Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 361 of 433
Found at i:113424970 original size:55 final size:55
Alignment explanation
Indices: 113424886--113425033 Score: 244
Period size: 55 Copynumber: 2.7 Consensus size: 55
113424876 TTACGATTTT
* * **
113424886 AAGTCAGTCTTGAACACGGTCAAGGCACACGAGCATGTGGCTAGCCGTGTGACCC
1 AAGTCAGTCTCGACCACGACCAAGGCACACGAGCATGTGGCTAGCCGTGTGACCC
113424941 AAGTCAGTCTCGACCACGACCAAGGCACACGAGCATGTGGCTAGCCGTGTGACCC
1 AAGTCAGTCTCGACCACGACCAAGGCACACGAGCATGTGGCTAGCCGTGTGACCC
113424996 AAGTCAGTCTCGACCACGACCAAGGCACAC-AGGCATGT
1 AAGTCAGTCTCGACCACGACCAAGGCACACGA-GCATGT
113425034 CTTGTGGTCG
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
54 1 0.01
55 87 0.99
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (55 bp):
AAGTCAGTCTCGACCACGACCAAGGCACACGAGCATGTGGCTAGCCGTGTGACCC
Found at i:113426625 original size:46 final size:46
Alignment explanation
Indices: 113426575--113426747 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
113426565 TGGTTGAGCA
*
113426575 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
113426621 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
113426668 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
113426714 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
113426748 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:113426731 original size:93 final size:93
Alignment explanation
Indices: 113426572--113426742 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
113426562 GGATGGTTGA
* *
113426572 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
113426637 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
113426665 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
113426730 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
113426743 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:113434193 original size:46 final size:46
Alignment explanation
Indices: 113434142--113434266 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
113434132 GGTTGAGCAT
* *
113434142 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * *
113434188 TCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
113434234 CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
113434267 GGGGTGGGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:113440037 original size:105 final size:105
Alignment explanation
Indices: 113439846--113440110 Score: 431
Period size: 105 Copynumber: 2.5 Consensus size: 105
113439836 ACAACTCAAA
* * *
113439846 ATGGTTAATACCATACCTACATTTCATAGCTCATTATGAACAATACCATACCTACGTTTCACAAC
1 ATGGATAATACCATACCTACATTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
113439911 TCAATATGGGAAATACCATACCTACGTATTATAGCTCAGT
66 TCAATATGGGAAATACCATACCTACGTATTATAGCTCAGT
* *
113439951 ATGGATAATACCATACCTACGTTTCATAGCTCAGTGTGGACAATACCATACCTACGTTTCACAAC
1 ATGGATAATACCATACCTACATTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
** * *
113440016 TCGGTATGGGAAATACTATACCTACGTATTATAGCTCGGT
66 TCAATATGGGAAATACCATACCTACGTATTATAGCTCAGT
* *
113440056 ATGGATAATACCATACCTACATGTCATAGCTCAGTATGGAAAATACCATACCTAC
1 ATGGATAATACCATACCTACATTTCATAGCTCAGTATGGACAATACCATACCTAC
113440111 ATGTCATAAC
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 147 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (105 bp):
ATGGATAATACCATACCTACATTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
TCAATATGGGAAATACCATACCTACGTATTATAGCTCAGT
Found at i:113440118 original size:35 final size:35
Alignment explanation
Indices: 113439852--113440110 Score: 308
Period size: 35 Copynumber: 7.4 Consensus size: 35
113439842 CAAAATGGTT
* *
113439852 AATACCATACCTACATTTCATAGCTCATTAT-GAA
1 AATACCATACCTACGTTTCATAGCTCAGTATGGAA
* * * *
113439886 CAATACCATACCTACGTTTCACAACTCAATATGGGA
1 -AATACCATACCTACGTTTCATAGCTCAGTATGGAA
*
113439922 AATACCATACCTACGTATT-ATAGCTCAGTATGGAT
1 AATACCATACCTACGT-TTCATAGCTCAGTATGGAA
* *
113439957 AATACCATACCTACGTTTCATAGCTCAGTGTGGAC
1 AATACCATACCTACGTTTCATAGCTCAGTATGGAA
* * * *
113439992 AATACCATACCTACGTTTCACAACTCGGTATGGGA
1 AATACCATACCTACGTTTCATAGCTCAGTATGGAA
* * *
113440027 AATACTATACCTACGTATT-ATAGCTCGGTATGGAT
1 AATACCATACCTACGT-TTCATAGCTCAGTATGGAA
* *
113440062 AATACCATACCTACATGTCATAGCTCAGTATGGAA
1 AATACCATACCTACGTTTCATAGCTCAGTATGGAA
113440097 AATACCATACCTAC
1 AATACCATACCTAC
113440111 ATGTCATAAC
Statistics
Matches: 191, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
34 3 0.02
35 182 0.95
36 6 0.03
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTTTCATAGCTCAGTATGGAA
Found at i:113445254 original size:19 final size:19
Alignment explanation
Indices: 113445204--113445241 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
113445194 ATGACATGAT
113445204 TATTGAATTGCATACATTA
1 TATTGAATTGCATACATTA
113445223 TATTGAATTGCATACATTA
1 TATTGAATTGCATACATTA
113445242 ACTTAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (19 bp):
TATTGAATTGCATACATTA
Found at i:113446072 original size:15 final size:17
Alignment explanation
Indices: 113446052--113446088 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
113446042 ATCAATTTCA
113446052 AATAAAT-AATTA-TTT
1 AATAAATAAATTAGTTT
113446067 AATAAATAAATTAGTTT
1 AATAAATAAATTAGTTT
113446084 AATAA
1 AATAA
113446089 TCAAAGCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AATAAATAAATTAGTTT
Found at i:113448438 original size:24 final size:24
Alignment explanation
Indices: 113448411--113448494 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
113448401 TTATTAACAT
*
113448411 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
113448435 TGTTCATGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
**
113448459 TGTTCATGAACATGTTCGTTTA-A
1 TGTTCATGAACATGTTCAATTATA
*
113448482 TGTTCGTGAACAT
1 TGTTCATGAACAT
113448495 TAAACAAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
23 13 0.23
24 43 0.77
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (24 bp):
TGTTCATGAACATGTTCAATTATA
Found at i:113448473 original size:12 final size:12
Alignment explanation
Indices: 113448406--113448475 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
113448396 AGTATTTATT
*
113448406 AACATTGTTCGTG
1 AACA-TGTTCATG
113448419 AACATGTTCAAT-
1 AACATGTTC-ATG
* *
113448431 TATATGTTCATG
1 AACATGTTCATG
113448443 AACATGTTCAAT-
1 AACATGTTC-ATG
* *
113448455 TATATGTTCATG
1 AACATGTTCATG
113448467 AACATGTTC
1 AACATGTTC
113448476 GTTTAATGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
11 4 0.09
12 33 0.75
13 7 0.16
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (12 bp):
AACATGTTCATG
Found at i:113456764 original size:55 final size:52
Alignment explanation
Indices: 113456648--113456838 Score: 176
Period size: 55 Copynumber: 3.7 Consensus size: 52
113456638 AGGATACCAA
* * * * * * *
113456648 GTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGCAAGGAAATCAT
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGCAA--AGATCAT
* * * *
113456702 GAAAGACCATGTCAAGACATGGCATTGGTAAACTACTATAAGGCAAAGATCTCAT
1 GTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAAGA--TCAT
* *
113456757 GTAAGACCATG-CTAAGGCATGGCAATGGTAAGTTC-ATAAGGC-AAG-T-AC
1 GTAAGACCATGTC-AAGACATGGCAATGGTAAGTTCTATAAGGCAAAGATCAT
113456805 GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
113456839 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
48 32 0.28
49 2 0.02
52 3 0.03
53 9 0.08
54 30 0.26
55 40 0.34
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (52 bp):
GTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGCAAAGATCAT
Found at i:113464093 original size:41 final size:41
Alignment explanation
Indices: 113464036--113464122 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
113464026 AGGATACCAA
113464036 GTAAGACCAAGCCAAGGCATGGCATTGGTAAGTTTTACAAG
1 GTAAGACCAAGCCAAGGCATGGCATTGGTAAGTTTTACAAG
*
113464077 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAG
1 GTAAGACCAAGCCAAGGCATGGCATTGGTAAGTTTTACAAG
113464118 GTAAG
1 GTAAG
113464123 GAATTCATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (41 bp):
GTAAGACCAAGCCAAGGCATGGCATTGGTAAGTTTTACAAG
Found at i:113464288 original size:53 final size:53
Alignment explanation
Indices: 113464186--113464289 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
113464176 AAGATCTCAT
* * * * *
113464186 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGGTACCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTAAAAAGGCAAAGGTACCAC
*
113464239 GTAAGACCATGTCAAGACATGGCAATGGTAAGCTTAAAAAGG-AAAGGTACC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAG-TTAAAAAGGCAAAGGTACC
113464290 TGTCTATCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 37 0.84
54 7 0.16
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTAAAAAGGCAAAGGTACCAC
Found at i:113464921 original size:35 final size:35
Alignment explanation
Indices: 113464875--113464947 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
113464865 TTTCTATAAG
*
113464875 ACTGGTTTAGAGTGACTTCGTGATCCTTTGTTCCA
1 ACTGGTTTAGAGTGACTTCGTGATCCCTTGTTCCA
*
113464910 ACTGGTTTAGAGTGACTTTGTGATCCCTTGTTCCA
1 ACTGGTTTAGAGTGACTTCGTGATCCCTTGTTCCA
113464945 ACT
1 ACT
113464948 TTGGAAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (35 bp):
ACTGGTTTAGAGTGACTTCGTGATCCCTTGTTCCA
Found at i:113472065 original size:34 final size:33
Alignment explanation
Indices: 113471991--113472065 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
113471981 AATTGACAAG
* *
113471991 GTAAAAAAATTAAAAATAAAAATATTTAATTAA
1 GTAAAAAAATTAAAAATAAAAATAATTAAGTAA
* * *
113472024 CTAAAAAAATTTCAAAATAAAACTAATTAAGGTAA
1 GTAAAAAAA-TTAAAAATAAAAATAATTAA-GTAA
113472059 GTAAAAA
1 GTAAAAA
113472066 TAATAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 8 0.24
34 17 0.50
35 9 0.26
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (33 bp):
GTAAAAAAATTAAAAATAAAAATAATTAAGTAA
Found at i:113472785 original size:18 final size:18
