Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 293 of 345
Found at i:88006243 original size:19 final size:19
Alignment explanation
Indices: 88006219--88006264 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
88006209 TTAAATGATT
88006219 TTTTGAATAAAAGAGTTAA
1 TTTTGAATAAAAGAGTTAA
* *
88006238 TTTTGAAT-ACATAGTTAA
1 TTTTGAATAAAAGAGTTAA
88006256 TTTTGAATA
1 TTTTGAATA
88006265 CATATAGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTTGAATAAAAGAGTTAA
Found at i:88006255 original size:18 final size:18
Alignment explanation
Indices: 88006232--88006268 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
88006222 TGAATAAAAG
88006232 AGTTAATTTTGAATACAT
1 AGTTAATTTTGAATACAT
88006250 AGTTAATTTTGAATACAT
1 AGTTAATTTTGAATACAT
88006268 A
1 A
88006269 TAGATCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (18 bp):
AGTTAATTTTGAATACAT
Found at i:88007848 original size:93 final size:93
Alignment explanation
Indices: 88007736--88007906 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
88007726 GCCCATAAGT
* *
88007736 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88007801 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
88007829 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88007894 CGAGTTCGGATGC
66 CGAGCTCGGATGC
88007907 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88007903 original size:46 final size:46
Alignment explanation
Indices: 88007728--88007903 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
88007718 TGTAACCCGC
* *
88007728 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88007774 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
88007820 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88007867 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88007904 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:88010302 original size:15 final size:15
Alignment explanation
Indices: 88010273--88010322 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
88010263 CAAAGATAAC
*
88010273 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
88010287 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
88010302 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
88010317 AAGAAA
1 AAGAAA
88010323 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:88010331 original size:15 final size:15
Alignment explanation
Indices: 88010284--88010331 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
88010274 AGAAAACCGA
88010284 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
88010298 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
88010314 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
88010329 ATA
1 ATA
88010332 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:88018566 original size:40 final size:40
Alignment explanation
Indices: 88018501--88018592 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
88018491 GACTATGTTC
* *
88018501 GGCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAGTA
1 GGCACTAAGTGTGCAAATTGAAATAGCTTCGGCTATAAG-A
* * *
88018542 -GCACTAAGTGTGCAAATTGGAATAGCTTTGGCTATATGA
1 GGCACTAAGTGTGCAAATTGAAATAGCTTCGGCTATAAGA
88018581 GGCACTAAGTGT
1 GGCACTAAGTGT
88018593 ACGATACCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (40 bp):
GGCACTAAGTGTGCAAATTGAAATAGCTTCGGCTATAAGA
Found at i:88034694 original size:38 final size:39
Alignment explanation
Indices: 88034643--88034754 Score: 163
Period size: 38 Copynumber: 2.9 Consensus size: 39
88034633 AATGTTTGAG
88034643 TGATATCCGGGCTAAGCCCGAAGGCAATTGT-CGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
88034681 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
88034720 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
88034755 GGTTACCATA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 30 0.45
39 19 0.29
40 17 0.26
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:88034770 original size:40 final size:40
Alignment explanation
Indices: 88034649--88034784 Score: 143
Period size: 40 Copynumber: 3.5 Consensus size: 40
88034639 TGAGTGATAT
* ** *
88034649 CCGGGCTAAG-CCCGAAGGCAATTGT-CGAGCTATGATAC
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
88034687 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
88034726 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
88034766 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88034785 TGTTTTGAAC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 25 0.30
39 19 0.23
40 40 0.48
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:88042673 original size:39 final size:39
Alignment explanation
Indices: 88042619--88042731 Score: 163
Period size: 39 Copynumber: 2.9 Consensus size: 39
88042609 AATGTTCGAG
88042619 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * *
88042658 TGATACCCGGGCTAAGCCCGAATGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
88042697 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
88042732 GGTTACCATA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 49 0.75
40 16 0.25
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:88042747 original size:40 final size:39
Alignment explanation
Indices: 88042619--88042761 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 39
88042609 AATGTTCGAG
* *
88042619 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
88042658 TGATACCCGGGCTAAGCCCGAATGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
88042697 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
88042737 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
88042762 TGTTTTGAAC
Statistics
Matches: 88, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 49 0.56
40 39 0.44
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:88045882 original size:19 final size:19
Alignment explanation
Indices: 88045858--88045899 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
88045848 TAGAAGTGGG
88045858 AATGATGAATTGGGGATTT
1 AATGATGAATTGGGGATTT
88045877 AATGATGAATTGGGGATTT
1 AATGATGAATTGGGGATTT
88045896 AATG
1 AATG
88045900 TTTGAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (19 bp):
AATGATGAATTGGGGATTT
Found at i:88047441 original size:22 final size:22
Alignment explanation
Indices: 88047409--88047480 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
88047399 CACTAAGGAC
*
88047409 TATGTGATCTGAGCTCATGAGT
1 TATGTGGTCTGAGCTCATGAGT
88047431 TATGTGGTCTGAGCTCATGAGT
1 TATGTGGTCTGAGCTCATGAGT
88047453 TATGTGGTCTGAGCTCATGA-T
1 TATGTGGTCTGAGCTCATGAGT
88047474 ATATGTG
1 -TATGTG
88047481 ACACATGTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 47 0.98
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (22 bp):
TATGTGGTCTGAGCTCATGAGT
Found at i:88052064 original size:46 final size:46
Alignment explanation
Indices: 88051987--88052153 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
88051977 TTATGAGAGA
*
88051987 TAGTGTAGGACCATGTCTGGG--ATGGCATCGGCATTAAGACGAGTGC
1 TAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TTAAGACGAGTGC
* ** *
88052033 TAGTGTAAGA-CATGTCTGGGACATGCTTCGGCCTCGAGACGTA-AGC
1 TAGTGTAAGACCATGTCTGGGACATGCATCGG-CTTAAGACG-AGTGC
* *
88052079 TAGTGTAAGA-CATGTCTGGGACATGCATCTGC-TACGA-GATGTG-
1 TAGTGTAAGACCATGTCTGGGACATGCATCGGCTTAAGACGA-GTGC
88052122 TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 T-AGTGTAAGACCATGTCTGGGACAT-GCATC
88052154 AGTACAAATA
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 12 0.12
45 25 0.25
46 57 0.56
47 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (46 bp):
TAGTGTAAGACCATGTCTGGGACATGCATCGGCTTAAGACGAGTGC
Found at i:88062321 original size:5 final size:5
Alignment explanation
Indices: 88062311--88062335 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88062301 CAATTTGCAC
88062311 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
