Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 84 of 343
Found at i:27816357 original size:69 final size:69
Alignment explanation
Indices: 27816275--27816775 Score: 265
Period size: 69 Copynumber: 7.2 Consensus size: 69
27816265 CGAGCTTTGA
** * * ** * *
27816275 TTTTACAATTGGGAGCTTTGCTCTCACTATCTATTTTAAAGGCTATGGATCTTCTCCTGTGAA-C
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTATCTGTTTTAAAGGCTACAGATCTTCACCTATGAACC
27816339 TATGT
66 T-TGT
* * * *
27816344 TTTTACAGCTGGGAGCTTTGCTCTCGCTAAT-TGTTTTAGAGGCTGCAGCTTTTCACCTATGAAC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCT-ATCTGTTTTAAAGGCTACAGATCTTCACCTATGAAC
27816408 CTTGT
65 CTTGT
* * * * * * **
27816413 TTTCACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAAAGGCTGCAGCTCTTTGCCTA-GAAAC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTATCTGTTTTAAAGGCTACAGATCTTCACCTATG-AAC
27816477 CTTGT
65 CTTGT
** * * * * * * * * * **
27816482 TTTCCCAACTAGGAGCTTTACTCCCGCTAACTATTTTAAAGCCTACGGCTCTTCACCTGCGAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTATCTGTTTTAAAGGCTACAGATCTTCACCTATGAACC
27816547 TT-T
66 TTGT
* * * ** * * *** * *** *
27816550 TTTTCACAACTGAGAGCTTTGCCCTTACTAAT-TGTTTTAGAGGTTGTGGCTCTTCGTTTGTGAA
1 TTTT-ACAGCTGGGAGCTTTGCTCTCGCT-ATCTGTTTTAAAGGCTACAGATCTTCACCTATGAA
* *
27816614 CATTTT
64 CCTTGT
* * * ** * * * * ***
27816620 TTTTACAACTGGGAGCTTTGCTCTCACTAACTGTTTTAGTGGTTGCGGCTCTTCACCTGCAAACC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTATCTGTTTTAAAGGCTACAGATCTTCACCTATGAACC
27816685 TTGT
66 TTGT
* * ** * * **
27816689 TTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGGGGCTACGGCTCTTCACCTACAAAAC
1 TTTTACAGCTGGGAGCTTTGCTCTCGCTATCTGTTTTAAAGGCTACAGATCTTCACCTA-TGAAC
27816754 CTTGT
65 CTTGT
**
27816759 TTTTATTGCTGGGAGCT
1 TTTTACAGCTGGGAGCT
27816776 AACTGTTTTA
Statistics
Matches: 344, Mismatches: 78, Indels: 19
0.78 0.18 0.04
Matches are distributed among these distances:
68 7 0.02
69 302 0.88
70 35 0.10
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.39
Consensus pattern (69 bp):
TTTTACAGCTGGGAGCTTTGCTCTCGCTATCTGTTTTAAAGGCTACAGATCTTCACCTATGAACC
TTGT
Found at i:27816638 original size:207 final size:207
Alignment explanation
Indices: 27816286--27816746 Score: 487
Period size: 207 Copynumber: 2.2 Consensus size: 207
27816276 TTTACAATTG
* * * * * *
27816286 GGAGCTTTGCTCTCACTATCTATTTTAAAGGCTATGGATCTTCTCCTGTGAACTATGTTTTTACA
1 GGAGCTTTGCTCTCGCTAACTATTTTAAAGGCTACGGCTCTTCACCTGCGAACTATGTTTTTACA
* * * * * *
27816351 GCTGGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGCTGCAGCTTTTCACCTATGAACCTTGTTTT
66 ACTGAGAGCTTTGCCCTCACTAATTGTTTTAGAGGCTGCAGCTCTTCACCTATGAACATTGTTTT
* ** **
27816416 CACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAAAGGCTGCAGCTCTTTGCCTAG-AAACCTT
131 CACAACTGAGAGCTTTGCTCTCACTAACTGTTTTAAAGGCTGCAGCTCTTCACCT-GCAAACCTT
*
27816480 GTTTTCCCAACTA
195 GTTTTCACAACTA
* * *
27816493 GGAGCTTTACTCCCGCTAACTATTTTAAAGCCTACGGCTCTTCACCTGCGAACCT-T-TTTTTCA
1 GGAGCTTTGCTCTCGCTAACTATTTTAAAGGCTACGGCTCTTCACCTGCGAA-CTATGTTTTT-A
* * ** *** * *
27816556 CAACTGAGAGCTTTGCCCTTACTAATTGTTTTAGAGGTTGTGGCTCTTCGTTTGTGAACATTTTT
64 CAACTGAGAGCTTTGCCCTCACTAATTGTTTTAGAGGCTGCAGCTCTTCACCTATGAACATTGTT
* * ** * *
27816621 TTTACAACTGGGAGCTTTGCTCTCACTAACTGTTTTAGTGGTTGCGGCTCTTCACCTGCAAACCT
129 TTCACAACTGAGAGCTTTGCTCTCACTAACTGTTTTAAAGGCTGCAGCTCTTCACCTGCAAACCT
* * *
27816686 TGTTTTTACAGCTG
194 TGTTTTCACAACTA
* * **
27816700 GGAGCTTTGCTCTTGCTAACTGTTTTAGGGGCTACGGCTCTTCACCT
1 GGAGCTTTGCTCTCGCTAACTATTTTAAAGGCTACGGCTCTTCACCT
27816747 ACAAAACCTT
Statistics
Matches: 205, Mismatches: 46, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
206 6 0.03
207 197 0.96
208 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (207 bp):
GGAGCTTTGCTCTCGCTAACTATTTTAAAGGCTACGGCTCTTCACCTGCGAACTATGTTTTTACA
ACTGAGAGCTTTGCCCTCACTAATTGTTTTAGAGGCTGCAGCTCTTCACCTATGAACATTGTTTT
CACAACTGAGAGCTTTGCTCTCACTAACTGTTTTAAAGGCTGCAGCTCTTCACCTGCAAACCTTG
TTTTCACAACTA
Found at i:27816727 original size:138 final size:138
Alignment explanation
Indices: 27816341--27816890 Score: 444
Period size: 138 Copynumber: 4.1 Consensus size: 138
27816331 CTGTGAACTA
* * * * **
27816341 TGTTTTTACAGCTGGGAGCTTTGCTCTCGCTAATTGTTTTAGAGGCTGCAGCTTTTCACCTATGA
1 TGTTTTTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTGCGGCTCTTCACCTGCGA
* * *
27816406 ACCTTGTTTTCACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAAAGGCTGCAGCTCTTTGCCT
66 ACCTTGTTTTTACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCAGCTCTTCGCCT
*
27816471 AGAAACCT
131 AGAAACAT
** * * * * * * *
27816479 TGTTTTCCCAACTAGGAGCTTTACTCCCGCTAACTATTTTAAAGCCTACGGCTCTTCACCTGCGA
1 TGTTTTTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTGCGGCTCTTCACCTGCGA
* * * * * ** *
27816544 ACCTT-TTTTTCACAACTGAGAGCTTTGCCCTTACTAATTGTTTTAGAGGTTGTGGCTCTTCG-T
66 ACCTTGTTTTT-ACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCAGCTCTTCGCC
* *
27816607 TTGTGAACAT
130 TAG-AAACAT
* * * * *
27816617 TTTTTTTACAACTGGGAGCTTTGCTCTCACTAACTGTTTTAGTGGTTGCGGCTCTTCACCTGCAA
1 TGTTTTTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTGCGGCTCTTCACCTGCGA
* * * * *
27816682 ACCTTGTTTTTACAGCTGGGAGCTTTGCTCTTGCTAACTGTTTTAGGGGCTACGGCTCTTCACCT
66 ACCTTGTTTTTACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCAGCTCTTCGCCT
* *
27816747 ACAAAACCT
131 A-GAAACAT
*** * * * * *
27816756 TGTTTTTATTGCTGGGA-----------GCTAACTGTTTTAGAGGATACGGATCGTCATCTGCGA
1 TGTTTTTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTGCGGCTCTTCACCTGCGA
* * * * * * * *
27816810 TCCTTTTTTTTACAGCTGGGAGCTTTGCTCTCGCTAATTGTTTCAAAGGCTTCAGCTCTTCGCCT
66 ACCTTGTTTTTACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCAGCTCTTCGCCT
*
27816875 -GTAAACCT
131 AG-AAACAT
27816883 TGTTTTTA
1 TGTTTTTA
27816891 TTGACTATAG
Statistics
Matches: 325, Mismatches: 81, Indels: 23
0.76 0.19 0.05
Matches are distributed among these distances:
127 14 0.04
128 84 0.26
137 6 0.02
138 198 0.61
139 23 0.07
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (138 bp):
TGTTTTTACAACTGGGAGCTTTGCTCTCGCTAACTGTTTTAGAGGCTGCGGCTCTTCACCTGCGA
ACCTTGTTTTTACAGCTGAGAGCTTTGCTCTTGCTAACTGTTTTAGAGGCTGCAGCTCTTCGCCT
AGAAACAT
Found at i:27822764 original size:422 final size:422
Alignment explanation
Indices: 27821980--27823249 Score: 2513
Period size: 422 Copynumber: 3.0 Consensus size: 422
27821970 ATCATGGGGT
27821980 AAGCCTACTGTTATGATTTCAGGGGCCAGTGGGTTGTTGGAGCAAAATAATTAATCCATATCTTA
1 AAGCCTACTGTTATGATTTCAGGGGCCAGTGGGTTGTTGGAGCAAAATAATTAATCCATATCTTA
27822045 TGACTCAGGGTGCAAGGCTTACACGTCGCAACGAAGCTCATCCATCTCATTCAGCCAGTCTTTCA
66 TGACTCAGGGTGCAAGGCTTACACGTCGCAACGAAGCTCATCCATCTCATTCAGCCAGTCTTTCA
27822110 CCTATGTACTTAGGGCATCATCTTATGTGTTAACATTTCCTTAAGACCCCGAGTTGTCAGCATGT
131 CCTATGTACTTAGGGCATCATCTTATGTGTTAACATTTCCTTAAGACCCCGAGTTGTCAGCATGT
27822175 GCTTTTCTGCGCACTTCCTCATTTAGCCTTAGCAACTCCTGCTTGAAGGCTTGCTATTCCAAAAA
196 GCTTTTCTGCGCACTTCCTCATTTAGCCTTAGCAACTCCTGCTTGAAGGCTTGCTATTCCAAAAA
27822240 TCGTACTTCTTGTACGGCCATCTGTTCCCTCATGAAATTCATCTGCTCCTAGTGTAACACCCCTT
261 TCGTACTTCTTGTACGGCCATCTGTTCCCTCATGAAATTCATCTGCTCCTAGTGTAACACCCCTT
27822305 ACCCGTATCCGAGGCCGGGCTAAGGTACGAGGCGTGACCAGACAAACATACAAACATTAAACTAA
326 ACCCGTATCCGAGGCCGGGCTAAGGTACGAGGCGTGACCAGACAAACATACAAACATTAAACTAA
27822370 AATACGAGCCATAAAATTTTATTCATATTTCA
391 AATACGAGCCATAAAATTTTATTCATATTTCA
*
27822402 AAGCCTACTGTTATGATTTCAGGGGCCAGTGGGTTGTTGGAGCAAAATAATTAATCAATATCTTA
1 AAGCCTACTGTTATGATTTCAGGGGCCAGTGGGTTGTTGGAGCAAAATAATTAATCCATATCTTA
27822467 TGACTCAGGGTGCAAGGCTTACACGTCGCAACGAAGCTCATCCATCTCATTCAGCCAGTCTTTCA
66 TGACTCAGGGTGCAAGGCTTACACGTCGCAACGAAGCTCATCCATCTCATTCAGCCAGTCTTTCA
27822532 CCTATGTACTTAGGGCATCATCTTATGTGTTAACATTTCCTTAAGACCCCGAGTTGTCAGCATGT
131 CCTATGTACTTAGGGCATCATCTTATGTGTTAACATTTCCTTAAGACCCCGAGTTGTCAGCATGT
27822597 GCTTTTCTGCGCACTTCCTCATTTAGCCTTAGCAACTCCTGCTTGAAGGCTTGCTATTCCAAAAA
196 GCTTTTCTGCGCACTTCCTCATTTAGCCTTAGCAACTCCTGCTTGAAGGCTTGCTATTCCAAAAA
27822662 TCGTACTTCTTGTACGGCCATCTGTTCCCTCATGAAATTCATCTGCTCCTAGTGTAACACCCCTT
261 TCGTACTTCTTGTACGGCCATCTGTTCCCTCATGAAATTCATCTGCTCCTAGTGTAACACCCCTT
27822727 ACCCGTATCCGAGGCCGGGCTAAGGTACGAGGCGTGACCAGACAAACATACAAACATTAAACTAA
326 ACCCGTATCCGAGGCCGGGCTAAGGTACGAGGCGTGACCAGACAAACATACAAACATTAAACTAA
27822792 AATACGAGCCATAAAATTTTATTCATATTTCA
391 AATACGAGCCATAAAATTTTATTCATATTTCA
27822824 AAGCCTACTGTTATGATTTCAGGGGCCAGTGGGTTGTTGGAGCAAAATAATTAATCCATATCTTA
1 AAGCCTACTGTTATGATTTCAGGGGCCAGTGGGTTGTTGGAGCAAAATAATTAATCCATATCTTA
27822889 TGACTCAGGGTGCAAGGCTTACACGTCGCAACGAAGCTCATCCATCTCATTCAGCCAGTCTTTCA
66 TGACTCAGGGTGCAAGGCTTACACGTCGCAACGAAGCTCATCCATCTCATTCAGCCAGTCTTTCA
27822954 CCTATGTACTTAGGGCATCATCTTATGTGTTAACATTTCCTTAAGACCCCGAGTTGTCAGCATGT
131 CCTATGTACTTAGGGCATCATCTTATGTGTTAACATTTCCTTAAGACCCCGAGTTGTCAGCATGT
27823019 GCTTTTCTGCGCACTTCCTCATTTAGCCTTAGCAACTCCTGCTTGAAGGCTTGCTATTCCAAAAA
196 GCTTTTCTGCGCACTTCCTCATTTAGCCTTAGCAACTCCTGCTTGAAGGCTTGCTATTCCAAAAA
*
27823084 TCGTACTTCTTGTGCGGCCATCTGTTCCCTCATGAAATTCATCTGCTCCTAGTGTAACACCCCTT
261 TCGTACTTCTTGTACGGCCATCTGTTCCCTCATGAAATTCATCTGCTCCTAGTGTAACACCCCTT
*
27823149 ACCCGTATCCGAGGCCGGGCTAAGGTACGAGGCGTTACCAGACAAACATACAAACATTAAACTAA
326 ACCCGTATCCGAGGCCGGGCTAAGGTACGAGGCGTGACCAGACAAACATACAAACATTAAACTAA
27823214 AATACGAGCCATAAAATTTTATTCATATTTCA
391 AATACGAGCCATAAAATTTTATTCATATTTCA
27823246 AAGC
1 AAGC
27823250 GTTCATTCTC
Statistics
Matches: 844, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
422 844 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (422 bp):
AAGCCTACTGTTATGATTTCAGGGGCCAGTGGGTTGTTGGAGCAAAATAATTAATCCATATCTTA
TGACTCAGGGTGCAAGGCTTACACGTCGCAACGAAGCTCATCCATCTCATTCAGCCAGTCTTTCA
CCTATGTACTTAGGGCATCATCTTATGTGTTAACATTTCCTTAAGACCCCGAGTTGTCAGCATGT
GCTTTTCTGCGCACTTCCTCATTTAGCCTTAGCAACTCCTGCTTGAAGGCTTGCTATTCCAAAAA
TCGTACTTCTTGTACGGCCATCTGTTCCCTCATGAAATTCATCTGCTCCTAGTGTAACACCCCTT
ACCCGTATCCGAGGCCGGGCTAAGGTACGAGGCGTGACCAGACAAACATACAAACATTAAACTAA
AATACGAGCCATAAAATTTTATTCATATTTCA
Found at i:27827503 original size:25 final size:25
Alignment explanation
Indices: 27827448--27827504 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
27827438 GCGAACATCT
*
27827448 AGTATCCCAGCGGGGTCCCCAATGA
1 AGTATCTCAGCGGGGTCCCCAATGA
* * * *
27827473 ACTATCTCTGCGGGGTCCCTAGTGA
1 AGTATCTCAGCGGGGTCCCCAATGA
27827498 AGTATCT
1 AGTATCT
27827505 TTACAGTGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (25 bp):
AGTATCTCAGCGGGGTCCCCAATGA
Found at i:27832406 original size:42 final size:42
Alignment explanation
Indices: 27832299--27832447 Score: 151
Period size: 42 Copynumber: 3.5 Consensus size: 42
27832289 AAGAAATCTG
* *
27832299 AGCTCGTTGAGCGGTCCGAGTTCGTGATATATGTGAGA-ATCTA
1 AGCTCGTTGAGTGGTCCGAGTTCGTGATATA--TGAGACATCCA
* * * *
27832342 AACTTGTTGAGTGGTCCCAGTTCGTGATATATGAGACATCCG
1 AGCTCGTTGAGTGGTCCGAGTTCGTGATATATGAGACATCCA
* * **
27832384 AGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCA-AGCATCCA
1 AGCTCGTTGAGTGGTCCGAGTTCGTGATATATG-AGA-CATCCA
27832427 AGCT-GTTGAGTGGTCCGAGTT
1 AGCTCGTTGAGTGGTCCGAGTT
27832448 TATAATGGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.06
42 47 0.53
43 37 0.42
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (42 bp):
