Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 47 of 132
Found at i:12914114 original size:59 final size:58
Alignment explanation
Indices: 12913896--12914383 Score: 413
Period size: 59 Copynumber: 8.3 Consensus size: 58
12913886 GAACTTCACA
* *** *
12913896 AAAATTACCATTTTA-CCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCC
1 AAAATTACCATTTTATCCTC-AAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* *
12913955 AAAAATTACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTGACCCTAAAC-TTCCTA
1 -AAAATTACCATTTTATCCTCAAAT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-C
* * * *
12914015 AAAACTACCATTTTA-CCTTCGACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTATCC-TCAAATTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * ** *
12914073 AAAATTACCATTTTATCCTCGAATGTCCAAAAATTCCATTTTTGACTCTGAAC-TTCCAA
1 AAAATTACCATTTTATCCTCAAAT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-C
* * **
12914132 AAAATTACCATTTT-TACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAACTTTCCC
1 AAAATTACCATTTTAT-CCTC-AAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * * * * * *
12914192 -AAATCACCATTTTAACCCCAAACATCCAAAATTTCCATTTTT-ACCCC-AATTTTCCT
1 AAAATTACCATTTTATCCTCAAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * * * *
12914248 AAAATTACCATTTTACCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCC
1 AAAATTACCATTTTATCCTCAAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * * * * *
12914307 AAAATTATCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGACCTCC-AAC-TTCCTA
1 AAAATTACCATTTTATCCTCAAAT-TCCAAAAATTCCATTTTTGACC-CCAAACTTTCC-C
12914366 AAAATTACCATTTT-TCCT
1 AAAATTACCATTTTATCCT
12914384 GGGCATCCAA
Statistics
Matches: 358, Mismatches: 51, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
56 7 0.02
57 39 0.11
58 84 0.23
59 147 0.41
60 73 0.20
61 8 0.02
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTATCCTCAAATTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
Found at i:12914307 original size:234 final size:236
Alignment explanation
Indices: 12913885--12914380 Score: 689
Period size: 234 Copynumber: 2.1 Consensus size: 236
12913875 TACATTATCA
* * *
12913885 CGAACTT-CACAAAAATTACCA-TTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAA
1 CGAACTTCCA-AAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAA
* * * ** *
12913948 CTGTCCCAAAAATTACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCC
65 CTGTCCC-AAAATCACCATTTTAACCCCAAACATCCAAAAATTCCATTTTTGACCCCAAACTTCC
* *
12914013 TAAAAACTACCATTTTACCTTCGACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAAT
129 TAAAAACTACCATTTTACCCTCAACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAAT
* * *
12914078 TACCATTTTATCCTCGAATGTCCAAAAATTCCATTTTTGA-CT
194 TACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGACCT
12914120 CTGAACTTCCAAAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAA
1 C-GAACTTCCAAAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAA
* * **
12914185 CTTTCCC-AAATCACCATTTTAACCCCAAACATCCAAAATTTCCATTTTT-ACCCCAATTTTCCT
65 CTGTCCCAAAATCACCATTTTAACCCCAAACATCCAAAAATTCCATTTTTGACCCCAAACTTCCT
* * * *
12914248 -AAAATTACCATTTTACCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAAT
130 AAAAACTACCATTTTACCCTC-AACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAAT
*
12914312 TATCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGACCT
194 TACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGACCT
* *
12914355 CCAACTTCCTAAAAATTACCATTTTT
1 CGAACTTCCAAAAAATTACCATTTTT
12914381 CCTGGGCATC
Statistics
Matches: 231, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
233 18 0.08
234 109 0.47
235 40 0.17
236 17 0.07
237 47 0.20
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (236 bp):
CGAACTTCCAAAAAATTACCATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAAC
TGTCCCAAAATCACCATTTTAACCCCAAACATCCAAAAATTCCATTTTTGACCCCAAACTTCCTA
AAAACTACCATTTTACCCTCAACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAATTA
CCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGACCT
Found at i:12936436 original size:29 final size:29
Alignment explanation
Indices: 12936404--12936469 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
12936394 AAAATGAGAC
12936404 TTTTTGGA-TACCCGAGGACAAAATGGTAA
1 TTTTTGGACT-CCCGAGGACAAAATGGTAA
* * * **
12936433 TTTTGGGACTCTCGGGGGTAAAATGGTAA
1 TTTTTGGACTCCCGAGGACAAAATGGTAA
12936462 TTTTTGGA
1 TTTTTGGA
12936470 AAAATCGGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (29 bp):
TTTTTGGACTCCCGAGGACAAAATGGTAA
Found at i:12936485 original size:59 final size:60
Alignment explanation
Indices: 12936423--12936645 Score: 176
Period size: 59 Copynumber: 3.8 Consensus size: 60
12936413 ACCCGAGGAC
12936423 AAAATGGTAATTTTGGGACTCTCGGGGGTAAAATGGTAATTTTTGGAAA-AATCGGGATCA
1 AAAATGG-AATTTTGGGACTCTCGGGGGTAAAATGGTAATTTTTGGAAAGAATCGGGATCA
* * * * ** * *
12936483 AAAATGAAATTTTTGGACATC-CAGGAGTAAAATGGTAATTTTT-GAAAGTTTTGGGGTCA
1 AAAATGGAATTTTGGGAC-TCTCGGGGGTAAAATGGTAATTTTTGGAAAGAATCGGGATCA
* * * **
12936542 AAAATGGAATTTTGGAAGT-TTGGGGGTAAAAAT-GTAATTTTTGG-AAGTTTCAGGG-TCA
1 AAAATGGAATTTTGGGACTCTCGGGGGT-AAAATGGTAATTTTTGGAAAGAATC-GGGATCA
* * * * *
12936600 AAAATGGAATATTT-GAAATTTTGGGGGCAAAAT-GTAATTTTTGGAA
1 AAAATGGAAT-TTTGGGACTCTCGGGGGTAAAATGGTAATTTTTGGAA
12936646 GTTCGAGGGT
Statistics
Matches: 136, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
58 57 0.42
59 71 0.52
60 8 0.06
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.33
Consensus pattern (60 bp):
AAAATGGAATTTTGGGACTCTCGGGGGTAAAATGGTAATTTTTGGAAAGAATCGGGATCA
Found at i:12936522 original size:29 final size:29
Alignment explanation
Indices: 12936423--12936526 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 29
12936413 ACCCGAGGAC
* *
12936423 AAAATGGTAATTTTGGGAC-TCTCGGGGGT
1 AAAATGGTAATTTTTGGACATC-CGGGAGT
*
12936452 AAAATGGTAATTTTTGGAAAAAT-CGGGA-T
1 AAAATGGTAATTTTTGG--ACATCCGGGAGT
* *
12936481 CAAAAAT-GAAATTTTTGGACATCCAGGAGT
1 --AAAATGGTAATTTTTGGACATCCGGGAGT
12936511 AAAATGGTAATTTTTG
1 AAAATGGTAATTTTTG
12936527 AAAGTTTTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
28 8 0.13
29 30 0.50
30 15 0.25
31 6 0.10
32 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGACATCCGGGAGT
Found at i:12936622 original size:87 final size:89
Alignment explanation
Indices: 12936511--12936689 Score: 256
Period size: 87 Copynumber: 2.0 Consensus size: 89
12936501 ATCCAGGAGT
* * * *
12936511 AAAATGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAA-TTTTGGAAGTTTGGGGGTAAAAAT
1 AAAATGGTAATATTTGAAAGTTTTGGGGGC-AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAAT
* *
12936575 GTAATTTTTGGAAGTTTCAGGGTCA
65 GTAATTTTTAGAAGTTTCAGGGCCA
* *
12936600 AAAATGG-AATATTTGAAA-TTTTGGGGGCAAAATGTAATTTTTGGAAGTTCGAGGGTACAAATG
1 AAAATGGTAATATTTGAAAGTTTTGGGGGCAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATG
12936663 TAATTTTTAGAAGTTTCAGGGCCA
66 TAATTTTTAGAAGTTTCAGGGCCA
12936687 AAA
1 AAA
12936690 TATAATTTCT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
86 8 0.10
87 56 0.69
88 10 0.12
89 7 0.09
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (89 bp):
AAAATGGTAATATTTGAAAGTTTTGGGGGCAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATG
TAATTTTTAGAAGTTTCAGGGCCA
Found at i:12936655 original size:58 final size:59
Alignment explanation
Indices: 12936511--12936678 Score: 202
Period size: 58 Copynumber: 2.9 Consensus size: 59
12936501 ATCCAGGAGT
* * *
12936511 AAAATGGTAATTTTTGAAAGTTTTG-GGGTCAAAAATGGAATTTTGGAAGTTTGGGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTCGAGGGTCAAAAATGGAATTTTGAAAGTTTGGGGGTA
* *
12936570 AAAATGTAATTTTTGGAAGTTTC-AGGGTCAAAAATGGAATATTTGAAATTTTGGGGG-C
1 AAAATGTAATTTTTGGAAGTTTCGAGGGTCAAAAATGGAAT-TTTGAAAGTTTGGGGGTA
* * *
12936628 AAAATGTAATTTTTGGAAG-TTCGAGGGT-ACAAATGTAATTTTTAGAAGTTT
1 AAAATGTAATTTTTGGAAGTTTCGAGGGTCAAAAATGGAATTTTGA-AAGTTT
12936679 CAGGGCCAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
56 4 0.04
57 17 0.18
58 56 0.58
59 19 0.20
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAGTTTCGAGGGTCAAAAATGGAATTTTGAAAGTTTGGGGGTA
Found at i:12936661 original size:29 final size:29
Alignment explanation
Indices: 12936511--12936697 Score: 164
Period size: 29 Copynumber: 6.4 Consensus size: 29
12936501 ATCCAGGAGT
*
12936511 AAAATGGTAATTTTTGAAAGTTTTG-GGGTCA
1 AAAAT-GTAATTTTTGGAAG-TTTGAGGGT-A
* *
12936542 AAAATGGAA-TTTTGGAAGTTTGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTGAGGGTA
*
12936570 AAAATGTAATTTTTGGAAGTTTCAGGGTCA
1 AAAATGTAATTTTTGGAAGTTTGAGGGT-A
* * * * **
12936600 AAAATGGAATATTTGAAATTTTG-GGGGC
1 AAAATGTAATTTTTGGAAGTTTGAGGGTA
*
12936628 AAAATGTAATTTTTGGAAGTTCGAGGGTA
1 AAAATGTAATTTTTGGAAGTTTGAGGGTA
* * * **
12936657 CAAATGTAATTTTTAGAAGTTTCAGGGCC
1 AAAATGTAATTTTTGGAAGTTTGAGGGTA
*
12936686 AAAATATAATTT
1 AAAATGTAATTT
12936698 CTTGACAGTT
Statistics
Matches: 125, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
28 31 0.25
29 67 0.54
30 22 0.18
31 5 0.04
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTGAGGGTA
Found at i:12938396 original size:17 final size:18
Alignment explanation
Indices: 12938376--12938419 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
12938366 AAAATTAATT
12938376 TAAATTC-AAATTTAAAA
1 TAAATTCTAAATTTAAAA
12938393 TAAA-TCTAAATTTAAAA
1 TAAATTCTAAATTTAAAA
12938410 TAAATT-TAAA
1 TAAATTCTAAA
12938420 AGGGCTCGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.08
17 22 0.88
18 1 0.04
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAATTCTAAATTTAAAA
Found at i:12938402 original size:23 final size:24
Alignment explanation
Indices: 12938359--12938404 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
12938349 TTTTTTTTTT
* *
12938359 AAATTTGAAAATTAATTTAAATTC
1 AAATTTGAAAATAAATCTAAATTC
12938383 AAATTT-AAAATAAATCTAAATT
1 AAATTTGAAAATAAATCTAAATT
12938405 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (24 bp):
AAATTTGAAAATAAATCTAAATTC
Found at i:12938419 original size:6 final size:6
Alignment explanation
Indices: 12938356--12938419 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
12938346 CAATTTTTTT
* * * *
12938356 TTTAAA TTTGAAA ATT-AA TTTAAA TTCAAA TTTAAA -ATAAA TCTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
12938403 TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
12938420 AGGGCTCGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
5 12 0.27
6 28 0.62
7 5 0.11
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:12939011 original size:49 final size:49
Alignment explanation
Indices: 12938939--12939060 Score: 217
Period size: 49 Copynumber: 2.5 Consensus size: 49
12938929 ATTTGGTCTT
*
12938939 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTAGTTTCAATCTG
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCATTAGTTTCAATCTG
*
12938988 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCATTTGTTTCAATCTG
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCATTAGTTTCAATCTG
*
12939037 CTTCTCTGTATCTCATCAAGAAGA
1 CTTCTCTGTATCTCATCAGGAAGA
12939061 CAAATTTGGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (49 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCGCATCATTAGTTTCAATCTG
Found at i:12939290 original size:204 final size:206
Alignment explanation
Indices: 12938995--12939769 Score: 1140
Period size: 204 Copynumber: 3.8 Consensus size: 206
12938985 CTGCTTCTCT
* * * *
12938995 GTATCTCATCAGGAAGATGACCGCATCATTTGTTTCAA-TCTGCTTCTCTGTATCTCATCAAGAA
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTC-GCTTCTCTATACCTCATCAGGAA
*
12939059 GACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTTGACCTGCT
65 GACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCT
*
12939124 TCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCATATGGAGCGTGGGTTTGATTTG
130 TCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTTGATTTG
12939188 GTCTTCTTCTTA
195 GTCTTCTTCTTA
* * *
12939200 GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAA-TCGCTTCTTTGTACCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTATACCTCATCAGGAAG
*
12939264 ACAAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTT
66 ACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* *
12939329 CTCAATATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGG
131 CTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTTGATTTGG
*
12939393 TCTTCTTCTCA
196 TCTTCTTCTTA
*
12939404 GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATTCGCTTCTCTATACCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTATACCTCATCAGGAAG
* *
12939469 ACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
66 ACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * * *
12939534 CTCAGTATCTCATCAGGAAGTTAGGGTTCGAAGATTTGCTCACT-TTGAGC-----CTTGAGTTG
131 CTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCA-TATCGAGCGTGGGTTTGATTTG
* *
12939593 GTATACTTCTCT-
195 GTCTTCTTCT-TA
* * * *
12939605 GTATCTCATCAGGATGGTGACCGCCTCACTTGTTTCAATTCGCTTCTCTATATCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTATACCTCATCAGGAAG
** * * *
12939670 ATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGCCCTGCCT
66 ACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * *
12939735 CTTAGTATGTCATCAGGAAGCTAGGGTTCAAAGAT
131 CTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGAT
12939770 CTGTTCACAT
Statistics
Matches: 527, Mismatches: 39, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
201 166 0.31
204 193 0.37
205 144 0.27
206 24 0.05
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (206 bp):
GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTATACCTCATCAGGAAG
ACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
CTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTTGATTTGG
TCTTCTTCTTA
Found at i:12942170 original size:30 final size:29
Alignment explanation
Indices: 12942110--12942170 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
12942100 TCGGGGGTAC
* * * *