88062336 CTAAAACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:88064876 original size:93 final size:93
Alignment explanation
Indices: 88064764--88064935 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
88064754 GCCCACAAGT
*
88064764 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTAA
88064828 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
88064857 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAA
*
88064922 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
88064936 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTAAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88064926 original size:46 final size:46
Alignment explanation
Indices: 88064760--88064931 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
88064750 ACCTGCCCAC
*
88064760 AAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCAT
* * *
88064806 AAGTGAACTCGGACTCAACTAAACGAGCTCGG--ATGC-CTAGTTACAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCAT
*** *
88064852 CTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
*
88064899 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88064932 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 63 0.61
47 32 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
Found at i:88066492 original size:21 final size:21
Alignment explanation
Indices: 88066467--88066507 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
88066457 CATTGATTTG
88066467 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
88066488 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
88066508 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:88067209 original size:39 final size:39
Alignment explanation
Indices: 88067155--88067231 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
88067145 ATGATATTTG
*
88067155 GAAACATATCTGGACTTGAGGTCCGCAGGCTACGTGCTA
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
*
88067194 GAAACATATCCGGACTTGAGGTCTGCAGGCTACGTGCT
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCT
88067232 GGAATATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
Found at i:88073277 original size:21 final size:21
Alignment explanation
Indices: 88073252--88073292 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
88073242 CATTGATTTA
88073252 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
88073273 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
88073293 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:88073993 original size:39 final size:39
Alignment explanation
Indices: 88073938--88074059 Score: 199
Period size: 39 Copynumber: 3.1 Consensus size: 39
88073928 GCATGATATT
* * *
88073938 TGGAAACATATTCGGACTTAAGGTCCGCTGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
88073977 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* *
88074016 TGGAAACATATCCAGACTTGAGGTCCGCAGGCTGCGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
88074055 TGGAA
1 TGGAA
88074060 TATATTTGGG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:88074094 original size:78 final size:78
Alignment explanation
Indices: 88073938--88074087 Score: 176
Period size: 78 Copynumber: 1.9 Consensus size: 78
88073928 GCATGATATT
* * * * * *
88073938 TGGAAACATATTCGGACTTAAGGTCCGCTGGCTACGTGCTGGAAACATATCCGGACTTGAGGTCC
1 TGGAAACATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACCTAAAGTCC
88074003 GCAGGCTACGTGC
66 GCAGGCTACGTGC
* * * ** *
88074016 TGGAAACATATCCAGACTTGAGGTCCGCAGGCTGCGTGCTGG-AATATATTTGGGCCTAAAGTCC
1 TGGAAACATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACCTAAAGT-C
88074080 CGCAGGCT
65 CGCAGGCT
88074088 TTGTGCTAGT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
77 13 0.22
78 46 0.78
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (78 bp):
TGGAAACATATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACCTAAAGTCC
GCAGGCTACGTGC
Found at i:88090997 original size:39 final size:39
Alignment explanation
Indices: 88090943--88091105 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
88090933 TGTGAATGAA
88090943 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
88090982 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
88091021 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
88091060 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
88091100 TGTGCG
1 TGTGCG
88091106 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:88091121 original size:40 final size:39
Alignment explanation
Indices: 88090943--88091135 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
88090933 TGTGAATGAA
* *
88090943 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
88090982 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
88091021 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
88091060 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
88091100 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
88091136 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:88094565 original size:40 final size:40
Alignment explanation
Indices: 88094521--88094630 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
88094511 TTCACAATTT
* *
88094521 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
88094561 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
88094601 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
88094631 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:88098790 original size:44 final size:44
Alignment explanation
Indices: 88098734--88098823 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
88098724 TTCTAATTGG
*
88098734 TATTCTAAAAAATTATTTTCTCATTCCATAGAATCTAAAATTTC
1 TATTCTAAAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
*
88098778 TATTCTACAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
1 TATTCTAAAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
88098822 TA
1 TA
88098824 ACTCCTTCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (44 bp):
TATTCTAAAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
Found at i:88104419 original size:39 final size:39
Alignment explanation
Indices: 88104365--88104541 Score: 130
Period size: 40 Copynumber: 4.5 Consensus size: 39
88104355 GAGTCACGTA
88104365 CCTTCGGGAT-TTA-ACCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAGACCGGATATAACCACAAGCACAA-TG
* **** **
88104404 CCTTCGGGTCTTA-ACCCGGATTTGGTGACTTGCACAATTG
1 CCTTCGGGTCTTAGA-CCGGATATAACCACAAGCACAA-TG
* *
88104444 CCTTCGGGTCTTAGCCCGGATATAA-CA-ATCGCACGAATG
1 CCTTCGGGTCTTAGACCGGATATAACCACA-AGCAC-AATG
* * *
88104483 CCTTCGGGTCTTAGCCCGGATATAACCACTAGCATGAATG
1 CCTTCGGGTCTTAGACCGGATATAACCACAAGCA-CAATG
* *
88104523 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAGACCGG
88104542 GTATCATTCA
Statistics
Matches: 112, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 44 0.39
40 67 0.60
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGTCTTAGACCGGATATAACCACAAGCACAATG
Found at i:88104536 original size:40 final size:39
Alignment explanation
Indices: 88104442--88104541 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 39
88104432 CTTGCACAAT
*
88104442 TGCCTTCGGGTCTTAGCCCGGATATAACAATCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAATAGCACGAA
* *
88104481 TGCCTTCGGGTCTTAGCCCGGATATAACCACTAGCATGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAATAGCACGAA
*
88104521 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
88104542 GTATCATTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 27 0.48
40 29 0.52
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAATAGCACGAA
Found at i:88112569 original size:41 final size:40
Alignment explanation
Indices: 88112461--88112625 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 40
88112451 CGGGATTTAA
* * * *