AGCTCGTTGAGTGGTCCGAGTTCGTGATATATGAGACATCCA
Found at i:27832456 original size:42 final size:43
Alignment explanation
Indices: 27832378--27832459 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
27832368 ATATATGAGA
* *
27832378 CATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCAAG
1 CATCCAAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCAAG
*
27832421 CATCCAAGCT-GTTGAGTGGTCCGAGTTTATAATGGATGC
1 CATCCAAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
27832460 GATACATGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
CATCCAAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCAAG
Found at i:27832507 original size:51 final size:50
Alignment explanation
Indices: 27832421--27832519 Score: 126
Period size: 51 Copynumber: 2.0 Consensus size: 50
27832411 TGGATGCAAG
* * *
27832421 CATCCAAGCTGTTGAGTGGTCCGAGTTTATAATGGATGCGATACATGTAA
1 CATCCAAGCTGTTGAGAGGTCCAAGTTCATAATGGATGCGATACATGTAA
* * * *
27832471 CATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGTGTTACATGT
1 CATCCAAGCT-GTTGAGAGGTCCAAGTTCATAATGGATGCGATACATGT
27832520 TATAAGGTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 9 0.22
51 32 0.78
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CATCCAAGCTGTTGAGAGGTCCAAGTTCATAATGGATGCGATACATGTAA
Found at i:27833910 original size:23 final size:23
Alignment explanation
Indices: 27833884--27833928 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
27833874 TATTTGTTTG
27833884 ATATGAATGGTTAGTATTACGGT
1 ATATGAATGGTTAGTATTACGGT
27833907 ATATGAATGGTTAGTATTACGG
1 ATATGAATGGTTAGTATTACGG
27833929 CATGTATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (23 bp):
ATATGAATGGTTAGTATTACGGT
Found at i:27835032 original size:26 final size:26
Alignment explanation
Indices: 27834951--27835036 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
27834941 ATATACTTAA
* * *
27834951 TTTAATTTTTAATAAAATTTGGTTTC
1 TTTAATTTTTAATATAATTTGATTCC
* * * **
27834977 TTT-ACTTTGAGATTTAATTT-ATATGT
1 TTTAATTTTTA-ATATAATTTGAT-TCC
27835003 TTTAATTTTTAATATAATTTGATTCC
1 TTTAATTTTTAATATAATTTGATTCC
27835029 TTTAATTT
1 TTTAATTT
27835037 GATAATGTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
25 6 0.14
26 31 0.70
27 7 0.16
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTAATTTTTAATATAATTTGATTCC
Found at i:27836145 original size:16 final size:17
Alignment explanation
Indices: 27836124--27836158 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
27836114 GAGATTTCTG
27836124 TAAAATTCAAA-TTATT
1 TAAAATTCAAATTTATT
27836140 TAAAATTCAAATTTATT
1 TAAAATTCAAATTTATT
27836157 TA
1 TA
27836159 TTATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAATTCAAATTTATT
Found at i:27836594 original size:35 final size:35
Alignment explanation
Indices: 27836548--27836616 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
27836538 ATCCCCCATC
27836548 CTTAGTTATAGACTTCCATGAAGCTACACAAGATG
1 CTTAGTTATAGACTTCCATGAAGCTACACAAGATG
27836583 CTTAGTTATAGACTTCCATGAAGCTACACAAGAT
1 CTTAGTTATAGACTTCCATGAAGCTACACAAGAT
27836617 AAGGCAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (35 bp):
CTTAGTTATAGACTTCCATGAAGCTACACAAGATG
Found at i:27838258 original size:36 final size:36
Alignment explanation
Indices: 27838212--27838283 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
27838202 GTATGTCCAA
**
27838212 ACATGAAGGGTCTTGGTTCTTCAAAATAGTATCTTT
1 ACATGAAGGGTCTTAATTCTTCAAAATAGTATCTTT
27838248 ACATGAAGGGTCTTAATTCTTCAAAATAGTATCTTT
1 ACATGAAGGGTCTTAATTCTTCAAAATAGTATCTTT
27838284 TAAATGCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (36 bp):
ACATGAAGGGTCTTAATTCTTCAAAATAGTATCTTT
Found at i:27848029 original size:20 final size:21
Alignment explanation
Indices: 27848006--27848054 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
27847996 AATGAAACTT
*
27848006 ATAAAAATTA-TTAAATTTTA
1 ATAAAAATTATTTAAAATTTA
*
27848026 ATAAAAAATATTTAAAATTTA
1 ATAAAAATTATTTAAAATTTA
*
27848047 CTAAAAAT
1 ATAAAAAT
27848055 AGACAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATTATTTAAAATTTA
Found at i:27848339 original size:30 final size:29
Alignment explanation
Indices: 27848303--27848397 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
27848293 CATTTTCTTC
*
27848303 TAATTTTCTTACCA-CTTTATACAATTTTA
1 TAATTTT-TTACCATCTTTATAAAATTTTA
** *
27848332 TATATTTTTTATGATTTTTATAAAATTTTA
1 TA-ATTTTTTACCATCTTTATAAAATTTTA
* * *
27848362 TAATTTTTTTACTATTTTTATAATAATTTTC
1 TAA-TTTTTTACCATCTTTATAA-AATTTTA
27848393 TAATT
1 TAATT
27848398 CTTAATAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.13
30 39 0.71
31 9 0.16
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (29 bp):
TAATTTTTTACCATCTTTATAAAATTTTA
Found at i:27848343 original size:11 final size:10
Alignment explanation
Indices: 27848327--27848385 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
27848317 CTTTATACAA
27848327 TTTTATATATT
1 TTTTATA-ATT
*
27848338 TTTTATGA-T
1 TTTTATAATT
**
27848347 TTTTATAAAA
1 TTTTATAATT
27848357 TTTTATAATT
1 TTTTATAATT
*
27848367 TTTT-TACTAT
1 TTTTATAAT-T
27848377 TTTTATAAT
1 TTTTATAAT
27848386 AATTTTCTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
9 11 0.29
10 18 0.47
11 9 0.24
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:27848369 original size:9 final size:9
Alignment explanation
Indices: 27848325--27848385 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
27848315 CACTTTATAC
27848325 AATTTTATAT
1 AATTTT-TAT
*
27848335 ATTTTTTAT
1 AATTTTTAT
*
27848344 GATTTTTAT
1 AATTTTTAT
*
27848353 AAAATTTTAT
1 -AATTTTTAT
*
27848363 AATTTTTTT
1 AATTTTTAT
27848372 ACTATTTTTAT
1 A--ATTTTTAT
27848383 AAT
1 AAT
27848386 AATTTTCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 20 0.50
10 12 0.30
11 8 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:27848719 original size:87 final size:89
Alignment explanation
Indices: 27848601--27848832 Score: 251
Period size: 87 Copynumber: 2.6 Consensus size: 89
27848591 TTGAGTGCCA
* * *
27848601 AAAAAAAAAGCAAGGGCTTAATTAC--TCTTTTGAAAAAGTTTAAGGGCTTTTTTTATGT-ATTT
1 AAAACAAAAGCAAAGGCTTAATTGCTTTCTTTTGAAAAAGTTTAAGGG-TTTTTTT-TGTAATTT
* *
27848663 TAACAGTTTAAGTATCCAATTGAGTG
64 TAACAGGTCAAGTATCCAATTGAGTG
* *
27848689 AAAA-AAAAG-AGAGGCTTAATTG-TTTCTTTTGAAAAAGTTTGAGGGTTTTTTTTGTACATTTT
1 AAAACAAAAGCAAAGGCTTAATTGCTTTCTTTTGAAAAAGTTTAAGGGTTTTTTTTGTA-ATTTT
* * *
27848751 GATAGGTCAAGTATCCAATTGGGTG
65 AACAGGTCAAGTATCCAATTGAGTG
* * * *
27848776 AAAACAAAAGCAAAGGCTTAATTGCTTTTTTTTTAAAAAAAGGTTGAGGGTTTTTTT
1 AAAACAAAAGCAAAGGCTTAATTGC-TTTCTTTT-GAAAAAGTTTAAGGGTTTTTTT
27848833 ACATCCTTAA
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
85 3 0.02
86 17 0.14
87 54 0.44
88 9 0.07
89 12 0.10
91 7 0.06
92 20 0.16
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (89 bp):
AAAACAAAAGCAAAGGCTTAATTGCTTTCTTTTGAAAAAGTTTAAGGGTTTTTTTTGTAATTTTA
ACAGGTCAAGTATCCAATTGAGTG
Found at i:27848999 original size:85 final size:85
Alignment explanation
Indices: 27848866--27849091 Score: 235
Period size: 85 Copynumber: 2.6 Consensus size: 85
27848856 CAAAAAAAGA
* * * **
27848866 AATTAAGTCC-CTTTTTTTTTCATTAAATTGGCTATTTTAACTTTCAAAATGTATCAAAAA-G-A
1 AATTAAGTCCTCTTTTTTTTTCATTCAATTGG-TATTTGAACTGTCAAAATACATCAAAAAGGCA
*
27848928 CTCAAACTTTTTTAAAAGAAAC
65 CTCAAACTTTTTCAAAAG-AAC
* *
27848950 AATTAAG-CCTCTGTTTTTTTTCATTCAGTTGTGTACTTGAACTGTCAAAATACATCAAAAAGGC
1 AATTAAGTCCTCT-TTTTTTTTCATTCAATTG-GTATTTGAACTGTCAAAATACATCAAAAAGGC
* *
27849014 CCTCAAACTTTTTCAAAAGAGC
64 ACTCAAACTTTTTCAAAAGAAC
* *
27849036 AATTAAGTTCCTGCTTTTTTTTTTGCACTCAATTGAGTATTTGAACTGCCAAAATA
1 AATTAAG-TCCT-C-TTTTTTTTT-CATTCAATTG-GTATTTGAACTGTCAAAATA
27849092 TAAGGTCCTT
Statistics
Matches: 117, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
83 2 0.02
84 9 0.08
85 39 0.33
86 11 0.09
87 17 0.15
88 3 0.03
89 9 0.08
90 27 0.23
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.39
Consensus pattern (85 bp):
AATTAAGTCCTCTTTTTTTTTCATTCAATTGGTATTTGAACTGTCAAAATACATCAAAAAGGCAC
TCAAACTTTTTCAAAAGAAC
Found at i:27849296 original size:38 final size:41
Alignment explanation
Indices: 27849254--27849349 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
27849244 AAATTTTAAC
* *
27849254 AAAAATATAAAAAATATTT-T-AATTTATTA-AAAATTAGA
1 AAAAATATAAAAAATATTTATAAAGTTATAAGAAAATTAGA
* *
27849292 AAAAA-ATTATAAAAT-TTTATAAAGTTGTAAGAAAATTAGA
1 AAAAATA-TAAAAAATATTTATAAAGTTATAAGAAAATTAGA
27849332 AAAAATATAAAGAAATAT
1 AAAAATATAAA-AAATAT
27849350 AAAATTCGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
37 4 0.09
38 13 0.28
39 6 0.13
40 17 0.37
41 5 0.11
42 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (41 bp):
AAAAATATAAAAAATATTTATAAAGTTATAAGAAAATTAGA
Found at i:27849366 original size:39 final size:39
Alignment explanation
Indices: 27849283--27849378 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
27849273 TAATTTATTA
** *
27849283 AAAATTAGAAAAAAATTATAAAATTTTATAAAGTTGTAAG
1 AAAATTAG-AAAAAATTATAAAATAATATAAAATTGTAAG
*
27849323 AAAATTAGAAAAAA-TATAAAGA-AATATAAAATTCGTAAT
1 AAAATTAGAAAAAATTATAAA-ATAATATAAAATT-GTAAG
*
27849362 AAAATTA-TAAAAATTAT
1 AAAATTAGAAAAAATTAT
27849379 CGTATCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
38 19 0.40
39 21 0.44
40 8 0.17
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.30
Consensus pattern (39 bp):
AAAATTAGAAAAAATTATAAAATAATATAAAATTGTAAG
Found at i:27849590 original size:11 final size:9
Alignment explanation
Indices: 27849568--27849699 Score: 65
Period size: 9 Copynumber: 14.6 Consensus size: 9
27849558 TTTATATTTT
27849568 TTTTTATAA
1 TTTTTATAA
27849577 TTTTTATAA
1 TTTTTATAA
* *
27849586 CATTTTACAA
1 -TTTTTATAA
*
27849596 TTTTTATAT
1 TTTTTATAA
**
27849605 TTTTTACGA
1 TTTTTATAA
*
27849614 TATTTATAA
1 TTTTTATAA
*
27849623 TTTATTCT-A
1 TTT-TTATAA
*
27849632 TTTTAAATAA
1 TTTT-TATAA
27849642 TTTTTATTAA
1 TTTTTA-TAA
** *
27849652 AATTTATTA
1 TTTTTATAA
27849661 TTTTTATAA
1 TTTTTATAA
* * *
27849670 CTCTTATTGA
1 TTTTTA-TAA
27849680 TTTTTAT--
1 TTTTTATAA
27849687 TTTTTAT-A
1 TTTTTATAA
27849695 TTTTT
1 TTTTT
27849700 TTACACATGT
Statistics
Matches: 89, Mismatches: 27, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
7 7 0.08
8 6 0.07
9 48 0.54
10 28 0.31
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:27849618 original size:28 final size:27
Alignment explanation
Indices: 27849568--27849635 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
27849558 TTTATATTTT
* *
27849568 TTTTTATAATTTTTATAACATTTTACAA
1 TTTTTATATTTTTTACAACA-TTTACAA
* * *
27849596 TTTTTATATTTTTTACGATATTTATAA
1 TTTTTATATTTTTTACAACATTTACAA
*
27849623 TTTATTCTATTTT
1 TTT-TTATATTTT
27849636 AAATAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (27 bp):
TTTTTATATTTTTTACAACATTTACAA
Found at i:27850371 original size:43 final size:43
Alignment explanation
Indices: 27850321--27850587 Score: 148
Period size: 43 Copynumber: 6.2 Consensus size: 43
27850311 AACAACACCG
*
27850321 CTATAGAACATAAACTTTAGCGGCATTTTTCCTACAAACGCCA
1 CTATAGAACATAACCTTTAGCGGCATTTTTCCTACAAACGCCA
* * * * * *
27850364 CTATAGAACATGACCTTTAGCAGCGTTTTTCCTTCAAATGCCG
1 CTATAGAACATAACCTTTAGCGGCATTTTTCCTACAAACGCCA
* ** *