Alignment explanation
Indices: 113472762--113472799 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
113472752 CCTAATACAC
113472762 TAGGTACCCTTGAAAAAA
1 TAGGTACCCTTGAAAAAA
113472780 TAGGTACCCTTGAAAAAA
1 TAGGTACCCTTGAAAAAA
113472798 TA
1 TA
113472800 ATTAACTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (18 bp):
TAGGTACCCTTGAAAAAA
Found at i:113473938 original size:49 final size:49
Alignment explanation
Indices: 113473866--113473965 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
113473856 GTAGTTGGTT
* *
113473866 AAGGTTTATCGTGTATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
1 AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
113473915 AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
1 AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
113473964 AA
1 AA
113473966 TGTTAAGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (49 bp):
AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
Found at i:113475589 original size:8 final size:8
Alignment explanation
Indices: 113475565--113475622 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
113475555 ATTATTTTGA
113475565 AAATATAT
1 AAATATAT
113475573 AAA-ATAT
1 AAATATAT
113475580 AAATATAT
1 AAATATAT
*
113475588 AAATCCTAT
1 AAAT-ATAT
*
113475597 AACATATGTAA
1 AA-ATA--TAT
113475608 AAATATAT
1 AAATATAT
113475616 AAATATA
1 AAATATA
113475623 AAAAAGCGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.17
8 20 0.49
9 5 0.12
10 5 0.12
11 4 0.10
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (8 bp):
AAATATAT
Found at i:113478108 original size:34 final size:34
Alignment explanation
Indices: 113478065--113478132 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
113478055 TCTATGTCCT
*
113478065 TACACATCAAGCACTAGAGAATTCTCACTAAGAC
1 TACACATCAAGCACTAGAGAATTCTCAATAAGAC
*
113478099 TACACATCAAGCACTAGAGCATTCTCAATAAGAC
1 TACACATCAAGCACTAGAGAATTCTCAATAAGAC
113478133 AACAATGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (34 bp):
TACACATCAAGCACTAGAGAATTCTCAATAAGAC
Found at i:113480258 original size:19 final size:20
Alignment explanation
Indices: 113480234--113480274 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
113480224 TTTTTTTCTC
113480234 TTCTTCTTT-TTCCA-CTATT
1 TTCTTCTTTCTT-CATCTATT
113480253 TTCTTCTTTCTTCATCTATT
1 TTCTTCTTTCTTCATCTATT
113480273 TT
1 TT
113480275 AACGTAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTTCTTTCTTCATCTATT
Found at i:113483090 original size:17 final size:17
Alignment explanation
Indices: 113483062--113483110 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
113483052 CCATTTCGGA
*
113483062 AAGAAG-AAAGAAGGAG
1 AAGAAGAAAAGAAAGAG
113483078 AAGAAGAAAAGAAAGAG
1 AAGAAGAAAAGAAAGAG
113483095 AAGAAGAAAAGAAAGA
1 AAGAAGAAAAGAAAGA
113483111 AGAAAAGGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAGAAAGAG
Found at i:113483093 original size:12 final size:12
Alignment explanation
Indices: 113483065--113483117 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
113483055 TTTCGGAAAG
*
113483065 AAGAAAGAAGGAG
1 AAGAAAGAA-GAA
*
113483078 AAG-AAGAAAAGA
1 AAGAAAGAAGA-A
113483090 AAGAGAAGAAGAA
1 AAGA-AAGAAGAA
113483103 AAGAAAGAAGAA
1 AAGAAAGAAGAA
113483115 AAG
1 AAG
113483118 GAGGAAAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 1 0.03
12 19 0.56
13 8 0.24
14 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAGAA
Found at i:113483650 original size:16 final size:16
Alignment explanation
Indices: 113483629--113483701 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 16
113483619 AAAAATAGTA
113483629 TAAAAAAATAAAATAC
1 TAAAAAAATAAAATAC
*** *
113483645 TAAAAAAATATCTTAA
1 TAAAAAAATAAAATAC
*
113483661 TGAAAAAATAAAATAC
1 TAAAAAAATAAAATAC
*
113483677 GAAAAGAAATAAAATA-
1 TAAAA-AAATAAAATAC
113483693 TGAAAAAAA
1 T-AAAAAAA
113483702 CTTTTTTGAG
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
16 29 0.67
17 14 0.33
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.19
Consensus pattern (16 bp):
TAAAAAAATAAAATAC
Found at i:113483696 original size:32 final size:32
Alignment explanation
Indices: 113483631--113483700 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
113483621 AAATAGTATA
* ***
113483631 AAAAAATAAAATACTAAAAAAATATCTTAATG
1 AAAAAATAAAATACGAAAAAAATAAAATAATG
113483663 AAAAAATAAAATACGAAAAGAAATAAAAT-ATG
1 AAAAAATAAAATACGAAAA-AAATAAAATAATG
113483695 AAAAAA
1 AAAAAA
113483701 ACTTTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (32 bp):
AAAAAATAAAATACGAAAAAAATAAAATAATG
Found at i:113484158 original size:150 final size:148
Alignment explanation
Indices: 113483735--113484213 Score: 657
Period size: 150 Copynumber: 3.2 Consensus size: 148
113483725 GCGAGTTTTT
*
113483735 TACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTT-AAAAATAAAATCCGAAAATT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA--
* * * * *
113483799 TAAAAAATACAAACAAA-TAGCCAAAATCAGGGTAATTTACTAAATTAATAAAAAAACACTAAAA
64 TAAAAAATACAAACAAAGT-GTCAAAATCAGGGTTATTTATTAAATTAATATAAAAATACTAAAA
*
113483863 TAATACATTTGAAACATTATA
128 TAATACATTTGAAACATTATG
*
113483884 TACTAAAATAATAT----AA-AAAATACGAAAATAGGATATTTTAAAAAATAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
* * * *
113483944 AAAAATACCAACAAAGTGTCAAAATTAGAGTTATTTATCAAATTAATATAAAAAATACTAAAATA
66 AAAAATACAAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAATACTAAAATA
*
113484009 ATACATTTGAAATATTATG
130 ATACATTTGAAACATTATG
* ** *
113484028 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATGTTTTAAAAAATAAAATTTGGAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* * *
113484093 AAAAAAATACGAACAAAGTTTCAAAATCAGGGTTATTTATTAAATTAATATAAAAATACTTAAAT
65 -AAAAAATACAAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAATACTAAAAT
113484158 AATACATTTGAAACATTATG
129 AATACATTTGAAACATTATG
*
113484178 TACTAAAATAATATAAAAAAATAAAATACAAAAATA
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATA
113484214 AAAAAATACC
Statistics
Matches: 294, Mismatches: 26, Indels: 19
0.87 0.08 0.06
Matches are distributed among these distances:
143 41 0.14
144 67 0.23
145 20 0.07
149 16 0.05
150 105 0.36
151 45 0.15
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (148 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
AAAAATACAAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAATACTAAAATAA
TACATTTGAAACATTATG
Found at i:113484200 original size:13 final size:13
Alignment explanation
Indices: 113484182--113484216 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
113484172 ATTATGTACT
*
113484182 AAAATAATATAAA
1 AAAATAAAATAAA
*
113484195 AAAATAAAATACA
1 AAAATAAAATAAA
113484208 AAAATAAAA
1 AAAATAAAA
113484217 AAATACCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:113484303 original size:121 final size:121
Alignment explanation
Indices: 113484089--113484322 Score: 398
Period size: 121 Copynumber: 1.9 Consensus size: 121
113484079 TAAAATTTGG
* *** *
113484089 AAATAAAAAAATACGAACAAAGTTTCAAAATCAGGGTTATTTATTAAATTAATATAAAAATACTT
1 AAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAATACTA
113484154 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA-AATAAAATACAA
66 AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAATAAAATACAA
*
113484209 AAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTGTTTATTAAATTAATATAAAAAATACT
1 AAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAATACT
113484274 AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAATA
65 AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAATA
113484323 TATTTTAAAA
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 50 0.47
121 52 0.49
122 4 0.04
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (121 bp):
AAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAATACTA
AAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAATAAAATACAA
Found at i:113487033 original size:26 final size:26
Alignment explanation
Indices: 113486997--113487136 Score: 115
Period size: 26 Copynumber: 5.1 Consensus size: 26
113486987 GGAATAAACT
113486997 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
*
113487023 TTAAATACATTA-ATCTAATTGGAA-CATTAA
1 TTAAATACATTACAAC--ATT--AATC--TAA
* *
113487053 TTAAATACATTACAATATTAATTTAA
1 TTAAATACATTACAACATTAATCTAA
* *
113487079 TTAAATACATTA-ATCTAATTAGAACATTAA
1 TTAAATACATTACAAC--ATTA-ATC--TAA
113487109 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
113487135 TT
1 TT
113487137 GGATCAAACT
Statistics
Matches: 90, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
25 3 0.03
26 32 0.36
27 9 0.10
28 4 0.04
29 9 0.10
30 30 0.33
31 3 0.03
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:113487045 original size:56 final size:55
Alignment explanation
Indices: 113486997--113487136 Score: 235
Period size: 56 Copynumber: 2.5 Consensus size: 55
113486987 GGAATAAACT
113486997 TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATTGGAACATTAA
1 TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATTGG-ACATTAA
* * *
113487053 TTAAATACATTACAATATTAATTTAATTAAATACATTAATCTAATTAGAACATTAA
1 TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATT-GGACATTAA
113487109 TTAAATACATTACAACATTAATCTAATT
1 TTAAATACATTACAACATTAATCTAATT
113487137 GGATCAAACT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 77 0.99
57 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (55 bp):
TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATTGGACATTAA
Found at i:113487056 original size:30 final size:29
Alignment explanation
Indices: 113487020--113487120 Score: 129
Period size: 30 Copynumber: 3.5 Consensus size: 29
113487010 AACATTAATC
113487020 TAATTAAATACATTAATCTAATTGGAACAT
1 TAATTAAATACATTAATCTAATT-GAACAT
* *
113487050 TAATTAAATACATT-A-C-AATATTAA-TT
1 TAATTAAATACATTAATCTAAT-TGAACAT
113487076 TAATTAAATACATTAATCTAATTAGAACAT
1 TAATTAAATACATTAATCTAATT-GAACAT
113487106 TAATTAAATACATTA