88112461 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* **** * *
88112501 CCGGATTTGGTGACTTGCACAATTGCCTTCGGGTCTTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTC-TTAGC
* *
88112542 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
88112582 CCGGATATAACCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
88112622 CCGG
1 CCGG
88112626 GTATCATTCA
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
40 72 0.70
41 31 0.30
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88112609 original size:81 final size:80
Alignment explanation
Indices: 88112447--88112625 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 80
88112437 GAGTCACGTA
* * * * **
88112447 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
** * *
88112511 TGACTTGCACAATTG
66 CCACTAGCACAAATG
* ** *
88112526 CCTTCGGGTCTTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGAC-TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATAT
*
88112590 AACCACTAGCATAAATG
64 AACCACTAGCACAAATG
88112607 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
88112626 GTATCATTCA
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
79 8 0.10
80 12 0.15
81 59 0.73
82 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
CCACTAGCACAAATG
Found at i:88116557 original size:9 final size:9
Alignment explanation
Indices: 88116543--88116603 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
88116533 TACAAATGAG
88116543 ATTAATTAA
1 ATTAATTAA
88116552 ATTAATTAA
1 ATTAATTAA
*
88116561 CTTAATTAA
1 ATTAATTAA
*
88116570 CA--AA-AAA
1 -ATTAATTAA
*
88116577 AGTAATTAA
1 ATTAATTAA
88116586 ATTAATTAA
1 ATTAATTAA
*
88116595 CTTAATTAA
1 ATTAATTAA
88116604 CAAAAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 1 0.02
7 2 0.05
8 4 0.10
9 35 0.83
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTAATTAA
Found at i:88116583 original size:34 final size:34
Alignment explanation
Indices: 88116545--88116613 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
88116535 CAAATGAGAT
88116545 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
1 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
88116579 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
1 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
88116613 T
1 T
88116614 GAAAGGCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (34 bp):
TAATTAAATTAATTAACTTAATTAACAAAAAAAG
Found at i:88134569 original size:24 final size:24
Alignment explanation
Indices: 88134536--88134584 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
88134526 GAGGTGGTAT
88134536 TTCTTCCTTTAAAATGTAATCCAA
1 TTCTTCCTTTAAAATGTAATCCAA
*
88134560 TTCTTTCTTTAAAATGTAATCCAA
1 TTCTTCCTTTAAAATGTAATCCAA
88134584 T
1 T
88134585 AAGGCTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (24 bp):
TTCTTCCTTTAAAATGTAATCCAA
Found at i:88136487 original size:31 final size:34
Alignment explanation
Indices: 88136432--88136498 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 34
88136422 ATCTAAACTT
* * *
88136432 TTTTTTATTATCCAATTAGGTACCTGAACTTGGC
1 TTTTTTATTATCCAATTAGATACCTAAACTTAGC
88136466 TTTTTTA-T-TCCAATTA-ATACCTAAACTTAGC
1 TTTTTTATTATCCAATTAGATACCTAAACTTAGC
88136497 TT
1 TT
88136499 CATGGTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 14 0.47
32 8 0.27
33 1 0.03
34 7 0.23
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.46
Consensus pattern (34 bp):
TTTTTTATTATCCAATTAGATACCTAAACTTAGC
Found at i:88144511 original size:42 final size:42
Alignment explanation
Indices: 88144402--88144511 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
88144392 AGGATATTAA
* * * *
88144402 GATTCCATATAAGACCATATCTGGGATATGGCCTCGGTATGT
1 GATTTCATATAAGACCATATCGGGGACATGGCCTCGATATGT
* * * **
88144444 GATTTCGTATAAGACCATGTTGGGGACATGGTGTCGATATGAT
1 GATTTCATATAAGACCATATCGGGGACATGGCCTCGATATG-T
*
88144487 -ATTTCATGTAAGACCATATCGGGGA
1 GATTTCATATAAGACCATATCGGGGA
88144512 TATGACATTG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
GATTTCATATAAGACCATATCGGGGACATGGCCTCGATATGT
Found at i:88146763 original size:29 final size:29
Alignment explanation
Indices: 88146729--88146787 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
88146719 AAAAGGATAT
88146729 TGAGATGATTGAAACATGCTTATGATGTG
1 TGAGATGATTGAAACATGCTTATGATGTG
88146758 TGAGATGATTGAAACATGCTTATGATGTG
1 TGAGATGATTGAAACATGCTTATGATGTG
88146787 T
1 T
88146788 CAAAAGTTAG
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:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (29 bp):
TGAGATGATTGAAACATGCTTATGATGTG
Found at i:88146800 original size:29 final size:29
Alignment explanation
Indices: 88146735--88146793 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
88146725 ATATTGAGAT
* * *
88146735 GATTGAAACATGCTTATGATGTGTGAGAT
1 GATTGAAACATGCTTATGATGTGTCAAAA
88146764 GATTGAAACATGCTTATGATGTGTCAAAA
1 GATTGAAACATGCTTATGATGTGTCAAAA
88146793 G
1 G
88146794 TTAGAAAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.32
Consensus pattern (29 bp):
GATTGAAACATGCTTATGATGTGTCAAAA
Found at i:88147091 original size:46 final size:48
Alignment explanation
Indices: 88147033--88147154 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 48
88147023 GGTGGTATAT
* * *
88147033 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-CGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATAGAC
* * *
88147079 GAGCTAGTGTAAGACATGTCTGGGACAT-CATCGGCCTCGGGATATAC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATAGAC
* *
88147126 AAGCTAGTGTAAGACCTGTCTGGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
88147155 GTGTCAGCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
45 11 0.17
46 28 0.43
47 26 0.40
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATAGAC
Found at i:88173593 original size:21 final size:21
Alignment explanation
Indices: 88173567--88173609 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
88173557 AAGGTGCCAA
88173567 TGCCATGTCCCAGACATGGTC
1 TGCCATGTCCCAGACATGGTC
*
88173588 TGCCATGTTCCAGACATGGTC
1 TGCCATGTCCCAGACATGGTC
88173609 T
1 T
88173610 TACACTGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (21 bp):
TGCCATGTCCCAGACATGGTC
Found at i:88173657 original size:47 final size:48
Alignment explanation
Indices: 88173588--88173807 Score: 274
Period size: 46 Copynumber: 4.7 Consensus size: 48
88173578 AGACATGGTC
* *
88173588 TGCCATGTTCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCGA
* * *
88173635 TGCCATGTTCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCGAAGCCGA
* * *
88173683 TG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATTTCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCGA
* *
88173729 TG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTC-AATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA-GCCGA
*
88173775 TGCCATGTCCCAGACATGGTCTTACATTGGCTC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTC
88173808 TCATAATGTG
Statistics
Matches: 152, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
45 1 0.01
46 66 0.43
47 65 0.43
48 20 0.13
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCGA
Found at i:88173728 original size:46 final size:47
Alignment explanation
Indices: 88173591--88173848 Score: 246
Period size: 46 Copynumber: 5.5 Consensus size: 47
88173581 CATGGTCTGC
* * * *
88173591 CATGTTCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
* *
88173637 CCATGTTCCAGACATGGTCTTACACTGAC-TATCATCTCGTA-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCG-AGGCCGATG
*
88173685 CATGTCCCAGACAT-GTCTTACACTGGCTTACATTTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
* * *
88173731 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CATCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCCGATG
* * *
88173777 CCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGGCCGATG
* **
88173825 CATATCTTAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
88173849 AGCCAACAGC
Statistics
Matches: 182, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 74 0.41
48 30 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
Found at i:88173837 original size:94 final size:92
Alignment explanation
Indices: 88173591--88173851 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 92
88173581 CATGGTCTGC
* * * * * * *
88173591 CATGTTCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTCGATGCCATGTTCCAGACATGGT
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATATCGAGGCCGATG-CATATCCCAGACAT-GT
*
88173655 CTTACACT-GACTATCATCTCGTAGCCGATG
63 CTTACACTAG-CTATCATCTCATAGCCGATG
* *
88173685 CATGTCCCAGACATGTCTTACACTGGCTTACATTTCGAGGCCGATGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATATCCCAGACATGTCTT
*
88173750 ACACTAGCTCTCATCTCA-ATGCCGATG
66 ACACTAGCTATCATCTCATA-GCCGATG
* * **
88173777 CCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGCCGATGCATATCTTAGACATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATATCCCAGACATG
88173840 TCTTACACTAGC
62 TCTTACACTAGC
88173852 CAACAGCAAC
Statistics
Matches: 146, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
91 1 0.01
92 26 0.18
93 48 0.33
94 69 0.47
95 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATATCCCAGACATGTCTT
ACACTAGCTATCATCTCATAGCCGATG
Found at i:88173843 original size:140 final size:140
Alignment explanation
Indices: 88173591--88173848 Score: 367
Period size: 140 Copynumber: 1.8 Consensus size: 140
88173581 CATGGTCTGC
* * * *
88173591 CATGTTCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTTCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATGGTC
* *
88173656 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATTTC
66 TTACACTGACTATCATATCGTAGCCGATGCATATCCCAGACATGTCTTACACTGGCTTACATTTC
88173721 GAGGCCGATG
131 GAGGCCGATG
*
88173731 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCATGTCCCAGACATGGT
* * * * **
88173795 CTTACATTGGCTCTCATAAT-GTGGCCGATGCATATCTTAGACATGTCTTACACT
65 CTTACACTGACTATCAT-ATCGTAGCCGATGCATATCCCAGACATGTCTTACACT
88173849 AGCCAACAGC
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
139 22 0.21
140 80 0.78
141 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACTATCATATCGTAGCCGATGCATATCCCAGACATGTCTTACACTGGCTTACATTTC
GAGGCCGATG
Found at i:88178434 original size:79 final size:81
Alignment explanation
Indices: 88178333--88178517 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
88178323 ACGACTCGCT
** * *
88178333 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
88178396 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* * **
88178413 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCGTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
88178477 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
88178493 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88178518 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:88178517 original size:40 final size:39
Alignment explanation
Indices: 88178326--88178517 Score: 154
Period size: 40 Copynumber: 4.8 Consensus size: 39
88178316 GGATATAACG
* ** * *
88178326 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
88178366 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
88178406 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
88178445 ACTCGCACGAATGCGTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
88178485 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
88178518 CATCATTCGA
Statistics
Matches: 119, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 78 0.66
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:88179939 original size:46 final size:46
Alignment explanation
Indices: 88179889--88180064 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88179879 TGGTTGAGCA
88179889 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
88179935 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
88179980 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88180028 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88180065 GTGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88180045 original size:93 final size:93
Alignment explanation
Indices: 88179886--88180056 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
88179876 GGATGGTTGA
* *
88179886 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88179951 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
88179979 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88180044 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
88180057 GCTTATGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:88183507 original size:43 final size:43
Alignment explanation
Indices: 88183460--88183562 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
88183450 CCTCAATTGA
* ** *
88183460 GATTTACATATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTTACATGTAAGACCATGTCTGGGACAGAGGAATCGATAT-T
* *
88183503 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGAATCGATATT
1 GATTTACATGTAAGACCATGTCTGGGACAGAGGAATCGATATT
*
88183545 GAATTACATGTAAGACCA
1 GATTTACATGTAAGACCA
88183563 CGTCCAAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 31 0.63
43 18 0.37
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
GATTTACATGTAAGACCATGTCTGGGACAGAGGAATCGATATT
Found at i:88194955 original size:2 final size:2
Alignment explanation
Indices: 88194948--88194973 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88194938 ACCAGAACAG
88194948 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
88194974 GTGGCGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88195756 original size:27 final size:27
Alignment explanation
Indices: 88195707--88195772 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
88195697 AGGGGCAAAA
*
88195707 TGGTAATTTTACCCCACAAGGGTATCT
1 TGGTAATTCTACCCCACAAGGGTATCT
* * * *
88195734 TGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCCACAAGGGTATCT
*
88195761 TAGTAATTCTAC
1 TGGTAATTCTAC
88195773 AACTTATCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
TGGTAATTCTACCCCACAAGGGTATCT
Found at i:88202037 original size:26 final size:26
Alignment explanation
Indices: 88202000--88202083 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
88201990 TGATACAAAT
* *
88202000 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88202026 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88202052 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88202078 TGATAA
1 TGATAA
88202084 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:88202407 original size:13 final size:13
Alignment explanation
Indices: 88202389--88202413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88202379 AAATGAAGGG
88202389 AAACAAATGAGCC
1 AAACAAATGAGCC
88202402 AAACAAATGAGC
1 AAACAAATGAGC
88202414 ATGCATGTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.16, T:0.08
Consensus pattern (13 bp):
AAACAAATGAGCC
Found at i:88203536 original size:25 final size:26
Alignment explanation
Indices: 88203508--88203556 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
88203498 TACAGTTTTA
88203508 CCCTAGAGATAAATT-ACCGAAATAC
1 CCCTAGAGATAAATTGACCGAAATAC
* * *
88203533 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGAGATAAATTGACCGAAAT
88203557 GCATGTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (26 bp):
CCCTAGAGATAAATTGACCGAAATAC
Found at i:88205261 original size:14 final size:14
Alignment explanation
Indices: 88205242--88205272 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
88205232 CCAGAGCAAG
88205242 TTCGGGCAACGAAA
1 TTCGGGCAACGAAA
88205256 TTCGGGCAACGAAA
1 TTCGGGCAACGAAA
88205270 TTC
1 TTC
88205273 AGGATCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (14 bp):