27850407 CTATAGAACATTACCTTTAGCGATGCA--TTT-CTAACAAACATCG
1 CTATAGAACATAACCTTTAGCG--GCATTTTTCCT-ACAAACGCCA
** * * * * *
27850450 CTATAGAATGTGACCTTTAGCGGCGCTTTTTCC-AGAAACGTCG
1 CTATAGAACATAACCTTTAGCGGC-ATTTTTCCTACAAACGCCA
* ** * ** * *
27850493 CTATAGAACGTGGCCTTTAGCAGCGCTTTT-CTCACAAACGACG
1 CTATAGAACATAACCTTTAGCGGCATTTTTCCT-ACAAACGCCA
* * * * * * *
27850536 CTATAGAACGTGACTTTTAGCGGCACTTTTCCCACAAAACACCG
1 CTATAGAACATAACCTTTAGCGGCATTTTTCCTAC-AAACGCCA
27850580 CTATAGAA
1 CTATAGAA
27850588 TGTAGTCTTT
Statistics
Matches: 179, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
41 3 0.02
42 6 0.03
43 149 0.83
44 18 0.10
45 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
CTATAGAACATAACCTTTAGCGGCATTTTTCCTACAAACGCCA
Found at i:27850464 original size:86 final size:86
Alignment explanation
Indices: 27850318--27850587 Score: 237
Period size: 86 Copynumber: 3.1 Consensus size: 86
27850308 AAAAACAACA
* * * * *
27850318 CCGCTATAGAACATAAACTTTAGC-G-GCATTTTTCCT-ACAAACGCCACTATAGAACATGACCT
1 CCGCTATAGAACATGACCTTTAGCAGCGCA--TTT-CTAACAAACGACGCTATAGAACGTGACCT
* *
27850380 TTAGCAGCG-TTTTTCCTTCAAATG
63 TTAGCAGCGCTTTTTCC-ACAAACG
* * *
27850404 CCGCTATAGAACATTACCTTTAGC-GATGCATTTCTAACAAAC-ATCGCTATAGAATGTGACCTT
1 CCGCTATAGAACATGACCTTTAGCAG-CGCATTTCTAACAAACGA-CGCTATAGAACGTGACCTT
* *
27850467 TAGCGGCGCTTTTTCCAGAAACG
64 TAGCAGCGCTTTTTCCACAAACG
* * * * * *
27850490 TCGCTATAGAACGTGGCCTTTAGCAGCGCTTTTCTCACAAACGACGCTATAGAACGTGACTTTTA
1 CCGCTATAGAACATGACCTTTAGCAGCGCATTTCTAACAAACGACGCTATAGAACGTGACCTTTA
* * * *
27850555 GCGGCACTTTTCCCACAAAACA
66 GCAGCGCTTTTTCCAC-AAACG
27850577 CCGCTATAGAA
1 CCGCTATAGAA
27850588 TGTAGTCTTT
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
85 2 0.01
86 124 0.82
87 23 0.15
88 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (86 bp):
CCGCTATAGAACATGACCTTTAGCAGCGCATTTCTAACAAACGACGCTATAGAACGTGACCTTTA
GCAGCGCTTTTTCCACAAACG
Found at i:27850629 original size:130 final size:128
Alignment explanation
Indices: 27850314--27850676 Score: 364
Period size: 130 Copynumber: 2.8 Consensus size: 128
27850304 TTTGAAAAAC
** * * *
27850314 AACACCGCTATAGAACATAAACTTTAGC-GGCATTTTTCCTA-CAAACGCCACTATAGAACATGA
1 AACACCGCTATAGAATGTAGACTTTAGCGGGC-TTTTTCC-AGCAAACGTCACTATAGAACATGG
* * * * * * *
27850377 CCTTTAGCAGCGTTTTTCCTTCAAATGCCGCTATAGAACATTACCTTTAGCGATGCATTTCTAAC
64 CCTTTAGCAGCGCTTTTCCTACAAACGACGCTATAGAACGTGACCTTTAGCGA-GCATTTCCAAC
27850442 A
128 A
* * *
27850443 AACATCGCTATAGAATGT-GACCTTTAGCGGCGCTTTTTCCAG-AAACGTCGCTATAGAACGTGG
1 AACACCGCTATAGAATGTAGA-CTTTAGCGG-GCTTTTTCCAGCAAACGTCACTATAGAACATGG
* *
27850506 CCTTTAGCAGCGCTTTT-CTCACAAACGACGCTATAGAACGTGACTTTTAGCG-GCACTTTTCCC
64 CCTTTAGCAGCGCTTTTCCT-ACAAACGACGCTATAGAACGTGACCTTTAGCGAGCA--TTTCCA
27850569 ACAA
126 AC-A
* *
27850573 AACACCGCTATAGAATGTAGTCTTTAGCGGTGCTTTTTCC-GCAAACGTTACTATAGAACATGGC
1 AACACCGCTATAGAATGTAGACTTTAGCGG-GCTTTTTCCAGCAAACGTCACTATAGAACATGGC
* * * *
27850637 ATTTAAC-GACGCTTTTCCTACAAACAACGCTATATAACGT
65 CTTTAGCAG-CGCTTTTCCTACAAACGACGCTATAGAACGT
27850677 AGTCTTTAAC
Statistics
Matches: 195, Mismatches: 27, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
127 3 0.02
128 3 0.02
129 90 0.46
130 94 0.48
131 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (128 bp):
AACACCGCTATAGAATGTAGACTTTAGCGGGCTTTTTCCAGCAAACGTCACTATAGAACATGGCC
TTTAGCAGCGCTTTTCCTACAAACGACGCTATAGAACGTGACCTTTAGCGAGCATTTCCAACA
Found at i:27855614 original size:38 final size:39
Alignment explanation
Indices: 27855483--27855644 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 39
27855473 GGACTTTTTC
* * * *
27855483 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
** * *
27855522 CTAGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
27855561 CCGGATATAATTCCAGCACATAGCCTGCGGACCCT-AGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
27855599 CTGGATATAATTCCAGCACATAGCCTGCGGACCCTAGGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
27855638 CCGGATA
1 CCGGATA
27855645 AACATCACTG
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 37 0.34
39 72 0.66
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:27855629 original size:77 final size:78
Alignment explanation
Indices: 27855483--27855644 Score: 245
Period size: 77 Copynumber: 2.1 Consensus size: 78
27855473 GGACTTTTTC
* * * * *
27855483 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTCTAGTTATAATTCCAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCTAGATATAATTCCAGCACATAGCCT
*
27855548 GCGGACCTTAAGT
66 GCGGACCCTAAGT
*
27855561 CCGGATATAATTCCAGCACATAGCCTGCGGACCCT-AGTCTGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCTAGATATAATTCCAGCACATAGCCT
*
27855625 GCGGACCCTAGGT
66 GCGGACCCTAAGT
27855638 CCGGATA
1 CCGGATA
27855645 AACATCACTG
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
77 45 0.59
78 31 0.41
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (78 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCTAGATATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:27863651 original size:339 final size:335
Alignment explanation
Indices: 27862727--27863728 Score: 1427
Period size: 336 Copynumber: 3.0 Consensus size: 335
27862717 CTACGAACTG
* * * *
27862727 TGTTACAAATTTTACGAGAGAAACAACTATTCGTAAAGTTCAGCAATTGTGAATTTTGGTTAAGG
1 TGTTAC-AATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAAGG
* * *
27862792 GAGGTAGCGTTCTTGGGTTATGT-AGTTTTT-CAGAGGGAGTTTGCATAGACGCAAAGAAGATTG
65 GAGGTAGCATTCTTGGGTTATGTGA-TTTTTACAGAGGGAGTTTGCGTAGACCCAAAGAAGATTG
* * * *
27862855 AGGAAATTTTAGAGTGTAAATGACCAAAAAGTGTTACTGGGGTGCGAAGCTTTAAGAAGTTAGTA
129 AGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTAGTA
* * * *
27862920 GAATACTATGGCAAGTTTGT-AAAAGGGTTCGCCACCATTGCTACACCCATAATAAAGCTATTGT
194 GAATACTATTGCAAGTTTGTGGAAA-GGTTCGCCACCATTGCAACACCCATAATAAAGCTACTGT
* * *
27862984 AAAAAGATGTGGAGTTCGCATGGATAGAGGAAAGAGC-AAAAAGATTTGAAAAACTTAAGATGAT
258 AGAAAGATGTGGAGTTCGCATGGATAGAGGAAAGA-CAAAAAAGCTTTGAAAAACTTAAGGTGAT
* *
27863048 GCTCACCTGTAAAC
322 GCTCACCTGCAAAA
* *
27863062 TGTTACAAATTCAGCGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAAGG
1 TGTTACAATTTTA-CGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAAGG
* *
27863127 GAGGTAGCATTCTTGGGTTATGTGGTTTTTACGGAGGGAGTTTGCGTAGACCCAAAGAAGATTGA
65 GAGGTAGCATTCTTGGGTTATGTGATTTTTACAGAGGGAGTTTGCGTAGACCCAAAGAAGATTGA
* * * *
27863192 GGAAATTATAGATTGGAAATGACCAAAAAGTGTTATTGAGGTGCGAAACTTTATGAGGTTAGTAG
130 GGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTAGTAG
* ** *
27863257 AATACTATTGCAAGTTTATGGAAAGGTTCGCCACCATTGTGACACCCATAATAAAGCTACTGCAG
195 AATACTATTGCAAGTTTGTGGAAAGGTTCGCCACCATTGCAACACCCATAATAAAGCTACTGTAG
*
27863322 AAAGATGTGGAGTTCGCATAGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATGCT
260 AAAGATGTGGAGTTCGCATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATGCT
27863387 CACCTGCAAATTA
325 CACCTGCAAA--A
* * * * *
27863400 TGTTACATATTTTATGTGAGAAGCAACTATTCATGAAGCTCAGCAAGTGTGAATTTTTGTTAAGA
1 TGTTACA-ATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAAGG
* * * *
27863465 GAGGTAGTATTCTTGGGTTATGTGATTTTTACAGAAGGAGTTTGCGTAAACCCAAAAAAAGATTG
65 GAGGTAGCATTCTTGGGTTATGTGATTTTTACAGAGGGAGTTTGCGTAGACCC-AAAGAAGATTG
* * *
27863530 AGGAGATTTTAGAGTGGAAATGACCAATAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTCAGTA
129 AGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTAGTA
* * * *
27863595 GAATACTATTACAAATTTGTGGAAATGTTCGCCACCATTGCAATACCCATAATAAAGCTACTGTA
194 GAATACTATTGCAAGTTTGTGGAAAGGTTCGCCACCATTGCAACACCCATAATAAAGCTACTGTA
* * *
27863660 GAAAGATGTGGAGTTTGTATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATAC
259 GAAAGATGTGGAGTTCGCATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATGC
27863725 TCAC
324 TCAC
27863729 TAAAGCACCT
Statistics
Matches: 594, Mismatches: 64, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
334 5 0.01
335 81 0.14
336 210 0.35
337 3 0.01
338 101 0.17
339 194 0.33
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (335 bp):
TGTTACAATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAAGGG
AGGTAGCATTCTTGGGTTATGTGATTTTTACAGAGGGAGTTTGCGTAGACCCAAAGAAGATTGAG
GAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTAGTAGA
ATACTATTGCAAGTTTGTGGAAAGGTTCGCCACCATTGCAACACCCATAATAAAGCTACTGTAGA
AAGATGTGGAGTTCGCATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATGCTC
ACCTGCAAAA
Found at i:27865119 original size:81 final size:81
Alignment explanation
Indices: 27864984--27865147 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
27864974 ACCTTAGCCG
*
27864984 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAGCTTTCATCAAGCGCCCCTTCTTGTGTTGCT
1 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
27865049 AAAATCGAACACTTTC
66 AAAATCGAACACTTTC
*
27865065 AATACCTTTTTCTCTTCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
1 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
27865130 AAAATCGAACACTTTC
66 AAAATCGAACACTTTC
27865146 AA
1 AA
27865148 CTGTTCTTCT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.42
Consensus pattern (81 bp):
AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
AAAATCGAACACTTTC
Found at i:27866276 original size:27 final size:27
Alignment explanation
Indices: 27866226--27866465 Score: 215
Period size: 27 Copynumber: 9.0 Consensus size: 27
27866216 CTTTGTGGTA
* * * *
27866226 AAATGACTATATTACTCTTGTGTGATT
1 AAATGACTATTTTGCCCTTATGTGATT
*
27866253 AAATGACTATTTTGCCCTTATGTG-GT
1 AAATGACTATTTTGCCCTTATGTGATT
* * *
27866279 AAAGTGACTATTTTGCCCTTATATGGTA
1 AAA-TGACTATTTTGCCCTTATGTGATT
* * *
27866307 AAATAACTA-TGTGCCCTTATGTG-GT
1 AAATGACTATTTTGCCCTTATGTGATT
*
27866332 AGAATGACTATTTTGCCCTTATGTG-GT
1 A-AATGACTATTTTGCCCTTATGTGATT
*
27866359 AGAATGACTGTTTTGCCCTTATGTGA-T
1 A-AATGACTATTTTGCCCTTATGTGATT
* * *
27866386 AGAATGACTGTTTTGCCCTTATGTGGTA
1 A-AATGACTATTTTGCCCTTATGTGATT
*
27866414 AAATGACTATTTTGCCCTTATATGA-T
1 AAATGACTATTTTGCCCTTATGTGATT
* *
27866440 AAGACGACTGTTTTGCCC-TATGTGAT
1 AA-ATGACTATTTTGCCCTTATGTGAT
27866466 GTATGTTTAT
Statistics
Matches: 180, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 31 0.17
27 144 0.80
28 4 0.02
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGATT
Found at i:27866316 original size:54 final size:54
Alignment explanation
Indices: 27866214--27866434 Score: 286
Period size: 54 Copynumber: 4.1 Consensus size: 54
27866204 TACCTAGACC
* * * * * * *
27866214 CCCTT-TGTGGTAAAATGACTATATTACTCTTGTGTGATTAAATGACTATTTTG
1 CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTG
* * *
27866267 CCCTTATGTGGTA-AAGTGACTATTTTGCCCTTATATGGTAAAATAACTA-TGTG
1 CCCTTATGTGGTAGAA-TGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTG
* *
27866320 CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAGAATGACTGTTTTG
1 CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTG
* *
27866374 CCCTTATGTGATAGAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG
1 CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTG
27866428 CCCTTAT
1 CCCTTAT
27866435 ATGATAAGAC
Statistics
Matches: 146, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
53 52 0.36
54 94 0.64
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (54 bp):
CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTG
Found at i:27866382 original size:107 final size:108
Alignment explanation
Indices: 27866214--27866434 Score: 288
Period size: 107 Copynumber: 2.1 Consensus size: 108
27866204 TACCTAGACC
* * * *
27866214 CCCTT-TGTGGTAAAATGACTATATTACTCTTGTGTGATTAAATGACTATTTTGCCCTTATGTGG
1 CCCTTATGTGGTAAAATGACTATATTACCCTTATGTGAGTAAATGACTATTTTGCCCTTATGTGA
27866278 TA-AAGTGACTATTTTGCCCTTATATGGTAAAATAACTA-TGTG
66 TAGAA-TGACTATTTTGCCCTTATATGGTAAAATAACTATTGTG
* * * *
27866320 CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTG-GTAGAATGACTGTTTTGCCCTTATGTG
1 CCCTTATGTGGTAAAATGACTATATTACCCTTATGTGAGTA-AATGACTATTTTGCCCTTATGTG
* * * *
27866384 ATAGAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG
65 ATAGAATGACTATTTTGCCCTTATATGGTAAAATAACTATTGTG
27866428 CCCTTAT
1 CCCTTAT
27866435 ATGATAAGAC
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
106 7 0.07
107 80 0.81
108 12 0.12
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (108 bp):
CCCTTATGTGGTAAAATGACTATATTACCCTTATGTGAGTAAATGACTATTTTGCCCTTATGTGA
TAGAATGACTATTTTGCCCTTATATGGTAAAATAACTATTGTG
Found at i:27866440 original size:54 final size:53
Alignment explanation
Indices: 27866226--27866463 Score: 273
Period size: 54 Copynumber: 4.5 Consensus size: 53
27866216 CTTTGTGGTA
* * * * * * *
27866226 AAATGACTATATTACTCTTGTGTGATTAAATGACTATTTTGCCCTTATGTGGT
1 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGAT
* * * *
27866279 AAAGTGACTATTTTGCCCTTATATGGTAAAATAACTA-TGTGCCCTTATGTGGT
1 AAA-TGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGAT
* *
27866332 AGAATGACTATTTTGCCCTTATGTGGTAGAATGACTGTTTTGCCCTTATGTGAT
1 A-AATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGAT
* *
27866386 AGAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATATGAT
1 A-AATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGAT
* *
27866440 AAGACGACTGTTTTGCCC-TATGTG
1 AA-ATGACTATTTTGCCCTTATGTG
27866464 ATGTATGTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 55 0.34
54 106 0.66
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (53 bp):
AAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGAT
Found at i:27869369 original size:37 final size:37
Alignment explanation
Indices: 27869308--27869386 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
27869298 TTATTACGAA
* *
27869308 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
* *
27869345 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCT-CCACACGAAGTCATCGG
27869382 GTCTT
1 GTCTT
27869387 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
Found at i:27869583 original size:47 final size:47
Alignment explanation
Indices: 27869505--27869993 Score: 807
Period size: 47 Copynumber: 10.4 Consensus size: 47
27869495 CCCTTCGGGA
* * * * * * *
27869505 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27869552 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27869599 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27869646 CTTATTACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27869693 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27869740 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27869787 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27869834 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27869881 CTTATCACACATATACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27869928 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27869975 CTTATCACATATATACACT
1 CTTATCACATATATACACT
27869994 GTCTTGGCTG
Statistics
Matches: 414, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 414 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27875972 original size:27 final size:26
Alignment explanation
Indices: 27875942--27876153 Score: 246
Period size: 27 Copynumber: 7.9 Consensus size: 26
27875932 CTTTGTGGGA
* * *
27875942 AAATGACTATATTGCCCCTATGTGATT
1 AAATGACTATTTTGCCCTTATGTG-GT
*
27875969 AAATGACTATTTTGCCCTTATATGGT
1 AAATGACTATTTTGCCCTTATGTGGT
*
27875995 AGAATGACTGTTTTGCCCTTATGTGGT
1 A-AATGACTATTTTGCCCTTATGTGGT
*
27876022 AGAATGACTATTTTGCCCTGATGTGGT
1 A-AATGACTATTTTGCCCTTATGTGGT
*
27876049 AGAATGACTATTTTACCCTTATGTGGT
1 A-AATGACTATTTTGCCCTTATGTGGT
*
27876076 AAAATGACTATTTTTCCCTTATGTGGT
1 -AAATGACTATTTTGCCCTTATGTGGT
* *
27876103 AAAATGACTGTTTTGCCCTTATATGGT
1 -AAATGACTATTTTGCCCTTATGTGGT
* *
27876130 AAGATGACTGTTTTTCCC-TATGTG
1 AA-ATGACTATTTTGCCCTTATGTG
27876154 ATGTATGTTT
Statistics
Matches: 166, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.05
27 156 0.94
28 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (26 bp):
AAATGACTATTTTGCCCTTATGTGGT
Found at i:27876529 original size:18 final size:18
Alignment explanation
Indices: 27876496--27876530 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27876486 ATTGTTTCTG
*
27876496 CACTGTTTACCGTTACTA
1 CACTGTTTACCATTACTA
*
27876514 CACTGTTTACTATTACT
1 CACTGTTTACCATTACT
27876531 GCAATGGGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.43
Consensus pattern (18 bp):
CACTGTTTACCATTACTA
Found at i:27877963 original size:16 final size:16
Alignment explanation
Indices: 27877944--27877974 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27877934 CTTCTTCACT
27877944 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
27877960 TACTTACTTACTTAA
1 TACTCACTTACTTAA
27877975 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:27877980 original size:20 final size:20
Alignment explanation
Indices: 27877941--27877980 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27877931 AAACTTCTTC
* *
27877941 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
27877961 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
27877981 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:27878359 original size:55 final size:53
Alignment explanation
Indices: 27878169--27878423 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
27878159 TACAGGGTAC
* * * * *
27878169 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
27878218 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
27878271 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
27878326 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
27878379 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
27878424 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 47 0.27
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:27878360 original size:108 final size:110
Alignment explanation
Indices: 27878216--27878416 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
27878206 ATCCTTTTGA
* *
27878216 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
27878279 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
27878324 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
27878389 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
27878417 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:27885535 original size:16 final size:16
Alignment explanation
Indices: 27885516--27885546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27885506 CTTCTTCACT
27885516 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
27885532 TACTTACTTACTTAA
1 TACTCACTTACTTAA
27885547 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:27885552 original size:20 final size:20
Alignment explanation
Indices: 27885513--27885552 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27885503 AAACTTCTTC
* *
27885513 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
27885533 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
27885553 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:27887908 original size:42 final size:42
Alignment explanation
Indices: 27887861--27887946 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
27887851 TTATAGAGAT
27887861 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
1 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
27887903 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
1 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
27887945 AG
1 AG
27887947 ATCCTCGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (42 bp):
AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
Found at i:27888911 original size:27 final size:28
Alignment explanation
Indices: 27888872--27888939 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
27888862 GGCCTGGCGA
* * * *
27888872 GTTCGCCAGAAGGCTTGACGAGT-TGGT
1 GTTCACCAAAAGGCTTGACGAGTAGGGG
**
27888899 GTTCACCAAAAGGCTTGGTGAGTAGGGG
1 GTTCACCAAAAGGCTTGACGAGTAGGGG
27888927 GTTCACCAAAAGG
1 GTTCACCAAAAGG
27888940 ATTAGAGAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (28 bp):
GTTCACCAAAAGGCTTGACGAGTAGGGG
Found at i:27891589 original size:51 final size:50
Alignment explanation
Indices: 27891534--27891675 Score: 162
Period size: 51 Copynumber: 2.8 Consensus size: 50
27891524 ATGCGTACCC
* *
27891534 GATAGCTTTGATCACATGTGTGCTACTAAGTGCAGGCCACTATGTGTAA-AA
1 GATAGCTTTGATCACAAGTGTG-TACTATGTGCAGGCCACTATGTG-AAGAA
* * *
27891585 GATAGCTTTGGTCACAAGTGTAGTACTATGTGAAGGCCACTTTGTGAAGAA
1 GATAGCTTTGATCACAAGTGT-GTACTATGTGCAGGCCACTATGTGAAGAA
* *
27891636 GGTAGCTTTGA-CTACAAGGGTGGTACTATGTGCAGGCCAC
1 GATAGCTTTGATC-ACAAGTGT-GTACTATGTGCAGGCCAC
27891676 CGGGCATCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 3 0.04
51 74 0.95
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (50 bp):
GATAGCTTTGATCACAAGTGTGTACTATGTGCAGGCCACTATGTGAAGAA
Found at i:27903656 original size:21 final size:21
Alignment explanation
Indices: 27903632--27903671 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27903622 TTAATCTTCC
*
27903632 ATCATTCAACCATATTAAGTT
1 ATCAATCAACCATATTAAGTT
*
27903653 ATCAATCAACCATTTTAAG
1 ATCAATCAACCATATTAAG
27903672 GCTACTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (21 bp):
ATCAATCAACCATATTAAGTT
Found at i:27918860 original size:30 final size:30
Alignment explanation
Indices: 27918826--27918887 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
27918816 CTTAACAAGT
*
27918826 AAATGGCTCTAAAGTAATAAAAAAATTAAC
1 AAATGGCTCTAAAATAATAAAAAAATTAAC
* * *
27918856 AAATGTCTTTAAAATAATAAGAAAATTAAC
1 AAATGGCTCTAAAATAATAAAAAAATTAAC
27918886 AA
1 AA
27918888 TAAAATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (30 bp):
AAATGGCTCTAAAATAATAAAAAAATTAAC
Found at i:27919751 original size:156 final size:154
Alignment explanation
Indices: 27919461--27919778 Score: 406
Period size: 156 Copynumber: 2.0 Consensus size: 154
27919451 CATTTGGATA
*
27919461 AAAAACGCCGCTATAGATCAAGCATTAGTGACGCTTTTTAAAAAATGCCGCTATAGGTAGACCAT
1 AAAAACGCCGCTATAGATCAAGCATTAGCGACGCTTTTTAAAAAATGCCGCTATAGGTAGACCAT
* * * * * * * ** *
27919526 TAGCGGCATTTTTTGAAAAATACCACAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTAAGCT
66 TAACAGCACTTTCTGAAAAAGACCAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTT-AGCG
27919591 TTAGTGGCATTAGCAGCACTTTTTG
130 TTAGTGGCATTAGCAGCACTTTTTG
* * *
27919616 AAAAATGCCGCTATAGATCAAGCATTAGCGATGCTTTTTAAAAAAATGCCGCTATAGGTTGACCA
1 AAAAACGCCGCTATAGATCAAGCATTAGCGACGCTTTTT-AAAAAATGCCGCTATAGGTAGACCA
* * *
27919681 TTAACAGCGCTTTCTGAAAAGCGCCGCAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTT-G