12942110 AAATGTAATTTTTGGAATTTTAGTGGCAA
1 AAATGTAAATTTTAGAAGTTTAGTGCCAA
*
12942139 AAATGTAAATTTTAGAAGTTTCGATGCCAA
1 AAATGTAAATTTTAGAAGTTTAG-TGCCAA
12942169 AA
1 AA
12942171 TATAATTTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (29 bp):
AAATGTAAATTTTAGAAGTTTAGTGCCAA
Found at i:12944055 original size:6 final size:6
Alignment explanation
Indices: 12944030--12944082 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
12944020 ACTTGTTTTT
* * *
12944030 TTTAAA TTTGAAA -ATAAA TTTAAA TTTAAA TTCAAA TTTAAA -ATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
12944077 TTTAAA
1 TTTAAA
12944083 AGGGCCCGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 7 0.18
6 28 0.74
7 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:12944079 original size:11 final size:11
Alignment explanation
Indices: 12944050--12944083 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
12944040 AAAATAAATT
*
12944050 TAAATTTAAAT
1 TAAATTTAAAA
12944061 TCAAATTTAAAA
1 T-AAATTTAAAA
12944073 TAAATTTAAAA
1 TAAATTTAAAA
12944084 GGGCCCGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:12950411 original size:59 final size:59
Alignment explanation
Indices: 12950343--12950481 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 59
12950333 AAAAATAACA
* * * *
12950343 TTTTAGACATCTGAGGA-TAAAATGGTAATTTTTGGAAAATTT-G-GGATCAAAAATGGATT
1 TTTTGGACATCCG-GGAGTAAAACGGTAATTTTT-GAAAATTTCGAGG-TCAAAAATGGAGT
* *
12950402 TTTTGGACATCCGGGAGTAAAACGGTAATTTTTGAAAGTTTCGAGGTCCAAAATGGAGT
1 TTTTGGACATCCGGGAGTAAAACGGTAATTTTTGAAAATTTCGAGGTCAAAAATGGAGT
12950461 TTTTGGACATCCGGG-GTAAAA
1 TTTTGGACATCCGGGAGTAAAA
12950482 ATGTATGGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
58 16 0.23
59 53 0.75
60 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.32
Consensus pattern (59 bp):
TTTTGGACATCCGGGAGTAAAACGGTAATTTTTGAAAATTTCGAGGTCAAAAATGGAGT
Found at i:12950524 original size:60 final size:59
Alignment explanation
Indices: 12950389--12950527 Score: 151
Period size: 59 Copynumber: 2.3 Consensus size: 59
12950379 AAATTTGGGA
* *
12950389 TCAAAAATGGATTTTTTGGACATCCGGGAGTAAAACGGTAATTTTTGAAAGTTTCGAGG
1 TCAAAAATGGAATTTTTGGACATCCGGGAGTAAAACGGGAATTTTTGAAAGTTTCGAGG
* * *
12950448 TCCAAAATGGAGTTTTTGGACATCCGGG-GTAAAAATGTATGGAATTTTTG-AAG-TTCGAGGG
1 TCAAAAATGGAATTTTTGGACATCCGGGAGT-AAAACG---GGAATTTTTGAAAGTTTCGA-GG
*
12950509 T-AAAAATGTAATTTTTGGA
1 TCAAAAATGGAATTTTTGGA
12950528 AGTTTCGGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.03
59 31 0.46
60 20 0.29
61 6 0.09
62 9 0.13
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGGACATCCGGGAGTAAAACGGGAATTTTTGAAAGTTTCGAGG
Found at i:12950543 original size:29 final size:29
Alignment explanation
Indices: 12950490--12950641 Score: 116
Period size: 29 Copynumber: 5.2 Consensus size: 29
12950480 AAATGTATGG
*
12950490 AATTTTT-GAAG-TTCGAGGGTAAAAATGT
1 AATTTTTAGAAGTTTCGA-GGTCAAAATGT
* *
12950518 AATTTTTGGAAGTTTCG-GGTTCAAAAATGG
1 AATTTTTAGAAGTTTCGAGG-TC-AAAATGT
* * *
12950548 GATTTTTAG-ATTTTCGAGTGTAAAAATGT
1 AATTTTTAGAAGTTTCGAG-GTCAAAATGT
* * * *
12950577 AATTTTTTGAATTTTAGCGG-CAAAAATGT
1 AATTTTTAGAAGTTTCGAGGTC-AAAATGT
* *
12950606 AATTTTTAGAAGTTTCGAGGCCAAAATAT
1 AATTTTTAGAAGTTTCGAGGTCAAAATGT
12950635 AATTTTT
1 AATTTTT
12950642 GAACAGTTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
28 9 0.09
29 61 0.62
30 27 0.28
31 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (29 bp):
AATTTTTAGAAGTTTCGAGGTCAAAATGT
Found at i:12950622 original size:59 final size:58
Alignment explanation
Indices: 12950486--12950651 Score: 169
Period size: 58 Copynumber: 2.8 Consensus size: 58
12950476 GTAAAAATGT
*
12950486 ATGGAATTTTT-GAAG-TTCGAGGGTAAAAATGTAATTTTTGGAAGTTTCGGGTTCAAAA
1 ATGGAATTTTTAGAAGTTTCGA-GGTAAAAATGTAATTTTTGGAAGTTTAGGG-TCAAAA
* * * *
12950544 ATGGGATTTTTAG-ATTTTCGAGTGTAAAAATGTAATTTTTTGAATTTTAGCGG-CAAAA
1 ATGGAATTTTTAGAAGTTTCGAG-GTAAAAATGTAATTTTTGGAAGTTTAG-GGTCAAAA
* ** * *
12950602 ATGTAATTTTTAGAAGTTTCGAGGCCAAAATATAATTTTTGAACAGTTTA
1 ATGGAATTTTTAGAAGTTTCGAGGTAAAAATGTAATTTTTGGA-AGTTTA
12950652 AGGACTTTTA
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
58 43 0.49
59 43 0.49
60 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (58 bp):
ATGGAATTTTTAGAAGTTTCGAGGTAAAAATGTAATTTTTGGAAGTTTAGGGTCAAAA
Found at i:12952511 original size:6 final size:6
Alignment explanation
Indices: 12952486--12952555 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
12952476 TGCTTTTTTT
* * *
12952486 TTTAAA TTTGAAA -ATAAA TTTAAA TTTAAA TTCAAA TTTAAA -ATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
12952533 TCTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
12952556 AGGGCCCGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
5 11 0.22
6 37 0.73
7 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:12952539 original size:17 final size:17
Alignment explanation
Indices: 12952488--12952555 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
12952478 CTTTTTTTTT
*
12952488 TAAATTTGAAAATAAATT
1 TAAATTT-AAAATAAATC
12952506 TAAATTT-AAAT---TC
1 TAAATTTAAAATAAATC
12952519 -AAATTTAAAATAAATC
1 TAAATTTAAAATAAATC
*
12952535 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATC
12952552 TAAA
1 TAAA
12952556 AGGGCCCGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
12 6 0.14
13 5 0.12
16 6 0.14
17 19 0.44
18 7 0.16
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATC
Found at i:12955628 original size:3 final size:3
Alignment explanation
Indices: 12955620--12955681 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
12955610 AAATAGTATC
* * ** *
12955620 AAT AAT AAT AAT AAT ACT ATT CTT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12955668 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
12955682 GGCAGTCGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:12956838 original size:29 final size:29
Alignment explanation
Indices: 12956806--12957230 Score: 272
Period size: 29 Copynumber: 14.5 Consensus size: 29
12956796 CGAACTTCAA
*
12956806 AAAAATTACCATTTTACCCCTAAATTTCC
1 AAAAATTACCATTTTACCCCTAAACTTCC
* * *
12956835 AAAAATT-CAATTTTTGA-CCCTGAACTTCTT
1 AAAAATTACCA-TTTT-ACCCCTAAACTTC-C
* * **
12956865 AAAAACTACCATTTTA-CCTTGGACTTCC
1 AAAAATTACCATTTTACCCCTAAACTTCC
****
12956893 AAAAATTTTGTTTTTAACCCC-AAACTTTCC
1 AAAAATTACCATTTT-ACCCCTAAAC-TTCC
* **
12956923 CAAAATTACCATTTTACCCCCGAA-TGTCC
1 AAAAATTACCATTTTACCCCTAAACT-TCC
** *
12956952 AAAAATT-CCATTTTTA-CTTTGAACTTCC
1 AAAAATTACCA-TTTTACCCCTAAACTTCC
12956980 AAAAAATTACCATTTTACCCCTAAACTTCC
1 -AAAAATTACCATTTTACCCCTAAACTTCC
*
12957010 AAAAATT-CCATTTTTGA-CCCTGAACTTTCC
1 AAAAATTACCA-TTTT-ACCCCTAAAC-TTCC
* * *
12957040 CAAAATTACCATTTTACCCCCAAACATCC
1 AAAAATTACCATTTTACCCCTAAACTTCC
*
12957069 AAAAATT-CCATTTTTACCCC-AAATTTTCC
1 AAAAATTACCA-TTTTACCCCTAAA-CTTCC
*
12957098 AAAAATTACCATTTTACCCTTAAACTTCC
1 AAAAATTACCATTTTACCCCTAAACTTCC
* *
12957127 AAAAATT-CTAATTTTA-ACCTCAAACTTTCC
1 AAAAATTAC-CATTTTACCCCT-AAAC-TTCC
* *
12957157 CAAAATTACCATTTTACCCTCT-TA-TGTCC
1 AAAAATTACCATTTTACCC-CTAAACT-TCC
* *
12957186 AAAAATT-CCATTTTTGACCTC-GAACTTCC
1 AAAAATTACCA-TTTT-ACCCCTAAACTTCC
12957215 TAAAAATTACCATTTT
1 -AAAAATTACCATTTT
12957231 TCCTTGGGCA
Statistics
Matches: 310, Mismatches: 50, Indels: 71
0.72 0.12 0.16
Matches are distributed among these distances:
28 39 0.13
29 159 0.51
30 100 0.32
31 10 0.03
32 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCCTAAACTTCC
Found at i:12956933 original size:58 final size:58
Alignment explanation
Indices: 12956807--12957230 Score: 394
Period size: 59 Copynumber: 7.2 Consensus size: 58
12956797 GAACTTCAAA
* * ** **
12956807 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGAAC-TTCTTA
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT-ACCCCAAACTTTC-CC
* * ** ***
12956866 AAAACTACCATTTTA-CCTTGGACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT-ACCCCAAACTTTCCC
** **** *
12956924 AAAATTACCATTTTACCCCCGAA-TGTCCAAAAATTCCATTTTTACTTTGAAC-TTCCAA
1 AAAATTACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTACCCCAAACTTTCC-C
**
12956982 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCC
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT-ACCCCAAACTTTCCC
* * * *
12957041 AAAATTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAATTTTCCA
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTACCCCAAACTTTCCC
* * * *
12957099 AAAATTACCATTTTACCCTTAAACTTCCAAAAATTCTAATTTTAACCTCAAACTTTCCC
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTC-CATTTTTACCCCAAACTTTCCC
* * * *
12957158 AAAATTACCATTTTACCCTCT-TA-TGTCCAAAAATTCCATTTTTGACCTCGAAC-TTCCTA
1 AAAATTACCATTTTACCC-CTAAACT-TCCAAAAATTCCATTTTT-ACCCCAAACTTTCC-C
12957217 AAAATTACCATTTT
1 AAAATTACCATTTT
12957231 TCCTTGGGCA
Statistics
Matches: 303, Mismatches: 50, Indels: 24
0.80 0.13 0.06
Matches are distributed among these distances:
57 4 0.01
58 140 0.46
59 154 0.51
60 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTACCCCAAACTTTCCC
Found at i:12957008 original size:117 final size:118
Alignment explanation
Indices: 12956807--12957230 Score: 541
Period size: 117 Copynumber: 3.6 Consensus size: 118
12956797 GAACTTCAAA
* * * * * *
12956807 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGAACTTCTTAAAAACT
1 AAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTGACCCCGAACTTCCTAAAAATT
** * *
12956872 ACCATTTTA-CCTTGGACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCC
66 ACCATTTTACCCTTAAACTTCCAAAAATTCTATTTTTAACCCCAAACTTTCCC
* *** *
12956924 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTT-ACTTTGAACTTCCAAAAAATT
1 AAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTGACCCCGAACTTCCTAAAAATT
* * * **
12956988 ACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCC
66 ACCATTTTACCCTTAAACTTCCAAAAATTCTATTTTTAACCCCAAACTTTCCC
** * *
12957041 AAAATTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTT-ACCCCAAATTTTCC-AAAAAT
1 AAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTGACCCCGAA-CTTCCTAAAAAT
* *
12957104 TACCATTTTACCCTTAAACTTCCAAAAATTCTAATTTTAACCTCAAACTTTCCC
65 TACCATTTTACCCTTAAACTTCCAAAAATTCTATTTTTAACCCCAAACTTTCCC
* ** *
12957158 AAAATTACCATTTTACCCTCTTATGTCCAAAAATTCCATTTTTGACCTCGAACTTCCTAAAAATT
1 AAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTGACCCCGAACTTCCTAAAAATT
12957223 ACCATTTT
66 ACCATTTT
12957231 TCCTTGGGCA
Statistics
Matches: 262, Mismatches: 41, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
116 25 0.10
117 212 0.81
118 25 0.10
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTGACCCCGAACTTCCTAAAAATT
ACCATTTTACCCTTAAACTTCCAAAAATTCTATTTTTAACCCCAAACTTTCCC
Found at i:12962922 original size:48 final size:49
Alignment explanation
Indices: 12962856--12962986 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
12962846 CGACTTAAAC
* * *
12962856 CTTTCCCTTTCAAATCTTCGTGGTACTGGATCTA-CTGTCGCAGC-TAGAT
1 CTTTCCC-TTCATATCTTCGTGGTACTGGATCCATC-ATCGCAGCTTAGAT
* * * * *
12962905 CTTTCTCTTCCTGTCTTCGTAGTACTGGGTCCATCATCGCAGCTTAGAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGATCCATCATCGCAGCTTAGAT
* *
12962954 CTTTCCCTTCATATCTTTGTGATACTGGATCCA
1 CTTTCCCTTCATATCTTCGTGGTACTGGATCCA
12962987 CCATTACGGC
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
48 27 0.42
49 38 0.58
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (49 bp):
CTTTCCCTTCATATCTTCGTGGTACTGGATCCATCATCGCAGCTTAGAT
Found at i:12963589 original size:6 final size:6
Alignment explanation
Indices: 12963564--12963616 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
12963554 TCTTGTTTTT
* * *
12963564 TTTAAA TTTGAAA -ATAAA TTTAAA TTTAAA TTCAAA TTTAAA -ATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
12963611 TTTAAA
1 TTTAAA
12963617 AGGGCCCGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 7 0.18
6 28 0.74
7 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:12963613 original size:11 final size:11
Alignment explanation
Indices: 12963584--12963617 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
12963574 AAAATAAATT
*
12963584 TAAATTTAAAT
1 TAAATTTAAAA
12963595 TCAAATTTAAAA
1 T-AAATTTAAAA
12963607 TAAATTTAAAA
1 TAAATTTAAAA
12963618 GGGCCCGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:12970038 original size:59 final size:59
Alignment explanation
Indices: 12969970--12970109 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 59
12969960 AAAAATAACA
* * *
12969970 TTTTAGACATCCGAGGATAAAATGGTAATTTTTGGAAA-ATTCGGGATCAAAAATGGATT
1 TTTTGGACATCCGAGGATAAAACGGTAATTTTT-GAAAGATTCGGGATCAAAAATGGAGT
* * *
12970029 TTTTGGACATCCG-GGAGTAAAACGGTAATTTTTGAAAGTTTCGGGGTCCAAAATGGAGT
1 TTTTGGACATCCGAGGA-TAAAACGGTAATTTTTGAAAGATTCGGGATCAAAAATGGAGT
*
12970088 TTTTGGACATCCGAGGGTAAAA
1 TTTTGGACATCCGAGGATAAAA
12970110 ATGTATGGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
58 7 0.10
59 62 0.87
60 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (59 bp):
TTTTGGACATCCGAGGATAAAACGGTAATTTTTGAAAGATTCGGGATCAAAAATGGAGT
Found at i:12970043 original size:29 final size:28
Alignment explanation
Indices: 12969970--12970062 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
12969960 AAAAATAACA
*
12969970 TTTTAGACATCCGAGGATAAAATGGTAAT
1 TTTTGGACATCCG-GGATAAAATGGTAAT
* * *
12969999 TTTTGGAAAATTCGGGATCAAAAATGG-ATT
1 TTTTGG-ACATCCGGGAT--AAAATGGTAAT
*
12970029 TTTTGGACATCCGGGAGTAAAACGGTAAT
1 TTTTGGACATCCGGGA-TAAAATGGTAAT
12970058 TTTTG
1 TTTTG
12970063 AAAGTTTCGG
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 6 0.12
29 24 0.47
30 14 0.27
31 7 0.14
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (28 bp):
TTTTGGACATCCGGGATAAAATGGTAAT
Found at i:12970171 original size:29 final size:29
Alignment explanation
Indices: 12970118--12970269 Score: 125
Period size: 29 Copynumber: 5.2 Consensus size: 29
12970108 AAATGTATGG
*
12970118 AATTTTT-GAAG-TTCGAGGGTAAAAATGT
1 AATTTTTAGAAGTTTCGA-GGTCAAAATGT
*
12970146 AATTTTTAGAAGTTTCG-GGTTCAAAAATGG
1 AATTTTTAGAAGTTTCGAGG-TC-AAAATGT
* * *
