, T:0.07
Consensus pattern (13 bp):
GTGCAAGCCCCAC
Found at i:11166981 original size:26 final size:26
Alignment explanation
Indices: 11166952--11167004 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11166942 TTTACAGTTT
11166952 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
11166978 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
11167004 T
1 T
11167005 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:11169369 original size:27 final size:28
Alignment explanation
Indices: 11169338--11169394 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
11169328 TTTTTTTATG
11169338 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
11169365 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
11169394 A
1 A
11169395 TTTAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:11171699 original size:28 final size:28
Alignment explanation
Indices: 11171668--11171822 Score: 120
Period size: 28 Copynumber: 5.6 Consensus size: 28
11171658 TATCGGATGT
11171668 TTCGCACACTAAGTGCCATCCTCGATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
* ** * **
11171696 TTCGCACACTAAGTGTCATTTTAGATGT
1 TTCGCACACTAAGTGCCATCCTCGATAC
* * * *
11171724 TTTGCACACTAAGTGTCATCATCAATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
** * * *
11171752 TTCATACACT--GTGTCAT-TTCGGATGTC
1 TTCGCACACTAAGTGCCATCCTC-GAT-AC
*
11171779 TT-GCACACTAAGTGCCATCCTCAATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
11171806 TTCGCACACTAAGTGCC
1 TTCGCACACTAAGTGCC
11171823 GTTCGTTTGG
Statistics
Matches: 96, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 6 0.06
28 72 0.75
29 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGATAC
Found at i:11171788 original size:54 final size:54
Alignment explanation
Indices: 11171660--11171816 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 54
11171650 AAGTGCTATA
* *
11171660 TCGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGTCATT
1 TCGGATGTTT-GCACACTAAGTGCCATCCTCAATACTTCACACACT-AGTGTCATT
** * * *
11171716 TTAGATGTTTTGCACACTAAGTGTCATCATCAATACTTCATACACT-GTGTCATT
1 TCGGATG-TTTGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGTCATT
*
11171770 TCGGATGTCTTGCACACTAAGTGCCATCCTCAATACTTCGCACACTA
1 TCGGATGT-TTGCACACTAAGTGCCATCCTCAATACTTCACACACTA
11171817 AGTGCCGTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 46 0.54
56 35 0.41
57 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (54 bp):
TCGGATGTTTGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGTCATT
Found at i:11173802 original size:44 final size:42
Alignment explanation
Indices: 11173724--11173886 Score: 141
Period size: 44 Copynumber: 3.8 Consensus size: 42
11173714 CGTTGGTATT
* * *
11173724 GATCTGAATTATCGTGTAAGAACGTGTCAAGGACATAGGCATC
1 GATCTGAATT-TCGTGTAAGACCATGTCTAGGACATAGGCATC
* * *
11173767 GATTTGAAATTTACGTGTAAGACCATGTCTGGGACATCGGCATC
1 GATCTG-AATTT-CGTGTAAGACCATGTCTAGGACATAGGCATC
* * * *
11173811 GTATCT--ATTCTTGTATAAGACCCTGTCTAGGACAGAGGCATC
1 G-ATCTGAATT-TCGTGTAAGACCATGTCTAGGACATAGGCATC
* * *
11173853 GATACTGAATTTCATGTAAGACCACGTCTGGGAC
1 GAT-CTGAATTTCGTGTAAGACCATGTCTAGGAC
11173887 GTTGGCATTG
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 2 0.02
42 31 0.33
43 24 0.26
44 34 0.36
45 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
GATCTGAATTTCGTGTAAGACCATGTCTAGGACATAGGCATC
Found at i:11176682 original size:61 final size:61
Alignment explanation
Indices: 11176610--11176727 Score: 236
Period size: 61 Copynumber: 1.9 Consensus size: 61
11176600 GGCAAAAGCG
11176610 TCTTGGGTGATAAAGTCTGCAAGAATTGCTCGTTAATGATTCGAGATACCTGTTTTCCTGC
1 TCTTGGGTGATAAAGTCTGCAAGAATTGCTCGTTAATGATTCGAGATACCTGTTTTCCTGC
11176671 TCTTGGGTGATAAAGTCTGCAAGAATTGCTCGTTAATGATTCGAGATACCTGTTTTC
1 TCTTGGGTGATAAAGTCTGCAAGAATTGCTCGTTAATGATTCGAGATACCTGTTTTC
11176728 TTCCTGATCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (61 bp):
TCTTGGGTGATAAAGTCTGCAAGAATTGCTCGTTAATGATTCGAGATACCTGTTTTCCTGC
Found at i:11181048 original size:44 final size:43
Alignment explanation