65 TTAACAGCACTTTCTGAAAA-AGAC-CAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTTAG
* *
27919745 CGTTAGTGGCATTAGC-GACGCTTTTTA
128 CGTTAGTGGCATTAGCAG-CACTTTTTG
27919772 AAAAACG
1 AAAAACG
27919779 TCGCAAAAAT
Statistics
Matches: 139, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
155 37 0.27
156 68 0.49
157 1 0.01
158 33 0.24
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (154 bp):
AAAAACGCCGCTATAGATCAAGCATTAGCGACGCTTTTTAAAAAATGCCGCTATAGGTAGACCAT
TAACAGCACTTTCTGAAAAAGACCAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGTTAGCGT
TAGTGGCATTAGCAGCACTTTTTG
Found at i:27920102 original size:7 final size:7
Alignment explanation
Indices: 27920081--27920197 Score: 67
Period size: 7 Copynumber: 16.4 Consensus size: 7
27920071 TTAATTATCA
*
27920081 TTATAGT
1 TTATGGT
*
27920088 TTAGGGT
1 TTATGGT
27920095 TTATGGT
1 TTATGGT
27920102 TTATGGT
1 TTATGGT
*
27920109 ATATGGT
1 TTATGGT
*
27920116 TTAGGGT
1 TTATGGT
* *
27920123 TTAAGAT
1 TTATGGT
*
27920130 TTAGGAGT
1 TTATG-GT
*
27920138 TACAAT--T
1 T--TATGGT
*
27920145 TTAAGGT
1 TTATGGT
* *
27920152 ATATGGA
1 TTATGGT
27920159 TTATGGGT
1 TTAT-GGT
* *
27920167 TTAGGGA
1 TTATGGT
27920174 TTATGGT
1 TTATGGT
27920181 TTATGGT
1 TTATGGT
27920188 TTATGGT
1 TTATGGT
27920195 TTA
1 TTA
27920198 AGGGTTGGGA
Statistics
Matches: 81, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
5 1 0.01
7 72 0.89
8 7 0.09
10 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:27920169 original size:22 final size:22
Alignment explanation
Indices: 27920144--27920190 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
27920134 GAGTTACAAT
*
27920144 TTTAAGGTA-TATGGATTATGGG
1 TTTAAGGGATTATGGATTAT-GG
*
27920166 TTT-AGGGATTATGGTTTATGG
1 TTTAAGGGATTATGGATTATGG
27920187 TTTA
1 TTTA
27920191 TGGTTTAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGGATTATGGATTATGG
Found at i:27920216 original size:21 final size:21
Alignment explanation
Indices: 27920192--27920282 Score: 62
Period size: 21 Copynumber: 4.3 Consensus size: 21
27920182 TATGGTTTAT
27920192 GGTTTAAGGGTT-GGGATGTAA
1 GGTTTAAGGGTTAGGGAT-TAA
*
27920213 GGTTTAGGGGTTAGGGATTAA
1 GGTTTAAGGGTTAGGGATTAA
** *
27920234 -GTGTTAGAGATTTAGGGTTTAA
1 GGT-TTA-AGGGTTAGGGATTAA
** *
27920256 GGGATAA-GGTTAGGGGTTTAA
1 GGTTTAAGGGTTA-GGGATTAA
27920277 GGTTTA
1 GGTTTA
27920283 GATTAATTAG
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
20 5 0.09
21 30 0.56
22 18 0.33
23 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGATTAA
Found at i:27922465 original size:48 final size:48
Alignment explanation
Indices: 27922394--27922532 Score: 197
Period size: 48 Copynumber: 2.9 Consensus size: 48
27922384 GGTAAATTAT
27922394 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
* * * * * *
27922442 CGATGCCATGTCCCAAATATGGTCTTACATTGGCTCTCATAACGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
* * *
27922490 CGATGTCATGTCCCAGACATGGTCTTACACTAGCGCACATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
27922533 ACCCAAACGT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
Found at i:27926221 original size:9 final size:9
Alignment explanation
Indices: 27926207--27926544 Score: 239
Period size: 9 Copynumber: 37.9 Consensus size: 9
27926197 TTCTTTAAAA
27926207 TTACATAAC
1 TTACATAAC
*
27926216 TTACATATC
1 TTACATAAC
*
27926225 TTACATAAA
1 TTACATAAC
*
27926234 TGT--ATATC
1 T-TACATAAC
*
27926242 ATATCATAAC
1 TTA-CATAAC
*
27926252 TTACATACC
1 TTACATAAC
*
27926261 TCACATAAC
1 TTACATAAC
*
27926270 ATACATAAC
1 TTACATAAC
27926279 TTACATAAC
1 TTACATAAC
27926288 TT--ATAA-
1 TTACATAAC
* * *
27926294 ATATATATC
1 TTACATAAC
* *
27926303 ATATCAAAAC
1 TTA-CATAAC
27926313 TTACATAAC
1 TTACATAAC
27926322 TTACATAA-
1 TTACATAAC
27926330 -TACATAA-
1 TTACATAAC
* * *
27926337 ATATATATC
1 TTACATAAC
* *
27926346 ATATCATAAA
1 TTA-CATAAC
27926356 TGT-CATAAC
1 T-TACATAAC
*
27926365 TTATATAAC
1 TTACATAAC
27926374 TTACATAAC
1 TTACATAAC
*
27926383 TTACATAAT
1 TTACATAAC
27926392 TTACATAAC
1 TTACATAAC
*
27926401 TTACATAAT
1 TTACATAAC
*
27926410 TTACATAAT
1 TTACATAAC
27926419 TTACATAAC
1 TTACATAAC
*
27926428 TTACATAAT
1 TTACATAAC
27926437 TTACATAA-
1 TTACATAAC
*
27926445 TGTACATAAT
1 T-TACATAAC
*
27926455 TTACATAAT
1 TTACATAAC
*
27926464 TTTCATAAC
1 TTACATAAC
27926473 TTACATAAC
1 TTACATAAC
*
27926482 TTACATAAT
1 TTACATAAC
* *
27926491 TTACATGAT
1 TTACATAAC
*
27926500 TTACATTAAT
1 TTACA-TAAC
*
27926510 TTTCATAAC
1 TTACATAAC
**
27926519 TTACATATT
1 TTACATAAC
27926528 TTACATAA-
1 TTACATAAC
27926536 TTGACATAA
1 TT-ACATAA
27926545 ATAAATATCA
Statistics
Matches: 265, Mismatches: 47, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
6 1 0.00
7 12 0.05
8 15 0.06
9 213 0.80
10 23 0.09
11 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.38
Consensus pattern (9 bp):
TTACATAAC
Found at i:27926251 original size:36 final size:34
Alignment explanation
Indices: 27926210--27926329 Score: 112
Period size: 34 Copynumber: 3.6 Consensus size: 34
27926200 TTTAAAATTA
*
27926210 CATAACTTACATATCTTACATAAATGTATATCATAT
1 CATAACTTACATAACTT-CATAAAT-TATATCATAT
* *
27926246 CATAACTTACAT-ACCTC--ACA-TA-A-CATA-
1 CATAACTTACATAACTTCATAAATTATATCATAT
27926273 CATAACTTACATAACTT-ATAAATATATATCATAT
1 CATAACTTACATAACTTCATAAAT-TATATCATAT
*
27926307 CAAAACTTACATAACTTACATAA
1 CATAACTTACATAACTT-CATAA
27926330 TACATAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
27 12 0.18
28 7 0.10
29 3 0.04
30 2 0.03
31 2 0.03
32 3 0.04
33 4 0.06
34 17 0.25
35 2 0.03
36 16 0.24
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (34 bp):
CATAACTTACATAACTTCATAAATTATATCATAT
Found at i:27926305 original size:61 final size:60
Alignment explanation
Indices: 27926208--27926462 Score: 215
Period size: 61 Copynumber: 4.3 Consensus size: 60
27926198 TCTTTAAAAT
* * *
27926208 TACATAACTTACATATCTTACATAAATGTATATCATATCATAACTTACATACCTCACATAACA
1 TACATAACTTACATAACTT--ATAAATGTATATCATATCATAACTTACATAACTTACATAA-A
* *
27926271 TACATAACTTACATAACTTATAAATATATATCATATCAAAACTTACATAACTTACAT-AA
1 TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAAA
* * * * * *
27926330 TACATAAATATATATCATA-TCATAAATGTCATAACTTAT-ATAACTTACATAACTTACATAATT
1 TACATAACT-TACAT-A-ACTTATAAATGT-ATATCATATCATAACTTACATAACTTACATAA-A
* * * *
27926393 TACATAACTTACATAA-TT-TACA--TA-AT-TTA-CATAACTTACATAATTTACATAATG
1 TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAA-A
*
27926447 TACATAATTTACATAA
1 TACATAACTTACATAA
27926463 TTTTCATAAC
Statistics
Matches: 164, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
54 40 0.24
55 1 0.01
56 1 0.01
57 1 0.01
59 12 0.07
60 7 0.04
61 63 0.38
62 13 0.08
63 26 0.16
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (60 bp):
TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAAA
Found at i:27926320 original size:43 final size:44
Alignment explanation
Indices: 27926271--27926376 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 44
27926261 TCACATAACA
27926271 TACATAACTTACATAACTTATAAATATATATCATATCA-AAACT-
1 TACATAACTTACATAACTTATAAATATATATCATATCATAAA-TG
*
27926314 TACATAACTTACATAA-TACATAAATATATATCATATCATAAATG
1 TACATAACTTACATAACT-TATAAATATATATCATATCATAAATG
*
27926358 T-CATAACTTATATAACTTA
1 TACATAACTTACATAACTTA
27926377 CATAACTTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
42 1 0.02
43 50 0.89
44 5 0.09
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (44 bp):
TACATAACTTACATAACTTATAAATATATATCATATCATAAATG
Found at i:27930849 original size:5 final size:5
Alignment explanation
Indices: 27930839--27930910 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
27930829 TTATTCTAAT
*
27930839 TTTTA TTTTA -TTTA TTTTA TTTTTA TTTCA CTTTTGA TTTTTA TTTTCA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA -TTTT-A -TTTTA TTTT-A
*
27930888 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
27930911 GAAAGACATA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
3 3 0.06
4 4 0.07
5 25 0.46
6 17 0.31
7 5 0.09
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:27930849 original size:21 final size:20
Alignment explanation
Indices: 27930823--27930866 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
27930813 CCTCCTATTT
27930823 TTTTATTTATTCTAATTTTTA
1 TTTTATTTATT-TAATTTTTA
*
27930844 TTTTATTTATTTTATTTTTA
1 TTTTATTTATTTAATTTTTA
27930864 TTT
1 TTT
27930867 CACTTTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATTTATTTAATTTTTA
Found at i:27930880 original size:18 final size:15
Alignment explanation
Indices: 27930839--27930910 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 15
27930829 TTATTCTAAT
27930839 TTTTA-TTTTATTTA
1 TTTTATTTTTATTTA
27930853 TTTTATTTTTATTTCA
1 TTTTATTTTTATTT-A
27930869 CTTTTGATTTTTATTTTCA
1 -TTTT-ATTTTTA-TTT-A
* *
27930888 TTTCAATTTTA-TTA
1 TTTTATTTTTATTTA
27930902 TTTTATTTT
1 TTTTATTTT
27930911 GAAAGACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
14 13 0.27
15 10 0.20
16 1 0.02
17 10 0.20
18 10 0.20
19 5 0.10
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:27930885 original size:24 final size:25
Alignment explanation
Indices: 27930843--27930910 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 25
27930833 TCTAATTTTT
*
27930843 ATTTTATTTATTTTATTTTTATTTCA
1 ATTTTA-TTATTTTATTTTCATTTCA
*
27930869 CTTTTGA-T-TTTTATTTTCATTTCA
1 ATTTT-ATTATTTTATTTTCATTTCA
27930893 ATTTTATTATTTTATTTT
1 ATTTTATTATTTTATTTT
27930911 GAAAGACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 1 0.03
24 20 0.56
25 10 0.28
26 4 0.11
27 1 0.03
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (25 bp):
ATTTTATTATTTTATTTTCATTTCA
Found at i:27933746 original size:13 final size:13
Alignment explanation
Indices: 27933730--27933754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27933720 TTAAATCAGT
27933730 TAATTAGTTTAAA
1 TAATTAGTTTAAA
27933743 TAATTAGTTTAA
1 TAATTAGTTTAA
27933755 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:27935082 original size:6 final size:6
Alignment explanation
Indices: 27935039--27935078 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
27935029 TGTTAGTTTT
27935039 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCC- TTTCC
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCC
27935079 CTTTTTTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTCCA
Found at i:27943678 original size:17 final size:17
Alignment explanation
Indices: 27943656--27943691 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27943646 GGCGCTACTG
27943656 AAGGAAAGGGTAAAGAT
1 AAGGAAAGGGTAAAGAT
27943673 AAGGAAAGGGTAAAGAT
1 AAGGAAAGGGTAAAGAT
27943690 AA
1 AA
27943692 TATTAGTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.11
Consensus pattern (17 bp):
AAGGAAAGGGTAAAGAT
Found at i:27943819 original size:7 final size:7
Alignment explanation
Indices: 27943807--27943838 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
27943797 GCGTGTTTGC
27943807 TGCAACT
1 TGCAACT
27943814 TGCAACT
1 TGCAACT
27943821 TGCAACT
1 TGCAACT
27943828 TGCAACT
1 TGCAACT
27943835 TGCA
1 TGCA
27943839 GACGAGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (7 bp):
TGCAACT
Found at i:27944617 original size:21 final size:21