1 TAATTAAATACATTA
113487121 CAACATTAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
26 15 0.25
27 6 0.10
28 4 0.07
29 6 0.10
30 30 0.49
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (29 bp):
TAATTAAATACATTAATCTAATTGAACAT
Found at i:113492091 original size:38 final size:38
Alignment explanation
Indices: 113492038--113492210 Score: 222
Period size: 38 Copynumber: 4.5 Consensus size: 38
113492028 GCTTAAAGAT
* *
113492038 CCGCAGGCTTTGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAATC
*
113492076 CCGCAGGATTCGTGCTGGTATTATATTCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAATC
* * *
113492114 CCACAGGCTTAGTGCTGGTATTATATTTGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAATC
*
113492152 CCGCAGGC-TCAGTGCTGGTATTATATTCGAGCTTAAAGTC
1 CCGCAGGCTTC-GTGCTGGTATTATATTCG-GGTTAAA-TC
* * *
113492192 CCGCGGGTTTTGTGCTGGT
1 CCGCAGGCTTCGTGCTGGT
113492211 GACTGGATTC
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
37 1 0.01
38 93 0.79
39 6 0.05
40 16 0.14
41 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAATC
Found at i:113500173 original size:38 final size:38
Alignment explanation
Indices: 113500128--113500259 Score: 183
Period size: 38 Copynumber: 3.4 Consensus size: 38
113500118 TAAAGATCCA
113500128 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
113500166 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * * * *
113500204 CAGGCTTAGTGATGGTATTATATTCGAGCTTAAAGTCTCG
1 CAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-TCCCG
* *
113500244 CAGGTTTTGTGCTGGT
1 CAGGCTTCGTGCTGGT
113500260 GACTGGATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 61 0.73
39 6 0.07
40 17 0.20
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:113502305 original size:16 final size:16
Alignment explanation
Indices: 113502284--113502316 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
113502274 ATAGTTTTTT
113502284 ACTAACAATAATAATA
1 ACTAACAATAATAATA
113502300 ACTAACAATAATAATA
1 ACTAACAATAATAATA
113502316 A
1 A
113502317 TAAGAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:113502356 original size:25 final size:26
Alignment explanation
Indices: 113502309--113502368 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
113502299 AACTAACAAT
113502309 AATAATAATAAGAGTTTTTTACTAAC
1 AATAATAATAAGAGTTTTTTACTAAC
* *
113502335 AATAATAATAA-TGTTTTTTACTAAT
1 AATAATAATAAGAGTTTTTTACTAAC
113502360 AATAATAAT
1 AATAATAAT
113502369 TACTAACAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (26 bp):
AATAATAATAAGAGTTTTTTACTAAC
Found at i:113502367 original size:48 final size:45
Alignment explanation
Indices: 113502209--113502345 Score: 154
Period size: 45 Copynumber: 3.3 Consensus size: 45
113502199 AATATAAGTC
113502209 AACAATAATAATAACTAAC---AATAAT--TAA-AGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAATAAGAGTTTTTTACT
* * **
113502248 ---AATAATGATAACCAACAATCCTAATAAT---AGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAATAAGAGTTTTTTACT
113502287 AACAATAATAATAACTAACAATAATAATAATAAGAGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAATAAGAGTTTTTTACT
113502332 AACAATAATAATAA
1 AACAATAATAATAA
113502346 TGTTTTTTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
36 14 0.18
39 15 0.19
41 1 0.01
42 24 0.30
45 25 0.32
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.34
Consensus pattern (45 bp):
AACAATAATAATAACTAACAATAATAATAATAAGAGTTTTTTACT
Found at i:113502672 original size:17 final size:17
Alignment explanation
Indices: 113502641--113502683 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
113502631 ACCCCTCCAC
113502641 CTTTTTTTTCAATTTTTGT
1 CTTTTTTTT-AATTTTT-T
113502660 CTTTTTTTT-ATTTTTT
1 CTTTTTTTTAATTTTTT
*
113502676 ATTTTTTT
1 CTTTTTTT
113502684 AACAGAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
19 9 0.39
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (17 bp):
CTTTTTTTTAATTTTTT
Found at i:113504287 original size:16 final size:17
Alignment explanation
Indices: 113504262--113504304 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
113504252 TATGTACTTT
*
113504262 TATTTTAAATATATATA
1 TATTTAAAATATATATA
* *
113504279 -ATTTAAAATTTTTATA
1 TATTTAAAATATATATA
113504295 TATTTAAAAT
1 TATTTAAAAT
113504305 TGACAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTAAAATATATATA
Found at i:113504472 original size:32 final size:31
Alignment explanation
Indices: 113504430--113504497 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
113504420 GTTGAACTGG
*
113504430 TTTTTATAATTTATTTGATTTAATTTTATAA
1 TTTTTATAATTTATTTGATTTAATTTAATAA
* *
113504461 TTTTATATAATTTATTTGCTTTTATTTAATAA
1 TTTT-TATAATTTATTTGATTTAATTTAATAA
113504493 TTTTT
1 TTTTT
113504498 GTATATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 5 0.15
32 28 0.85
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTATAATTTATTTGATTTAATTTAATAA
Found at i:113504477 original size:22 final size:22
Alignment explanation
Indices: 113504431--113504474 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
113504421 TTGAACTGGT
* *
113504431 TTTTATAATTTATTTGATTTAA
1 TTTTATAATTTATATAATTTAA
113504453 TTTTATAATTTTATATAATTTA
1 TTTTATAA-TTTATATAATTTA
113504475 TTTGCTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTATAATTTATATAATTTAA
Found at i:113504523 original size:20 final size:20
Alignment explanation
Indices: 113504500--113504537 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
113504490 TAATTTTTGT
113504500 ATATATTATA-TTTTAAAAAA
1 ATAT-TTATATTTTTAAAAAA
*
113504520 ATATTTTTATTTTTAAAA
1 ATATTTATATTTTTAAAA
113504538 TTTAAAGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTATATTTTTAAAAAA
Found at i:113509031 original size:26 final size:26
Alignment explanation
Indices: 113509002--113509109 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
113508992 TGATACAAAT
113509002 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
113509028 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
113509054 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
113509080 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
113509106 TGAT
1 TGAT
113509110 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:113516054 original size:26 final size:26
Alignment explanation
Indices: 113516025--113516132 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
113516015 TGATACAAAT
113516025 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
113516051 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
113516077 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
113516103 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
113516129 TGAT
1 TGAT
113516133 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:113520455 original size:23 final size:24
Alignment explanation
Indices: 113520397--113520452 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
113520387 TTGTTAGGTT
*
113520397 TCACCCTAATCTGGCAAAATCTTG
1 TCACCCTAATCTGGAAAAATCTTG
*
113520421 TCACCTTAATCTGGAAAAATCTTG
1 TCACCCTAATCTGGAAAAATCTTG
113520445 TCACCCTA
1 TCACCCTA
113520453 TCTCTAGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (24 bp):
TCACCCTAATCTGGAAAAATCTTG
Found at i:113531665 original size:13 final size:13
Alignment explanation
Indices: 113531647--113531675 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
113531637 GGTTGTTTAT
113531647 TAAACTAATTAAC
1 TAAACTAATTAAC
113531660 TAAACTAATTAAC
1 TAAACTAATTAAC
113531673 TAA
1 TAA
113531676 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:113537402 original size:50 final size:48
Alignment explanation
Indices: 113537336--113537602 Score: 171
Period size: 48 Copynumber: 5.6 Consensus size: 48
113537326 GAGGCTGACC
* * * * *
113537336 CCATGTCCCAGGCATGGTCTTACATTAGCTCTCACACATTCGTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCAC-CAC-CATACGTGCCGATG
* * *
113537386 CCATGTCCCAGACATGGTCTTACACTGGCACCTCTATACGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACCACCATACGTGCCGATG
* * * * *
113537434 CCATATCCTAGACATGGTCTTACACTAACA-CATC-TA-GTAGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACCACCATACGT-GCCGATG
* * *
113537480 -CATGTCCTAGACAT-GTCTTACACTAGCTATCATCTCA-A--TGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGC-ACCA-C-CATACGTGCCGATG
* * * * * *
113537526 CCATGTCCCAGACATGATCTTACATTGGC-TC-TCATAATGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACCACCAT-ACGT-GCCGATG
*
113537574 -CATGTCCCAGACAT-GTTTTACACTAGCAC
1 CCATGTCCCAGACATGGTCTTACACTAGCAC
113537603 ACAATTAACC
Statistics
Matches: 173, Mismatches: 30, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 17 0.10
46 28 0.16
47 30 0.17
48 55 0.32
49 2 0.01
50 27 0.16
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCACCACCATACGTGCCGATG
Found at i:113541458 original size:45 final size:45
Alignment explanation
Indices: 113541342--113541460 Score: 141
Period size: 48 Copynumber: 2.6 Consensus size: 45
113541332 AGGCCGACAC
* * *
113541342 CATGTCCGAGACATGGTCTTACACTGATACCTCTATATGTGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGACACATCTATA--TGCCGATG
* *
113541389 CTATATCCCAGACATGGTCTTACACTGACACATCTCGTA-GCCGATG
1 C-ATGTCCCAGACATGGTCTTACACTGACACATCT-ATATGCCGATG
*
113541435 CATGTCCCAGACATGATCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
113541461 GCTCTCATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 23 0.37
46 8 0.13
47 1 0.02
48 29 0.46
49 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGACACATCTATATGCCGATG
Found at i:113549515 original size:42 final size:42
Alignment explanation
Indices: 113549456--113549550 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
113549446 GGCTGTGTAG
113549456 CACGCCCGTGTTCAAGGTCAAGTCATCCACATAGCTGAGGCA
1 CACGCCCGTGTTCAAGGTCAAGTCATCCACATAGCTGAGGCA
*
113549498 CACGCCTGTGTTCAAGGTCAAGTCATCCACATAGCTGAGGCA
1 CACGCCCGTGTTCAAGGTCAAGTCATCCACATAGCTGAGGCA
113549540 CACGCCCGTGT