TTCGGGCAACGAAA
Found at i:88206949 original size:29 final size:29
Alignment explanation
Indices: 88206916--88206976 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
88206906 ATTCGCACTT
*
88206916 AAGATTTGGAGGCATTACTTGTACGGAGA
1 AAGATTTGGAGACATTACTTGTACGGAGA
88206945 AAGATTTGGAGACATTACTTGTACGGAGA
1 AAGATTTGGAGACATTACTTGTACGGAGA
88206974 AAG
1 AAG
88206977 GTGTATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (29 bp):
AAGATTTGGAGACATTACTTGTACGGAGA
Found at i:88208996 original size:26 final size:26
Alignment explanation
Indices: 88208959--88209042 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
88208949 TGATACAAAT
* *
88208959 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88208985 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88209011 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88209037 TGATAA
1 TGATAA
88209043 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:88210551 original size:25 final size:26
Alignment explanation
Indices: 88210523--88210574 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
88210513 TTTACAGTTT
88210523 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
88210548 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
88210574 T
1 T
88210575 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:88212189 original size:17 final size:16
Alignment explanation
Indices: 88212162--88212205 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
88212152 GTATTAATTT
*
88212162 TATATTATTATAATTGTG
1 TATA-TATTAT-AGTGTG
88212180 TATATATTAT-GTGTG
1 TATATATTATAGTGTG
88212195 TATATATTATA
1 TATATATTATA
88212206 TGCATATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 14 0.58
17 6 0.25
18 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
TATATATTATAGTGTG
Found at i:88212196 original size:15 final size:15
Alignment explanation
Indices: 88212176--88212204 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88212166 TTATTATAAT
88212176 TGTGTATATATTATG
1 TGTGTATATATTATG
88212191 TGTGTATATATTAT
1 TGTGTATATATTAT
88212205 ATGCATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (15 bp):
TGTGTATATATTATG
Found at i:88217201 original size:74 final size:74
Alignment explanation
Indices: 88217080--88217312 Score: 448
Period size: 74 Copynumber: 3.1 Consensus size: 74
88217070 TTCATCTCAT
88217080 ATTTAGATAACTATGATGGTGTGGGAAAGATGAGATTAACTTGGACATCCATATGTCTACATTCA
1 ATTTAGATAACTATGATGGTGTGGGAAAGATGAGATTAACTTGGACATCCATATGTCTACATTCA
88217145 TCTTAATTG
66 TCTTAATTG
88217154 ATTTAGATAACTATGATGGTGTGGGAAAGATGAGATTAACTTGGACATCCATATGTCTACATTCA
1 ATTTAGATAACTATGATGGTGTGGGAAAGATGAGATTAACTTGGACATCCATATGTCTACATTCA
88217219 TCTTAATTG
66 TCTTAATTG
88217228 ATTTAGATAACTATGATGGTGTGGGAAAGATGAGATTAACTTGGACATCCATATGTCTACATTCA
1 ATTTAGATAACTATGATGGTGTGGGAAAGATGAGATTAACTTGGACATCCATATGTCTACATTCA
88217293 TCTTAATTG
66 TCTTAATTG
88217302 AGTTTAAGATA
1 A-TTT-AGATA
88217313 TTAAAATGAG
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
74 149 0.95
75 3 0.02
76 5 0.03
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (74 bp):
ATTTAGATAACTATGATGGTGTGGGAAAGATGAGATTAACTTGGACATCCATATGTCTACATTCA
TCTTAATTG
Found at i:88217839 original size:28 final size:27
Alignment explanation
Indices: 88217783--88217854 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
88217773 GGGTTCTTCC
*
88217783 TATAATTTTATGAAAATTTTAAAATTTT
1 TATAATTTTA-GAAAATTTGAAAATTTT
*
88217811 TTTAATTTTA-AAAATTTGAAAGATCTTT
1 TATAATTTTAGAAAATTTGAAA-AT-TTT
*
88217839 TAGAATTTTAGAAAAT
1 TATAATTTTAGAAAAT
88217855 CTATAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.27
27 2 0.05
28 20 0.54
29 5 0.14
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (27 bp):
TATAATTTTAGAAAATTTGAAAATTTT
Found at i:88219274 original size:5 final size:5
Alignment explanation
Indices: 88219264--88219288 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88219254 TACGGTAATT
88219264 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
88219289 AGGAGTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:88230947 original size:20 final size:21
Alignment explanation
Indices: 88230922--88230960 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
88230912 CTGTATGGAT
88230922 GTTACA-GACCATGTGGAACG
1 GTTACACGACCATGTGGAACG
88230942 GTTACACGACCATGTGGAA
1 GTTACACGACCATGTGGAA
88230961 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (21 bp):
GTTACACGACCATGTGGAACG
Found at i:88232420 original size:54 final size:54
Alignment explanation
Indices: 88232356--88232463 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
88232346 ACACAACTTT
* *
88232356 CCATGTTTTTTCAACAATTGATTTGATAAAAGTTTTCATTCAAACTTTCTAATA
1 CCATGCTTTTTCAACAATTGATTTGATAAAAGTTTTCATTCAAACGTTCTAATA
88232410 CCATGCTTTTTCAACAATTGATTTGATAAAAGTTTTCATTCAAACGTTCTAATA
1 CCATGCTTTTTCAACAATTGATTTGATAAAAGTTTTCATTCAAACGTTCTAATA
88232464 GATGTAATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (54 bp):
CCATGCTTTTTCAACAATTGATTTGATAAAAGTTTTCATTCAAACGTTCTAATA
Found at i:88234262 original size:9 final size:9
Alignment explanation
Indices: 88234235--88234273 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
88234225 TGAGTTTTAC
*
88234235 AATTCGAAT
1 AATTCAAAT
*
88234244 AACTCAAAT
1 AATTCAAAT
*
88234253 AATTCTAAT
1 AATTCAAAT
88234262 AATTCAAAT
1 AATTCAAAT
88234271 AAT
1 AAT
88234274 AGATTGGTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (9 bp):
AATTCAAAT
Found at i:88234262 original size:18 final size:18
Alignment explanation
Indices: 88234235--88234273 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
88234225 TGAGTTTTAC
88234235 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
* *
88234253 AATTCTAATAATTCAAAT
1 AATTCGAATAACTCAAAT
88234271 AAT
1 AAT
88234274 AGATTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:88234404 original size:27 final size:27
Alignment explanation
Indices: 88234354--88234435 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
88234344 AAATTAAAAA
88234354 AAAATTCAAAA-ATTT-TAAATAAATTTT
1 AAAATTCAAAATATTTAT-AA-AAATTTT
*
88234381 AAAATTCAAAATATTTATAAAAA-TAT
1 AAAATTCAAAATATTTATAAAAATTTT
* * *
88234407 AAAATT-TATATTTTTA-AAAAATTTT
1 AAAATTCAAAATATTTATAAAAATTTT
88234432 AAAA
1 AAAA
88234436 AAAATTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
24 5 0.11
25 13 0.28
26 8 0.17
27 14 0.30
28 6 0.13
29 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAAATTCAAAATATTTATAAAAATTTT
Found at i:88234430 original size:11 final size:11
Alignment explanation
Indices: 88234416--88234457 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
88234406 TAAAATTTAT
*
88234416 ATTTTTAAAAA
1 ATTTTAAAAAA
88234427 ATTTTAAAAAA
1 ATTTTAAAAAA
*
88234438 AATTTAAAAAA
1 ATTTTAAAAAA
88234449 ATTTCTAAA
1 ATTT-TAAA
88234458 GAATATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 23 0.85
12 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:88234449 original size:10 final size:10
Alignment explanation
Indices: 88234419--88234452 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
88234409 AATTTATATT
*
88234419 TTTAAAAAAT
1 TTTAAAAAAA
88234429 TTTAAAAAAAA
1 TTT-AAAAAAA
88234440 TTTAAAAAAA
1 TTTAAAAAAA
88234450 TTT
1 TTT
88234453 CTAAAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:88234468 original size:23 final size:22
Alignment explanation
Indices: 88234422--88234475 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
88234412 TTATATTTTT
*
88234422 AAAAAATTTTAAAAAAAATTTA
1 AAAAAATTTTAAAAAAAATATA
* *
88234444 AAAAAATTTCTAAAGAATATATA
1 AAAAAATTT-TAAAAAAAATATA
88234467 AATAAAATT
1 AA-AAAATT
88234476 AAAATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 9 0.33
23 12 0.44
24 6 0.22
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATTTTAAAAAAAATATA
Found at i:88234541 original size:3 final size:3
Alignment explanation
Indices: 88234533--88234570 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
88234523 TCAAGTTTAT
88234533 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
88234571 CTTTAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88239269 original size:2 final size:2
Alignment explanation
Indices: 88239262--88239291 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88239252 CCCTACAGCC
88239262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88239292 CCATATACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88245503 original size:48 final size:47
Alignment explanation
Indices: 88245294--88245508 Score: 204
Period size: 48 Copynumber: 4.6 Consensus size: 47
88245284 AGATATGTGT
* * *
88245294 GCTAGTGTAAAACATGTCTGGGACATGAATCAGCCAC-A-ATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATG-AA
* * *
88245340 GCCAGTGAAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA-TGAA
* * * * * * * *
88245388 GCCAGAGTAAGACATGTTTGGGACATGTATAAGCGTTGAG--ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGA-A
* * *
88245434 GCTAGTGTAAGACATGCCTGGGACATGCATCGGCCTCGAGATAGGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATG-AA
*
88245482 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
88245509 GTGTTAGCTT
Statistics
Matches: 135, Mismatches: 27, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 65 0.48
47 1 0.01
48 66 0.49
49 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGAA
Found at i:88245603 original size:49 final size:49
Alignment explanation
Indices: 88245531--88245653 Score: 185
Period size: 49 Copynumber: 2.5 Consensus size: 49
88245521 TGTGTGTCAG
*
88245531 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAGAGCCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCCAA
* * *
88245580 TGTAAGACCTGTCTGGGACATGGCATCGACCTCACTATATGAAAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCCAA
88245629 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACC-TGTCTGGGACATGGC
88245654 GTTAGTATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
48 1 0.01
49 52 0.76
50 15 0.22
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCCAA
Found at i:88246836 original size:20 final size:21
Alignment explanation
Indices: 88246797--88246836 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
88246787 GTTATAGGGA
*
88246797 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGCATGTTGCCCTT
*
88246818 CCACACGGGCATG-TGCCCT
1 CCACACAGGCATGTTGCCCT
88246837 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACAGGCATGTTGCCCTT
Found at i:88249023 original size:40 final size:40
Alignment explanation
Indices: 88248968--88249047 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
88248958 CTATGACATG
88248968 TTAAATCTCTCATCAACTTGATTAGTAATCTAAATAATTC
1 TTAAATCTCTCATCAACTTGATTAGTAATCTAAATAATTC
88249008 TTAAATCTCTCATCAACTTGATTAGTAATCTAAATAATTC
1 TTAAATCTCTCATCAACTTGATTAGTAATCTAAATAATTC
88249048 GATATTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (40 bp):
TTAAATCTCTCATCAACTTGATTAGTAATCTAAATAATTC
Found at i:88249842 original size:25 final size:24
Alignment explanation
Indices: 88249790--88249856 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
88249780 TCAGGTTTTC
* *
88249790 TTTTCTTTTTTTTTTTAGATTAGG
1 TTTTCTTTTTTTTTTTAGATGAGA
*
88249814 TTTTCTCTTTTTTTTTTAGGTGAGA
1 TTTTCT-TTTTTTTTTTAGATGAGA
* *
88249839 TTTTAGTTTTGTTTTTTA
1 TTTT-CTTTTTTTTTTTA
88249857 CTTTATTCCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.17
25 29 0.81
26 1 0.03
ACGTcount: A:0.12, C:0.04, G:0.13, T:0.70
Consensus pattern (24 bp):
TTTTCTTTTTTTTTTTAGATGAGA
Found at i:88263484 original size:46 final size:47
Alignment explanation
Indices: 88263311--88263486 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 47
88263301 TGGATTATTT
* * * *
88263311 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGC-A
* * * *
88263357 GAGCTACTGTAAGACCATGT-TCGGGACATGGCATC-GACATTGAGACG-A
1 GAGCTAGTGTAAGA-CATGTCT-GGGACAT-GCATCAG-CCTCGAGATGCA
*
88263405 GAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGCA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGCA
*
88263452 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
88263487 TACAAGTAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
46 59 0.55
47 27 0.25
48 21 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGCA
Found at i:88275816 original size:69 final size:67
Alignment explanation
Indices: 88275740--88275890 Score: 164
Period size: 67 Copynumber: 2.2 Consensus size: 67
88275730 CATCATGTGT
* * * *
88275740 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCACTGGGT-GATACTA-TG-TGTACAC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCA-TGCGTGGATACAAGTGAAGGACAC
88275802 CATGTAG
61 CATGTAG
** * *
88275809 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
88275874 AG
66 AG
88275876 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
88275891 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
64 4 0.06
65 20 0.29
66 5 0.07
67 28 0.40
69 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:88277038 original size:2 final size:2
Alignment explanation
Indices: 88277031--88277057 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
88277021 TCATGACATG
88277031 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
88277058 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88281479 original size:2 final size:2
Alignment explanation
Indices: 88281472--88281502 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88281462 ATGACATGTG
88281472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88281503 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88283827 original size:40 final size:40
Alignment explanation
Indices: 88283772--88283853 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
88283762 ATCGTAGAGT
* *
88283772 GTTTCTAAATCCATCTGCACAAAAGAAGAGGTATCATTAC
1 GTTTCTAAATCCATCTGCACAAAACAAGAGATATCATTAC
88283812 GTTTCTAAATCCATCTGCACAAAACAAGAGATATCATTAC
1 GTTTCTAAATCCATCTGCACAAAACAAGAGATATCATTAC
88283852 GT
1 GT
88283854 AATTTAGCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (40 bp):
GTTTCTAAATCCATCTGCACAAAACAAGAGATATCATTAC
Found at i:88291420 original size:46 final size:46
Alignment explanation
Indices: 88291363--88291583 Score: 156
Period size: 46 Copynumber: 4.8 Consensus size: 46
88291353 GGATTATTGT
* *
88291363 GAGCTAGTGTAAGATATGTCTGGGACATGCATCGGTCATATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCATATTACGA
* *
88291409 GAGCCAGTGTAAGACCAAT-TTTGGGACATGGCATCGG-CAT-TGAGACGA
1 GAGCCAGTGTAAGA-C-ATGTCTGGGACAT-GCATCGGTCATAT--TACGA
* ** *
88291457 GAG-TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGATA-TGC-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC--GGTC-ATATTACGA
**
88291503 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCATATTACG-A
* * *
88291546 AAGCTAGTGTAAGACCATGTCCGGGACATGGCATCGGT
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGT
88291584 ATCTTACCCT
Statistics
Matches: 139, Mismatches: 17, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
41 2 0.01
43 2 0.01
44 12 0.09
45 22 0.16
46 60 0.43
47 22 0.16
48 17 0.12
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCATATTACGA
Found at i:88293969 original size:75 final size:75
Alignment explanation
Indices: 88293846--88294029 Score: 264
Period size: 75 Copynumber: 2.5 Consensus size: 75
88293836 CTTCAATTTA
* * *
88293846 CCCGAAGCCAAATCAATGTAACTCGTA-ACCAAAGTGCTACTATCATGGCCCGAACCCAAATCAT
1 CCCGAAGCCAAATCAATGTAACTCGCACA-CTAAGTACTACTATCATGGCCCGAACCCAAATCAT
*
88293910 TGATATCATGG
65 TAATATCATGG
* * * *
88293921 CCCGAACCCAAATCAATGTAACTCGCACACTAAGTACTATTATCATGGCCCGAAGCGAAATCATT