Alignment explanation
Indices: 27944591--27944636 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
27944581 TAGAAAACAC
27944591 TTTTGAGAATTTTTTTATTTA
1 TTTTGAGAATTTTTTTATTTA
27944612 TTTTGAGAATTTTTTTATTTA
1 TTTTGAGAATTTTTTTATTTA
27944633 TTTT
1 TTTT
27944637 CCAAGTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (21 bp):
TTTTGAGAATTTTTTTATTTA
Found at i:27948984 original size:30 final size:30
Alignment explanation
Indices: 27948948--27949013 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
27948938 AAACCGTCAT
* *
27948948 TTTTCATTAATTGATTGTCA-TCACCATCCC
1 TTTTCATTAATTGATGGT-AGTCACCACCCC
*
27948978 TTTTCA-TAGTTGATGGTAGTCACCACCCC
1 TTTTCATTAATTGATGGTAGTCACCACCCC
27949007 TTTTCAT
1 TTTTCAT
27949014 AATCGATAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 24 0.77
30 6 0.19
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (30 bp):
TTTTCATTAATTGATGGTAGTCACCACCCC
Found at i:27949036 original size:29 final size:29
Alignment explanation
Indices: 27949004--27949223 Score: 205
Period size: 29 Copynumber: 7.6 Consensus size: 29
27948994 TAGTCACCAC
* *
27949004 CCCTTTTCATAATCGATAGCCAAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
* *
27949033 CCC-TTTCATATACAATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
* * * *
27949061 CCCTTTTCATATTCGATGGTCGTCA-CCAT
1 CCCTTTTCATATTCGATAGCCG-AAGCTAT
* * * * *
27949090 CTCTTTTCATAGTT-GATGGTCGTCA-CCAT
1 CCCTTTTCATA-TTCGATAGCCG-AAGCTAT
* * *
27949119 CTCTTTTCATAATCGATAGCCGAATCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
*
27949148 CCCTTTTTATATTCGATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
***
27949177 TAGTTTTCATATTCGATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
27949206 CCCTTTTCATATTCGATA
1 CCCTTTTCATATTCGATA
27949224 ATCGTCGATA
Statistics
Matches: 159, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
28 26 0.16
29 130 0.82
30 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
CCCTTTTCATATTCGATAGCCGAAGCTAT
Found at i:27949125 original size:115 final size:116
Alignment explanation
Indices: 27948968--27949193 Score: 337
Period size: 115 Copynumber: 2.0 Consensus size: 116
27948958 TTGATTGTCA
27948968 TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
1 TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
*
27949033 CCC-TTTCATATACAATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCG
66 CCCTTTTCATATACAATAGCCGAAGCTATCACTTTTCATATTCGATGGTCG
* * * * * *
27949083 TCACCATCTCTTTTCATAGTTGATGGTCGTCACCATCTCTTTTCATAATCGATAGCCGAATCTAT
1 TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
* * * * *
27949148 CCCTTTTTATATTCGATAGCCGAAGCTATTAGTTTTCATATTCGAT
66 CCCTTTTCATATACAATAGCCGAAGCTATCACTTTTCATATTCGAT
27949194 AGCCGAAGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
115 62 0.63
116 36 0.37
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (116 bp):
TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
CCCTTTTCATATACAATAGCCGAAGCTATCACTTTTCATATTCGATGGTCG
Found at i:27951044 original size:24 final size:24
Alignment explanation
Indices: 27951016--27951063 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27951006 CTTGACAACA
27951016 ACACCTTTACGCTTGATCTTAGGT
1 ACACCTTTACGCTTGATCTTAGGT
27951040 ACACCTTTACGCTTGATCTTAGGT
1 ACACCTTTACGCTTGATCTTAGGT
27951064 GTGTTCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
ACACCTTTACGCTTGATCTTAGGT
Found at i:27955480 original size:44 final size:44
Alignment explanation
Indices: 27955431--27955529 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
27955421 TAACATTCCC
*
27955431 ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTTCGT
1 ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTCCGT
*
27955475 ACACTTAGTGCTTTAAGGGTTAGCCGATGCTAGAACAATTCCGT
1 ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTCCGT
27955519 ACACTTAGTGC
1 ACACTTAGTGC
27955530 CATTTCAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTCCGT
Found at i:27960125 original size:43 final size:43
Alignment explanation
Indices: 27960077--27960197 Score: 215
Period size: 43 Copynumber: 2.8 Consensus size: 43
27960067 CCGGCATTAC
27960077 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
27960120 GCCTGCTAGGCACAAAGGCCCGAATACACATCACTGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
27960163 GCCTGCTAGGCACGAAGGCCCGAATACACATCACC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACC
27960198 TGTAACACCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:27961626 original size:40 final size:40
Alignment explanation
Indices: 27961565--27961811 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
27961555 CGGAATTTAG
* * * *
27961565 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
27961605 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
27961645 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
27961685 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
27961725 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
27961765 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
27961805 CCGGATA
1 CCGGATA
27961812 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:27963885 original size:43 final size:43
Alignment explanation
Indices: 27963837--27963965 Score: 224
Period size: 43 Copynumber: 3.0 Consensus size: 43
27963827 TTTGGGCTGT
27963837 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
1 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
*
27963880 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATA
1 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
*
27963923 CACATCACCGGCACTAAGCCTAG-TAGGCATGAAGGCCCGAATA
1 CACATCACCGGCACTAAGCCT-GCTAGGCACGAAGGCCCGAATA
27963966 TAATACCAGC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
43 81 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (43 bp):
CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
Found at i:27969491 original size:45 final size:45
Alignment explanation
Indices: 27969390--27969516 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
27969380 TTTTCTCAAA
* *
27969390 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
27969432 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* ** * *
27969476 CTCACCGGAATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
27969517 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 39 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:27969894 original size:43 final size:43
Alignment explanation
Indices: 27969833--27970021 Score: 283
Period size: 43 Copynumber: 4.4 Consensus size: 43
27969823 ACATATCATT
* *
27969833 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
27969876 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
27969919 TCATCAGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
27969962 TCACCGGTACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
27970004 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
27970022 GGGATTTATC
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 14 0.11
42 2 0.02
43 117 0.88
ACGTcount: A:0.30, C:0.33, G:0.23, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:27970041 original size:38 final size:38
Alignment explanation
Indices: 27969993--27970076 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
27969983 GGCACGAAGG
* * *
27969993 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
27970031 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
27970069 CCCGAATA
1 CCCGAATA
27970077 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:27973877 original size:33 final size:33
Alignment explanation
Indices: 27973832--27973896 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
27973822 AATGCCTTCG
27973832 GGACTTAACCGGTTATAATAACCCGCACGAATT
1 GGACTTAACCGGTTATAATAACCCGCACGAATT
*
27973865 GGACTTACCCGGTTATAATAACCCGCACGAAT
1 GGACTTAACCGGTTATAATAACCCGCACGAAT
27973897 GCCTTCGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (33 bp):
GGACTTAACCGGTTATAATAACCCGCACGAATT
Found at i:27973922 original size:40 final size:40
Alignment explanation
Indices: 27973812--27973961 Score: 208
Period size: 40 Copynumber: 4.0 Consensus size: 40
27973802 CGGATGTAAC
* *
27973812 AACCAGCACAAATGCCTTCGGGACTTAA-CCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
27973851 AACCCGCACGAA----TT--GGACTT-ACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
27973884 AACCCGCACGAATGCCTTCGGGACTTAACCCTGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
27973924 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
27973962 TTTTTTTCCA
Statistics
Matches: 98, Mismatches: 5, Indels: 15
0.83 0.04 0.13
Matches are distributed among these distances:
32 1 0.01
33 29 0.30
35 2 0.02
37 2 0.02
39 16 0.16
40 48 0.49
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:27982209 original size:38 final size:40
Alignment explanation
Indices: 27982132--27982282 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 40
27982122 CGGATGTAAC
* *
27982132 AACCAGCACAAATGCCTTC-GGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
27982171 AACCCGCACGAATGCCTTC-GGACTT-ACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
27982209 AACCCGCACGAATGCCTTCGGGACTTAACCC---TATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
27982246 AACCCGCACGAATGCCTTCGGGACTTAA-CCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
27982283 TTTTTTTCCA
Statistics
Matches: 105, Mismatches: 2, Indels: 10
0.90 0.02 0.09
Matches are distributed among these distances:
36 2 0.02
37 34 0.32
38 32 0.30
39 33 0.31
40 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:27986852 original size:26 final size:26
Alignment explanation
Indices: 27986818--27986870 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
27986808 CTTCTTTTTT
*
27986818 AATAATGCATTTGGAAATAATTTTGA
1 AATAATGCACTTGGAAATAATTTTGA
*
27986844 AATAGTGCACTTGGAAATAATTTTGA
1 AATAATGCACTTGGAAATAATTTTGA
27986870 A
1 A
27986871 CTCTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (26 bp):
AATAATGCACTTGGAAATAATTTTGA
Found at i:27992078 original size:47 final size:48
Alignment explanation
Indices: 27992019--27992242 Score: 232
Period size: 47 Copynumber: 4.8 Consensus size: 48
27992009 TGGGTAAGGT
27992019 GCCGATGCCATGTCCCAGACATGATCTTACACTAGCTAAT-ATCTC-AA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTAATCATCTCGAA
** *
27992066 GTTGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTAATCATCTCGAA
* * * *
27992114 GCCGATG-CATGTGCCAGACATGTTTTACACTAGCTTA-CATCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTAATCATCTCGAA
* * * *
27992160 GCCGAT-ACATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTC-AGT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTAATCATCTCGA-A
*
27992206 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCT
27992243 TCCATAATTT
Statistics
Matches: 148, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 62 0.42
47 65 0.44
48 20 0.14
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTAATCATCTCGAA
Found at i:27992275 original size:94 final size:94
Alignment explanation
Indices: 27992019--27992290 Score: 281
Period size: 94 Copynumber: 2.9 Consensus size: 94