1 CACGCCCGTGT
113549551 ACTTAATTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (42 bp):
CACGCCCGTGTTCAAGGTCAAGTCATCCACATAGCTGAGGCA
Found at i:113551799 original size:29 final size:29
Alignment explanation
Indices: 113551757--113551815 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
113551747 CCATAAGATA
113551757 AAATAAAATAAATTTTTTATTTTTGGCTC
1 AAATAAAATAAATTTTTTATTTTTGGCTC
113551786 AAATAAAATAAATTTTTTATTTTTGGCTC
1 AAATAAAATAAATTTTTTATTTTTGGCTC
113551815 A
1 A
113551816 GATTTGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (29 bp):
AAATAAAATAAATTTTTTATTTTTGGCTC
Found at i:113558598 original size:16 final size:16
Alignment explanation
Indices: 113558577--113558607 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
113558567 TGAGTGTGAT
113558577 TGAGAGGAAAGAAAAG
1 TGAGAGGAAAGAAAAG
113558593 TGAGAGGAAAGAAAA
1 TGAGAGGAAAGAAAA
113558608 TAGTAGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.06
Consensus pattern (16 bp):
TGAGAGGAAAGAAAAG
Found at i:113563637 original size:6 final size:6
Alignment explanation
Indices: 113563626--113563655 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
113563616 GTTGCATGAA
113563626 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
113563656 TTGTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:113563839 original size:48 final size:48
Alignment explanation
Indices: 113563775--113564197 Score: 333
Period size: 48 Copynumber: 8.9 Consensus size: 48
113563765 ATGTGAGTAT
* * * * *
113563775 TGAGATCCCGTATAAGACCATATCTGAGATATGACATTGGCATCGAGA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * *
113563823 TGAGATCTCGTGTAAGACCATATCTGGGATATGGCATCAGTATC-AGTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-TA
* * *
113563871 TGAGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATCGATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * * * * **
113563919 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCAGCATCTTTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * *
113563967 TGAGA-CTTCGTGTAAGACCATATCTGGGATATGACATCGGCAT-TAGTA
1 TGAGATC-CCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-TA
* ** * * * *
113564015 TGAGATACTATGTAAGACCATATTTAGGATATGGCATTGGCATTGATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * * * * * *
113564063 TGAGGTCCCGTATAAGATCATGTCTGGGACATGGCATCGGCACCGTTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * * * *
113564111 TGAGA-CTTCGTGTAAGACCATAGCTGGG--CT-G--TTGGCATCGATG
1 TGAGATC-CCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * * * * *
113564154 TGAGATCCCATATAAGACCACATCTTGGACATGGCATTGGCATC
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATC
113564198 CTTTCATGTG
Statistics
Matches: 289, Mismatches: 73, Indels: 26
0.74 0.19 0.07
Matches are distributed among these distances:
43 28 0.10
44 1 0.00
45 2 0.01
46 2 0.01
47 4 0.01
48 250 0.87
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
Found at i:113564043 original size:144 final size:144
Alignment explanation
Indices: 113563775--113564138 Score: 523
Period size: 144 Copynumber: 2.5 Consensus size: 144
113563765 ATGTGAGTAT
* * * * * * **
113563775 TGAGATCCCGTATAAGACCATATCTGAGATATGACATTGGCATCGAGATGAGA-TCTCGTGTAAG
1 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGAGACT-TCGTGTAAG
* * *
113563839 ACCATATCTGGGATATGGCATCAGTATCAGTATGAGATCCCATGTAAGACCATATCTAGGATATG
65 ACCATATCTGGGATATGACATCAGCATCAGTATGAGATACCATGTAAGACCATATCTAGGATATG
113563904 GCATTGGCATCGATA
130 GCATTGGCATCGATA
* *
113563919 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCAGCATCTTTATGAGACTTCGTGTAAGA
1 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGAGACTTCGTGTAAGA
* * * *
113563984 CCATATCTGGGATATGACATCGGCATTAGTATGAGATACTATGTAAGACCATATTTAGGATATGG
66 CCATATCTGGGATATGACATCAGCATCAGTATGAGATACCATGTAAGACCATATCTAGGATATGG
*
113564049 CATTGGCATTGATA
131 CATTGGCATCGATA
* *
113564063 TGAGGTCCCGTATAAGATCATGTCTGGGACATGGCATCGGCACCGTTATGAGACTTCGTGTAAGA
1 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGAGACTTCGTGTAAGA
*
113564128 CCATAGCTGGG
66 CCATATCTGGG
113564139 CTGTTGGCAT
Statistics
Matches: 196, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
144 195 0.99
145 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (144 bp):
TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGAGACTTCGTGTAAGA
CCATATCTGGGATATGACATCAGCATCAGTATGAGATACCATGTAAGACCATATCTAGGATATGG
CATTGGCATCGATA
Found at i:113564836 original size:22 final size:22
Alignment explanation
Indices: 113564808--113564850 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
113564798 ATTAATGAGT
113564808 CTATTTTCAAGAGAAACATACG
1 CTATTTTCAAGAGAAACATACG
113564830 CTATTTTCAAGAGAAACATAC
1 CTATTTTCAAGAGAAACATAC
113564851 AGGAACATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (22 bp):
CTATTTTCAAGAGAAACATACG
Found at i:113570805 original size:7 final size:7
Alignment explanation
Indices: 113570793--113570821 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
113570783 TAATAACAAT
113570793 TAATATA
1 TAATATA
113570800 TAATATA
1 TAATATA
113570807 TAATATA
1 TAATATA
113570814 TAATATA
1 TAATATA
113570821 T
1 T
113570822 TATTTGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAATATA
Found at i:113582777 original size:21 final size:20
Alignment explanation
Indices: 113582743--113582783 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
113582733 ATTTATGAGC
*
113582743 TTTATGATGTTTAATAATAG
1 TTTATGAGGTTTAATAATAG
*
113582763 TTTATGAAGGTTTAATGATAG
1 TTTATG-AGGTTTAATAATAG
113582784 ATATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTATGAGGTTTAATAATAG
Found at i:113583452 original size:43 final size:43
Alignment explanation
Indices: 113583332--113583495 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
113583322 TATCGAGTTG
** * *
113583332 TGATTACATGTAAGACCATGCCTGGGACATTGGCATTGTATTGA
1 TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTATT-A
* * *
113583376 -GATTACATGTAAGACCATGTCAGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTATTA
* * * * *
113583418 TGATTTCATGTAAGACCCTATCTGGGATAATGGCATCG-ACATG
1 TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTA-TTA
* *
113583461 TGATAACATGTAAGACCATATCTGGGA-TATGGCAT
1 TGATTACATGTAAGACCATATCTGGGACAATGGCAT
113583496 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 9 0.09
43 94 0.91
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTATTA
Found at i:113589536 original size:40 final size:39
Alignment explanation
Indices: 113589491--113589698 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
113589481 CGGAATACAA
*
113589491 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113589531 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113589571 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
113589611 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
113589651 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
113589691 CCGGATAT
1 CCGGATAT
113589699 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:113589631 original size:80 final size:81
Alignment explanation
Indices: 113589491--113589696 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
113589481 CGGAATACAA
* * *
113589491 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
113589555 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
113589571 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
113589634 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
113589651 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
113589697 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:113592830 original size:42 final size:42
Alignment explanation
Indices: 113592755--113592898 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
113592745 GCCACATCCT
* * * *
113592755 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCC
1 AGACGCGGTCTTACACGAAATCAAGTAT-GATGCCACTGTCCC
*
113592798 AGACAG-GGTCTTACACGAAATCAAGTATGATGCCAATGTCCC
1 AGAC-GCGGTCTTACACGAAATCAAGTATGATGCCACTGTCCC
*
113592840 AGACGCGGTCTTACACGTAAATCATGAGT-CGATGCCAAC-GTCCC
1 AGACGCGGTCTTACACG-AAATCA--AGTATGATGCC-ACTGTCCC
*
113592884 AGACGTGGTCTTACA
1 AGACGCGGTCTTACA
113592899 TGATAACACA
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 28 0.32
43 29 0.33
44 26 0.30
45 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (42 bp):
AGACGCGGTCTTACACGAAATCAAGTATGATGCCACTGTCCC
Found at i:113592885 original size:44 final size:40
Alignment explanation
Indices: 113592755--113592898 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 40
113592745 GCCACATCCT
* * *
113592755 AGACGTGGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCC
1 AGACG-GGTCTTACACGAAATC-AA-GTCGATGCCAAC-GTCCC
* *
113592798 AGACAGGGTCTTACACGAAATCAAGTATGATGCCAATGTCCC
1 AGAC-GGGTCTTACACGAAATCAAGT-CGATGCCAACGTCCC
113592840 AGACGCGGTCTTACACGTAAATCATGAGTCGATGCCAACGTCCC
1 AGACG-GGTCTTACACG-AAATCA--AGTCGATGCCAACGTCCC
113592884 AGACGTGGTCTTACA
1 AGACG-GGTCTTACA
113592899 TGATAACACA
Statistics
Matches: 86, Mismatches: 8, Indels: 13
0.80 0.07 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.33
43 25 0.29
44 28 0.33
45 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
AGACGGGTCTTACACGAAATCAAGTCGATGCCAACGTCCC
Found at i:113593339 original size:17 final size:16
Alignment explanation
Indices: 113593310--113593342 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
113593300 TCCCTATTTC
113593310 ACAAAATCACAAAATT
1 ACAAAATCACAAAATT
113593326 ACAAAATACACAAAATT
1 ACAAAAT-CACAAAATT
113593343 TTCATATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (16 bp):
ACAAAATCACAAAATT
Found at i:113593340 original size:9 final size:8
Alignment explanation
Indices: 113593308--113593341 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
113593298 AGTCCCTATT
113593308 TCACAAAA
1 TCACAAAA
113593316 TCACAAAA
1 TCACAAAA
*
113593324 TTACAAAA
1 TCACAAAA