12970176 GATTTTTAG-ATTTTCGAGTGTAAAAATGT
1 AATTTTTAGAAGTTTCGAG-GTCAAAATGT
* * * *
12970205 AATTTTTTGAATTTTAGCGG-CAAAAATGT
1 AATTTTTAGAAGTTTCGAGGTC-AAAATGT
* *
12970234 AATTTTTAGAAGTTTCGAGGCCAAAATAT
1 AATTTTTAGAAGTTTCGAGGTCAAAATGT
12970263 AATTTTT
1 AATTTTT
12970270 GAACAGTTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
28 9 0.09
29 61 0.62
30 28 0.28
31 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (29 bp):
AATTTTTAGAAGTTTCGAGGTCAAAATGT
Found at i:12970250 original size:59 final size:58
Alignment explanation
Indices: 12970114--12970269 Score: 167
Period size: 58 Copynumber: 2.7 Consensus size: 58
12970104 GTAAAAATGT
*
12970114 ATGGAATTTTT-GAAG-TTCGAGGGTAAAAATGTAATTTTTAGAAGTTTCGGGTTCAAAA
1 ATGGAATTTTTAGAAGTTTCGA-GGTAAAAATGTAATTTTTAGAAGTTTAGGG-TCAAAA
* * * *
12970172 ATGGGATTTTTAG-ATTTTCGAGTGTAAAAATGTAATTTTTTGAATTTTAGCGG-CAAAA
1 ATGGAATTTTTAGAAGTTTCGAG-GTAAAAATGTAATTTTTAGAAGTTTAG-GGTCAAAA
* ** *
12970230 ATGTAATTTTTAGAAGTTTCGAGGCCAAAATATAATTTTT
1 ATGGAATTTTTAGAAGTTTCGAGGTAAAAATGTAATTTTT
12970270 GAACAGTTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
58 42 0.51
59 38 0.46
60 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.40
Consensus pattern (58 bp):
ATGGAATTTTTAGAAGTTTCGAGGTAAAAATGTAATTTTTAGAAGTTTAGGGTCAAAA
Found at i:12972141 original size:6 final size:6
Alignment explanation
Indices: 12972116--12972185 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
12972106 GCTTTTTTTT
* * *
12972116 TTTAAA TTTGAAA -ATAAA TTTAAA TTTAAA TTCAAA TTTAAA -ATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
12972163 TCTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
12972186 AGGGCCCGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
5 11 0.22
6 37 0.73
7 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:12972169 original size:17 final size:17
Alignment explanation
Indices: 12972118--12972185 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
12972108 TTTTTTTTTT
*
12972118 TAAATTTGAAAATAAATT
1 TAAATTT-AAAATAAATC
12972136 TAAATTT-AAAT---TC
1 TAAATTTAAAATAAATC
12972149 -AAATTTAAAATAAATC
1 TAAATTTAAAATAAATC
*
12972165 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATC
12972182 TAAA
1 TAAA
12972186 AGGGCCCGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
12 6 0.14
13 5 0.12
16 6 0.14
17 19 0.44
18 7 0.16
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATC
Found at i:12975066 original size:13 final size:12
Alignment explanation
Indices: 12975043--12975074 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
12975033 TATTTTAAGA
12975043 TTAAATTTAT-T
1 TTAAATTTATAT
12975054 TTAAATTTATAT
1 TTAAATTTATAT
12975066 TTAAATTTA
1 TTAAATTTA
12975075 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:12975067 original size:17 final size:18
Alignment explanation
Indices: 12975025--12975068 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
12975015 CTAAATCCAT
12975025 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
12975043 -TTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
12975059 TTTATATTTA
1 TTTAAATTTA
12975069 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:12975272 original size:3 final size:3
Alignment explanation
Indices: 12975264--12975322 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
12975254 AAATAGTATC
* * ** * *
12975264 AAT AAT AAT AAT AAT ACT ATT CTT AAT AGT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12975312 AAT AAT AAT AA
1 AAT AAT AAT AA
12975323 GGCAGTCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:12976653 original size:59 final size:58
Alignment explanation
Indices: 12976494--12976918 Score: 372
Period size: 59 Copynumber: 7.2 Consensus size: 58
12976484 GAACTTCAAA
* * *** **
12976494 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGGAC-TTCTTA
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTC-CC
* **** * *** *
12976553 AAAACTACCATTTTACCTTGGACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCCAAATTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * ****
12976611 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTTACTTTGAAC-TTCCC
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* **
12976669 AAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTTAAACTTTCCC
1 -AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * * *
12976729 AAAATTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTTACCCCAAATTTTCCA
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
** * * *
12976788 AAAATTACCATTTTACCCTTAGACTTCTAAAAATTCC-TTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCCA-AATTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
* * * * * *
12976846 AAAATTACCATTTTACCCTCTAATGTCTAAAAATTCCATTTTTGACCTCGAAC-TTCCTA
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-C
12976905 AAAATTACCATTTT
1 AAAATTACCATTTT
12976919 TCCTTGGGCA
Statistics
Matches: 302, Mismatches: 55, Indels: 18
0.81 0.15 0.05
Matches are distributed among these distances:
57 2 0.01
58 99 0.33
59 194 0.64
60 7 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAATTCCAAAAATTCCATTTTTGACCCCAAACTTTCCC
Found at i:12976852 original size:176 final size:174
Alignment explanation
Indices: 12976493--12976918 Score: 473
Period size: 176 Copynumber: 2.4 Consensus size: 174
12976483 CGAACTTCAA
* * * * *
12976493 AAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGGACTTCTTAAAAAC
1 AAAAATTACCATTTTACCCCTAAA-TTCCAAAAATTCCATTTTTGACCTTGAACTTC-CAAAAAT
**** * *** *
12976558 TACCATTTTACCTTGGACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCCAAAATTACCATT
64 TACCATTTTACCCCAAACATCCAAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCATT
* * ****
12976623 TTACCCCCGAATGTCCAAAAATTCCATTTTTTACTTTGAACTTCCC
129 TTACCCCAGAATGTCCAAAAATTCCATTTTTAACCCCAAACTTCCC
* *
12976669 AAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTTAAACTTTCCCAAAAT
1 AAAAATTACCATTTTACCCCTAAA-TTCCAAAAATTCCATTTTTGACCTTGAAC-TTCCAAAAAT
* *
12976734 TACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTTACCCCAAATTTTCCAAAAATTACCAT
64 TACCATTTTA-CCCCAAACATCCAAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCAT
* * *
12976799 TTTACCCTTAGACT-TCTAAAAATTCC-TTTTTAACCCCAAACTTTCCC
128 TTTACCC-CAGAATGTCCAAAAATTCCATTTTTAACCCCAAAC-TTCCC
* *
12976846 -AAAATTACCATTTTACCCTCT-AATGTCTAAAAATTCCATTTTTGACCTCGAACTTCCTAAAAA
1 AAAAATTACCATTTTACCC-CTAAAT-TCCAAAAATTCCATTTTTGACCTTGAACTTCC-AAAAA
12976909 TTACCATTTT
63 TTACCATTTT
12976919 TCCTTGGGCA
Statistics
Matches: 211, Mismatches: 32, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
175 5 0.02
176 132 0.63
177 71 0.34
178 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (174 bp):
AAAAATTACCATTTTACCCCTAAATTCCAAAAATTCCATTTTTGACCTTGAACTTCCAAAAATTA
CCATTTTACCCCAAACATCCAAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCATTTT
ACCCCAGAATGTCCAAAAATTCCATTTTTAACCCCAAACTTCCC
Found at i:12976882 original size:117 final size:117
Alignment explanation
Indices: 12976494--12976918 Score: 491
Period size: 117 Copynumber: 3.6 Consensus size: 117
12976484 GAACTTCAAA
* * * *
12976494 AAAATTACCATTTTA-CCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGGACTTCTT--AAAA
1 AAAATTACCATTTTACCCCCT-AATGTCCAAAAATTCCATTTTTGACCC-CGAATT-TTCCAAAA
* * **
12976556 ACTACCATTTTA-CCTTGGACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCC
63 ATTACCATTTTACCCTTAGACTTCCAAAAA-TTCCTTTTTAACCCCAAACTTTCCC
* * *** * *
12976611 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTTACTTTGAACTTCCCAAAAATT
1 AAAATTACCATTTTACCCCCTAATGTCCAAAAATTCCATTTTTGACCCCGAATTTTCCAAAAATT
* * * **
12976676 ACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTTAAACTTTCCC
66 ACCATTTTACCCTTAGACTTCCAAAAATTCC-TTTTTAACCCCAAACTTTCCC
* ** * *
12976729 AAAATTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTTACCCCAAATTTTCCAAAAATT
1 AAAATTACCATTTTACCCCCTAATGTCCAAAAATTCCATTTTTGACCCCGAATTTTCCAAAAATT
*
12976794 ACCATTTTACCCTTAGACTTCTAAAAATTCCTTTTTAACCCCAAACTTTCCC
66 ACCATTTTACCCTTAGACTTCCAAAAATTCCTTTTTAACCCCAAACTTTCCC
* * * *
12976846 AAAATTACCATTTTACCCTCTAATGTCTAAAAATTCCATTTTTGACCTCGAA-CTTCCTAAAAAT
1 AAAATTACCATTTTACCCCCTAATGTCCAAAAATTCCATTTTTGACCCCGAATTTTCC-AAAAAT
12976910 TACCATTTT
65 TACCATTTT
12976919 TCCTTGGGCA
Statistics
Matches: 259, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
115 1 0.00
116 7 0.03
117 131 0.51
118 120 0.46
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCTAATGTCCAAAAATTCCATTTTTGACCCCGAATTTTCCAAAAATT
ACCATTTTACCCTTAGACTTCCAAAAATTCCTTTTTAACCCCAAACTTTCCC
Found at i:12983658 original size:29 final size:29
Alignment explanation
Indices: 12983591--12983762 Score: 152
Period size: 29 Copynumber: 5.9 Consensus size: 29
12983581 ACATCCGAGA
* *
12983591 GTAAAACA-GTAATTTTTGAAAGTTTCGGG
1 GTAAAA-ATGTAATTTTTGGAAGTTTAGGG
* * *
12983620 GTCTAAAATGGAGTTTTTGGAAGTTTAGGG
1 GT-AAAAATGTAATTTTTGGAAGTTTAGGG
*
12983650 GTAGAAATGTAATTTTTGGAAGTTTCA-GG
1 GTAAAAATGTAATTTTTGGAAGTTT-AGGG
** * * *
12983679 GTCAAAAATGGGATTTTTAGATG-TTCGAGG
1 GT-AAAAATGTAATTTTTGGAAGTTTAG-GG
* *
12983709 GTAAAAATGTATTTTTTGGAATTTTAGGG
1 GTAAAAATGTAATTTTTGGAAGTTTAGGG
*
12983738 GTAAAAATGTAATTTTTAGAAGTTT
1 GTAAAAATGTAATTTTTGGAAGTTT
12983763 CGAGGCCAAA
Statistics
Matches: 111, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
29 66 0.59
30 45 0.41
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.38
Consensus pattern (29 bp):
GTAAAAATGTAATTTTTGGAAGTTTAGGG
Found at i:12983696 original size:59 final size:60
Alignment explanation
Indices: 12983591--12983767 Score: 177
Period size: 59 Copynumber: 3.0 Consensus size: 60
12983581 ACATCCGAGA
* * * *
12983591 GTAAAACA-GTAATTTTTGAAAGTTTCGGGGTCTAAAAT-GGAGTTTTTGGAAGTTTAG-GG
1 GTAAAA-ATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGA-TTTTTAGAAGTTTAGAGG
* * *
12983650 GTAGAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGATTTTTAGATG-TTCGAGG
1 GTAAAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGATTTTTAGAAGTTTAGAGG
* * ** *
12983709 GTAAAAATGTATTTTTTGGAA-TTTTAGGGGT-AAAAATGTAATTTTTAGAAGTTTCGAGG
1 GTAAAAATGTAATTTTTGGAAGTTTCA-GGGTCAAAAATGGGATTTTTAGAAGTTTAGAGG
12983768 CCAAAATATA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
58 25 0.25
59 72 0.72
60 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (60 bp):
GTAAAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGATTTTTAGAAGTTTAGAGG
Found at i:12983773 original size:29 final size:30
Alignment explanation
Indices: 12983599--12983781 Score: 119
Period size: 29 Copynumber: 6.2 Consensus size: 30
12983589 GAGTAAAACA
*
12983599 GTAATTTTT-GAAAGTTTCG-GGGTCTAAAAT
1 GTAATTTTTAG-AAGTTTCGAGGG-CAAAAAT
* * * * * *
12983629 GGAGTTTTTGGAAGTTTAG-GGGTAGAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
*
12983658 GTAATTTTTGGAAGTTTC-AGGGTCAAAAAT
1 GTAATTTTTAGAAGTTTCGAGGG-CAAAAAT
** * *
12983688 GGGATTTTTAGATG-TTCGAGGGTAAAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
* * * * *
12983717 GTATTTTTTGGAATTTTAG-GGGTAAAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
*
12983746 GTAATTTTTAGAAGTTTCGA-GGCCAAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
*
12983775 ATAATTT
1 GTAATTT
12983782 CTGAACAGTT
Statistics
Matches: 117, Mismatches: 30, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
29 77 0.66
30 39 0.33
31 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (30 bp):
GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
Found at i:12985626 original size:6 final size:6
Alignment explanation
Indices: 12985615--12985670 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
12985605 AATATGAAAA
* * * * *
12985615 TAAATT TAAATT CAAATT CAAATT TAAA-A TAAATC TAAATT TAAA-A
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
12985661 TAAATT TAAA
1 TAAATT TAAA
12985671 AGGGCTCGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:12985670 original size:17 final size:17
Alignment explanation
Indices: 12985615--12985670 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
12985605 AATATGAAAA
*
12985615 TAAATTTAAATTCAAATT
1 TAAATTTAAAAT-AAATT
* *
12985633 CAAATTTAAAATAAATC
1 TAAATTTAAAATAAATT
12985650 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
12985667 TAAA
1 TAAA
12985671 AGGGCTCGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
17 23 0.70
18 10 0.30
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:12993039 original size:209 final size:209
Alignment explanation
Indices: 12992523--12993176 Score: 850
Period size: 209 Copynumber: 3.1 Consensus size: 209
12992513 TATCCAAAAT
* *
12992523 ATAAAGTGGTTACCTTCCTAATGAGATACAGAGAAGTGAACCAGA-TCTGTCTTCCTAATGAGAC
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTC-GTCTTCCTAATGAGAC
* * * ** *
12992587 ACAGAAAAGTGGATCAAAACAAGCGATACGGTCATCTTCTTGATGAGATACTGTGAAGAAGACCA
65 ACAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTAAGAAGAAGGCCA
*** * *
12992652 AATCAAT-AAAATAGGCTCAAAGTGAG-AGAATCTTCGAA-CCCAGCTTCCTAATGAGATATTGA
130 AATCAATGAAGCCAAGCTCAAAGTGAGCA-AATCTTCGAACCCCAGCTTCCTGATGAGATATTGA
12992714 GAAGCAGGTCGAAGCA
194 GAAGCAGGTCGAAGCA
*** *
12992730 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTAATGAGACA
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
* * * *
12992795 CAGAGAAGTGGA-TCAAACTAAGCGAAGCGGTCATCTTCCTGATAAGATACTAAGAAGAAGGCCA
66 CAGAGAAGTGGATTAAAAC-AAGCGATGCGGTCATCTTCTTGATGAGATACTAAGAAGAAGGCCA
* * *
12992859 AATCAATGAAGCCAAGCTCAAAATGAGCAAATCTTCGAACCCCAACTTCTTGATGAGATATTGAG
130 AATCAATGAAGCCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAG
12992924 AAGCAGGTCGAAGCA
195 AAGCAGGTCGAAGCA
* * * * * * * *
12992939 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGCCTTTCTGATGAGATA
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
* ** * * * *
12993004 CGGAGAAGCAGATTGAAACAAGTGATGCTGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCAA
66 CAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTAAGAAGAAGGCCAA
* *
12993069 ATCAATGAAGCCAAGCTCAAAGTAAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