27992009 TGGGTAAGGT
* * * **
27992019 GCCGATGCCATGTCCCAGACATGATCTTACACTAGC-TAATATCTCAAGTTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCATATCT-AGGCCGATG-CATGTCCCA
27992083 GACATGGTCTTACACT-G-ACTATCATCTCGTA
64 GACAT-GTCTTACACTAGCAC-ATCATCTCGTA
* * * * *
27992114 GCCGATG-CATGTGCCAGACAT-GTTTTACACTAGCTTACATCTCGAGGCCGATACATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTT-CATATCTAGGCCGATGCATGTCCCAG
*
27992177 ACATGTCTTACACTAGCAC-TCGTCTCAGT-
65 ACATGTCTTACACTAGCACATCATCTC-GTA
* *
27992206 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAAT-TTGGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTT-CAT-ATCTAGGCCGATGCATGTCCCA
* *
27992270 AACATGTTTTACACTAGCACA
64 GACATGTCTTACACTAGCACA
27992291 CACAAGTGAC
Statistics
Matches: 147, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
92 22 0.15
93 41 0.28
94 72 0.49
95 12 0.08
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCATATCTAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACATCATCTCGTA
Found at i:27992279 original size:140 final size:140
Alignment explanation
Indices: 27992027--27992287 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 140
27992017 GTGCCGATGC
27992027 CATGTCCCAGACATGATCTTACACTAGCTAATATCTCAAGTTGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGATCTTACACTAGCTAATATCTCAAGTTGATGCCATGTCCCAGACATGGTC
* * *
27992092 TTACACTGACTATCATCTCGTAGCCGATGCATGTGCCAGACATGTTTTACACTAGCTTACATCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAAACATGTTTTACACTAGCTTACATCTC
27992157 GAGGCCGATA
131 GAGGCCGATA
* *
27992167 CATGTCCCAGACATG-TCTTACACTAGC-ACTCGTCTC-AGTGTCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGATCTTACACTAGCTAAT-ATCTCAAGT-T-GATGCCATGTCCCAGACATG
* *
27992229 GTCTTACACT-AGCT-TCCATAAT-TTGGCCGATGCATGTCCCAAACATGTTTTACACTAGC
63 GTCTTACACTGA-CTAT-CAT-ATCGTAGCCGATGCATGTCCCAAACATGTTTTACACTAGC
27992288 ACACACAAGT
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
138 5 0.05
139 19 0.18
140 83 0.77
141 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGATCTTACACTAGCTAATATCTCAAGTTGATGCCATGTCCCAGACATGGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAAACATGTTTTACACTAGCTTACATCTC
GAGGCCGATA
Found at i:27998074 original size:27 final size:26
Alignment explanation
Indices: 27998044--27998129 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
27998034 ATATACAATG
27998044 AATCAATATAAGCCAATACATATGGCT
1 AATCAATATAAG-CAATACATATGGCT
* ***
27998071 AATC-ATAATAGTAGCTAT-CATAAAACT
1 AATCAAT-ATA--AGCAATACATATGGCT
27998098 AATCAATATAAGACAATACATATGGCT
1 AATCAATATAAG-CAATACATATGGCT
27998125 AATCA
1 AATCA
27998130 TAATAGTAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
25 2 0.04
26 5 0.11
27 31 0.69
28 5 0.11
29 2 0.04
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (26 bp):
AATCAATATAAGCAATACATATGGCT
Found at i:27998108 original size:54 final size:54
Alignment explanation
Indices: 27998044--27998153 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
27998034 ATATACAATG
* *
27998044 AATCAATATAAGCCAATACATATGGCTAATCATAATAGTAGCTATCATAAAACT
1 AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
27998098 AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
1 AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
27998152 AA
1 AA
27998154 GTCCCTATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.26
Consensus pattern (54 bp):
AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
Found at i:27998146 original size:27 final size:26
Alignment explanation
Indices: 27998060--27998142 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
27998050 TATAAGCCAA
27998060 TACATATGGCTAATCATAATAGTAGC
1 TACATATGGCTAATCATAATAGTAGC
***
27998086 TATCATAAAACTAATC--AATA-TAAGAC
1 TA-CATATGGCTAATCATAATAGT-AG-C
27998112 AATACATATGGCTAATCATAATAGTAGC
1 --TACATATGGCTAATCATAATAGTAGC
27998140 TAC
1 TAC
27998143 CATAAAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
24 1 0.02
25 6 0.14
26 6 0.14
27 20 0.47
28 3 0.07
29 6 0.14
30 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (26 bp):
TACATATGGCTAATCATAATAGTAGC
Found at i:27998153 original size:27 final size:26
Alignment explanation
Indices: 27998069--27998153 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 26
27998059 ATACATATGG
27998069 CTAATCATAATAGTAGCTATCATAAAA
1 CTAATCATAATAGTAGCTA-CATAAAA
***
27998096 CTAATC--AATA-TAAGACAATACATATGG
1 CTAATCATAATAGT-AG-C--TACATAAAA
27998123 CTAATCATAATAGTAGCTACCATAAAA
1 CTAATCATAATAGTAGCTA-CATAAAA
27998150 CTAA
1 CTAA
27998154 GTCCCTATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 1 0.02
25 6 0.14
26 3 0.07
27 24 0.55
28 3 0.07
29 6 0.14
30 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.27
Consensus pattern (26 bp):
CTAATCATAATAGTAGCTACATAAAA
Found at i:27999466 original size:43 final size:43
Alignment explanation
Indices: 27999396--27999479 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
27999386 TACATGAATC
* *
27999396 GCATCCATTATGAACTTGGACCACTCAACGAGCTCGGATGCTT
1 GCATCCATAATGAACTTAGACCACTCAACGAGCTCGGATGCTT
* *
27999439 GCATCCATAATGAACTTAGACCTCTCAACGAGCTTGGATGC
1 GCATCCATAATGAACTTAGACCACTCAACGAGCTCGGATGC
27999480 CACATAGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
GCATCCATAATGAACTTAGACCACTCAACGAGCTCGGATGCTT
Found at i:27999509 original size:42 final size:43
Alignment explanation
Indices: 27999407--27999528 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 43
27999397 CATCCATTAT
** * *
27999407 GAACTTGGACCACTCAACGAGCTCGGATGCTTGCATCCATAAT
1 GAACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAAC
* * * * *
27999450 GAACTTAGACCTCTCAACGAGCTTGGATGC-CACATAGATCAC
1 GAACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAAC
* * * *
27999492 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATA
1 GAACTTGGACCACTCAACGAGCTCGGATGCTCACATA
27999529 TATCACAAAC
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GAACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAAC
Found at i:28002217 original size:15 final size:15
Alignment explanation
Indices: 28002183--28002242 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
28002173 TATAGATAAC
* * *
28002183 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
28002198 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
28002213 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
28002228 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
28002243 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:28007749 original size:41 final size:43
Alignment explanation
Indices: 28007659--28007750 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 43
28007649 TGTTTAGCCG
** **
28007659 AAGCTATAACGATATCGCACACTTAGTGCCATCACATTGAACTG
1 AAGCTATAACGATATCGCACACTTAGTGCCA-CACATAAAACCA
* *
28007703 GAGCTATATCGATATCGCACACTTAGTG-C-CACATAAAACCA
1 AAGCTATAACGATATCGCACACTTAGTGCCACACATAAAACCA
28007744 AAGCTAT
1 AAGCTAT
28007751 TTCAATTCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
41 14 0.34
43 1 0.02
44 26 0.63
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (43 bp):
AAGCTATAACGATATCGCACACTTAGTGCCACACATAAAACCA
Found at i:28013063 original size:42 final size:42
Alignment explanation
Indices: 28012954--28013082 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 42
28012944 AGTTAGTGCC
* * * * *
28012954 AAATAAATAGCTGAAGCTATTTCAGTCTTGCACACTAAGTGCCAAT
1 AAATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTG----T
* * *
28013000 ATATATATAGCCGAAGCTATCTCGATCTCGCATACTAAGTGT
1 AAATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGT
* *
28013042 AAATATATAGCCGAAGTTATCTCAATTTCGCACACTAAGTG
1 AAATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTG
28013083 CCCAAAATTA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 37 0.53
46 33 0.47
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (42 bp):
AAATATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGT
Found at i:28013772 original size:25 final size:25
Alignment explanation
Indices: 28013744--28013821 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
28013734 AAAATGAGTT
28013744 AAAATTGCTTACCTAATTGAAGGAG
1 AAAATTGCTTACCTAATTGAAGGAG
* ** * ***
28013769 AAAA--GCTTGCAAAAATTCAAGCCC
1 AAAATTGCTTAC-CTAATTGAAGGAG
*
28013793 TAAATTGCTTACCTAATTGAAGGAG
1 AAAATTGCTTACCTAATTGAAGGAG
28013818 AAAA
1 AAAA
28013822 GCTTGCCAAA
Statistics
Matches: 34, Mismatches: 16, Indels: 6
0.61 0.29 0.11
Matches are distributed among these distances:
23 5 0.15
24 10 0.29
25 14 0.41
26 5 0.15
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (25 bp):
AAAATTGCTTACCTAATTGAAGGAG
Found at i:28013802 original size:49 final size:49
Alignment explanation
Indices: 28013745--28013846 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
28013735 AAATGAGTTA
28013745 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
1 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
* *
28013794 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCCAAAATTCAAGCTCT
1 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
28013843 AAAT
1 AAAT
28013847 GGATTTTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (49 bp):
AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
Found at i:28013834 original size:24 final size:24
Alignment explanation
Indices: 28013758--28013834 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
28013748 TTGCTTACCT
*
28013758 AATTGAAGGAGAAAAGCTTGCAAA
1 AATTGAAGGAGAAAAGCTTGCCAA
* *** * * *
28013782 AATTCAAGCCCTAAATTGCTTACC-T
1 AATTGAAG-GAGAAA-AGCTTGCCAA
28013807 AATTGAAGGAGAAAAGCTTGCCAA
1 AATTGAAGGAGAAAAGCTTGCCAA
28013831 AATT
1 AATT
28013835 CAAGCTCTAA
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
23 6 0.17
24 14 0.40
25 10 0.29
26 5 0.14
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (24 bp):
AATTGAAGGAGAAAAGCTTGCCAA
Found at i:28015573 original size:17 final size:18
Alignment explanation
Indices: 28015541--28015574 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28015531 TATTCTCCAT
*
28015541 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
28015559 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
28015575 CAATTCGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:28022303 original size:97 final size:97
Alignment explanation
Indices: 28022123--28022307 Score: 255
Period size: 97 Copynumber: 1.9 Consensus size: 97
28022113 TTTTTAAGAA
* * * *
28022123 TATGTTAGGCTGAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAAGGTTC
1 TATGTTAGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAAGGTTC
* * *
28022188 GATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 AATATATTCTAAAGAAAAATAAAAATTAGGAG
* * *
28022220 TATGTTGGGCTAAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTTACATC-AAAAGGTTC
1 TATGTTAGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAAGGTTC
*
28022284 AATATATTCCTAAATAAAAATAAA
66 AATATATT-CTAAAGAAAAATAAA
28022308 TAAATAAAGT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 15 0.20
97 61 0.80
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (97 bp):
TATGTTAGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAAGGTTC
AATATATTCTAAAGAAAAATAAAAATTAGGAG