113593332 TACACAAAA
1 T-CACAAAA
113593341 T
1 T
113593342 TTTCATATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (8 bp):
TCACAAAA
Found at i:113595277 original size:30 final size:31
Alignment explanation
Indices: 113595241--113595301 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
113595231 TTAAATGACA
113595241 TTTTAGGATCACAT-TTAATGCATCATGAAG
1 TTTTAGGATCACATATTAATGCATCATGAAG
113595271 TTTTAGGATCACATATTAATGCATCATGAAG
1 TTTTAGGATCACATATTAATGCATCATGAAG
113595302 CATAGATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTTAGGATCACATATTAATGCATCATGAAG
Found at i:113596051 original size:22 final size:21
Alignment explanation
Indices: 113596017--113596091 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 21
113596007 AAGGATATCG
* *
113596017 ACAAATTAAATCTCTAAGATT
1 ACAAATCATATCTCTAAGATT
113596038 ACAAAATCATATCTTCTAAGATT
1 AC-AAATCATATC-TCTAAGATT
* *
113596061 GCATATCATA--TCTAAGATT
1 ACAAATCATATCTCTAAGATT
*
113596080 GC-AATCATATCT
1 ACAAATCATATCT
113596092 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 2 0.04
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (21 bp):
ACAAATCATATCTCTAAGATT
Found at i:113596076 original size:19 final size:19
Alignment explanation
Indices: 113596052--113596139 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
113596042 AATCATATCT
113596052 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
113596071 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
113596089 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
113596106 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
113596125 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
113596140 TATTGAAGAT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 33 0.51
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:113596108 original size:35 final size:37
Alignment explanation
Indices: 113596052--113596139 Score: 135
Period size: 35 Copynumber: 2.4 Consensus size: 37
113596042 AATCATATCT
*
113596052 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
113596089 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
113596125 TCTAAGATTGCATAT
1 TCTAAGATTG-ATAT
113596140 TATTGAAGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.40
36 15 0.32
37 10 0.21
38 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:113596121 original size:14 final size:15
Alignment explanation
Indices: 113596066--113596121 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
113596056 AGATTGCATA
113596066 TCATATCTAAGATTG
1 TCATATCTAAGATTG
113596081 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
113596099 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
113596116 -CATATC
1 TCATATC
113596122 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:113596545 original size:45 final size:45
Alignment explanation
Indices: 113596490--113596763 Score: 281
Period size: 45 Copynumber: 6.1 Consensus size: 45
113596480 AGAAGGCGAT
* * *
113596490 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
113596535 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
113596580 ATTTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
113596624 ATCTGTTATC-TCTGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
113596669 A-CTTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATC-TGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
*
113596714 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
113596761 ATC
1 ATC
113596764 ATTTTGAATC
Statistics
Matches: 185, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.03
44 48 0.26
45 98 0.53
46 3 0.02
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:113596617 original size:89 final size:90
Alignment explanation
Indices: 113596504--113596762 Score: 294
Period size: 89 Copynumber: 2.9 Consensus size: 90
113596494 GCTATCTTTG
*
113596504 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
* *
113596569 AGAGACGCCAAATTTG-CTTCTTCA
66 AGAGATGCCAAATTTGTCATCTTCA
*
113596593 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC-TCTGATTTGCTCCCCGTCTAATA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTC-GATCTGCTCCCCGTCTAATA
* * **
113596657 CAAAGATGCCAAACTTGTCATCTTGG
65 CAGAGATGCCAAATTTGTCATCTTCA
* * * * * * *
113596683 ATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCT
1 ATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTG-T-TATCTTCGATCTGCTCCCCGTCT
113596745 AATACAGAGATGCCAAAT
61 AATACAGAGATGCCAAAT
113596763 CATTTTGAAT
Statistics
Matches: 144, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
88 8 0.06
89 78 0.54
90 21 0.15
91 1 0.01
92 34 0.24
93 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (90 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
AGAGATGCCAAATTTGTCATCTTCA
Found at i:113596814 original size:88 final size:87
Alignment explanation
Indices: 113596530--113596868 Score: 264
Period size: 88 Copynumber: 3.8 Consensus size: 87
113596520 ATACAGAGAT
* * *
113596530 GCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATTTGCTTCTTCAAT
1 GCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA-TT-CATCTTGAAT
** * *
113596595 CTGC-TCCCCGTCTAATACA-GAG-AT
64 CTGCTTCAGCG--TAA-ACACGTGAAA
* * *
113596619 GCCAAATCTGTTATC-TCTGATTTGCTCCCCGTCTAATACAAAGATGCCAAACTTGTCATCTTGG
1 GCCAAATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAGAGATGCCAAA--T-TCATCTTGA
* * *
113596683 ATCTGCTTC-GATGTAAACACATGAAG
62 ATCTGCTTCAG-CGTAAACACGTGAAA
* * * *
113596709 GTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA-TCATTTTGAAT
1 GCCAAATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATTCATCTTGAAT
113596773 CTGCTTCAGCGTAAACACGTGAAA
64 CTGCTTCAGCGTAAACACGTGAAA
* * ** * * *
113596797 GCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGT-GAACACA-AGGATGCCAAA-TCATCTTGGA
1 GCCAAATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGA-GATGCCAAATTCATCTTGAA
113596859 TCTGCTTCAG
63 TCTGCTTCAG
113596869 TAAAATCATC
Statistics
Matches: 207, Mismatches: 31, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
86 1 0.00
87 32 0.15
88 61 0.29
89 50 0.24
90 22 0.11
91 5 0.02
92 34 0.16
93 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (87 bp):
GCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATTCATCTTGAATCT
GCTTCAGCGTAAACACGTGAAA
Found at i:113596893 original size:87 final size:87
Alignment explanation
Indices: 113596641--113596899 Score: 231
Period size: 88 Copynumber: 2.9 Consensus size: 87
113596631 ATCTCTGATT
* * * * *
113596641 TGCTCCCCGTCTAATACAAAGATGCCAAACTTGTCATCTTGGATCTGCTTCGATGTAAACACATG
1 TGCTCCCCGTCGAACACAGAGATGCCAAA----TCATCTTGGATCTGCTTC-ACGTAAACACATA
113596706 AAGGTCAGATCTGCTATGTCTTCGATC
61 AAGGTCAGATCTGCTATGTCTTCGATC
* * * * *
113596733 TGCTCCCCGTCTAATACAGAGATGCCAAATCATTTTGAATCTGCTTCAGCGTAAACACGTGAAA-
1 TGCTCCCCGTCGAACACAGAGATGCCAAATCATCTTGGATCTGCTTCA-CGTAAACACAT-AAAG
* * * *
113596797 GCCAAATCTGCTGTGTCTTCGATT
64 GTCAGATCTGCTATGTCTTCGATC
**
113596821 TGCTCCTTGT-GAACACA-AGGATGCCAAATCATCTTGGATCTGCTTCA-GTAAA-ATCATCTAA
1 TGCTCCCCGTCGAACACAGA-GATGCCAAATCATCTTGGATCTGCTTCACGTAAACA-CA--TAA
*
113596882 AGGTTAGATCTGCTATGT
62 AGGTCAGATCTGCTATGT
113596900 ATCTGCTCTC
Statistics
Matches: 139, Mismatches: 21, Indels: 19
0.78 0.12 0.11
Matches are distributed among these distances:
84 1 0.01
85 6 0.04
86 4 0.03
87 45 0.32
88 53 0.38
89 2 0.01
92 28 0.20
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (87 bp):
TGCTCCCCGTCGAACACAGAGATGCCAAATCATCTTGGATCTGCTTCACGTAAACACATAAAGGT
CAGATCTGCTATGTCTTCGATC
Found at i:113597086 original size:87 final size:87
Alignment explanation
Indices: 113596940--113597411 Score: 748
Period size: 87 Copynumber: 5.4 Consensus size: 87
113596930 ATCTATTATT
* *
113596940 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
113597005 TGAAAGCCAAATCAGCTATGTC
66 TGAAAGCCAAATCAGCTATGTC
* *
113597027 TTCGATCTGCTCCCTGCCAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACATG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
*
113597092 TGAAAACCAAATCAGCTATGTCC
66 TGAAAGCCAAATCAGCTATGT-C
* * * * *
113597115 TT-GATCTGCTCCCTGCCAATACAAAGACGCCAAATCATCTTATATTTTCTTCAATGTAAATACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
113597179 TGAAAGCCAAATCAGCTATGTC
66 TGAAAGCCAAATCAGCTATGTC
*
113597201 TTCGATCTACTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
*
113597266 TGAAAGCCAAATTAGCTATGTC
66 TGAAAGCCAAATCAGCTATGTC
* * * * *
113597288 TTTGATTTGCTCCCTGCCAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAACACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
* *
113597353 TGAAAGCCAAATTAGCTAAGTC
66 TGAAAGCCAAATCAGCTATGTC
*
113597375 CTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
113597412 TACTGTCTTC
Statistics
Matches: 351, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
86 3 0.01
87 345 0.98
88 3 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
TGAAAGCCAAATCAGCTATGTC
Found at i:113597112 original size:213 final size:214
Alignment explanation
Indices: 113596726--113597112 Score: 471
Period size: 213 Copynumber: 1.8 Consensus size: 214
113596716 CTGCTATGTC
* * * *
113596726 TTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATTTTGAATCTGCTTCAGCGTAAACAC
1 TTCGATCTGCTCCCCGACTAATACAGAGACGCCAAATCATTTAGAATCTGCTTCAACGTAAACAC
* * * * ** *
113596791 GTGAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAACACAAGGACGCCAAATCATCTT
* *** * *
113596856 GGATCTGCTTCAGTAAAATCATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGA
131 AGATCTGCTTCAGTAAAATCATCTAAAGACCAAATCAGCTATGTATCTGCTCTCCGTCGAAATGA
113596921 AGATGCCAGATCTATTATT
196 AGATGCCAGATCTATTATT
* * *
113596940 TTCGATCTGCTCTCTGAC-AATACAGAGACGCCAAATCATCTTAG-ATTTGCTTCAACGTAAACA
1 TTCGATCTGCTCCCCGACTAATACAGAGACGCCAAATCAT-TTAGAATCTGCTTCAACGTAAACA
* *
113597003 CGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAATA-TAGAGACGCCAAATCATC