131 ATCAATGAAGCCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
*
12993134 AGCAGGTCAAAGCA
196 AGCAGGTCGAAGCA
* *
12993148 ATAAAATGGTTATCATCCTGATGAGATAC
1 ATAAAATGGTTACCTTCCTGATGAGATAC
12993177 TGAAAAGCGG
Statistics
Matches: 389, Mismatches: 52, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
206 4 0.01
207 115 0.30
208 25 0.06
209 240 0.62
210 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (209 bp):
ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
CAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTAAGAAGAAGGCCAA
ATCAATGAAGCCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
AGCAGGTCGAAGCA
Found at i:12993571 original size:18 final size:17
Alignment explanation
Indices: 12993548--12993611 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
12993538 CTAAACCAAT
12993548 TTTAAATTTATTTTGAAA
1 TTTAAATTTATTTT-AAA
* *
12993566 TTTAAATATGTTTTAAAA
1 TTTAAATTTATTTT-AAA
**
12993584 TTTAAATTTAAATTAATA
1 TTTAAATTTATTTTAA-A
12993602 TTTAAATTTA
1 TTTAAATTTA
12993612 AAAATATTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 36 0.95
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:12993594 original size:42 final size:41
Alignment explanation
Indices: 12993548--12993631 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 41
12993538 CTAAACCAAT
* * * *
12993548 TTTAAATTTAT-TTTGAAATTTAAATATGTTTTAAAATTTAAA
1 TTTAAATTAATATTT-AAATTTAAAAATATTCT-AAATTTAAA
12993590 TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
1 TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
12993631 T
1 T
12993632 AAACAAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.27
42 24 0.65
43 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (41 bp):
TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
Found at i:12993612 original size:18 final size:18
Alignment explanation
Indices: 12993578--12993631 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
12993568 TAAATATGTT
*
12993578 TTAAAATTTAAATTTAAA
1 TTAATATTTAAATTTAAA
12993596 TTAATATTTAAATTTAAA
1 TTAATATTTAAATTTAAA
12993614 --AATATTCTAAATTTAAA
1 TTAATATT-TAAATTTAAA
12993631 T
1 T
12993632 AAACAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 6 0.18
17 10 0.30
18 17 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATATTTAAATTTAAA
Found at i:12993631 original size:6 final size:6
Alignment explanation
Indices: 12993581--12993613 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
12993571 ATATGTTTTA
12993581 AAATTT AAATTT AAA-TT AATATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AA-ATTT AAATTT AAA
12993614 AATATTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.16
6 17 0.68
7 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:12993743 original size:16 final size:16
Alignment explanation
Indices: 12993722--12993762 Score: 75
Period size: 15 Copynumber: 2.6 Consensus size: 16
12993712 ATGCCAATTG
12993722 GGCCCAAATTTCAAAA
1 GGCCCAAATTTCAAAA
12993738 GGCCCAAA-TTCAAAA
1 GGCCCAAATTTCAAAA
12993753 GGCCCAAATT
1 GGCCCAAATT
12993763 ACCTAAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.17
Consensus pattern (16 bp):
GGCCCAAATTTCAAAA
Found at i:12994389 original size:3 final size:3
Alignment explanation
Indices: 12994381--12994437 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
12994371 AAATAGTATC
* * ** *
12994381 AAT AAT AAT CAAT AAT AAT AAT AAT ACT ATT TTT AAT AGT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
12994427 AAA AAT AAT AA
1 AAT AAT AAT AA
12994438 AAAGGCAGTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:12994393 original size:10 final size:10
Alignment explanation
Indices: 12994378--12994406 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12994368 AATAAATAGT
12994378 ATCAATAATA
1 ATCAATAATA
12994388 ATCAATAATA
1 ATCAATAATA
12994398 AT-AATAATA
1 ATCAATAATA
12994407 CTATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
ATCAATAATA
Found at i:12995594 original size:30 final size:30
Alignment explanation
Indices: 12995556--12996139 Score: 138
Period size: 30 Copynumber: 19.9 Consensus size: 30
12995546 CCCAAAAGGT
* *
12995556 CCCT-AAACTATCCAAAAATCATATTTTGA
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* *
12995585 CCCTCAAACTTTCCAAAAGTTACATTTTGA
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* *
12995615 CCCTCAAACTTTCCAAAATTTACA--TT-A
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* * * *
12995642 -TCACGAAC-TTCACAAAAATTACCATTTT-A
1 CCCTCAAACTTTC-CAAAAATCA-CATTTTGA
12995671 CCC-CTAAA-TTTCCAAAAATTC-CATTTTTGA
1 CCCTC-AAACTTTCCAAAAA-TCACA-TTTTGA
** * * *
12995701 -CCTTGAACTGTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* *
12995730 TCCTCAAA-TGTCCAAAAATTC-CATTTTTGA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
12995760 CCCT-AAAC-TTCCTAAAAA-CTACCATTTT-A
1 CCCTCAAACTTTCC-AAAAATC-A-CATTTTGA
* * **** *
12995789 CCTTC-GAC-TTCCAAAAATTTTGTTTTTAA
1 CCCTCAAACTTTCCAAAAA-TCACATTTTGA
* *
12995818 CCC-CAAACTTTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
12995847 TCCTCGAA-TGTCCAAAAATTC-CATTTTTGA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
* * *
12995877 CTCT-GAAC-TTCCAAAAAATTACCATTTT-A
1 CCCTCAAACTTTCC-AAAAATCA-CATTTTGA
*
12995906 CCC-CTAAAC-TTCCAAAAATTC-CATTTTTAA
1 CCCTC-AAACTTTCCAAAAA-TCACA-TTTTGA
* *
12995936 CCCT-GAACTTTCCCAAAATCACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
12995965 CCCCCAAAC-ATCCAAAAATTC-CATTTTTA
1 CCCTCAAACTTTCCAAAAA-TCACATTTTGA
* * *
12995994 CCC-CAAATTTTCCTAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
12996023 CCCTCAAAC-TTCCAATAATTC-TATTTTTA
1 CCCTCAAACTTTCCAA-AAATCACATTTTGA
* * *
12996052 ACCTCAAACTTTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
12996082 CCCCCGAA-TGTCCAAAAATTCA-ATTTTTGA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
* *
12996112 -CCTCCAAC-TTCCTAAAAATTACCATTTT
1 CCCTCAAACTTTCC-AAAAATCA-CATTTT
12996140 TCCTGGGGCA
Statistics
Matches: 411, Mismatches: 77, Indels: 133
0.66 0.12 0.21
Matches are distributed among these distances:
25 3 0.01
26 13 0.03
27 3 0.01
28 38 0.09
29 164 0.40
30 176 0.43
31 14 0.03
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATCACATTTTGA
Found at i:12995719 original size:59 final size:58
Alignment explanation
Indices: 12995556--12996139 Score: 455
Period size: 59 Copynumber: 10.0 Consensus size: 58
12995546 CCCAAAAGGT
12995556 CCCTAAACTATCCAAAAA-T-CATATTTTGACCCTCAAACTTT-CCAAAAGTTA-CATTTTGA
1 CCCTAAACT-TCCAAAAATTCCAT-TTTTGACCC-CAAACTTTCCCAAAA-TTACCATTTT-A
* * * * * *
12995615 CCCTCAAACTTTCCAAAATTTACA---TT-ATCACGAAC-TTCACAAAAATTACCATTTTA
1 CCCT-AAAC-TTCCAAAAATTCCATTTTTGACCCCAAACTTTC-CCAAAATTACCATTTTA
* *** *
12995671 CCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATTACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
12995730 TCCTCAAA-TGTCCAAAAATTCCATTTTTGACCCTAAAC-TTCCTAAAAACTACCATTTTA
1 CCCT-AAACT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-CAAAATTACCATTTTA
* ** *** *
12995789 CCTTCGACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCCAAAATTACCATTTTA
1 CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * ** *
12995847 TCCTCGAA-TGTCCAAAAATTCCATTTTTGACTCTGAAC-TTCCAAAAAATTACCATTTTA
1 CCCT-AAACT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-CAAAATTACCATTTTA
* ** *
12995906 CCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAACTTTCCCAAAATCACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
12995965 CCCCCAAACATCCAAAAATTCCATTTTT-ACCCCAAATTTTCCTAAAATTACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
12996023 CCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTA
1 CCCT-AAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
** * *
12996082 CCCCCGAA-TGTCCAAAAATTCAATTTTTGACCTCC-AAC-TTCCTAAAAATTACCATTTT
1 -CCCTAAACT-TCCAAAAATTCCATTTTTGACC-CCAAACTTTCC-CAAAATTACCATTTT
12996140 TCCTGGGGCA
Statistics
Matches: 426, Mismatches: 69, Indels: 60
0.77 0.12 0.11
Matches are distributed among these distances:
55 14 0.03
56 11 0.03
57 20 0.05
58 106 0.25
59 246 0.58
60 25 0.06
61 2 0.00
62 2 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
Found at i:12995863 original size:176 final size:172
Alignment explanation
Indices: 12995656--12996139 Score: 546
Period size: 176 Copynumber: 2.7 Consensus size: 172
12995646 GAACTTCACA
*
12995656 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATT
1 AAAATTACCATTTTACCTC-AAA-TTCCAAAAATTCCATTTTTGACCTTGAACT-TCCCAAAATT
*
12995721 ACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATT
63 ACCATTTTA-CCCCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATT
** * * ***
12995786 TTACCTTC-GACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCC
127 TTACCCCCAAACATCCAAAAATTCCATTTTT-ACCCCAAACTTTCCC
* *
12995832 AAAATTACCATTTTATCCTCGAATGTCCAAAAATTCCATTTTTGA-CTCTGAACTTCCAAAAAAT
1 AAAATTACCATTTTA-CCTCAAAT-TCCAAAAATTCCATTTTTGACCT-TGAACTTCC-CAAAAT
* * * *
12995896 TACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAACCCTGAACTTTCCCAAAATC-ACC
62 TACCATTTTACCCC-AAA-TGTCCAAAAATTCCATTTTTGACCCTAAAC-TTCCTAAAAACTACC
* *
12995959 ATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAATTTTCCT
124 ATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAACTTTCCC
* * * **
12996008 AAAATTACCATTTTACCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATT
1 AAAATTACCATTTTA-CCTCAAA-TTCCAAAAATTCCATTTTTGACCTTGAAC-TTCCCAAAATT
* * * *
12996073 ACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGA-CCTCCAACTTCCTAAAAATTACCAT
63 ACCATTTTA-CCCCAAATGTCCAAAAATTCCATTTTTGACCCT-AAACTTCCTAAAAACTACCAT
12996137 TTT
126 TTT
12996140 TCCTGGGGCA
Statistics
Matches: 261, Mismatches: 32, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
175 21 0.08
176 199 0.76
177 41 0.16
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (172 bp):
AAAATTACCATTTTACCTCAAATTCCAAAAATTCCATTTTTGACCTTGAACTTCCCAAAATTACC
ATTTTACCCCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATTTTAC
CCCCAAACATCCAAAAATTCCATTTTTACCCCAAACTTTCCC
Found at i:12996154 original size:117 final size:117
Alignment explanation
Indices: 12995556--12996139 Score: 593
Period size: 117 Copynumber: 5.0 Consensus size: 117
12995546 CCCAAAAGGT
*
12995556 CCCTAAACTATCCAAAAA-T-CATATTTTGACCCTCAAACTTT-CCAAAAGTTA-CATTTTGACC
1 CCCTAAACT-TCCAAAAATTCCAT-TTTT-AACCTCAAACTTTCCCAAAA-TTACCATTTT-ACC
* * * * * * *
12995617 CTCAAACTTTCCAAAATTTACA-TTAT--CAC-GAACTTCAC-AAAAATTACCATTTTA
61 CCCAAA-TGTCCAAAAATTCCATTTTTGACCCTCAACTTC-CTAAAAATTACCATTTTA
* * ** * * *
12995671 CCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATTACCATTTTATCCTCA
1 -CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCA
* *
12995736 AATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATTTTA
65 AATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
* ** *** * * * *
12995789 CCTTCGACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCCAAAATTACCATTTTATCCTCGA
1 CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCAA
* * *
12995854 ATGTCCAAAAATTCCATTTTTGACTCTGAACTTCCAAAAAATTACCATTTTA
66 ATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
* *
12995906 CCCCTAAACTTCCAAAAATTCCATTTTTAACC-CTGAACTTTCCCAAAATCACCATTTTACCCCC
1 -CCCTAAACTTCCAAAAATTCCATTTTTAACCTC-AAACTTTCCCAAAATTACCATTTTACCCCC
** *
12995970 AAACATCCAAAAATTCCATTTTT-ACCC-CAAATTTTCCT-AAAATTACCATTTTA
64 AAATGTCCAAAAATTCCATTTTTGACCCTC-AA-CTTCCTAAAAATTACCATTTTA
* * *
12996023 CCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCG
1 CCCT-AAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCA
*
12996088 AATGTCCAAAAATTCAATTTTTGA-CCTCCAACTTCCTAAAAATTACCATTTT
65 AATGTCCAAAAATTCCATTTTTGACCCT-CAACTTCCTAAAAATTACCATTTT
12996140 TCCTGGGGCA
Statistics
Matches: 392, Mismatches: 57, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
114 12 0.03
115 30 0.08
116 29 0.07
117 206 0.53
118 114 0.29
119 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (117 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCAA
ATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
Found at i:13045356 original size:29 final size:29
Alignment explanation
Indices: 13045324--13045446 Score: 83
Period size: 29 Copynumber: 4.2 Consensus size: 29
13045314 AAAATGAGAC
13045324 TTTTTGGATACCCGAGGATAAAATGGTAA
1 TTTTTGGATACCCGAGGATAAAATGGTAA
* * * *
13045353 TTTTGGGACT-CTCGGGGGTAAAATGGTAA
1 TTTTTGGA-TACCCGAGGATAAAATGGTAA
* ** *
13045382 TTTTTGGAAAAATCG-GGATCAAAAAT-GAAA
1 TTTTTGG-ATACCCGAGGAT--AAAATGGTAA
* *
13045412 TTTTTGGACATCC-AGGAGTAAAATGGTAA
1 TTTTTGGATACCCGAGGA-TAAAATGGTAA
13045441 TTTTTG
1 TTTTTG
13045447 AAAGTTTCGG
Statistics
Matches: 73, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
28 5 0.07
29 47 0.64
30 16 0.22
31 5 0.07
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (29 bp):
TTTTTGGATACCCGAGGATAAAATGGTAA
Found at i:13045398 original size:30 final size:29
Alignment explanation
Indices: 13045342--13045398 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
13045332 TACCCGAGGA
* ***
13045342 TAAAATGGTAATTTTGGGACTCTCGGGGG
1 TAAAATGGTAATTTTGGAAAAATCGGGGG
13045371 TAAAATGGTAATTTTTGGAAAAATCGGG
1 TAAAATGGTAA-TTTTGGAAAAATCGGG
13045399 ATCAAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 11 0.48
30 12 0.52
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGAAAAATCGGGGG
Found at i:13045414 original size:59 final size:59
Alignment explanation
Indices: 13045351--13045476 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 59
13045341 ATAAAATGGT
* *
13045351 AATTTTGGGAC-TCTCGGGGGTAAAATGGTAATTTTTGGAAA-AATCGGGATCAAAAATGA
1 AATTTTGGGACATC-CAGGAGTAAAATGGTAATTTTT-GAAAGAATCGGGATCAAAAATGA
* ** * *
13045410 AATTTTTGGACATCCAGGAGTAAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAATGG
1 AATTTTGGGACATCCAGGAGTAAAATGGTAATTTTTGAAAGAATCGGGATCAAAAATGA
13045469 AATTTTGG
1 AATTTTGG
13045477 AAGTTTAAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
58 4 0.07
59 51 0.89