Indices: 11180977--11181091 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 43
11180967 TATTGATCTA
* * *
11180977 AATTATCGTGTAAGAACGTGT-TAGGGACACAGGCATCAAT-TTG
1 AATT-TCGTGTAAGACCATGTCT-GGGACACAGGCATCAATACTG
** *
11181020 AAATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATACTG
1 -AATTT-CGTGTAAGACCATGTCTGGGACACAGGCATCAATACTG
* *
11181065 AATTTCATGTAAGACCACGTCTGGGAC
1 AATTTCGTGTAAGACCATGTCTGGGAC
11181092 GTTGGCATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 21 0.35
44 36 0.60
45 3 0.05
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
AATTTCGTGTAAGACCATGTCTGGGACACAGGCATCAATACTG
Found at i:11188952 original size:17 final size:19
Alignment explanation
Indices: 11188930--11188972 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
11188920 ATGGAAATAT
11188930 AATCTT-CA-ATGATATAC
1 AATCTTACATATGATATAC
* *
11188947 AATCTTAGATATGATATGC
1 AATCTTACATATGATATAC
11188966 AATCTTA
1 AATCTTA
11188973 GAAGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATAC
Found at i:11188981 original size:17 final size:19
Alignment explanation
Indices: 11188938--11188974 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11188928 ATAATCTTCA
*
11188938 ATGATATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11188957 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
11188975 AGATATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11189000 original size:22 final size:22
Alignment explanation
Indices: 11188938--11188997 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 22
11188928 ATAATCTTCA
*
11188938 ATGATATACAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
11188957 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
11188979 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
11188998 GATTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.41
22 8 0.24
23 12 0.35
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:11189288 original size:17 final size:17
Alignment explanation
Indices: 11189264--11189298 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11189254 TGTTTCCCTG
*
11189264 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
11189282 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
11189299 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:11197498 original size:78 final size:78
Alignment explanation
Indices: 11197369--11197742 Score: 361
Period size: 92 Copynumber: 4.4 Consensus size: 78
11197359 CAAAGAGACA
** * * * * *
11197369 GATTTGGCATCTCCATATTCGATGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTAACCTTCATTGAA
11197434 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * ** * *
11197447 GATTTGGCATCTCTGTATTAGACGTGGAGCAGATCGAAGACACAGTAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTAACCTTCATTGAA
11197512 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
11197525 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-AAC--C------
11197590 TTACATTGAAGCAGATCCAAGAT
57 TT-CATTGAAGCAGATCCAAGAT
*
11197613 GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-AAC--C--
11197678 GTGTTTACATTGAAGCAGATCCAAGAT
57 ----TT-CATTGAAGCAGATCCAAGAT
11197705 GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
11197743 TAAAGAAGCA
Statistics
Matches: 264, Mismatches: 18, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
78 115 0.44
79 1 0.00
81 1 0.00
87 2 0.01
88 19 0.07
92 126 0.48
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTAACCTTCATTGAA
GCAGATCCAAGAT
Found at i:11197648 original size:45 final size:45
Alignment explanation
Indices: 11197511--11197845 Score: 247
Period size: 45 Copynumber: 7.5 Consensus size: 45
11197501 CCTTTATTGA
11197511 AGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * * * * ** *
11197552 AGCAGATCGAAGACATAACAGATCTGACCT-TCATGTGTT-TACATTGA
1 AGCAGATCCAAG--ATAACAGATTTGGCATCTC-TGTATTAGAC-GGGG
*
11197599 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * * * * ** *
11197644 AGCAGATCGAAGACATAACAGATCTGACCT-TCATGTGTT-TACATTGA
1 AGCAGATCCAAG--ATAACAGATTTGGCATCTC-TGTATTAGAC-GGGG
*
11197691 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