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAACACAAG-GACGCCAAATCATC
* *
113597067 TTAGATTTGCTTCAACGT-AAA-CATGTGAAA-ACCAAATCAGCTATGT
129 TTAGATCTGCTTC-A-GTAAAATCATCT-AAAGACCAAATCAGCTATGT
113597113 CCTTGATCTG
Statistics
Matches: 144, Mismatches: 24, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
212 2 0.01
213 115 0.80
214 25 0.17
215 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (214 bp):
TTCGATCTGCTCCCCGACTAATACAGAGACGCCAAATCATTTAGAATCTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCTGCCAACACAAGGACGCCAAATCATCTT
AGATCTGCTTCAGTAAAATCATCTAAAGACCAAATCAGCTATGTATCTGCTCTCCGTCGAAATGA
AGATGCCAGATCTATTATT
Found at i:113597426 original size:44 final size:44
Alignment explanation
Indices: 113597376--113597542 Score: 246
Period size: 44 Copynumber: 3.8 Consensus size: 44
113597366 AGCTAAGTCC
* * * *
113597376 TCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTACTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
* *
113597420 TCGATCTGCTCTCTGCCACTACAGAGATGCCAAAACTATTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
*
113597464 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
* *
113597508 TCGATCTGCTTTCTGACAATACAG-GATGCCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
113597543 ATCTTGGATT
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 11 0.10
44 101 0.90
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
Found at i:113598533 original size:12 final size:12
Alignment explanation
Indices: 113598512--113598548 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
113598502 GGCCTCTCCA
113598512 TTTTTCTTTTTTC
1 TTTTT-TTTTTTC
113598525 TTTTTTTTTTTC
1 TTTTTTTTTTTC
113598537 TCTTTTTTTTTT
1 T-TTTTTTTTTT
113598549 GAAATAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:113598535 original size:14 final size:14
Alignment explanation
Indices: 113598512--113598548 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
113598502 GGCCTCTCCA
*
113598512 TTTTTCTTTTT-TC
1 TTTTTTTTTTTCTC
113598525 TTTTTTTTTTTCTC
1 TTTTTTTTTTTCTC
113598539 TTTTTTTTTT
1 TTTTTTTTTT
113598549 GAAATAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTCTC
Found at i:113604569 original size:20 final size:20
Alignment explanation
Indices: 113604544--113604587 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
113604534 TTTTAGGATA
113604544 CATATTAATGCATCATGAAG
1 CATATTAATGCATCATGAAG
113604564 CATATTAATGCATCATGAAG
1 CATATTAATGCATCATGAAG
113604584 CATA
1 CATA
113604588 GATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
CATATTAATGCATCATGAAG
Found at i:113605331 original size:22 final size:21
Alignment explanation
Indices: 113605296--113605371 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
113605286 AAAGGATATC
* *
113605296 TACAAATTAGATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
113605317 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
113605340 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
113605359 TGC-AATCATATCT
1 TACAAATCATATCT
113605372 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:113605388 original size:35 final size:37
Alignment explanation
Indices: 113605332--113605422 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
113605322 AATCATATCT
*
113605332 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
113605369 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
113605405 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
113605423 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:113605401 original size:14 final size:15
Alignment explanation
Indices: 113605346--113605401 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
113605336 AGATTGCATA
113605346 TCATATCTAAGATTG
1 TCATATCTAAGATTG
113605361 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
113605379 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
113605396 -CATATC
1 TCATATC
113605402 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:113605430 original size:17 final size:19
Alignment explanation
Indices: 113605332--113605422 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
113605322 AATCATATCT
113605332 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
113605351 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
113605369 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
113605386 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
113605405 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
113605423 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:113605579 original size:21 final size:20
Alignment explanation
Indices: 113605541--113605580 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
113605531 TTGGACTTTG
**
113605541 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
113605561 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
113605581 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:113619424 original size:204 final size:204
Alignment explanation
Indices: 113619067--113619435 Score: 657
Period size: 204 Copynumber: 1.8 Consensus size: 204
113619057 TTAGGATTAT
113619067 AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
1 AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
* * *
113619132 AGTGTTTTCTTGTCCTTAAGCAAAATCCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
66 AGCGTTTTCTTATCCTCAAGCAAAATCCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
* *
113619197 TTCTTACCGATAATGTTTTAGGATAATTTATAGATTGAATAATCACCCTATCACTAACATTGAAT
131 TTCTCACCGATAATGTCTTAGGATAATTTATAGATTGAATAATCACCCTATCACTAACATTGAAT
113619262 AATCACCCA
196 AATCACCCA
* *
113619271 AAAATGCATTAAGAGTGAGATTAAAACATGTTACTTTTATCACTTATCAAGTATCCCCACACTTA
1 AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
* *
113619336 AGCGTTTTCTTATCCTCAATCAAAATTCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
66 AGCGTTTTCTTATCCTCAAGCAAAATCCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
113619401 TTCTCACCGATAATGTCTTAGGATAATTTATAGAT
131 TTCTCACCGATAATGTCTTAGGATAATTTATAGAT
113619436 AATCATGCAT
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
204 156 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (204 bp):
AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
AGCGTTTTCTTATCCTCAAGCAAAATCCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
TTCTCACCGATAATGTCTTAGGATAATTTATAGATTGAATAATCACCCTATCACTAACATTGAAT
AATCACCCA
Found at i:113620836 original size:22 final size:23
Alignment explanation
Indices: 113620801--113620844 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
113620791 TTAAAGAGAT
*
113620801 AAAAAATTAGAAAAAAACAACAG
1 AAAAAATTAAAAAAAAACAACAG
*
113620824 AAAAAA-TAAAAAAAAATAACA
1 AAAAAATTAAAAAAAAACAACA
113620845 ATGCATAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.09
Consensus pattern (23 bp):
AAAAAATTAAAAAAAAACAACAG
Found at i:113624916 original size:18 final size:18
Alignment explanation
Indices: 113624889--113624940 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
113624879 AAGCAGTCAT
*
113624889 ACTAATAAAAATAAAACA
1 ACTAACAAAAATAAAACA
*
113624907 ACTAACAAAACACAAAAACA
1 ACTAACAAAA-A-TAAAACA
113624927 A--AACAAAAATAAAA
1 ACTAACAAAAATAAAA
113624941 TAAAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.14
17 1 0.03
18 16 0.55
19 1 0.03
20 7 0.24
ACGTcount: A:0.75, C:0.15, G:0.00, T:0.10
Consensus pattern (18 bp):
ACTAACAAAAATAAAACA
Found at i:113624934 original size:11 final size:11
Alignment explanation
Indices: 113624895--113624951 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
113624885 TCATACTAAT
113624895 AAAAATAAAAC
1 AAAAATAAAAC
113624906 AACTAACA-AAACAC
1 AA--AA-ATAAA-AC
*
113624920 AAAAACAAAAC
1 AAAAATAAAAC
*
113624931 AAAAATAAAAT
1 AAAAATAAAAC
113624942 AAAAATAAAA
1 AAAAATAAAA
113624952 GTACAATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 24 0.62
12 5 0.13
13 5 0.13
14 5 0.13
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAATAAAAC
Found at i:113626622 original size:3 final size:3
Alignment explanation
Indices: 113626616--113626657 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
113626606 AAACTAAAAG
* *
113626616 TAA TAA TAA TAA CAA TAA TAA T-A TGAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
113626658 ACAAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.91
4 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:113626636 original size:15 final size:15
Alignment explanation
Indices: 113626616--113626657 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
113626606 AAACTAAAAG
113626616 TAATAATAATAACAA
1 TAATAATAATAACAA
113626631 TAATAAT-ATGAACAA
1 TAATAATAAT-AACAA
113626646 TAATAATAATAA
1 TAATAATAATAA
113626658 ACAAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (15 bp):
TAATAATAATAACAA
Found at i:113630586 original size:13 final size:12
Alignment explanation
Indices: 113630551--113630586 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
113630541 ATAAGCAAAC
113630551 AAATGAAAAATT
1 AAATGAAAAATT
113630563 AGAATGTAAAAATT
1 A-AATG-AAAAATT
113630577 AAATGAAAAA
1 AAATGAAAAA
113630587 CAAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
13 8 0.36
14 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (12 bp):
AAATGAAAAATT
Found at i:113633789 original size:3 final size:3
Alignment explanation
Indices: 113633764--113633861 Score: 50
Period size: 3 Copynumber: 34.7 Consensus size: 3
113633754 CTAATAGTAG
* * * *
113633764 AAT AAT AAG AA- ACT AAT ATT AAT AAT AA- ACAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * *
113633808 AA- AAT CAT TAT AAT AAT -AT AAT AAT -GT AAT AAA AATT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
113633850 AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AA
113633862 AAAGTAAATA
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
2 13 0.18
3 57 0.78
4 3 0.04
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:113633804 original size:18 final size:17