60 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (59 bp):
AATTTTGGGACATCCAGGAGTAAAATGGTAATTTTTGAAAGAATCGGGATCAAAAATGA
Found at i:13045494 original size:59 final size:58
Alignment explanation
Indices: 13045368--13045623 Score: 191
Period size: 59 Copynumber: 4.3 Consensus size: 58
13045358 GGACTCTCGG
** * * **
13045368 GGGTAAAATGGTAATTTTTGGAAA-AATCGGGATCAAAAATGAAATTTTTGGACA--TCCA
1 GGGTAAAAT-GTAATTTTT-GAAAGTTTCGGGGTCAAAAATGGAATTTTTGGA-AGTTTAA
13045426 GGAGTAAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAA-TTTTGGAAGTTTAA
1 GG-GTAAAAT-GTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
* ** * * * *
13045485 GGGTAAAAATGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATATTTGAAATTTTAG
1 GGGT-AAAATGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
* * * * * *
13045544 GGGCAAAAATGTAATTTTTGGAAG-TTCGAGGGT-ACAAATGTAATTTTTAGAAGTTTCA
1 GGG-TAAAATGTAATTTTTGAAAGTTTCG-GGGTCAAAAATGGAATTTTTGGAAGTTTAA
* *
13045602 GGGCCAAAATATAATTTCTTGA
1 GGG-TAAAATGTAATTT-TTGA
13045624 CAATTAGGGA
Statistics
Matches: 162, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
57 1 0.01
58 80 0.49
59 81 0.50
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.34
Consensus pattern (58 bp):
GGGTAAAATGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGTTTAA
Found at i:13045503 original size:58 final size:58
Alignment explanation
Indices: 13045431--13045623 Score: 201
Period size: 58 Copynumber: 3.3 Consensus size: 58
13045421 ATCCAGGAGT
*
13045431 AAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTGGAAGTTTAAGGGTA
1 AAAAT-GTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTGGAAGTTTAAGGGCA
* ** * * *
13045490 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAAATGGAATATTTGAAATTTTAGGGGCA
1 AAAATGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAAT-TTTGGAAGTTTAAGGGCA
* * * * * *
13045549 AAAATGTAATTTTTGGAAG-TTCGAGGGT-ACAAATGTAATTTTTAGAAGTTTCAGGGCC
1 AAAATGTAATTTTTGAAAGTTTCG-GGGTCAAAAATGGAA-TTTTGGAAGTTTAAGGGCA
*
13045607 AAAATATAATTTCTTGA
1 AAAATGTAATTT-TTGA
13045624 CAATTAGGGA
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
58 65 0.59
59 46 0.41
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.35
Consensus pattern (58 bp):
AAAATGTAATTTTTGAAAGTTTCGGGGTCAAAAATGGAATTTTGGAAGTTTAAGGGCA
Found at i:13045611 original size:29 final size:29
Alignment explanation
Indices: 13045431--13045618 Score: 175
Period size: 29 Copynumber: 6.4 Consensus size: 29
13045421 ATCCAGGAGT
* *
13045431 AAAATGGTAATTTTTGAAAGTTTCGGGGTCA
1 AAAAT-GTAATTTTTGGAAGTTTCAGGG-CA
* * *
13045462 AAAATGGAA-TTTTGGAAGTTTAAGGGTA
1 AAAATGTAATTTTTGGAAGTTTCAGGGCA
*
13045490 AAAATGTAATTTTTGGAAGTTTTAGGGTCA
1 AAAATGTAATTTTTGGAAGTTTCAGGG-CA
* * * *
13045520 AAAATGGAATATTT-GAAATTTTAGGGGCA
1 AAAATGTAATTTTTGGAAGTTTCA-GGGCA
*
13045549 AAAATGTAATTTTTGGAAG-TTCGAGGGTA
1 AAAATGTAATTTTTGGAAGTTTC-AGGGCA
* * *
13045578 CAAATGTAATTTTTAGAAGTTTCAGGGCC
1 AAAATGTAATTTTTGGAAGTTTCAGGGCA
*
13045607 AAAATATAATTT
1 AAAATGTAATTT
13045619 CTTGACAATT
Statistics
Matches: 129, Mismatches: 22, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
28 9 0.07
29 89 0.69
30 26 0.20
31 5 0.04
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTCAGGGCA
Found at i:13047311 original size:12 final size:11
Alignment explanation
Indices: 13047282--13047327 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
13047272 TTTTTTTTTT
13047282 TAAATTTGAAAA
1 TAAATTT-AAAA
* *
13047294 TTAATTTAAAT
1 TAAATTTAAAA
13047305 TCAAATTTAAAA
1 T-AAATTTAAAA
13047317 TAAATTTAAAA
1 TAAATTTAAAA
13047328 GGGCTCGGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:13047990 original size:85 final size:85
Alignment explanation
Indices: 13047836--13048001 Score: 199
Period size: 85 Copynumber: 2.0 Consensus size: 85
13047826 CATCGGTTTG
** * * * * * *
13047836 ATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGTATCATTTGTTTCAATCTGCTTTCT
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATAACCATATCATTTGCTTCAACCTGCTTTCA
*
13047901 GTATCTCATCAGGAAGACGA
66 GTATCTCATCAAGAAGACGA
* * * *
13047921 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTA-TTGCTTCGACCTGCTTCTC
1 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATAACCATATCATTTGCTTCAACCTGCTT-TC
13047985 AGTATCTCATCAAGAAG
65 AGTATCTCATCAAGAAG
13048002 CTGGGTTCGA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
84 13 0.19
85 54 0.81
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATAACCATATCATTTGCTTCAACCTGCTTTCA
GTATCTCATCAAGAAGACGA
Found at i:13048117 original size:204 final size:205
Alignment explanation
Indices: 13047626--13048626 Score: 1358
Period size: 204 Copynumber: 4.9 Consensus size: 205
13047616 TCTGGATTCA
* * * ** *
13047626 TTGACTTGGCCTTCTTCTCT-GTATCTCATCAGGAAGATGACCACATCACTTGTTTTGATCCACT
1 TTGATTTGGTCTTCTTCT-TAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT-CGCT
* * * * *
13047690 TCTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAACCA
64 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* * *
13047755 CTTTATTGCTTAGACCTGCTTCTCAGTATCTCATCAAAAAGCTAGGGGTTCGAAGATTTGCTCAC
129 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTA-GGGTTCGAAGATTTGCTCAC
* *
13047820 ATCGAGCATCGGT
193 ATCGAGCGTGGGT
* *
13047833 TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGTATCATTTGTTTCAATCTGCTT
1 TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATC-GCTT
13047898 -TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
13047962 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCT-GGGTTCGAAGATTTGCTCACAT
130 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACAT
*
13048026 GGAGCGTGGGT
195 CGAGCGTGGGT
* * *
13048037 TTGATTTGGTCTTCTTCTTAGTATCTCATCAAGAAGATGACCGCATCGCTTGTTTCAATCGTTTC
1 TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCGCTTC
* * * * * *
13048102 TTTGTACCTCATCAGGAAGACAAATTTGTTCCACTTCTCAATATCTCATCAAGAAGCTAACCATT
66 TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATT
* * *
13048167 TTATTGCTTCGACCTGCTTCTCAATATCTCATTAGGAAGCT-GGGTTCGAAGATTTGCTCACATC
131 TTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATC
13048231 GAGCGTGGGT
196 GAGCGTGGGT
* *
13048241 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT-CGCTT
* * *
13048306 CTCTATACCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCAT
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
13048371 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTAGGGTTCGAAGATTTGCTCACTT
130 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACAT
* *
13048436 TGAGC-----C
195 CGAGCGTGGGT
* * * * * *
13048442 TTGAGTTGGTATACTTCTCT-GTATCTCATCAGGATGGTGACCGCCTCACTTGTTTCAATTCGCT
1 TTGATTTGGTCTTCTTCT-TAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAA-TCGCT
* *
13048506 TCTCTATATCTCATCAGGAAGATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
64 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* * * * * *
13048571 TTTTATTACTTCGCCCTGCCTCTTAGTATGTCATC-AGTAAGCTAGGGTTCAAAGAT
129 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAG-AAGCTAGGGTTCGAAGAT
13048627 CTATTCACAT
Statistics
Matches: 717, Mismatches: 69, Indels: 22
0.89 0.09 0.03
Matches are distributed among these distances:
200 1 0.00
201 161 0.22
202 1 0.00
203 3 0.00
204 272 0.38
205 101 0.14
206 125 0.17
207 53 0.07
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (205 bp):
TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCGCTTC
TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATT
TTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGATTTGCTCACATC
GAGCGTGGGT
Found at i:13049093 original size:49 final size:49
Alignment explanation
Indices: 13049027--13049157 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 49
13049017 CGACTTAAAC
* * *
13049027 CTTTCCCTTCAAATCTTCGTGGTACTGGATCTA-CTGTCGCAGCTTAGAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGATCCATC-ATCGCAGCTTAGAT
* * * * *
13049076 CTTTCTCTTCCTGTCTTCGTAGTACTGGGTCCATCATCGCAGCTTAGAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGATCCATCATCGCAGCTTAGAT
* *
13049125 CTTTCCCTTCATATCTTTGTGATACTGGATCCA
1 CTTTCCCTTCATATCTTCGTGGTACTGGATCCA
13049158 CCATTACGGC
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
49 65 0.98
50 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (49 bp):
CTTTCCCTTCATATCTTCGTGGTACTGGATCCATCATCGCAGCTTAGAT
Found at i:13049759 original size:6 final size:6
Alignment explanation
Indices: 13049734--13049786 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
13049724 TCTTGTCTTT
* * *
13049734 TTTAAA TTTGAAA -ATAAA TTTAAA TTTAAA TTCAAA TTTAAA -ATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
13049781 TTTAAA
1 TTTAAA
13049787 AGGGCCCGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 7 0.18
6 28 0.74
7 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:13049783 original size:11 final size:11
Alignment explanation
Indices: 13049754--13049787 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13049744 AAAATAAATT
*
13049754 TAAATTTAAAT
1 TAAATTTAAAA
13049765 TCAAATTTAAAA
1 T-AAATTTAAAA
13049777 TAAATTTAAAA
1 TAAATTTAAAA
13049788 GGGCCCGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:13056204 original size:29 final size:28
Alignment explanation
Indices: 13056131--13056223 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
13056121 AAAAATAACA
*
13056131 TTTTAGACATCCGAGGATAAAATGGTAAT
1 TTTTGGACATCCG-GGATAAAATGGTAAT
* * *
13056160 TTTTGGAAAATTCGGGATCAAAAATGG-ATT
1 TTTTGG-ACATCCGGGAT--AAAATGGTAAT
*
13056190 TTTTGGACATCCGGGAGTAAAACGGTAAT
1 TTTTGGACATCCGGGA-TAAAATGGTAAT
13056219 TTTTG
1 TTTTG
13056224 AAAGTTTCGG
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 6 0.12
29 24 0.47
30 14 0.27
31 7 0.14
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (28 bp):
TTTTGGACATCCGGGATAAAATGGTAAT
Found at i:13056269 original size:59 final size:59
Alignment explanation
Indices: 13056131--13056270 Score: 183
Period size: 59 Copynumber: 2.4 Consensus size: 59
13056121 AAAAATAACA
* * * * *
13056131 TTTTAGACATCCGAGGATAAAATGGTAATTTTTGGAAAATTCGGGATCAAAAATGGATT
1 TTTTGGACATCCGGGGGTAAAACGGTAATTTTTGGAAAATTCGGGATCAAAAATGGAGT
* * * *
13056190 TTTTGGACATCCGGGAGTAAAACGGTAATTTTT-GAAAGTTTCGGGGTCCAAAATGGAGT
1 TTTTGGACATCCGGGGGTAAAACGGTAATTTTTGGAAA-ATTCGGGATCAAAAATGGAGT
13056249 TTTTGGACATCCGGGGGTAAAA
1 TTTTGGACATCCGGGGGTAAAA
13056271 ATGTATGGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
58 4 0.06
59 66 0.94
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (59 bp):
TTTTGGACATCCGGGGGTAAAACGGTAATTTTTGGAAAATTCGGGATCAAAAATGGAGT
Found at i:13056362 original size:59 final size:58
Alignment explanation
Indices: 13056275--13056440 Score: 160
Period size: 58 Copynumber: 2.8 Consensus size: 58
13056265 GTAAAAATGT
* *
13056275 ATGGAATTTTT-TAAG-TTCGAGGGTAAAAATATAATTTTTGGAAGTTTCG-GGTTCAAAA
1 ATGGAATTTTTAGAAGTTTCGA-GGTAAAAATATAATTTTTGGAAGTTTAGCGG--CAAAA
* * * * *
13056333 ATGGGATTTTTAG-ATTTTCGAGTGTAAAAATGTAATTTTTTGAATTTTAGCGGCAAAA
1 ATGGAATTTTTAGAAGTTTCGAG-GTAAAAATATAATTTTTGGAAGTTTAGCGGCAAAA
* ** *
13056391 ATGTAATTTTTAGAAGTTTCGAGGCCAAAATATAATTTTTGAACAGTTTA
1 ATGGAATTTTTAGAAGTTTCGAGGTAAAAATATAATTTTTGGA-AGTTTA
13056441 AGGACTTTTA
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
58 43 0.50
59 41 0.48
60 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (58 bp):
ATGGAATTTTTAGAAGTTTCGAGGTAAAAATATAATTTTTGGAAGTTTAGCGGCAAAA
Found at i:13056380 original size:30 final size:29
Alignment explanation
Indices: 13056290--13056430 Score: 115
Period size: 29 Copynumber: 4.8 Consensus size: 29
13056280 ATTTTTTAAG
* *
13056290 TTCGAGGGTAAAAATATAATTTTTGGAAGT
1 TTCGA-GGTAAAAATGTAATTTTTAGAAGT
** *
13056320 TTCG-GGTTCAAAAATGGGATTTTTAG-ATT
1 TTCGAGG-T-AAAAATGTAATTTTTAGAAGT
* *
13056349 TTCGAGTGTAAAAATGTAATTTTTTGAATT
1 TTCGAG-GTAAAAATGTAATTTTTAGAAGT
* * *
13056379 TTAGCGGCAAAAATGTAATTTTTAGAAGT
1 TTCGAGGTAAAAATGTAATTTTTAGAAGT
** *
13056408 TTCGAGGCCAAAATATAATTTTT
1 TTCGAGGTAAAAATGTAATTTTT
13056431 GAACAGTTTA
Statistics
Matches: 89, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
28 2 0.02
29 60 0.67
30 26 0.29
31 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (29 bp):
TTCGAGGTAAAAATGTAATTTTTAGAAGT
Found at i:13058301 original size:6 final size:6
Alignment explanation
Indices: 13058276--13058328 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
13058266 TGCTTTTTTT
* * *
13058276 TTTAAA TTTGAAA -ATAAA TTTAAA TTTAAA TTCAAA TTTAAA -ATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
13058323 TTTAAA
1 TTTAAA
13058329 AGGGCCCGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 7 0.18
6 28 0.74
7 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:13058325 original size:11 final size:11
Alignment explanation
Indices: 13058296--13058329 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13058286 AAAATAAATT
*
13058296 TAAATTTAAAT
1 TAAATTTAAAA
13058307 TCAAATTTAAAA
1 T-AAATTTAAAA
13058319 TAAATTTAAAA
1 TAAATTTAAAA
13058330 GGGCCCGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:13061206 original size:13 final size:12
Alignment explanation
Indices: 13061183--13061214 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13061173 TATTTTAAGA
13061183 TTAAATTTAT-T
1 TTAAATTTATAT
13061194 TTAAATTTATAT
1 TTAAATTTATAT
13061206 TTAAATTTA
1 TTAAATTTA
13061215 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:13061207 original size:17 final size:17
Alignment explanation
Indices: 13061166--13061208 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
13061156 CTAAATCCAT
13061166 TTTAATTTATTTTAAGA
1 TTTAATTTATTTTAAGA
*
13061183 TTAAATTTATTTTAA-A
1 TTTAATTTATTTTAAGA
13061199 TTTATATTTA
1 TTTA-ATTTA
13061209 AATTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTAATTTATTTTAAGA
Found at i:13061215 original size:29 final size:28
Alignment explanation
Indices: 13061164--13061227 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
13061154 AACTAAATCC
*
13061164 ATTTT-AATTTATTTTAAGATTAAATTT