** * * *
11197736 AGCAGATTAAAGA-AGCAGATTTGGCGTCTTTGTATTAGACGGGG
1 AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
11197780 AGCAGATCGAAGATAACAGATTTGGCGTCTTTGTATTAGATGGGG
1 AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
11197825 AGCTGATCAAAGATAGCAGAT
1 AGCAGATCCAAGATAACAGAT
11197846 ATCGCCTTCC
Statistics
Matches: 225, Mismatches: 52, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
41 11 0.05
43 2 0.01
44 38 0.17
45 105 0.47
46 16 0.07
47 53 0.24
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (45 bp):
AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:11197659 original size:92 final size:92
Alignment explanation
Indices: 11197506--11197742 Score: 446
Period size: 92 Copynumber: 2.6 Consensus size: 92
11197496 TCTGACCTTT
11197506 ATTGAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
1 ATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
11197567 TAACAGATCTGACCTTCATGTGTTTAC
66 TAACAGATCTGACCTTCATGTGTTTAC
11197594 ATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
1 ATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
11197659 TAACAGATCTGACCTTCATGTGTTTAC
66 TAACAGATCTGACCTTCATGTGTTTAC
11197686 ATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
1 ATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
11197743 TAAAGAAGCA
Statistics
Matches: 145, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
88 19 0.13
92 126 0.87
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
ATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
TAACAGATCTGACCTTCATGTGTTTAC
Found at i:11197695 original size:47 final size:47
Alignment explanation
Indices: 11197552--11197703 Score: 159
Period size: 47 Copynumber: 3.3 Consensus size: 47
11197542 TTAGACGGGG
*
11197552 AGCAGATCGAAGACATAACAGATCTGACCTTCATGTGTTTACATTGA
1 AGCAGATCCAAGACATAACAGATCTGACCTTCATGTGTTTACATTGA
* * * * * * ** *
11197599 AGCAGATCCAAG--ATGACAGATTTGGCATCTC-TGT-ATTAGACGGGG
1 AGCAGATCCAAGACATAACAGATCTGACCT-TCATGTGTTTACA-TTGA
*
11197644 AGCAGATCGAAGACATAACAGATCTGACCTTCATGTGTTTACATTGA
1 AGCAGATCCAAGACATAACAGATCTGACCTTCATGTGTTTACATTGA
11197691 AGCAGATCCAAGA
1 AGCAGATCCAAGA
11197704 TGACAGATTT
Statistics
Matches: 78, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
44 4 0.05
45 27 0.35
46 4 0.05
47 39 0.50
48 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (47 bp):
AGCAGATCCAAGACATAACAGATCTGACCTTCATGTGTTTACATTGA
Found at i:11197827 original size:181 final size:180
Alignment explanation
Indices: 11197506--11197837 Score: 413
Period size: 181 Copynumber: 1.8 Consensus size: 180
11197496 TCTGACCTTT
11197506 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAAC
1 ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAAC
* ** *
11197571 AGATCTGACCTTCATGTGTTTACATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATT
66 AGATCTGACCGTCATGTGTTTACAGGGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATT
*
11197636 AGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATGTGTTTAC
131 AGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATGTGTTTAC
* *
11197686 ATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT-TAA-AGA
1 ATTGAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA
* * * * * * * * *
11197749 -AGCAGATTTG-GCGTC-TTTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTT
62 TAACAGATCTGACCGTCATGTGT-TTACA-GGGAAGCAGATCCAAGATAACAGATTTGGCATCTC
* *
11197811 TGTATTAGATGGGGAGCTGATCAAAGA
125 TGTATTAGACGGGGAGCAGATCAAAGA
11197838 TAGCAGATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
179 4 0.03
180 26 0.20
181 60 0.47
182 2 0.02
183 2 0.02
184 34 0.27
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (180 bp):
ATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAAC
AGATCTGACCGTCATGTGTTTACAGGGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATT
AGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATGTGTTTAC
Found at i:11197873 original size:89 final size:88
Alignment explanation
Indices: 11197508--11197875 Score: 304