Alignment explanation
Indices: 113633764--113633810 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
113633754 CTAATAGTAG
* *
113633764 AATAATAAGAAACTAAT
1 AATAATAATAAACAAAT
*
113633781 ATTAATAATAAACAAAAT
1 AATAATAATAAAC-AAAT
113633799 AATAATAATAAA
1 AATAATAATAAA
113633811 ATCATTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (17 bp):
AATAATAATAAACAAAT
Found at i:113633856 original size:28 final size:27
Alignment explanation
Indices: 113633794--113633861 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
113633784 AATAATAAAC
113633794 AAAATAATAATAATAAAATCATTATAAT
1 AAAATAATAATAATAAAA-CATTATAAT
*
113633822 AATATAATAATGTAATAAAA-ATTAATAA-
1 AAAATAATAA--TAATAAAACATT-ATAAT
113633850 AAAATAA-AATAA
1 AAAATAATAATAA
113633862 AAAGTAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 3 0.09
27 2 0.06
28 18 0.51
29 4 0.11
30 8 0.23
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAATAATAATAATAAAACATTATAAT
Found at i:113637621 original size:14 final size:14
Alignment explanation
Indices: 113637589--113637634 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
113637579 GAATCAAACA
113637589 AAAAAAATTAAA-T
1 AAAAAAATTAAATT
* *
113637602 ATAAAAGTTAAATT
1 AAAAAAATTAAATT
113637616 AAAAAAATTAAAATT
1 AAAAAAATT-AAATT
113637631 AAAA
1 AAAA
113637635 TTAAAATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 10 0.37
14 8 0.30
15 9 0.33
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
AAAAAAATTAAATT
Found at i:113637640 original size:20 final size:22
Alignment explanation
Indices: 113637598--113637640 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
113637588 AAAAAAAATT
113637598 AAATATAAAAGTTAAATTAAAA
1 AAATATAAAAGTTAAATTAAAA
113637620 AAAT-TAAAA-TTAAAATTAAAA
1 AAATATAAAAGTT-AAATTAAAA
113637641 TAACTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.10
21 14 0.70
22 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATATAAAAGTTAAATTAAAA
Found at i:113637641 original size:12 final size:11
Alignment explanation
Indices: 113637592--113637641 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
113637582 TCAAACAAAA
113637592 AAAATTAAATAT
1 AAAATTAAAT-T
113637604 AAAAGTTAAATT
1 AAAA-TTAAATT
113637616 AAAA--AAATT
1 AAAATTAAATT
113637625 AAAATTAAAATT
1 AAAATT-AAATT
113637637 AAAAT
1 AAAAT
113637642 AACTAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 9 0.26
12 19 0.56
13 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:113637641 original size:27 final size:27
Alignment explanation
Indices: 113637589--113637639 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
113637579 GAATCAAACA
113637589 AAAAAAATTAAATATAAAAGTTAAATT
1 AAAAAAATTAAATATAAAAGTTAAATT
113637616 AAAAAAATTAAA-ATTAAAA-TTAAA
1 AAAAAAATTAAATA-TAAAAGTTAAA
113637640 ATAACTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAAAATTAAATATAAAAGTTAAATT
Found at i:113637649 original size:26 final size:28
Alignment explanation
Indices: 113637589--113637652 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
113637579 GAATCAAACA
*
113637589 AAAAAAATT-AAATATAAAAGTTAAATT
1 AAAAAAATTAAAATATAAAAGTTAAAAT
113637616 AAAAAAATTAAAAT-TAAAA-TTAAAAT
1 AAAAAAATTAAAATATAAAAGTTAAAAT
**
113637642 AACTAAATTAA
1 AAAAAAATTAA
113637653 TAGAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.45
27 14 0.42
28 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAAAATTAAAATATAAAAGTTAAAAT
Found at i:113641663 original size:40 final size:40
Alignment explanation
Indices: 113641608--113641811 Score: 243
Period size: 40 Copynumber: 5.1 Consensus size: 40
113641598 TGAATGATAC
* * *
113641608 CCGGGCTAAGTCCCGAAGGCAATTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG-TTATAT
113641648 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATAT
*
113641688 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATAT
* *
113641728 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATAT
* * * * ** *
113641768 CCAGGTTAAGACCCGAAGGAAATGGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATAT
113641808 CCGG
1 CCGG
113641812 TTAAATTCCG
Statistics
Matches: 142, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.04
40 131 0.92
41 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATAT
Found at i:113641805 original size:80 final size:80
Alignment explanation
Indices: 113641604--113641811 Score: 299
Period size: 80 Copynumber: 2.6 Consensus size: 80
113641594 CATTTGAATG
* * *
113641604 ATACCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
*
113641669 TTCGTGCGAGTTGTT
66 TTCGTGCGAGTTGCT
* * * *
113641684 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
113641749 TTCGTGCGAGTTGCT
66 TTCGTGCGAGTTGCT
* * * * *
113641764 ATACCCAGGTTAAGACCCGAAGGAAATGGTGCTTGTGGTTATATCCGG
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGG
113641812 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 111 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTTGCT
Found at i:113649679 original size:40 final size:40
Alignment explanation
Indices: 113649622--113649825 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
113649612 TGAATGATAC
* * *
113649622 CCGGGCTAAGTCCCGAAGGCAATTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG-TTATAT
*
113649662 CTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATAT
*
113649702 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATAT
* *
113649742 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGTTATAT
* * ** *
113649782 CCGGGTTAAGACCCGAAGGCAATGGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATAT
113649822 CCGG
1 CCGG
113649826 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 5 0.03
40 132 0.92
41 6 0.04
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGTTATAT
Found at i:113649755 original size:80 final size:80
Alignment explanation
Indices: 113649618--113649825 Score: 301
Period size: 80 Copynumber: 2.6 Consensus size: 80
113649608 CATTTGAATG
* * *
113649618 ATACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG-TGATTATATCTGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
*
113649682 ATTCGTGCGAGTTGTT
65 ATTCGTGCGAGTTGCT
* * *
113649698 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
113649763 TTCGTGCGAGTTGCT
66 TTCGTGCGAGTTGCT
* * * *
113649778 ATACCCGGGTTAAGACCCGAAGGCAATGGTGCTTGTGGTTATATCCGG
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGG
113649826 TTAAATTCCG
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
80 111 0.98
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTTGCT
Found at i:113661544 original size:25 final size:24
Alignment explanation
Indices: 113661490--113661617 Score: 71
Period size: 25 Copynumber: 5.2 Consensus size: 24
113661480 GAAGCTCCAT
*
113661490 AGAGCCATTAACGGGAAGTTCATA
1 AGAGCCAATAACGGGAAGTTCATA
*
113661514 ATAGCCAATAACGGGAAGGTTCA-A
1 AGAGCCAATAACGGGAA-GTTCATA
* *** *
113661538 GCGAGCCAATATTAGGAAGCTCCA-A
1 -AGAGCCAATAACGGGAAG-TTCATA
* ** *
113661563 AGAGCCATTAATCGGGAAGCCCAGA
1 AGAGCCAATAA-CGGGAAGTTCATA
* * *
113661588 AGAGCCATATAACTGGACGCTCATA
1 AGAGCCA-ATAACGGGAAGTTCATA
113661613 AGAGC
1 AGAGC
113661618 TGCGATGTGT
Statistics
Matches: 79, Mismatches: 19, Indels: 11
0.72 0.17 0.10
Matches are distributed among these distances:
24 28 0.35
25 48 0.61
26 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
AGAGCCAATAACGGGAAGTTCATA
Found at i:113666619 original size:62 final size:62
Alignment explanation
Indices: 113666476--113666687 Score: 189
Period size: 62 Copynumber: 3.4 Consensus size: 62
113666466 TACGGACATC
* * * *
113666476 TGCCCAGGTCGTGTAACTCACTGTT--TGAGGTGTAAAAACCACACGGCCAGGGACACGGGTGTG
1 TGCCCAGGTCGTGTAACTCACTATTCAT-A-GTAT-AAAACCACACGGGCAGGGACACGGGCGTG
* ** * * *
113666539 TGCCTAGGTTATGAAACTCACTATTCATCA-TATAAAATCATACGGGCAGGGACACGGGCGTG
1 TGCCCAGGTCGTGTAACTCACTATTCAT-AGTATAAAACCACACGGGCAGGGACACGGGCGTG
* * * * *
113666601 TGCCCAAGTCGTGTAACTCATTGTTTATAGTATAAAACCACAC-GGCTAAGGACACGGGCGTG
1 TGCCCAGGTCGTGTAACTCACTATTCATAGTATAAAACCACACGGGC-AGGGACACGGGCGTG
* * *
113666663 TGACCAGGCCGTGTGACTCACTATT
1 TGCCCAGGTCGTGTAACTCACTATT
113666688 TGTGCTTAAA
Statistics
Matches: 117, Mismatches: 28, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
61 4 0.03
62 89 0.76
63 22 0.19
65 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (62 bp):
TGCCCAGGTCGTGTAACTCACTATTCATAGTATAAAACCACACGGGCAGGGACACGGGCGTG
Found at i:113666708 original size:62 final size:62
Alignment explanation
Indices: 113666485--113666739 Score: 162
Period size: 62 Copynumber: 4.1 Consensus size: 62
113666475 CTGCCCAGGT
* * * *
113666485 CGTGTAACTCACTGTTTGAGGT-GTA-AAAACCACACGGCCAGGGACACGGGTGTGTG-CCTAGG
1 CGTGTAACTCACTATTT-A--TAGTATAAAACCACACGGCCAAGGACACGGGCGTGTGACC-AAG
*
113666547 T
62 C
** * * * * * * * *
113666548 TATGAAACTCACTATTCATCA-TATAAAATCATACGGGCAGGGACACGGGCGTGTGCCCAAGT
1 CGTGTAACTCACTATTTAT-AGTATAAAACCACACGGCCAAGGACACGGGCGTGTGACCAAGC
* * * *
113666610 CGTGTAACTCATTGTTTATAGTATAAAACCACACGGCTAAGGACACGGGCGTGTGACCAGGC
1 CGTGTAACTCACTATTTATAGTATAAAACCACACGGCCAAGGACACGGGCGTGTGACCAAGC
* * * * * *
113666672 CGTGTGACTCACTATTTGT-GCT-TAAAATCCAGACGGCCAAGGCACATGGGTGTGTGCCCAAGC
1 CGTGTAACTCACTATTTATAG-TATAAAA-CCACACGGCCAAGG-ACACGGGCGTGTGACCAAGC
*
113666735 TGTGT
1 CGTGT
113666740 GGCACTATGA
Statistics
Matches: 149, Mismatches: 35, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
60 1 0.01
61 9 0.06
62 105 0.70
63 34 0.23
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (62 bp):
CGTGTAACTCACTATTTATAGTATAAAACCACACGGCCAAGGACACGGGCGTGTGACCAAGC
Found at i:113668943 original size:27 final size:27
Alignment explanation
Indices: 113668903--113669014 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
113668893 AGGAAGCGTC
*
113668903 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
113668930 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