1 ATTTTAAATTTATTTTAAGATTAAAATT
13061191 ATTTTAAATTTATATTTAA-ATTTAAAATT
1 ATTTTAAATTTAT-TTTAAGA-TTAAAATT
*
13061220 ATTCTAAA
1 ATTTTAAA
13061228 GTTAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.16
28 8 0.25
29 19 0.59
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
ATTTTAAATTTATTTTAAGATTAAAATT
Found at i:13061386 original size:3 final size:3
Alignment explanation
Indices: 13061378--13061436 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
13061368 AAATAGTATC
* * ** * *
13061378 AAT AAT AAT AAT AAT ACT ATT CTT AAT AGT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13061426 AAT AAT AAT AA
1 AAT AAT AAT AA
13061437 GGCAGTCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:13062589 original size:29 final size:30
Alignment explanation
Indices: 13062526--13062605 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
13062516 AAAGGTCCCT
* * * *
13062526 AAACTGTCCAAAAATCATATTTTGACCCCC
1 AAACTTTCCAAAAGTTACATTTTGACCCCC
13062556 AAACTTTCCAAAAGTTACATTTTGACCCCC
1 AAACTTTCCAAAAGTTACATTTTGACCCCC
*
13062586 -AACTTTCCAAAATTTACATT
1 AAACTTTCCAAAAGTTACATT
13062606 ATCACAAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 19 0.42
30 26 0.58
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (30 bp):
AAACTTTCCAAAAGTTACATTTTGACCCCC
Found at i:13062653 original size:29 final size:29
Alignment explanation
Indices: 13062522--13063040 Score: 218
Period size: 29 Copynumber: 17.9 Consensus size: 29
13062512 CCCAAAAGGT
* * *
13062522 CCCTAAACTGTCCAAAAATCA-TATTTTGAC
1 CCCTAAA-TTTCCAAAAATTACCATTTT-AC
* *
13062552 CCCCAAACTTTCCAAAAGTTA-CATTTTGAC
1 CCCTAAA-TTTCCAAAAATTACCATTTT-AC
* * * *
13062582 CCCCAACTTTCCAAAATTTA-CA--TTAT
1 CCCTAAATTTCCAAAAATTACCATTTTAC
* **
13062608 CAC-AAACTTTTAAAAAATTACCATTTTAC
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
*
13062637 CCCTAAATTTCCAAAAATT-CAATTTTTGA-
1 CCCTAAATTTCCAAAAATTACCA-TTTT-AC
** * * *
13062666 CCCTGGACTTCTTAAAAACTACCATTTTA-
1 CCCTAAATTTC-CAAAAATTACCATTTTAC
* * * ****
13062695 CCTTGAACTTCCAAAAATTTTGTTTTTAAC
1 CCCTAAATTTCCAAAAATTACCATTTT-AC
**
13062725 CCC-AAACTTTCCCCAAATTACCATTTTAC
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
** *
13062754 CCC-CGATATCCAAAAATT-CCATTTTTA-
1 CCCTAAATTTCCAAAAATTACCA-TTTTAC
** *
13062781 CTTTGAATTTCCCAAAAATTACCATTTTAC
1 CCCTAAATTT-CCAAAAATTACCATTTTAC
* **
13062811 CCCTAAACTTCCAAAAATT-CCATTTTTG
1 CCCTAAATTTCCAAAAATTACCATTTTAC
* * *
13062839 ACTTAAACTTTCCCAAAATTACCATTTTAC
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
* **
13062869 CCCCAAACATCCAAAAATT-CCATTTTTTA-
1 CCCTAAATTTCCAAAAATTACCA--TTTTAC
13062898 CCCTAAATTTTCCAAAAATTACCATTTTAC
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
* * * * *
13062928 CCTTAGACTTCTAAAAA-T-CCTTTTTAC
1 CCCTAAATTTCCAAAAATTACCATTTTAC
*
13062955 CCC-AAACTTTCCCAAAATTACCATTTTAC
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
* *
13062984 CCTCT-AATGTCTAAAAATT-CCATTTTTGAC
1 CC-CTAAATTTCCAAAAATTACCA-TTTT-AC
* * *
13063014 CTC-GAACTTCCTAAAAATTACCATTTT
1 CCCTAAATTTCC-AAAAATTACCATTTT
13063041 TCCTTGGCAT
Statistics
Matches: 365, Mismatches: 90, Indels: 68
0.70 0.17 0.13
Matches are distributed among these distances:
25 2 0.01
26 15 0.04
27 25 0.07
28 49 0.13
29 149 0.41
30 117 0.32
31 8 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTAAATTTCCAAAAATTACCATTTTAC
Found at i:13062747 original size:58 final size:58
Alignment explanation
Indices: 13062621--13063040 Score: 369
Period size: 58 Copynumber: 7.2 Consensus size: 58
13062611 AAACTTTTAA
* * ** **
13062621 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGGAC-TTCTTA
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT-ACCCTAAACTTTC-CC
* * * *** *
13062680 AAAACTACCATTTTA-CCTTGAACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT-ACCCTAAACTTTCCC
* ** ** *
13062738 CAAATTACCATTTTACCCC-CGA-TATCCAAAAATTCCATTTTTACTTTGAA-TTTCCC
1 AAAATTACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTACCCTAAACTTTCCC
*
13062794 AAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGA-CTTAAACTTTCCC
1 -AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT-ACCCTAAACTTTCCC
* * * *
13062853 AAAATTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTTACCCTAAATTTTCCA
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCA-TTTTTACCCTAAACTTTCCC
* * * *
13062912 AAAATTACCATTTTACCCTTAGACTTCTAAAAA-TCC-TTTTTACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTACCCTAAACTTTCCC
* * *
13062968 AAAATTACCATTTTACCCTCT-AA-TGTCTAAAAATTCCATTTTTGA-CCTCGAAC-TTCCTA
1 AAAATTACCATTTTACCC-CTAAACT-TCCAAAAATTCCATTTTT-ACCCT-AAACTTTCC-C
13063027 AAAATTACCATTTT
1 AAAATTACCATTTT
13063041 TCCTTGGCAT
Statistics
Matches: 296, Mismatches: 48, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
55 1 0.00
56 50 0.17
57 27 0.09
58 130 0.44
59 88 0.30
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTACCCTAAACTTTCCC
Found at i:13062862 original size:115 final size:115
Alignment explanation
Indices: 13062621--13063040 Score: 472
Period size: 115 Copynumber: 3.6 Consensus size: 115
13062611 AAACTTTTAA
* * * * ** *
13062621 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGGACTTCTTAAAAACT
1 AAAATTACCATTTTACCCC-CAATATCCAAAAATTCCATTTTTGACCCTGAACTTCCCAAAAATT
* **
13062686 ACCATTTTA-CCTTGAACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCC
65 ACCATTTTACCCTTAAACTTCCAAAAA-TTCCTTTTT-ACCCCAAACTTTCCC
* * ** *
13062738 CAAATTACCATTTTACCCCCGATATCCAAAAATTCCATTTTT-ACTTTGAATTTCCCAAAAATTA
1 AAAATTACCATTTTACCCCCAATATCCAAAAATTCCATTTTTGACCCTGAACTTCCCAAAAATTA
* **
13062802 CCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGA-CTTAAACTTTCCC
66 CCATTTTACCCTTAAACTTCCAAAAATTCC-TTTTT-ACCCCAAACTTTCCC
* * * * *
13062853 AAAATTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTTACCCTAAATTTTCCAAAAATT
1 AAAATTACCATTTTACCCCC-AATATCCAAAAATTCCATTTTTGACCCTGAACTTCCCAAAAATT
* *
13062918 ACCATTTTACCCTTAGACTTCTAAAAA-TCCTTTTTACCCCAAACTTTCCC
65 ACCATTTTACCCTTAAACTTCCAAAAATTCCTTTTTACCCCAAACTTTCCC
* * * *
13062968 AAAATTACCATTTTACCCTCTAATGTCTAAAAATTCCATTTTTGA-CCTCGAACTTCCTAAAAAT
1 AAAATTACCATTTTACCC-CCAATATCCAAAAATTCCATTTTTGACCCT-GAACTTCCCAAAAAT
13063032 TACCATTTT
64 TACCATTTT
13063041 TCCTTGGCAT
Statistics
Matches: 256, Mismatches: 40, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
114 4 0.02
115 129 0.50
116 64 0.25
117 59 0.23
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (115 bp):
AAAATTACCATTTTACCCCCAATATCCAAAAATTCCATTTTTGACCCTGAACTTCCCAAAAATTA
CCATTTTACCCTTAAACTTCCAAAAATTCCTTTTTACCCCAAACTTTCCC
Found at i:13062919 original size:174 final size:172
Alignment explanation
Indices: 13062620--13063040 Score: 449
Period size: 174 Copynumber: 2.4 Consensus size: 172
13062610 CAAACTTTTA
* * * * *
13062620 AAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCAATTTTTGACCCTGGACTTCTTAAAAAC
1 AAAAATTACCATTTTACCCCTAAA-TTCCAAAAATTCCATTTTTGACCTTGAACTTC-CAAAAAT
*** * *** **
13062685 TACCATTTTACCTTGAACTTCCAAAAATTTTGTTTTTAACCCCAAACTTTCCCCAAATTACCATT
64 TACCATTTTACCCCAAACATCCAAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCATT
* ****
13062750 TTACCC-CCGA-TATCCAAAAATTCCATTTTTACTTTGAA-TTTCCC
129 TTACCCTCAGACT-TCCAAAAA-TCC-TTTTTACCCCAAACTTTCCC
* *
13062794 AAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGA-CTTAAACTTTCCCAAAAT
1 AAAAATTACCATTTTACCCCTAAA-TTCCAAAAATTCCATTTTTGACCTTGAAC-TTCCAAAAAT
* * *
13062858 TACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTTACCCTAAATTTTCCAAAAATTACCAT
64 TACCATTTTA-CCCCAAACATCCAAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCAT
* *
13062923 TTTACCCTTAGACTTCTAAAAATCCTTTTTACCCCAAACTTTCCC
128 TTTACCCTCAGACTTCCAAAAATCCTTTTTACCCCAAACTTTCCC
* *
13062968 -AAAATTACCATTTTACCCTCT-AATGTCTAAAAATTCCATTTTTGACCTCGAACTTCCTAAAAA
1 AAAAATTACCATTTTACCC-CTAAAT-TCCAAAAATTCCATTTTTGACCTTGAACTTCC-AAAAA
13063031 TTACCATTTT
63 TTACCATTTT
13063041 TCCTTGGCAT
Statistics
Matches: 207, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
172 1 0.00
173 70 0.34
174 126 0.61
175 9 0.04
176 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (172 bp):
AAAAATTACCATTTTACCCCTAAATTCCAAAAATTCCATTTTTGACCTTGAACTTCCAAAAATTA
CCATTTTACCCCAAACATCCAAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCATTTT
ACCCTCAGACTTCCAAAAATCCTTTTTACCCCAAACTTTCCC
Found at i:13069781 original size:29 final size:30
Alignment explanation
Indices: 13069738--13069897 Score: 132
Period size: 30 Copynumber: 5.4 Consensus size: 30
13069728 CGGGGTCTCT
* *
13069738 AAAATGGAGTTTTTGGAAGTTTAG-GGGTA
1 AAAATGTAATTTTTGGAAGTTTAGAGGGTA
*
13069767 GAAATGTAATTTTTGGAAGTTT-GAGGGTCA
1 AAAATGTAATTTTTGGAAGTTTAGAGGGT-A
** * *
13069797 AAAATGGGATTTTT--AAATGTTCGAGGGTA
1 AAAATGTAATTTTTGGAAGT-TTAGAGGGTA
* *
13069826 AAAATGTATTTTTTTGGAATTTTAG-GGGTA
1 AAAATGTA-ATTTTTGGAAGTTTAGAGGGTA
* * **
13069856 AAAATGTAATTTTTAGAAGTTTCGAGGCCA
1 AAAATGTAATTTTTGGAAGTTTAGAGGGTA
*
13069886 AAAATATAATTT
1 AAAATGTAATTT
13069898 CTGAACAGTT
Statistics
Matches: 104, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
28 4 0.04
29 44 0.42
30 50 0.48
31 3 0.03
32 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTAGAGGGTA
Found at i:13069831 original size:59 final size:59
Alignment explanation
Indices: 13069738--13069897 Score: 157
Period size: 59 Copynumber: 2.7 Consensus size: 59
13069728 CGGGGTCTCT
* * * *
13069738 AAAATGGAGTTTTTGGAAGTTTAG-GGGTAGAAATGTAATTTTTGGAAGTTTGA-GGGTCA
1 AAAATGGAATTTTTAGAAGTTTCGAGGGTAAAAATGTAATTTTTGGAA-TTTGAGGGGT-A
* * *
13069797 AAAATGGGATTTTTA-AA-TGTTCGAGGGTAAAAATGTATTTTTTTGGAATTTTAGGGGTA
1 AAAATGGAATTTTTAGAAGT-TTCGAGGGTAAAAATGTA-ATTTTTGGAATTTGAGGGGTA
* ** *
13069856 AAAATGTAATTTTTAGAAGTTTCGAGGCCAAAAATATAATTT
1 AAAATGGAATTTTTAGAAGTTTCGAGGGTAAAAATGTAATTT
13069898 CTGAACAGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
57 1 0.01
58 5 0.06
59 45 0.55
60 30 0.37
61 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (59 bp):
AAAATGGAATTTTTAGAAGTTTCGAGGGTAAAAATGTAATTTTTGGAATTTGAGGGGTA
Found at i:13073925 original size:29 final size:29
Alignment explanation
Indices: 13073812--13074274 Score: 192
Period size: 30 Copynumber: 15.8 Consensus size: 29
13073802 ATGCCCAGGG
* *
13073812 AAAAATGGTAATTTTTAGGAAGTTCGAGGT
1 AAAAATGGTAATTTTT-GGAAGTTTGGGGT
* *
13073842 CAAAAATGG-AATTTTTAGACA-TTAGAGGGT
1 -AAAAATGGTAATTTTTGGA-AGTTTG-GGGT
* *
13073872 -AAAATGGCAATTTTTGGAAAATTTGGGGT
1 AAAAATGGTAATTTTTGG-AAGTTTGGGGT
*
13073901 AAAAAATGG-AATTTTTGGATGTTTGGGGGT
1 -AAAAATGGTAATTTTTGGAAGTTT-GGGGT
* **
13073931 -AAAATGGTAATTTTGGGAAAG-TTAAGGT
1 AAAAATGGTAATTTTTGG-AAGTTTGGGGT
13073959 CAAAAATGG-AATTTTTGGAAGTTTAGGGGT
1 -AAAAATGGTAATTTTTGGAAGTTT-GGGGT
****
13073989 -AAAATGGTAATTTTTGGGAAGTTCAAAGT
1 AAAAATGGTAATTTTT-GGAAGTTTGGGGT
*
13074018 AAATAATGG-AATTTTTGGACA-TTCGGGGGT
1 AAA-AATGGTAATTTTTGGA-AGTT-TGGGGT
**
13074048 -AAAATGGTAATTTGGGGAAAGTTTGGGGTT
1 AAAAATGGTAATTTTTGG-AAGTTTGGGG-T
*** ****
13074078 AAAAA-CAAAATTTTTGGAAGTCCAAGGT
1 AAAAATGGTAATTTTTGGAAGTTTGGGGT
* * * *
13074106 AAAAATGGTAGTTTTTAAGAAGTCTAGGGT
1 AAAAATGGTAATTTTT-GGAAGTTTGGGGT
* * *
13074136 CAAAAATTG-AATTTTTGGAAATTTATGGGT
1 -AAAAATGGTAATTTTTGGAAGTTT-GGGGT
* *
13074166 -AAAATGGTAATTTTTTTGAAG-TT--CGT
1 AAAAATGGTAA-TTTTTGGAAGTTTGGGGT
* * * *
13074192 GATAAT-GTAAATTTTGTAAAGTTTGGGGT
1 AAAAATGGTAATTTTTG-GAAGTTTGGGGT
* *
13074221 CAAAAT-GTAACTTTTGGAAAGTTTGGGGGT
1 AAAAATGGTAATTTTTGG-AAGTTT-GGGGT
* * *
13074251 CAAAAT-ATGATTTTTGGACAGTTT
1 AAAAATGGTAATTTTTGGA-AGTTT
13074275 AGGGACCTTT
Statistics
Matches: 330, Mismatches: 63, Indels: 79
0.70 0.13 0.17
Matches are distributed among these distances:
25 4 0.01
26 9 0.03
27 6 0.02
28 44 0.13
29 113 0.34
30 123 0.37
31 31 0.09
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAAATGGTAATTTTTGGAAGTTTGGGGT
Found at i:13073993 original size:117 final size:118
Alignment explanation
Indices: 13073813--13074070 Score: 326
Period size: 117 Copynumber: 2.2 Consensus size: 118
13073803 TGCCCAGGGA
* *
13073813 AAAATGGTAATTTTTAGG-AAGTTCGAGGTCAAAAATGGAATTTTTAGACATTAGAGGGTAAAAT
1 AAAATGGTAA-TTTTGGGAAAGTTCAAGGTCAAAAATGGAATTTTTAGACATTAGAGGGTAAAAT
**** ** *
13073877 GGCAATTTTTGGAAAATTTGGGGTAAAAAATGGAATTTTTGGATGTTTGGGGGT
65 GGCAATTTTTGGAAAATTCAAAGTAAAAAATGGAATTTTTGGACATTCGGGGGT
*
13073931 AAAATGGTAATTTTGGGAAAGTT-AAGGTCAAAAATGGAATTTTTGGA-AGTTTAG-GGGTAAAA
1 AAAATGGTAATTTTGGGAAAGTTCAAGGTCAAAAATGGAATTTTTAGACA--TTAGAGGGTAAAA
* * * *
13073993 TGGTAATTTTTGGGAAGTTCAAAGTAAATAATGGAATTTTTGGACATTCGGGGGT
64 TGGCAATTTTTGGAAAATTCAAAGTAAAAAATGGAATTTTTGGACATTCGGGGGT
*
13074048 AAAATGGTAATTTGGGGAAAGTT
1 AAAATGGTAATTTTGGGAAAGTT
13074071 TGGGGTTAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
116 1 0.01
117 102 0.84
118 19 0.16
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (118 bp):
AAAATGGTAATTTTGGGAAAGTTCAAGGTCAAAAATGGAATTTTTAGACATTAGAGGGTAAAATG
GCAATTTTTGGAAAATTCAAAGTAAAAAATGGAATTTTTGGACATTCGGGGGT
Found at i:13074187 original size:59 final size:58
Alignment explanation
Indices: 13073813--13074180 Score: 305
Period size: 59 Copynumber: 6.3 Consensus size: 58
13073803 TGCCCAGGGA
* * * *
13073813 AAAATGGTAATTTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTAGACA-TTAGAGGGT
1 AAAATGGTAATTTTTGGGAAGTTAG-GGTCAAAAATGGAATTTTTGGAAATTTAG-GGGT
* * * * * ** *
13073872 AAAATGGCAATTTTTGGAAAATTTGGGGTAAAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTTGG-GAAGTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
* *
13073931 AAAATGGTAA-TTTTGGGAAAGTTAAGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGG-AAGTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
** * **
13073989 AAAATGGTAATTTTTGGGAAGTTCAAAGT-AAATAATGGAATTTTTGGACATTCGGGGGT
1 AAAATGGTAATTTTTGGGAAGTT-AGGGTCAAA-AATGGAATTTTTGGAAATTTAGGGGT
* * * *** * ** *
13074048 AAAATGGTAA-TTTGGGGAAAGTTTGGGGTTAAAAACAAAATTTTTGGAAGTCCA-AGGT
1 AAAATGGTAATTTTTGGG-AAG-TTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
* ** * *