Period size: 92 Copynumber: 4.1 Consensus size: 88
11197498 TGACCTTTAT
*
11197508 TGAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATA
1 TGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATA
* * * * *
11197569 ACAGATCT-GACCTTCATGTGTTTACAT
64 GCAGATATCG-CCTTCAT-AG-TTGCAG
*
11197596 TGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATA
1 TGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATA
* * * * *
11197661 ACAGATCT-GACCTTCATGTGTTTACAT
64 GCAGATATCG-CCTTCAT-AG-TTGCAG
*
11197688 TGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGA-AGC
1 TGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGC
* * **
11197752 AGATTTGGCGTCTTTGTA-TTAG-ACG
66 AGATAT--CGCCTTCATAGTT-GCA-G
* * * * * * * *
11197777 GGGAGCAGATCGAAGATAACAGATTTGGCGTCTTTGTATTAGATGGGGAGCTGATCAAAGATAGC
1 TGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGC
*
11197842 AGATATCGCCTTCCTAAGTTGCAG
66 AGATATCGCCTTCAT-AGTTGCAG
11197866 TGAAGCAGAT
1 TGAAGCAGAT
11197876 TGAAGTCATC
Statistics
Matches: 242, Mismatches: 25, Indels: 25
0.83 0.09 0.09
Matches are distributed among these distances:
88 26 0.11
89 70 0.29
90 13 0.05
91 6 0.02
92 127 0.52
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (88 bp):
TGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGC
AGATATCGCCTTCATAGTTGCAG
Found at i:11198257 original size:17 final size:19
Alignment explanation
Indices: 11198178--11198250 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
11198168 ATAATCTTCA
11198178 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11198197 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11198216 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11198233 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
11198251 AGATATGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11198564 original size:17 final size:17
Alignment explanation
Indices: 11198540--11198574 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11198530 TGTTTCCCTG
*
11198540 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
11198558 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
11198575 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:11202980 original size:24 final size:24
Alignment explanation
Indices: 11202948--11202996 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11202938 TTTCTCGCAA
*
11202948 CACCTTAGTGAATCTTCCAATTTT
1 CACCTTAGTAAATCTTCCAATTTT
11202972 CACCTTAGTAAATCTTCCAATTTT
1 CACCTTAGTAAATCTTCCAATTTT
11202996 C
1 C
11202997 CTTAATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.41
Consensus pattern (24 bp):
CACCTTAGTAAATCTTCCAATTTT
Found at i:11203005 original size:22 final size:23
Alignment explanation
Indices: 11202949--11203005 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
11202939 TTCTCGCAAC
* *
11202949 ACCTTAGTGAATCTTCCAATTTT
1 ACCTTAATAAATCTTCCAATTTT
*
11202972 CACCTTAGTAAATCTTCCAATTTT
1 -ACCTTAATAAATCTTCCAATTTT
11202996 -CCTTAATAAA
1 ACCTTAATAAA
11203006 CCTTTATACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 9 0.29
24 22 0.71
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (23 bp):
ACCTTAATAAATCTTCCAATTTT
Found at i:11213421 original size:21 final size:21
Alignment explanation
Indices: 11213396--11213556 Score: 137
Period size: 21 Copynumber: 7.7 Consensus size: 21
11213386 ATAGAAGCTG
*
11213396 GTAAGAGCTGAACAAAAACTC
1 GTAAGAGCTGAACAGAAACTC
* * * * *
11213417 ATAAGAGTTGAACTGAAGCTG
1 GTAAGAGCTGAACAGAAACTC
*
11213438 GTAAGAGTTGAACAGAAACTC
1 GTAAGAGCTGAACAGAAACTC
* *
11213459 GTAAGAGCTAAACAAAAACTC
1 GTAAGAGCTGAACAGAAACTC
* * **
11213480 ATAAGAGTTGAACAGAAGTTC
1 GTAAGAGCTGAACAGAAACTC
* * *
11213501 GTAAGAGCTAAAGAGAAACTTA
1 GTAAGAGCTGAACAGAAAC-TC
*
11213523 G-AAGAGTTGAACA-AAAGCTC
1 GTAAGAGCTGAACAGAAA-CTC
11213543 GTAAGAGCTGAACA
1 GTAAGAGCTGAACA
11213557 CACAAGAGTT
Statistics
Matches: 106, Mismatches: 31, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
20 5 0.05
21 99 0.93
22 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (21 bp):
GTAAGAGCTGAACAGAAACTC
Done.