113668957 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
113668985 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
113669011 CTGG
1 CTGG
113669015 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:113669007 original size:54 final size:54
Alignment explanation
Indices: 113668903--113669014 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
113668893 AGGAAGCGTC
*
113668903 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
113668957 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
113669011 CTGG
1 CTGG
113669015 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:113674982 original size:63 final size:61
Alignment explanation
Indices: 113674910--113675128 Score: 233
Period size: 62 Copynumber: 3.5 Consensus size: 61
113674900 CGCAGGTTTT
* *
113674910 ACACGGCCAGGGACACGGGCATGTGCCTAGGCTGTGTAACTCACTGTTTGAGGTGTA-AAAAGC
1 ACACGGCCAGGGACACGGGCATGTGCCCAGGCTGTGTAACTCACTGTTT-A--TGTATAAAACC
* * * * * *
113674973 ACACGGCCAGGGATAAGGGTATGTGCCCAGGCTGTGTAACTCACTATTTATCTTATAAAATC
1 ACACGGCCAGGGACACGGGCATGTGCCCAGGCTGTGTAACTCACTGTTTAT-GTATAAAACC
* ** * * ** *
113675035 ACACGGCCAGGGACATGGGTGTGTGCGCAAGCCATGTAACTCACTGTTCATAGTATAAAACC
1 ACACGGCCAGGGACACGGGCATGTGCCCAGGCTGTGTAACTCACTGTTTAT-GTATAAAACC
*
113675097 ACACGGCCAGGGACACGAGCATGTGCCCAGGC
1 ACACGGCCAGGGACACGGGCATGTGCCCAGGC
113675129 GATGTGATTC
Statistics
Matches: 129, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
60 1 0.01
61 2 0.02
62 82 0.64
63 44 0.34
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (61 bp):
ACACGGCCAGGGACACGGGCATGTGCCCAGGCTGTGTAACTCACTGTTTATGTATAAAACC
Found at i:113678051 original size:26 final size:27
Alignment explanation
Indices: 113677994--113678051 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
113677984 ATTGATTTAA
* *
113677994 ATTTTTATTTACTTTTACAATTTACTT
1 ATTTTTATTTACTTATACAATTTAATT
*
113678021 TTTTTTATTT-CTTAT-CAATTTTAATT
1 ATTTTTATTTACTTATACAA-TTTAATT
113678047 ATTTT
1 ATTTT
113678052 ATAATTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.12
26 14 0.54
27 9 0.35
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (27 bp):
ATTTTTATTTACTTATACAATTTAATT
Found at i:113682008 original size:17 final size:17
Alignment explanation
Indices: 113681979--113682021 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
113681969 AAAACTATCA
113681979 TTTACATTTTTTTTGGT
1 TTTACATTTTTTTTGGT
* *
113681996 TTTACTTTATTTTTTGTT
1 TTTACATT-TTTTTTGGT
113682014 TTTA-ATTT
1 TTTACATTT
113682022 AAAAGTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 9 0.41
18 12 0.55
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTACATTTTTTTTGGT
Found at i:113682010 original size:18 final size:18
Alignment explanation
Indices: 113681987--113682022 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
113681977 CATTTACATT
*
113681987 TTTTTTGGTTTTACTTTA
1 TTTTTTGGTTTTAATTTA
*
113682005 TTTTTTGTTTTTAATTTA
1 TTTTTTGGTTTTAATTTA
113682023 AAAGTCACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTTTGGTTTTAATTTA
Found at i:113682126 original size:41 final size:41
Alignment explanation
Indices: 113682072--113682282 Score: 230
Period size: 41 Copynumber: 5.1 Consensus size: 41
113682062 GCAAAAATTG
* * * ** *
113682072 TAAAACACAGAGCAATAGCAGCG-TTTTACCAAAAACGCCTC
1 TAAAAGACGGAGCAATAGCGGCGCTTTT-CGTAAAACGCCGC
* *
113682113 TAAAAGACGGAGCAATAGCGGTGCTTTTGGTAAAACGCCGC
1 TAAAAGACGGAGCAATAGCGGCGCTTTTCGTAAAACGCCGC
*
113682154 TAAAAGACGGAGCAATAGCGGCGCTTTTTGTAAAACGCCGC
1 TAAAAGACGGAGCAATAGCGGCGCTTTTCGTAAAACGCCGC
* * * * *
113682195 TAAAA-ACCGGAGCATTAGCGGCGTTTTTTGTGAAACGCCAC
1 TAAAAGA-CGGAGCAATAGCGGCGCTTTTCGTAAAACGCCGC
* *
113682236 TAAAA-ACCGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGC
1 TAAAAGA-CGGAGCAATAGCGGCGCTTTTCGTAAAACGCCGC
113682277 TAAAAG
1 TAAAAG
113682283 TCATATAACC
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 145 0.97
42 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (41 bp):
TAAAAGACGGAGCAATAGCGGCGCTTTTCGTAAAACGCCGC
Found at i:113682214 original size:82 final size:82
Alignment explanation
Indices: 113682103--113682282 Score: 256
Period size: 82 Copynumber: 2.2 Consensus size: 82
113682093 CGTTTTACCA
* * *
113682103 AAAACGCCTCTAAAAGACGGAGCAATAGCGGTGCTTTTGGTAAAACGCCGCTAAAAGA-CGGAGC
1 AAAACGCCGCTAAAAGACGGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAA-ACCGGAGC
113682167 AATAGCGGCGCTTTTTGT
65 AATAGCGGCGCTTTTTGT
* * * *
113682185 AAAACGCCGCTAAAA-ACCGGAGCATTAGCGGCGTTTTTTGTGAAACGCCACTAAAAACCGGAGC
1 AAAACGCCGCTAAAAGA-CGGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAACCGGAGC
*
113682249 ATTAGCGGCGCTTTTTGT
65 AATAGCGGCGCTTTTTGT
113682267 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
113682283 TCATATAACC
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
81 2 0.02
82 85 0.98
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (82 bp):
AAAACGCCGCTAAAAGACGGAGCAATAGCGGCGCTTTTGGTAAAACGCCACTAAAAACCGGAGCA
ATAGCGGCGCTTTTTGT
Found at i:113682390 original size:36 final size:36
Alignment explanation
Indices: 113682321--113682390 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
113682311 AAAAAAATCA
* * *
113682321 TAAACACTAATCTATAACCCCTAAAATAGTAAACCC
1 TAAACACTAAACTATAACCCCTAAAACACTAAACCC
*
113682357 TAAACACTAAACTATAACCCCTAAAACCCTAAAC
1 TAAACACTAAACTATAACCCCTAAAACACTAAAC
113682391 TGGTTTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (36 bp):
TAAACACTAAACTATAACCCCTAAAACACTAAACCC
Found at i:113682855 original size:15 final size:15
Alignment explanation
Indices: 113682825--113682893 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
113682815 TAAGGTTTAG
* *
113682825 GGGGTTAAGAGTTAT
1 GGGGTTTAGGGTTAT
113682840 -GGGTTTACGGGTTAT
1 GGGGTTTA-GGGTTAT
113682855 GGGGTTTAGGGTT-T
1 GGGGTTTAGGGTTAT
* * *
113682869 AGGATATAGGTGTTA-
1 GGGGTTTAGG-GTTAT
113682884 GGGGTTTAGG
1 GGGGTTTAGG
113682894 ATTTAGGGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
14 14 0.33
15 21 0.50
16 7 0.17
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (15 bp):
GGGGTTTAGGGTTAT
Found at i:113683030 original size:17 final size:17
Alignment explanation
Indices: 113683004--113683047 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
113682994 AATCTATATA
* *
113683004 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
113683021 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
113683037 TTAAAAAATTT
1 TTAAAAAATTT
113683048 TCAAGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:113683045 original size:26 final size:26
Alignment explanation
Indices: 113683016--113683065 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
113683006 AAATAATTTC
113683016 AAATTTTAAAGAATTAAAATTTTAAA
1 AAATTTTAAAGAATTAAAATTTTAAA
* * *
113683042 AAATTTTCAAGATTTCAAATTTTA
1 AAATTTTAAAGAATTAAAATTTTA
113683066 TGTAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
AAATTTTAAAGAATTAAAATTTTAAA
Found at i:113687468 original size:48 final size:48
Alignment explanation
Indices: 113687406--113687717 Score: 579
Period size: 48 Copynumber: 6.5 Consensus size: 48
113687396 TATATATGTG
*
113687406 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
113687454 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
113687502 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
113687550 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
113687598 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
113687646 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
113687694 TGTGGTAAAGCCGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
113687718 ATTCGGCTAG
Statistics
Matches: 256, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 256 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:113687942 original size:37 final size:37
Alignment explanation
Indices: 113687887--113688026 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
113687877 GGAAATATAT
*
113687887 TCCGGGTAAGACCAGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
113687924 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
113687961 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
113687998 TCCGGGTAGGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
113688027 GGACTATTCG
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:113692082 original size:43 final size:43
Alignment explanation
Indices: 113692035--113692260 Score: 262
Period size: 43 Copynumber: 5.3 Consensus size: 43
113692025 GATCATTATT
*
113692035 TTTAGCAGCGTTTGTTAAAAACA-CGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTTAAAAA-AGCGCCGCTAAAGGTCATGGTC
* * *
113692078 TTTAGCGGCGTTTGCTAAAAAAGCGCAGCTAAAGGTCACGGTC
1 TTTAGCGGCGTTTGTTAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
113692121 TTTAGTGGCGTTT-TCAAAAAAAGCGCTGCTAAAGGTCATCGTC
1 TTTAGCGGCGTTTGT-TAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * * *
113692164 TTTAGCGGCGTTTGTGAAAAAAGCGCCACTAAAGCTCCTGGTT
1 TTTAGCGGCGTTTGTTAAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
113692207 TTTAGTGGCGTTT-TT-TAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTTAAAAAAGCGCCGCTAAAGGTCATGGTC
113692248 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
113692261 TTCTCGAAAA
Statistics
Matches: 153, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
41 32 0.21
42 2 0.01
43 118 0.77
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTTAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:113692618 original size:29 final size:29
Alignment explanation
Indices: 113692555--113692620 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
113692545 AATCAACTTT
* * *
113692555 TTTTTTCCAAACAATTTTCATTTTTAAAC
1 TTTTTTCCAAACAATTTTCAATATCAAAC
113692584 TCTTTTTCC-AACAATTTTCAAATATCAAAC
1 T-TTTTTCCAAACAATTTTC-AATATCAAAC
113692614 TTTTTTC
1 TTTTTTC
113692621 ACTTGTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTTTCCAAACAATTTTCAATATCAAAC
Done.