13074106 AAAAATGGTAGTTTTTAAGAAGTCTAGGGTCAAAAATTGAATTTTTGGAAATTTATGGGT
1 -AAAATGGTAATTTTTGGGAAGT-TAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
13074166 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
13074181 TTGAAGTTCG
Statistics
Matches: 247, Mismatches: 49, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
58 68 0.28
59 159 0.64
60 20 0.08
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGGAAGTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
Found at i:13075643 original size:17 final size:17
Alignment explanation
Indices: 13075623--13075662 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
13075613 ATTTTAAATT
13075623 TAAATATAAAT-TTAAAA
1 TAAAT-TAAATCTTAAAA
*
13075640 TAAATTTAATCTTAAAA
1 TAAATTAAATCTTAAAA
13075657 TAAATT
1 TAAATT
13075663 TAAAATGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTAAATCTTAAAA
Found at i:13075668 original size:11 final size:12
Alignment explanation
Indices: 13075617--13075648 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13075607 AGAATAATTT
13075617 TAAATTTAAATA
1 TAAATTTAAATA
13075629 TAAATTTAAA-A
1 TAAATTTAAATA
13075640 TAAATTTAA
1 TAAATTTAA
13075649 TCTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:13078526 original size:6 final size:6
Alignment explanation
Indices: 13078506--13078575 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
13078496 ATCGGGCCCT
* * * *
13078506 TTTAAA TTT-AT TTTAAA TTTAGA TTT-AT TTTAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
13078552 TTTAAA TTT-AT TTTCAAA TTTAAA
1 TTTAAA TTTAAA TTT-AAA TTTAAA
13078576 AAAAAAAACA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
5 11 0.22
6 35 0.70
7 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:13078531 original size:17 final size:17
Alignment explanation
Indices: 13078506--13078575 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 17
13078496 ATCGGGCCCT
13078506 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13078523 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13078540 TTT-GA---A-TTTAAA
1 TTTAAATTTATTTTAAA
13078552 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
13078570 TTTAAA
1 TTTAAA
13078576 AAAAAAAACA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 9 0.20
13 2 0.04
16 3 0.07
17 22 0.49
18 9 0.20
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:13080465 original size:30 final size:29
Alignment explanation
Indices: 13080421--13080572 Score: 123
Period size: 29 Copynumber: 5.2 Consensus size: 29
13080411 TAAACTGTTC
* **
13080421 AAAAATTATATTTTGGCCTCGAAACTTCT
1 AAAAATTACATTTTTACCTCGAAACTTCT
* * * * *
13080450 AAAAATTACATTTTTGCCGCTAAAATTCA
1 AAAAATTACATTTTTACCTCGAAACTTCT
* **
13080479 AAAAATTACATTTTTACACT-AAAAAATCT
1 AAAAATTACATTTTTAC-CTCGAAACTTCT
**
13080508 AAAAATCCCATTTTTGAACC-CGAAACTTCT
1 AAAAATTACATTTTT--ACCTCGAAACTTCT
13080538 AAAAATTACATTTTTACCCTCG-AACTTC-
1 AAAAATTACATTTTTA-CCTCGAAACTTCT
13080566 AAAAATT
1 AAAAATT
13080573 CCATACATTT
Statistics
Matches: 99, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
28 8 0.08
29 66 0.67
30 23 0.23
31 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAAATTACATTTTTACCTCGAAACTTCT
Found at i:13080563 original size:29 final size:29
Alignment explanation
Indices: 13080437--13080591 Score: 109
Period size: 29 Copynumber: 5.2 Consensus size: 29
13080427 TATATTTTGG
*
13080437 CCTCGAAACTTCTAAAAATTACATTTTTGC
1 CCTCG-AACTTCTAAAAATTACATTTTTAC
* * *
13080467 CGCT-AAAATTCAAAAAATTACATTTTTAC
1 C-CTCGAACTTCTAAAAATTACATTTTTAC
* ** ** ** *
13080496 ACTAAAAAATCTAAAAATCCCATTTTTGAA
1 CCTCGAACTTCTAAAAATTACATTTTT-AC
13080526 CC-CGAAACTTCTAAAAATTACATTTTTAC
1 CCTCG-AACTTCTAAAAATTACATTTTTAC
13080555 CCTCGAACTTC-AAAAATTCCATACATTTTTAC
1 CCTCGAACTTCTAAAAA-T---TACATTTTTAC
13080587 CCTCG
1 CCTCG
13080592 GATGTCCAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
28 7 0.07
29 50 0.51
30 23 0.23
31 2 0.02
32 16 0.16
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (29 bp):
CCTCGAACTTCTAAAAATTACATTTTTAC
Found at i:13080609 original size:33 final size:32
Alignment explanation
Indices: 13080544--13080609 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
13080534 TTCTAAAAAT
*
13080544 TACATTTTTACCCTCGAACTTCAAAAATTCCA
1 TACATTTTTACCCTCGAACTTCAAAAACTCCA
*
13080576 TACATTTTTACCCTCGGA-TGTCCAAAAACTCCA
1 TACATTTTTACCCTCGAACT-T-CAAAAACTCCA
13080609 T
1 T
13080610 TTTGGACCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 1 0.03
32 18 0.60
33 11 0.37
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (32 bp):
TACATTTTTACCCTCGAACTTCAAAAACTCCA
Found at i:13080653 original size:59 final size:60
Alignment explanation
Indices: 13080581--13080720 Score: 189
Period size: 59 Copynumber: 2.4 Consensus size: 60
13080571 TTCCATACAT
* *
13080581 TTTTAC-CCTCGGATGTCCAAAAACTCCATTTTGGACCCCGAAACTTT-CAAAAATTACCG
1 TTTTACTCCTCGGATGTCCAAAAAATCCATTTTGGACCCCG-AACTTTCCAAAAATTACCA
* * *
13080640 TTTTACTCC-CGGATGTCCAAAAAATCCATTTTTGATCCCGAATTTTCCAAAAATTACCA
1 TTTTACTCCTCGGATGTCCAAAAAATCCATTTTGGACCCCGAACTTTCCAAAAATTACCA
*
13080699 TTTTA-TCCTCGGATGTCTAAAA
1 TTTTACTCCTCGGATGTCCAAAA
13080721 TGTTATTTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
58 8 0.11
59 62 0.86
60 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (60 bp):
TTTTACTCCTCGGATGTCCAAAAAATCCATTTTGGACCCCGAACTTTCCAAAAATTACCA
Found at i:13080660 original size:29 final size:28
Alignment explanation
Indices: 13080628--13080720 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
13080618 CCGAAACTTT
*
13080628 CAAAAATTACCGTTTTACTCCCGGATGTC
1 CAAAAATTACCATTTTA-TCCCGGATGTC
* * *
13080657 CAAAAAAT-CCATTTTTGATCCCGAATTTTC
1 CAAAAATTACCA-TTTT-ATCCCGGA-TGTC
13080687 CAAAAATTACCATTTTATCCTCGGATGTC
1 CAAAAATTACCATTTTATCC-CGGATGTC
*
13080716 TAAAA
1 CAAAA
13080721 TGTTATTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 2 0.04
29 28 0.55
30 18 0.35
31 3 0.06
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (28 bp):
CAAAAATTACCATTTTATCCCGGATGTC
Found at i:13094673 original size:13 final size:12
Alignment explanation
Indices: 13094650--13094681 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13094640 TATTTTAGGA
13094650 TTAAATTTAT-T
1 TTAAATTTATAT
13094661 TTAAATTTATAT
1 TTAAATTTATAT
13094673 TTAAATTTA
1 TTAAATTTA
13094682 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:13094674 original size:17 final size:18
Alignment explanation
Indices: 13094632--13094675 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
13094622 CTAAATCCAT
*
13094632 TTTAAATTTATTTTAGGA
1 TTTAAATTTATTTTAGAA
13094650 -TTAAATTTATTTTA-AA
1 TTTAAATTTATTTTAGAA
*
13094666 TTTATATTTA
1 TTTAAATTTA
13094676 AATTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTAAATTTATTTTAGAA
Found at i:13094683 original size:18 final size:17
Alignment explanation
Indices: 13094660--13094701 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
13094650 TTAAATTTAT
*
13094660 TTTAAATTTATATTTAAA
1 TTTAAATTTAT-TCTAAA
*
13094678 TTTAAAATTATTCTAAA
1 TTTAAATTTATTCTAAA
13094695 TTTAAAT
1 TTTAAAT
13094702 AAACAAAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTCTAAA
Found at i:13094688 original size:29 final size:28
Alignment explanation
Indices: 13094630--13094698 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
13094620 AACTAAATCC
* *
13094630 ATTTTAAATTTATTTTAGGATTAAATTT
1 ATTTTAAATTTATTTTAGAATTAAAATT
13094658 ATTTTAAATTTATATTTA-AATTTAAAATT
1 ATTTTAAATTTAT-TTTAGAA-TTAAAATT
*
13094687 ATTCTAAATTTA
1 ATTTTAAATTTA
13094699 AATAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (28 bp):
ATTTTAAATTTATTTTAGAATTAAAATT
Found at i:13094824 original size:3 final size:3
Alignment explanation
Indices: 13094816--13094878 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
13094806 AAATAGTATC
* * ** *
13094816 AAT AAT AAT CAAT AAT AAT AAT ACT ATT CTT AAT AGT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13094862 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
13094879 GGCAGTCGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:13096043 original size:30 final size:30
Alignment explanation
Indices: 13096007--13096467 Score: 104
Period size: 30 Copynumber: 15.6 Consensus size: 30
13095997 TAAAAATCAT
13096007 ATTTTGACCCTTAAACTTTCCAAGAA-TTAC
1 ATTTTGACCCTTAAACTTTCCAA-AATTTAC
*
13096037 ATTTTGACCCTTGAACTTTCCAAAATTTAC
1 ATTTTGACCCTTAAACTTTCCAAAATTTAC
* ** *
13096067 ATTATTG-CACTCGAAC-TTCACAAAAATTACC
1 ATT-TTGACCCTTAAACTTTC-CAAAATTTA-C
**
13096098 ATTTT-A-CCTCGAA-TTTCCAAAAATTCTA-
1 ATTTTGACCCTTAAACTTTCC-AAAATT-TAC
* * *
13096126 TTTTTGACCC-CAAACTTTTCCATAA-TTACC
1 ATTTTGACCCTTAAAC-TTTCCAAAATTTA-C
* * * * *
13096156 ATTCT-ACCCCTAAA-TGTCCAAAAATTCC
1 ATTTTGACCCTTAAACTTTCCAAAATTTAC
* * *
13096184 ATTTTTCACCC-TAAACTTGCCAAAAATTACC
1 A-TTTTGACCCTTAAACTTTCCAAAATTTA-C
*
13096215 ATTTT-ACGCC-CAAAC-TTCCAAAAATTCTA-
1 ATTTTGAC-CCTTAAACTTTCC-AAAATT-TAC
* *
13096244 TTTTTGACCC-CAAACTTTCCCAAAA-TTACC
1 ATTTTGACCCTTAAACTTT-CCAAAATTTA-C
* *** * * * *
13096274 A-TTTCACCCCCGAA-TGTCTAAAAATTCC
1 ATTTTGACCCTTAAACTTTCCAAAATTTAC
*
13096302 ATTTTTGACTCC--AAAC-TTCCCAAATATTACC
1 A-TTTTGAC-CCTTAAACTTTCCAAAAT-TTA-C
* * *
13096333 ATTTT-ACCCTTAGAC-TTCCAAAAATTCC
1 ATTTTGACCCTTAAACTTTCCAAAATTTAC
** *
13096361 ATTTTTGA-CCTCGAACTTTCCCAAAATTAAC
1 A-TTTTGACCCTTAAACTTT-CCAAAATTTAC
* *
13096392 ATTTT-ACCCTCAAAC-ATCCAAAAATTTTA-
1 ATTTTGACCCTTAAACTTTCC-AAAA-TTTAC
* * *
13096421 TTTTTGA-CCTCATACTTTCCTAAAA-TTACC
1 ATTTTGACCCTTAAACTTTCC-AAAATTTA-C
13096451 ATTTT-ACCCTTAAACTT
1 ATTTTGACCCTTAAACTT
13096468 CAAAAAATTC
Statistics
Matches: 325, Mismatches: 56, Indels: 100
0.68 0.12 0.21
Matches are distributed among these distances:
28 34 0.10
29 103 0.32
30 157 0.48
31 31 0.10
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (30 bp):
ATTTTGACCCTTAAACTTTCCAAAATTTAC
Found at i:13096180 original size:59 final size:57
Alignment explanation
Indices: 13096080--13096574 Score: 421
Period size: 59 Copynumber: 8.5 Consensus size: 57
13096070 ATTGCACTCG
* * * * *
13096080 AACTTCACAAAAATTACCATTTTACCTCGAATTTCCAAAAATTCTATTTTTGACCCCA
1 AACTTC-CCAAAATTACCATTTTACCCCTAAATTCCAAAAATTCCATTTTTGACCCCA
* * * * *
13096138 AACTTTTCCATAATTACCATTCTACCCCTAAATGTCCAAAAATTCCATTTTTCACCCTA
1 AAC-TTCCCAAAATTACCATTTTACCCCTAAAT-TCCAAAAATTCCATTTTTGACCCCA
* *
13096197 AACTTGCCAAAAATTACCATTTTACGCCC-AAACTTCCAAAAATTCTATTTTTGACCCCA
1 AACTT-CCCAAAATTACCATTTTAC-CCCTAAA-TTCCAAAAATTCCATTTTTGACCCCA
* ** * *
13096256 AACTTTCCCAAAATTACCATTTCACCCCCGAATGTCTAAAAATTCCATTTTTGACTCCA
1 AAC-TTCCCAAAATTACCATTTTACCCCTAAAT-TCCAAAAATTCCATTTTTGACCCCA
* * * *
13096315 AACTTCCCAAATATTACCATTTTACCCTTAGACTTCCAAAAATTCCATTTTTGACCTCG
1 AACTTCCCAAA-ATTACCATTTTACCCCTA-AATTCCAAAAATTCCATTTTTGACCCCA
* * ** *
13096374 AACTTTCCCAAAATTAACATTTTA-CCCTCAAACATCCAAAAATTTTATTTTTGACCTCA
1 AAC-TTCCCAAAATTACCATTTTACCCCT-AAA-TTCCAAAAATTCCATTTTTGACCCCA
* * * * *
13096433 TACTTTCCTAAAATTACCATTTTACCCTTAAACTTCAAAAAATTCCA--TTT---CCTA
1 AAC-TTCCCAAAATTACCATTTTACCCCTAAA-TTCCAAAAATTCCATTTTTGACCCCA
* * * * *
13096487 AACTTTCCCAAAATTACCATTTTAACCCC-GAATGTCCAAAATTTCCATTTTTAACCTCG
1 AAC-TTCCCAAAATTACCATTTT-ACCCCTAAAT-TCCAAAAATTCCATTTTTGACCCCA
* *
13096546 AACTTCCTAAAAATTACCATTTTTCCCCT
1 AACTTCC-CAAAATTACCATTTTACCCCT
13096575 GGCATCGAAA
Statistics
Matches: 354, Mismatches: 60, Indels: 45
0.77 0.13 0.10
Matches are distributed among these distances:
53 1 0.00
54 36 0.10
55 4 0.01
56 3 0.01
57 3 0.01
58 49 0.14
59 239 0.68
60 19 0.05
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (57 bp):
AACTTCCCAAAATTACCATTTTACCCCTAAATTCCAAAAATTCCATTTTTGACCCCA
Found at i:13096181 original size:29 final size:27
Alignment explanation
Indices: 13096080--13096573 Score: 237
Period size: 29 Copynumber: 17.0 Consensus size: 27
13096070 ATTGCACTCG
* *
13096080 AACTTCACAAAAATTACCATTTTACCTCG
1 AACTTC-CAAAAATT-CCATTTTACCCCA
* *
13096109 AATTTCCAAAAATTCTATTTTTGACCCCA
1 AACTTCCAAAAATTCCA-TTTT-ACCCCA
* *
13096138 AACTTTTCC-ATAATTACCATTCTACCCCTA
1 AAC--TTCCAAAAATT-CCATTTTACCCC-A
*
13096168 AA-TGTCCAAAAATTCCATTTTTCACCCTA
1 AACT-TCCAAAAATTCCA-TTTT-ACCCCA
13096197 AACTTGCCAAAAATTACCATTTTACGCCCA
1 AACTT-CCAAAAATT-CCATTTTAC-CCCA
*
13096227 AACTTCCAAAAATTCTATTTTTGACCCCA
1 AACTTCCAAAAATTCCA-TTTT-ACCCCA
* * *
13096256 AACTTTCCCAAAATTACCATTTCACCCCCG
1 AAC-TTCCAAAAATT-CCATTTTA-CCCCA
* *
13096286 AA-TGTCTAAAAATTCCATTTTTGACTCCA
1 AACT-TCCAAAAATTCCA-TTTT-ACCCCA
* *
13096315 AACTTCCCAAATATTACCATTTTACCCTTA
1 AACTT-CCAAAAATT-CCATTTTACCC-CA
* * *
13096345 GACTTCCAAAAATTCCATTTTTGACCTCG
1 AACTTCCAAAAATTCCA-TTTT-ACCCCA
* *
13096374 AACTTTCCCAAAATTAACATTTTACCCTCA
1 AAC-TTCCAAAAATT-CCATTTTACCC-CA
* ** *
13096404 AACATCCAAAAATTTTATTTTTGACCTCA
1 AACTTCCAAAAATTCCA-TTTT-ACCCCA
* * *
13096433 TACTTTCCTAAAATTACCATTTTACCCTTA
1 AAC-TTCCAAAAATT-CCATTTTACCC-CA
* *
13096463 AACTTCAAAAAATTCCA-TTT--CCTA
1 AACTTCCAAAAATTCCATTTTACCCCA
* *
13096487 AACTTTCCCAAAATTACCATTTTAACCCCG
1 AAC-TTCCAAAAATT-CCATTTT-ACCCCA
* * *
13096517 AA-TGTCCAAAATTTCCATTTTTAACCTCG
1 AACT-TCCAAAAATTCCA-TTTT-ACCCCA
*
13096546 AACTTCCTAAAAATTACCATTTTTCCCC
1 AACTTCC-AAAAATT-CCATTTTACCCC
13096574 TGGCATCGAA
Statistics
Matches: 357, Mismatches: 61, Indels: 94
0.70 0.12 0.18
Matches are distributed among these distances:
24 5 0.01
25 11 0.03
26 3 0.01
27 9 0.03
28 35 0.10
29 143 0.40
30 131 0.37
31 20 0.06
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (27 bp):
AACTTCCAAAAATTCCATTTTACCCCA
Found at i:13096234 original size:118 final size:119
Alignment explanation
Indices: 13096008--13096568 Score: 521
Period size: 118 Copynumber: 4.8 Consensus size: 119
13095998 AAAAATCATA
* * * * * * * *
13096008 TTTTGACCCTTAAACTTT-CCAAGAATTA-CATTTTGACCCTTGAACTTTCCAAAATTTACATTA
1 TTTTGACCC-CAAACTTTCCCAA-AATTACCATTTTAACCCCT-AAATGTCCAAAAATTCCATTT
* * * * *
13096071 TTG-CACTCGAACTTCACAAAAATTACCATTTTA-CCTCGAATTTCCAAAAATTCTAT
63 TTGACCCTCAAACTTC-CAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCAT
* * * *
13096127 TTTTGACCCCAAACTTTTCCATAATTACCATTCT-ACCCCTAAATGTCCAAAAATTCCATTTTTC
1 TTTTGACCCCAAACTTTCCCAAAATTACCATTTTAACCCCTAAATGTCCAAAAATTCCATTTTTG
*
13096191 ACCCT-AAACTTGCCAAAAATTACCATTTTACGCC-CAAACTTCCAAAAATTCTAT
66 ACCCTCAAACTT-CCAAAAATTACCATTTTAC-CCTCAAACTTCCAAAAATTCCAT
* ** *
13096245 TTTTGACCCCAAACTTTCCCAAAATTACCA-TTTCACCCCCGAATGTCTAAAAATTCCATTTTTG
1 TTTTGACCCCAAACTTTCCCAAAATTACCATTTTAACCCCTAAATGTCCAAAAATTCCATTTTTG
* * * *
13096309 ACTC-CAAACTTCCCAAATATTACCATTTTACCCTTAGACTTCCAAAAATTCCAT
66 ACCCTCAAACTT-CCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCAT
* * * ** **
13096363 TTTTGACCTCGAACTTTCCCAAAATTAACATTTT-A-CCCTCAAACATCCAAAAATTTTATTTTT
1 TTTTGACCCCAAACTTTCCCAAAATTACCATTTTAACCCCT-AAATGTCCAAAAATTCCATTTTT
* * * *
13096426 GA-CCTCATACTTTCCTAAAATTACCATTTTACCCTTAAACTTCAAAAAATTCCA-
65 GACCCTCAAAC-TTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCAT
* * *
13096480 -TTT---CCTAAACTTTCCCAAAATTACCATTTTAACCCC-GAATGTCCAAAATTTCCATTTTT-
1 TTTTGACCCCAAACTTTCCCAAAATTACCATTTTAACCCCTAAATGTCCAAAAATTCCATTTTTG
* *
13096539 AACCTCGAACTTCCTAAAAATTACCATTTT
66 ACCCTCAAACTTCC-AAAAATTACCATTTT
13096569 TCCCCTGGCA
Statistics
Matches: 369, Mismatches: 56, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
112 5 0.01
113 60 0.16
114 1 0.00
115 3 0.01
116 3 0.01
117 48 0.13
118 225 0.61
119 24 0.07
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (119 bp):
TTTTGACCCCAAACTTTCCCAAAATTACCATTTTAACCCCTAAATGTCCAAAAATTCCATTTTTG
ACCCTCAAACTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCAT
Found at i:13096318 original size:177 final size:173
Alignment explanation
Indices: 13096089--13096568 Score: 539
Period size: 177 Copynumber: 2.7 Consensus size: 173
13096079 GAACTTCACA
* * * *
13096089 AAAATTACCATTTTA-CCTCGAATTTCCAAAAATTCTATTTTTGACCCCAAACTTTTCCATAATT
1 AAAATTACCATTTTACCCTCGAA-TTCAAAAAATTCCATTTTTGA-CCCAAACTTTCCCAAAATT
* *
13096153 ACCATTCTACCCCTAAATGTCCAAAAATTCCATTTTTCACC-CTAAACTTGCCAAAAATTACCAT
64 ACCATTTTACCCCTAAATGTCCAAAAATTCCATTTTT-ACCTC-GAACTT-CCAAAAATTACCAT
*
13096217 TTTACGCC-CAAACTTCCAAAAATTCTATTTTTGACCCCAAACTTTCCC
126 TTTAC-CCTCAAACATCCAAAAATTCTATTTTTGACCCCAAACTTTCCC
* * *
13096265 AAAATTACCATTTCACCCCCGAATGTCTAAAAATTCCATTTTTGACTCCAAAC-TTCCCAAATAT
1 AAAATTACCATTTTACCCTCGAAT-TCAAAAAATTCCATTTTTGAC-CCAAACTTTCCCAAA-AT
* * * *
13096329 TACCATTTTACCCTTAGACT-TCCAAAAATTCCATTTTTGACCTCGAACTTTCCCAAAATTAACA
63 TACCATTTTACCCCTA-AATGTCCAAAAATTCCATTTTT-ACCTCGAAC-TTCCAAAAATTACCA
* * * *
13096393 TTTTACCCTCAAACATCCAAAAATTTTATTTTTGACCTCATACTTTCCT
125 TTTTACCCTCAAACATCCAAAAATTCTATTTTTGACCCCAAACTTTCCC
** *
13096442 AAAATTACCATTTTACCCTTAAACTTCAAAAAATTCCA--TTT--CCTAAACTTTCCCAAAATTA
1 AAAATTACCATTTTACCCTCGAA-TTCAAAAAATTCCATTTTTGACCCAAACTTTCCCAAAATTA
* *
13096503 CCATTTTAACCCC-GAATGTCCAAAATTTCCATTTTTAACCTCGAACTTCCTAAAAATTACCATT
65 CCATTTT-ACCCCTAAATGTCCAAAAATTCCATTTTT-ACCTCGAACTTCC-AAAAATTACCATT
13096567 TT
127 TT
13096569 TCCCCTGGCA
Statistics
Matches: 260, Mismatches: 31, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
171 6 0.02
172 55 0.21
173 13 0.05
175 3 0.01
176 24 0.09
177 153 0.59
178 6 0.02
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (173 bp):
AAAATTACCATTTTACCCTCGAATTCAAAAAATTCCATTTTTGACCCAAACTTTCCCAAAATTAC
CATTTTACCCCTAAATGTCCAAAAATTCCATTTTTACCTCGAACTTCCAAAAATTACCATTTTAC
CCTCAAACATCCAAAAATTCTATTTTTGACCCCAAACTTTCCC
Found at i:13100319 original size:23 final size:23
Alignment explanation
Indices: 13100300--13100349 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
13100290 GCCTTTTCTT
13100300 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATTTTTTC
* ** *
13100323 GCATTGCATATTTGCATATTTTC
1 GCATTACATACATGCATTTTTTC
13100346 GCAT
1 GCAT
13100350 AGCATATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (23 bp):
GCATTACATACATGCATTTTTTC
Found at i:13100354 original size:23 final size:23
Alignment explanation
Indices: 13100312--13100370 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
13100302 ATTACATACA
* *
13100312 TGCATTTTTTCGCATTGCATATT
1 TGCATATTTTCGCATAGCATATT
13100335 TGCATATTTTCGCATAGCATATT
1 TGCATATTTTCGCATAGCATATT
13100358 TGCATATTTTCGC
1 TGCATATTTTCGC
13100371 GTAATAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (23 bp):
TGCATATTTTCGCATAGCATATT
Found at i:13108372 original size:23 final size:23
Alignment explanation
Indices: 13108308--13108366 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
13108298 GAATTATTAC
*
13108308 GCGAAAATATGCAAATATGCTAT
1 GCGAAAATATGCAAATATGCAAT
13108331 GCGAAAATATGCAAATATGCAAT
1 GCGAAAATATGCAAATATGCAAT
*
13108354 GCGAAAAAATGCA
1 GCGAAAATATGCA
13108367 TGTATGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (23 bp):
GCGAAAATATGCAAATATGCAAT
Found at i:13108385 original size:23 final size:23
Alignment explanation
Indices: 13108323--13108390 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
13108313 AATATGCAAA
* * * **
13108323 TATGCTATGCGAAAATATGCAAA
1 TATGCAATGCGAAAAAAGGCATG
*
13108346 TATGCAATGCGAAAAAATGCATG
1 TATGCAATGCGAAAAAAGGCATG
*
13108369 TATGTAATGC-AAGAAAAGGCAT
1 TATGCAATGCGAA-AAAAGGCAT
13108391 TGATTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (23 bp):
TATGCAATGCGAAAAAAGGCATG
Found at i:13112170 original size:29 final size:31
Alignment explanation
Indices: 13112116--13112394 Score: 131
Period size: 30 Copynumber: 9.6 Consensus size: 31
13112106 ATGCCAGGGG
13112116 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
1 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
*
13112147 AAAAATGG-AATTTTT-GGACA-TTCGGGGTT
1 AAAAATGGTAATTTTTAGGA-AGTTCGAGGTT
* *
13112176 -AAAATGGTAA-TTTTGGGAAAGTT-TAGG--
1 AAAAATGGTAATTTTTAGG-AAGTTCGAGGTT
** *
13112203 --AAATGG-AATTTTT-GGAAGTTTAAGGGT
1 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
*
13112230 -AAAATGGTAA-TTTTAGGAAAGTAT-GAGGTC
1 AAAAATGGTAATTTTTAGG-AAGT-TCGAGGTT
** * * *
13112260 AAAAAT-AAAATTTTT-GGATGTTTGAGGGT
1 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
* * *
13112289 -AAAATGTTAA-TTTTGGGAAAGTTCGAGGTC
1 AAAAATGGTAATTTTTAGG-AAGTTCGAGGTT
* *
13112319 AAAAATGG-AATTTTT-GGAAG-TCTAAGGGT
1 AAAAATGGTAATTTTTAGGAAGTTC-GAGGTT
* * * *
13112348 -AAAATGGTAATATTTGGGAAGTTTG-GAGTC
1 AAAAATGGTAATTTTTAGGAAGTTCGAG-GTT
13112378 AAAAATGG-AATTTTTAG
1 AAAAATGGTAATTTTTAG
13112395 ACATTCGGGG
Statistics
Matches: 191, Mismatches: 29, Indels: 57
0.69 0.10 0.21
Matches are distributed among these distances:
24 5 0.03
25 7 0.04
26 10 0.05
28 40 0.21
29 46 0.24
30 47 0.25
31 36 0.19
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (31 bp):
AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
Found at i:13112187 original size:59 final size:56
Alignment explanation
Indices: 13112112--13112539 Score: 395
Period size: 59 Copynumber: 7.4 Consensus size: 56
13112102 TTCGATGCCA
* * * *
13112112 GGGGAAAAATGGTAATTTTTAGG-AAGTTCGAGGTTAAAAATGGAATTTTTGGACATTC
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTT-GAGGTCAAAAATGGAATTTTTGGA-ATTT
*
13112170 GGGGTTAAAATGGTAATTTTGGGAAAGTTTAGG----AAATGGAATTTTTGGAAGTTT
1 GGGG-TAAAATGGTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAA-TTT
* * ** *
13112224 AAGGGTAAAATGGTAATTTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGATGTTT
1 -GGGGTAAAATGGTAATTTTGGGAAAGT-TGAGGTCAAAAATGGAATTTTTGGA-ATTT
* *
13112283 GAGGGTAAAATGTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAGTCTA
1 G-GGGTAAAATGGTAATTTTGGGAAAGTT-GAGGTCAAAAATGGAATTTTTGGAA-T-TT
* * *
13112343 AGGGTAAAATGGTAATATTTGGG-AAGTTTG-GAGTCAAAAATGGAATTTTTAGACATTCG
1 GGGGTAAAATGGTAAT-TTTGGGAAAG-TTGAG-GTCAAAAATGGAATTTTTGGA-ATT-T
* * *
13112402 GGGGTGAAATGGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTT
1 GGGGTAAAATGGTAATTTTGGGAAAG-TTGAGGTCAAAAATGGAATTTTTGGAA-TTT
* * *
13112460 GGGCGTAAAATGGTAATTTT-GGCAAGTTTAGGGTGAAAAATGGAATTTTTGGACATTT
1 GGG-GTAAAATGGTAATTTTGGGAAAGTTGA-GGTCAAAAATGGAATTTTTGGA-ATTT
*
13112518 GGGGGTAGAATGGTAATTTTGG
1 -GGGGTAAAATGGTAATTTTGG
13112540 AAAAAGAATT
Statistics
Matches: 310, Mismatches: 33, Indels: 53
0.78 0.08 0.13
Matches are distributed among these distances:
53 1 0.00
54 40 0.13
55 7 0.02
57 2 0.01
58 69 0.22
59 180 0.58
60 11 0.04
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAATTT
Found at i:13112215 original size:26 final size:24
Alignment explanation
Indices: 13112177--13112248 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 24
13112167 TTCGGGGTTA
13112177 AAATGGTAATTTTGGGAAAGTTTAGG
1 AAATGGTAATTTT-GG-AAGTTTAGG
13112203 AAATGG-AATTTTTGGAAGTTTAAGGG
1 AAATGGTAA-TTTTGGAAGTTT-A-GG
13112229 TAAAATGGTAATTTTAGGAA
1 --AAATGGTAATTTT-GGAA
13112249 AGTATGAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
24 6 0.15
25 5 0.13
26 12 0.31
28 10 0.26
29 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (24 bp):
AAATGGTAATTTTGGAAGTTTAGG
Found at i:13112379 original size:118 final size:116
Alignment explanation
Indices: 13112117--13112539 Score: 493
Period size: 118 Copynumber: 3.6 Consensus size: 116
13112107 TGCCAGGGGA
* * * *
13112117 AAAATGGTAATTTTTAGGAAG-TTCGAGGTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAAT
1 AAAATGGTAA-TTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
*
13112181 GGTAATTTTGGGAAAGTTTAGG----AAATGGAATTTTTGGAAGTTTAAGGGT
65 GGTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAAG-TTAAGGGT
* * ** ** * *
13112230 AAAATGGTAATTTTAGGAAAGTAT-GAGGTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAAT
1 AAAATGGTAATTTT-GGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
*
13112294 GTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAGTCTAAGGGT
65 GGTAATTTTGGGAAAGTT-GAGGTCAAAAATGGAATTTTTGGAAGT-TAAGGGT
* *
13112348 AAAATGGTAATATTTGGGAAGTTTGGA-GTCAAAAATGGAATTTTTAGACATTCGGGGGTGAAAT
1 AAAATGGTAAT-TTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * **
13112412 GGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTGGGCGT
65 GGTAATTTTGGGAAAG-TTGAGGTCAAAAATGGAATTTTTGGAAGTTAAGG-GT
* * * * *
13112466 AAAATGGTAATTTTGGCAAGTTTAG-GGTGAAAAATGGAATTTTTGGACATTTGGGGGTAGAATG
1 AAAATGGTAATTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATG
13112530 GTAATTTTGG
66 GTAATTTTGG
13112540 AAAAAGAATT
Statistics
Matches: 262, Mismatches: 35, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
112 4 0.02
113 63 0.24
114 4 0.02
117 59 0.23
118 125 0.48
119 7 0.03
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (116 bp):
AAAATGGTAATTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATG
GTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAAGTTAAGGGT
Found at i:13112434 original size:29 final size:29
Alignment explanation
Indices: 13112112--13112542 Score: 245
Period size: 29 Copynumber: 14.9 Consensus size: 29
13112102 TTCGATGCCA
* *
13112112 GGGGAAAAATGGTAATTTTTAGG-AAGTTC
1 GGGGTAAAATGGTAATTTTT-GGAAAGTTT
* * *
13112141 GAGGTTAAAAATGG-AATTTTTGGACA-TTC
1 G-GGGT-AAAATGGTAATTTTTGGAAAGTTT
*
13112170 GGGGTTAAAATGGTAATTTTGGGAAAGTTT
1 GGGG-TAAAATGGTAATTTTTGGAAAGTTT
*
13112200 -AGG--AAATGG-AATTTTTGG-AAGTTT
1 GGGGTAAAATGGTAATTTTTGGAAAGTTT
* * *
13112224 AAGGGTAAAATGGTAATTTTAGGAAAGTAT
1 -GGGGTAAAATGGTAATTTTTGGAAAGTTT
* ** *
13112254 GAGGTCAAAAAT-AAAATTTTTGG-ATGTTT
1 GGGGT--AAAATGGTAATTTTTGGAAAGTTT
* * *
13112283 GAGGGTAAAATGTTAATTTTGGGAAAGTTC
1 G-GGGTAAAATGGTAATTTTTGGAAAGTTT
* *
13112313 GAGGTCAAAAATGG-AATTTTTGG-AAGTCTA
1 GGGGT--AAAATGGTAATTTTTGGAAAGT-TT
* * *
13112343 AGGGTAAAATGGTAATATTTGGGAAGTTT
1 GGGGTAAAATGGTAATTTTTGGAAAGTTT
* * * *
13112372 GGAGTCAAAAATGG-AATTTTTAGACA-TTCG
1 GGGGT--AAAATGGTAATTTTTGGAAAGTT-T
* *
13112402 GGGGTGAAATGGTAATTTTGGGAAAGTTT
1 GGGGTAAAATGGTAATTTTTGGAAAGTTT
*
13112431 GGGGTCAAAAATAG-AATTTTTGG-AAGTTT
1 GGGGT--AAAATGGTAATTTTTGGAAAGTTT
*
13112460 GGGCGTAAAATGGTAA-TTTTGGCAAGTTT
1 GGG-GTAAAATGGTAATTTTTGGAAAGTTT
* *
13112489 AGGGTGAAAAATGG-AATTTTTGGACA-TTT
1 -GGG-GTAAAATGGTAATTTTTGGAAAGTTT
*
13112518 GGGGGTAGAATGGTAA-TTTTGGAAA
1 -GGGGTAAAATGGTAATTTTTGGAAA
13112543 AAGAATTTTT
Statistics
Matches: 309, Mismatches: 58, Indels: 71
0.71 0.13 0.16
Matches are distributed among these distances:
24 6 0.02
25 8 0.03
26 8 0.03
28 60 0.19
29 106 0.34
30 91 0.29
31 30 0.10
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTGGAAAGTTT
Found at i:13112537 original size:28 final size:29
Alignment explanation
Indices: 13112346--13112540 Score: 113
Period size: 28 Copynumber: 6.7 Consensus size: 29
13112336 AAGTCTAAGG
13112346 GTAAAATGGTAATATTTGGGA-AGTTTGGAGTC
1 GTAAAATGGTAAT-TTT-GGACAGTTTGG-G-C
* * * *
13112378 -AAAAATGG-AATTTTTAGACA-TTCGGGG
1 GTAAAATGGTAA-TTTTGGACAGTTTGGGC
* *
13112405 GTGAAATGGTAATTTTGGGAAAGTTTGGG-
1 GTAAAATGGTAATTTT-GGACAGTTTGGGC
*
13112434 GTCAAAAATAG-AATTTTTGGA-AGTTTGGGC
1 GT--AAAATGGTAA-TTTTGGACAGTTTGGGC
*
13112464 GTAAAATGGTAATTTTGG-CAAGTTTAGGGT
1 GTAAAATGGTAATTTTGGAC-AGTTT-GGGC
* *
13112494 GAAAAATGG-AATTTTTGGACA-TTTGGGG
1 GTAAAATGGTAA-TTTTGGACAGTTTGGGC
*
13112522 GTAGAATGGTAATTTTGGA
1 GTAAAATGGTAATTTTGGA
13112541 AAAAGAATTT
Statistics
Matches: 129, Mismatches: 17, Indels: 38
0.70 0.09 0.21
Matches are distributed among these distances:
28 40 0.31
29 35 0.27
30 36 0.28
31 18 0.14
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.34
Consensus pattern (29 bp):
GTAAAATGGTAATTTTGGACAGTTTGGGC
Found at i:13112654 original size:30 final size:30
Alignment explanation
Indices: 13112549--13112661 Score: 103
Period size: 30 Copynumber: 3.8 Consensus size: 30
13112539 GAAAAAGAAT
* *
13112549 TTTTGGAAA-TTCGA-GGT-AAAATGGTAAT
1 TTTTGGAAAGTTCAAGGGTCAAAAT-GTAAA
* *
13112577 TTTTGTG-AAGTTCGAGTG-CAATAATGTAAA
1 TTTTG-GAAAGTTCAAGGGTCAA-AATGTAAA
13112607 TTTTGGAAAGTTCAAGGGTCAAAATGT-AA
1 TTTTGGAAAGTTCAAGGGTCAAAATGTAAA
*
13112636 TTCTTGGAAAGTTTAAGGGTCAAAAT
1 TT-TTGGAAAGTTCAAGGGTCAAAAT
13112662 ATGATTTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
28 7 0.10
29 11 0.15
30 48 0.67
31 6 0.08
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTTGGAAAGTTCAAGGGTCAAAATGTAAA
Done.