Found at i:28022931 original size:14 final size:13
Alignment explanation
Indices: 28022912--28022949 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
28022902 ATTTAATTTT
28022912 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
28022926 TAATTATTAAGGA
1 TAATTATTTAGGA
28022939 TAATTATTTAG
1 TAATTATTTAG
28022950 CTTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:28023005 original size:10 final size:10
Alignment explanation
Indices: 28022975--28023022 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
28022965 TTATTTCTAT
28022975 TTATCTTTAA
1 TTATCTTTAA
*
28022985 CTATCTTTAA
1 TTATCTTTAA
28022995 TTATCTTTAA
1 TTATCTTTAA
*
28023005 TTAT-TTGTAT
1 TTATCTT-TAA
28023015 TTATCTTT
1 TTATCTTT
28023023 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:28032327 original size:47 final size:47
Alignment explanation
Indices: 28032176--28032351 Score: 166
Period size: 47 Copynumber: 3.8 Consensus size: 47
28032166 TGTAACCCGC
* * *
28032176 CCATAAGTGAACTCGGACTCAACTCAACAAGCT-GGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACAGTTCACAT
*
28032221 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-AGTTCACAT
* * * ** *
28032271 -C-TCA-CGAACTCAGACTCAACTCAACTCGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACAGTTCACAT
**
28032315 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
28032352 TGTTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 32 0.30
46 4 0.04
47 51 0.49
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACAGTTCACAT
Found at i:28032807 original size:30 final size:30
Alignment explanation
Indices: 28032773--28032833 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
28032763 TCCTTAATAC
28032773 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
** *
28032803 AAACTTTTTCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
28032833 A
1 A
28032834 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:28034217 original size:13 final size:13
Alignment explanation
Indices: 28034199--28034225 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
28034189 CTTTTCTTCG
28034199 GTTTCTTTTATTA
1 GTTTCTTTTATTA
28034212 GTTTCTTTTATTA
1 GTTTCTTTTATTA
28034225 G
1 G
28034226 ATCAACTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.11, T:0.67
Consensus pattern (13 bp):
GTTTCTTTTATTA
Found at i:28039840 original size:47 final size:47
Alignment explanation
Indices: 28039688--28039864 Score: 211
Period size: 47 Copynumber: 3.8 Consensus size: 47
28039678 TGTAACCTGC
* * * *
28039688 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
28039734 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC-AGTTCACAT
* * *
28039784 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
28039828 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
28039865 TGTTCAACCA
Statistics
Matches: 112, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.03
44 6 0.05
45 1 0.01
46 35 0.31
47 56 0.50
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:28040339 original size:30 final size:29
Alignment explanation
Indices: 28040286--28040345 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 29
28040276 TCCTTAATAC
28040286 AAACTTTGGCAAATTACCATTTTGCCCCT
1 AAACTTTGGCAAATTACCATTTTGCCCCT
*
28040315 AAACTTTTGCATAATTA-CACTTTTGCCCCT
1 AAACTTTGGCA-AATTACCA-TTTTGCCCCT
28040345 A
1 A
28040346 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (29 bp):
AAACTTTGGCAAATTACCATTTTGCCCCT
Found at i:28043761 original size:33 final size:33
Alignment explanation
Indices: 28043733--28043800 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
28043723 TAAAGATATA
28043733 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
1 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
28043766 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
1 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
28043799 AA
1 AA
28043801 GTTTTCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (33 bp):
AACCTTCATGCATGTCTAATCTCAAAAGAAACT
Found at i:28050751 original size:7 final size:7
Alignment explanation
Indices: 28050739--28050768 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
28050729 CACATCCATT
*
28050739 ACCAACA
1 ACCAACC
28050746 ACCAACC
1 ACCAACC
28050753 ACCAACC
1 ACCAACC
28050760 ACCAACC
1 ACCAACC
28050767 AC
1 AC
28050769 ATCACAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (7 bp):
ACCAACC
Found at i:28054224 original size:21 final size:21
Alignment explanation
Indices: 28054186--28054234 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
28054176 ATGATTGAGG
**
28054186 TTTTGAATGATTTTTGATAAA
1 TTTTGAATGATTGATGATAAA
* *
28054207 TTTTGAATGCTTGATGATAGA
1 TTTTGAATGATTGATGATAAA
*
28054228 TATTGAA
1 TTTTGAA
28054235 GTTTTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (21 bp):
TTTTGAATGATTGATGATAAA
Found at i:28054895 original size:43 final size:42
Alignment explanation
Indices: 28054809--28054954 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 42
28054799 TAATTACATA
* * *
28054809 TAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTACT-AGATTACGTG
* *
28054852 TAAGACCATGTATGGGACATTGGCATCGTTAACT-GATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCG-T-ACTAGATTACGTG
* * * * * *
28054895 TAAGACCCTATCTGGGACAGTGGCATCGATA-TGTGATAACATG
1 TAAGACCATGTCTGGGACATTGGCATCG-TACT-AGATTACGTG
*
28054938 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
28054955 TATGGCAATG
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 80 0.94
44 1 0.01
45 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGTACTAGATTACGTG
Found at i:28056232 original size:26 final size:26
Alignment explanation
Indices: 28056152--28056263 Score: 127
Period size: 26 Copynumber: 4.2 Consensus size: 26
28056142 AATTTGCCAT
*
28056152 TTTTACCTTACTGGGGTA-TTCAGTCA
1 TTTTACCCTA-TGGGGTATTTCAGTCA
* *
28056178 TTTTACCCTTACAGGGGTATTTCGGTCA
1 TTTTACCC-TA-TGGGGTATTTCAGTCA
* *
28056206 TTCTACCCTATGGGGTATTTCAATCA
1 TTTTACCCTATGGGGTATTTCAGTCA
*
28056232 TTTTACCCTATGAGGGTATTTCAGTTA
1 TTTTACCCTATG-GGGTATTTCAGTCA
28056259 TTTTA
1 TTTTA
28056264 TCACATAAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 31 0.42
27 28 0.38
28 14 0.19
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (26 bp):
TTTTACCCTATGGGGTATTTCAGTCA
Found at i:28056274 original size:27 final size:27
Alignment explanation
Indices: 28056165--28056274 Score: 66
Period size: 27 Copynumber: 4.1 Consensus size: 27
28056155 TACCTTACTG
* *
28056165 GGGTA-TTCAGTCATTTTACCCT-TACA
1 GGGTATTTCAATCATTTTACACTATA-A
** * * *
28056191 GGGGTATTTCGGTCATTCTACCCTAT-G
1 -GGGTATTTCAATCATTTTACACTATAA
* *
28056218 GGGTATTTCAATCATTTTACCCTATGA
1 GGGTATTTCAATCATTTTACACTATAA
* *
28056245 GGGTATTTCAGTTATTTTATCAC-ATAA
1 GGGTATTTCAATCATTTTA-CACTATAA
28056272 GGG
1 GGG
28056275 AAAAATTGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 22 0.32
27 28 0.41
28 17 0.25
29 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAATCATTTTACACTATAA
Found at i:28056292 original size:27 final size:27
Alignment explanation
Indices: 28056258--28056409 Score: 180
Period size: 27 Copynumber: 5.6 Consensus size: 27
28056248 TATTTCAGTT
*
28056258 ATTTTATCACATAAGGGAAAAATTGTC
1 ATTTTATCACATAAGGGAAAAATCGTC
* * *
28056285 ATTCTATCACATGA-GAACAAAATCGTC
1 ATTTTATCACATAAGGGA-AAAATCGTC
* *
28056312 ATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGAAAAATCGTC
* * * *
28056339 ATTTTATCACAGAAGGGCAAGATCATC
1 ATTTTATCACATAAGGGAAAAATCGTC
* *
28056366 ATTTTATCACAAAAGGGAAAAATCATC
1 ATTTTATCACATAAGGGAAAAATCGTC
28056393 ATTTTATCACATAAGGG
1 ATTTTATCACATAAGGG
28056410 TTCAGGTACG
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 104 0.98
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (27 bp):
ATTTTATCACATAAGGGAAAAATCGTC
Found at i:28069762 original size:26 final size:26
Alignment explanation
Indices: 28069726--28069785 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
28069716 TGGAGATTTG
28069726 ATTTTCATGCAAGCCTATGGTAATGA
1 ATTTTCATGCAAGCCTATGGTAATGA
28069752 ATTTTCATGCAAGCCTATGGTAATGA
1 ATTTTCATGCAAGCCTATGGTAATGA
*
28069778 CTTTTCAT
1 ATTTTCAT
28069786 TATTGACTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (26 bp):
ATTTTCATGCAAGCCTATGGTAATGA
Found at i:28075689 original size:22 final size:21
Alignment explanation
Indices: 28075664--28075712 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
28075654 AGAAAATTAG
*
28075664 TAAATTAGAATAAAATTAAAAA
1 TAAATTAGAATAAAA-GAAAAA
* *
28075686 TAAAATTAGATTGAAAGAAAAA
1 T-AAATTAGAATAAAAGAAAAA
28075708 TAAAT
1 TAAAT
28075713 AGCTAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (21 bp):
TAAATTAGAATAAAAGAAAAA
Found at i:28079219 original size:13 final size:13
Alignment explanation
Indices: 28079201--28079230 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
28079191 CGGGGTTGAT
*
28079201 CTGATTAGAGAGA
1 CTGATTAGAAAGA
28079214 CTGATTAGAAAGA
1 CTGATTAGAAAGA
28079227 CTGA
1 CTGA
28079231 AGAGAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (13 bp):
CTGATTAGAAAGA
Found at i:28085779 original size:40 final size:39
Alignment explanation
Indices: 28085715--28085823 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 39
28085705 AACTATGTTT
* * *
28085715 GGCACTTAGTGTGCG-TTTCAGAATAGCTTCGGCTATAATTA
1 GGCACTTAGTGTGCGAATT--GAATAGCTTCAGCTAT-ATAA
28085756 -GCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATATAA
1 GGCACTTAGTGTGCGAATT-GAATAGCTTCAGCTATATAA
*
28085795 GGCACTAAGTGTGCGATATTGAGATAGCT
1 GGCACTTAGTGTGCGA-ATTGA-ATAGCT
28085824 ATGGTTTAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 3 0.05
40 45 0.76
41 11 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (39 bp):
GGCACTTAGTGTGCGAATTGAATAGCTTCAGCTATATAA
Found at i:28101458 original size:6 final size:6
Alignment explanation
Indices: 28101449--28101481 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
28101439 AATAAAATTG
28101449 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
28101482 GATAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:28101565 original size:29 final size:29
Alignment explanation
Indices: 28101523--28101580 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
28101513 GGTGGTAGAA
*
28101523 GGTGTGCCAATGAAGCAGCCGCATGAACT
1 GGTGTGCCAATGAAGCAGACGCATGAACT
28101552 GGTGTGCCAATGAAGCAGACGCATGAACT
1 GGTGTGCCAATGAAGCAGACGCATGAACT
28101581 AGTCGCTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.17
Consensus pattern (29 bp):
GGTGTGCCAATGAAGCAGACGCATGAACT
Found at i:28119707 original size:62 final size:62
Alignment explanation
Indices: 28119609--28119734 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
28119599 ATGAACACAA
28119609 CAAAAATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAG
1 CAAAAATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAG
* * *
28119671 CAAAAATCTATCTAAATACGGTCTAAAAATCTGATTCATCAAATCCATAAAGACTGTAGGAG
1 CAAAAATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAG
28119733 CA
1 CA
28119735 TTAATTAATC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (62 bp):
CAAAAATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAG
Done.