1 CCCGAAGCCAAATCAATGTAACTCGCACACTAAGTACTACTATCATGGCCCGAACCCAAATCATT
88293986 AATATCATGG
66 AATATCATGG
*
88293996 CCCGAAGCCAAATCAATG-AACTTGCACACTAAGT
1 CCCGAAGCCAAATCAATGTAACTCGCACACTAAGT
88294030 GCTAATATAT
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
74 15 0.15
75 82 0.84
76 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (75 bp):
CCCGAAGCCAAATCAATGTAACTCGCACACTAAGTACTACTATCATGGCCCGAACCCAAATCATT
AATATCATGG
Found at i:88296862 original size:92 final size:92
Alignment explanation
Indices: 88296604--88296844 Score: 356
Period size: 92 Copynumber: 2.6 Consensus size: 92
88296594 ATCATATCAG
* * *
88296604 TATAGCAGATTACCGCATTACACTGTACCGCATATACGTTAGCTACGCTACGTACCATTGACTGA
1 TATAGCAGATTACCGCATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCATTGACTGA
* * *
88296669 ACTGACAGTTTTATTGCAATCTATCGG
66 ACTGGCAGTTTTACTGCAATCTATCGA
* * * * **
88296696 TATAGCAGATTACCACATTGCACTGTACCACATGTACGTTAGTTATGTTATATACCATTGACTGA
1 TATAGCAGATTACCGCATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCATTGACTGA
88296761 ACTGGCAGTTTTACTGCAATCTATCGA
66 ACTGGCAGTTTTACTGCAATCTATCGA
* *
88296788 TATAGCAGATTACCGCATTGCACTGTACCACATGTACGCTACCTACGCTACGTACCA
1 TATAGCAGATTACCGCATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCA
88296845 CTATTTGATC
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 129 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (92 bp):
TATAGCAGATTACCGCATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCATTGACTGA
ACTGGCAGTTTTACTGCAATCTATCGA
Found at i:88301106 original size:12 final size:12
Alignment explanation
Indices: 88301089--88301138 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
88301079 AGTTGATAAG
88301089 ATTTAATATTAA
1 ATTTAATATTAA
*
88301101 ATTTAATAAGATAA
1 ATTTAAT-A-TTAA
88301115 ATGTT-ATATT-A
1 AT-TTAATATTAA
88301126 ATTTAATATTAA
1 ATTTAATATTAA
88301138 A
1 A
88301139 GTGATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
10 2 0.06
11 8 0.26
12 10 0.32
13 2 0.06
14 7 0.23
15 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:88305030 original size:30 final size:29
Alignment explanation
Indices: 88304959--88305031 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
88304949 TATATTGTTT
* *
88304959 TTAAACAAGCCCTTAACCTATTTTTGTAG
1 TTAAATAAGCCCTTAACCTATTTTTGTAC
*
88304988 TTAAATAAGCCCTTAACTTATGGTTTT-TAC
1 TTAAATAAGCCCTTAACCTAT--TTTTGTAC
88305018 TTATAA-AAGCCCTT
1 TTA-AATAAGCCCTT
88305032 TTATTTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 19 0.50
30 13 0.34
31 6 0.16
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (29 bp):
TTAAATAAGCCCTTAACCTATTTTTGTAC
Found at i:88308065 original size:19 final size:18
Alignment explanation
Indices: 88308041--88308076 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
88308031 GACAAACACA
88308041 TTTAATATTTAAATTTAAT
1 TTTAATATTT-AATTTAAT
*
88308060 TTTAATGTTTAATTTAA
1 TTTAATATTTAATTTAA
88308077 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTAATATTTAATTTAAT
Found at i:88322225 original size:21 final size:24
Alignment explanation
Indices: 88322183--88322226 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
88322173 AAAAAGCAAA
88322183 AAGAAGAACACAAGAACAAAAACC
1 AAGAAGAACACAAGAACAAAAACC
*
88322207 AAGAATAA-ACAA-AACAAAAA
1 AAGAAGAACACAAGAACAAAAA
88322227 ATAACGTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.73, C:0.16, G:0.09, T:0.02
Consensus pattern (24 bp):
AAGAAGAACACAAGAACAAAAACC
Found at i:88322641 original size:24 final size:25
Alignment explanation
Indices: 88322597--88322652 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
88322587 ACATTTTGTA
* *
88322597 TGTTGTTTTTTGTGCTATTTTGGTGT
1 TGTT-TTTTTTATGCTATTTTAGTGT
*
88322623 TGTTTTTTTTATGCT-TTTTATTGT
1 TGTTTTTTTTATGCTATTTTAGTGT
88322647 TGTTTT
1 TGTTTT
88322653 GCAACTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 13 0.48
25 10 0.37
26 4 0.15
ACGTcount: A:0.05, C:0.04, G:0.20, T:0.71
Consensus pattern (25 bp):
TGTTTTTTTTATGCTATTTTAGTGT
Found at i:88322652 original size:23 final size:24
Alignment explanation
Indices: 88322597--88322652 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
88322587 ACATTTTGTA
* *
88322597 TGTTG-TTTTTTGTGCTATTTTGG
1 TGTTGTTTTTTTATGCTATTTTAG
*
88322620 TGTTGTTTTTTTTATGCT-TTTTAT
1 TGTTG-TTTTTTTATGCTATTTTAG
88322644 TGTTGTTTT
1 TGTTGTTTT
88322653 GCAACTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 9 0.32
24 9 0.32
25 10 0.36
ACGTcount: A:0.05, C:0.04, G:0.20, T:0.71
Consensus pattern (24 bp):
TGTTGTTTTTTTATGCTATTTTAG
Found at i:88322715 original size:23 final size:23
Alignment explanation
Indices: 88322700--88322744 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
88322690 TATTGTTTCG
88322700 CTGTCATTTTTAATATTATTTGA
1 CTGTCATTTTTAATATTATTTGA
88322723 CTGTCATTTTTAATATTATTTG
1 CTGTCATTTTTAATATTATTTG
88322745 GATATTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (23 bp):
CTGTCATTTTTAATATTATTTGA
Found at i:88326385 original size:20 final size:20
Alignment explanation
Indices: 88326362--88326412 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
88326352 ATCTAGAATA
88326362 AATAAATAAAAATAAAATTT
1 AATAAATAAAAATAAAATTT
88326382 AATAAATAAAAATAAAATTT
1 AATAAATAAAAATAAAATTT
88326402 AATAAATAAAA
1 AATAAATAAAA
88326413 TATTGGGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAAATAAAAATAAAATTT
Found at i:88331518 original size:16 final size:17
Alignment explanation
Indices: 88331480--88331520 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
88331470 AATATTTATT
*
88331480 AGGAAAAACCTAATTGA
1 AGGAAAAAACTAATTGA
*
88331497 A-TAAAAAACTAA-TGA
1 AGGAAAAAACTAATTGA
88331512 AGGAAAAAA
1 AGGAAAAAA
88331521 AGTGCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 4 0.20
16 15 0.75
17 1 0.05
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (17 bp):
AGGAAAAAACTAATTGA
Found at i:88336249 original size:23 final size:23
Alignment explanation
Indices: 88336219--88336267 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
88336209 AATAAATAAA
88336219 ATTTGCAAACAATTATATACAAC
1 ATTTGCAAACAATTATATACAAC
*
88336242 ATTTGCAAACAATTATATGCAAC
1 ATTTGCAAACAATTATATACAAC
88336265 ATT
1 ATT
88336268 CACTTCAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (23 bp):
ATTTGCAAACAATTATATACAAC
Found at i:88340075 original size:20 final size:19
Alignment explanation
Indices: 88340034--88340080 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
88340024 CTAATCAATG
* *
88340034 CCAAA-TTTTTAACTGATG
1 CCAAATTTTTTAACAGATA
88340052 CCAAATTTTTTAACGAGATA
1 CCAAATTTTTTAAC-AGATA
88340072 CCAATATTT
1 CCAA-ATTT
88340081 CTAATGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 8 0.33
20 7 0.29
21 4 0.17
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (19 bp):
CCAAATTTTTTAACAGATA
Found at i:88340091 original size:20 final size:20
Alignment explanation
Indices: 88340068--88340162 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
88340058 TTTTTAACGA
88340068 GATACCAATATTTCTAATGT
1 GATACCAATATTTCTAATGT
**
88340088 GATACCAATATTT-TAAACAT
1 GATACCAATATTTCT-AATGT
* *
88340108 GATACTAAAATTTCT-A-GCT
1 GATACCAATATTTCTAATG-T
* **
88340127 GACACCAATATAGCTAATGT
1 GATACCAATATTTCTAATGT
*
88340147 GATACCAAAATTTCTA
1 GATACCAATATTTCTA
88340163 GGCTTAATTG
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
19 13 0.23
20 41 0.73
21 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (20 bp):
GATACCAATATTTCTAATGT
Found at i:88341458 original size:13 final size:13
Alignment explanation
Indices: 88341440--88341464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88341430 TATGGTCTAC
88341440 GATTTCATGAAAT
1 GATTTCATGAAAT
88341453 GATTTCATGAAA
1 GATTTCATGAAA
88341465 ATTTCGTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:88342176 original size:49 final size:50
Alignment explanation
Indices: 88342096--88342341 Score: 271
Period size: 49 Copynumber: 4.9 Consensus size: 50
88342086 ATCTATTTTG
* * * *
88342096 AGGTCACGTGTGTAGCACTAAGTGCAAGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * ** * *
88342146 -GGTCGCATGTGTAGTACTAAGTACAGGCTACTGTGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
88342196 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
88342246 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
88342296 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA
88342342 GCTTTGGCTA
Statistics
Matches: 161, Mismatches: 33, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 78 0.48
50 47 0.29
51 36 0.22
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:88342232 original size:28 final size:28
Alignment explanation
Indices: 88342201--88342285 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
88342191 AACTTCGATC
88342201 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
88342229 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
88342251 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
88342279 ACGTGTG
1 ACGTGTG
88342286 CCGGATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 15 0.35
29 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:88342334 original size:99 final size:99
Alignment explanation
Indices: 88342099--88342341 Score: 274
Period size: 100 Copynumber: 2.4 Consensus size: 99
88342089 TATTTTGAGG
* * * * *
88342099 TCACGTGTGTAGCACTAAGTGCAAGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AGATAATTGGTCACATGTGTAGTACT
**
88342164 AAGTACAGGCTACTGTGCGTACCCGATAACTTCGA
65 AAGTACAGGCTACTACGCGTACCCGATAACTTCGA
* ** *
88342199 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAATT-GGTCACATGTGTAGTAC
* * * * *
88342264 TAAGTGCAGGCTACTACGTGTGCCGGATAA-TT-GG
64 TAAGTACAGGCTACTACGCGTACCCGATAACTTCGA
* *
88342298 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATA
88342342 GCTTTGGCTA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
99 40 0.33
100 42 0.34
101 40 0.33
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAATTGGTCACATGTGTAGTACTA
AGTACAGGCTACTACGCGTACCCGATAACTTCGA
Found at i:88348653 original size:17 final size:17
Alignment explanation
Indices: 88348628--88348661 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88348618 GGGATTCACC
*
88348628 ATTTGGTGAACTCTAGG
1 ATTTAGTGAACTCTAGG
88348645 ATTTAGTGAACTCTAGG
1 ATTTAGTGAACTCTAGG
88348662 GTTTGACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (17 bp):
ATTTAGTGAACTCTAGG
Found at i:88353671 original size:49 final size:49
Alignment explanation
Indices: 88353611--88353770 Score: 288
Period size: 49 Copynumber: 3.3 Consensus size: 49
88353601 GTATGAGATA
88353611 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
88353660 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
88353709 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
88353756 TATAAATGTGATAAG
1 TATATATGTGATAAG
88353771 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.16
49 92 0.84
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:88362874 original size:51 final size:51
Alignment explanation
Indices: 88362819--88362918 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
88362809 TTACCACATA
88362819 ACATGTAA-CACATCCATAATGAACTC-GAACCACTCAACGAG-TTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCAG-ACCACTCAACGAGCTT-GGATGTT
* *
88362870 ACATGAATCGCATCCATCATGAACTCAGACCACTCAACGAGCTTGGATG
1 ACATGAATCACATCCATAATGAACTCAGACCACTCAACGAGCTTGGATG
88362919 CTCGCATCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
50 2 0.05
51 39 0.89
52 3 0.07
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCAGACCACTCAACGAGCTTGGATGTT
Found at i:88362925 original size:43 final size:43
Alignment explanation
Indices: 88362877--88362963 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
88362867 GTTACATGAA
* *
88362877 TCGCATCCATCATGAACTCAGACCACTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
* * *
88362920 TCGCATCTATAATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
88362963 T
1 T
88362964 ACATACCTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
Found at i:88368814 original size:193 final size:191
Alignment explanation
Indices: 88368482--88368860 Score: 555
Period size: 193 Copynumber: 2.0 Consensus size: 191
88368472 GGGAAGAGTG
* * * **
88368482 TGCTAATATGGGAAGATTAATGGATTATGATGTGTATGTTAATAAGATTAACCATTTTAGGTTGG
1 TGCTAATATGGGAAGATTAATGGATTAGGATGCGGATGTTAATAAGATTAACCAACTTAGGTTGG
* *
88368547 TGGATTCCGACTGTGCATATAAGAGTGGATGAAATTATAAACAGAGAGGAAATTTTGGGATTTGT
66 TGGATTCCGACTGTGCATATAAGAGTGGATCAAATTATAAACAGAGAGGAAAATTTGGGATTTGT
* * *
88368612 TTACCATTGGGCACTGATTATCTGTGATGGAAATAAGCATTTTATT-AGTATTCTAGTAGAGGA
131 TGACCATTGGGAACTGATTATCTAT-ATGGAAATAAGC-TTTT-TTGAGTATTCTAGTAGAGGA
88368675 TGCTAATATGGGAAGATTAATGGATTAGGATGCGGATGTTAATAAGATTAACCAACTTAGGTTGG
1 TGCTAATATGGGAAGATTAATGGATTAGGATGCGGATGTTAATAAGATTAACCAACTTAGGTTGG
* * * * *
88368740 TGGATTCGGACTTTGCTTATAAGAGTGGATCAAATTATAAAGAGGGAGGAAAATTTGGGATTT-T
66 TGGATTCCGACTGTGCATATAAGAGTGGATCAAATTATAAACAGAGAGGAAAATTTGGGATTTGT
* *
88368804 TCGGCCATTGGGAACTGGTTATCTATATGGAAATAAGCTTTTTTGAGTATTCTAGTA
131 T-GACCATTGGGAACTGATTATCTATATGGAAATAAGCTTTTTTGAGTATTCTAGTA
88368861 AGGGATACTG
Statistics
Matches: 167, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
190 2 0.01
191 16 0.10
192 14 0.08
193 135 0.81
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (191 bp):
TGCTAATATGGGAAGATTAATGGATTAGGATGCGGATGTTAATAAGATTAACCAACTTAGGTTGG
TGGATTCCGACTGTGCATATAAGAGTGGATCAAATTATAAACAGAGAGGAAAATTTGGGATTTGT
TGACCATTGGGAACTGATTATCTATATGGAAATAAGCTTTTTTGAGTATTCTAGTAGAGGA
Found at i:88378319 original size:16 final size:16
Alignment explanation
Indices: 88378298--88378329 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88378288 TAATTGGTTG
*
88378298 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
88378314 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
88378330 GATTAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:88381557 original size:16 final size:17
Alignment explanation
Indices: 88381526--88381558 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
88381516 CATGGTAATG
*
88381526 TTATGTGTTCACTTGTA
1 TTATGTGTTAACTTGTA
88381543 TTATG-GTTAACTTGTA
1 TTATGTGTTAACTTGTA
88381559 ATCTTTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.52
Consensus pattern (17 bp):
TTATGTGTTAACTTGTA
Found at i:88382728 original size:12 final size:12
Alignment explanation
Indices: 88382711--88382735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88382701 GTACACTTGA
88382711 ATTTTGGATTTT
1 ATTTTGGATTTT
88382723 ATTTTGGATTTT
1 ATTTTGGATTTT
88382735 A
1 A
88382736 ATTAGGATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (12 bp):
ATTTTGGATTTT
Found at i:88382790 original size:23 final size:23
Alignment explanation
Indices: 88382764--88382809 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
88382754 AATTAGAGTA
88382764 GGATTTTGACTTTAGAAAGCTGG
1 GGATTTTGACTTTAGAAAGCTGG
*
88382787 GGATTTTGACTTTAGGAAGCTGG
1 GGATTTTGACTTTAGAAAGCTGG
88382810 ATGGAGTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.35
Consensus pattern (23 bp):
GGATTTTGACTTTAGAAAGCTGG
Found at i:88399218 original size:32 final size:30
Alignment explanation
Indices: 88399181--88399253 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
88399171 GAAAATTCAT
** *
88399181 AAATCTTGAAACCTATTTTTTTTTTATAATAA
1 AAATCTTGAAACC-A-GATTTTTTTACAATAA
* *
88399213 CAATCTTGAAATCAGATTTTTTTACAATAA
1 AAATCTTGAAACCAGATTTTTTTACAATAA
88399243 AAATCTTGAAA
1 AAATCTTGAAA
88399254 TCGACAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 23 0.66
31 1 0.03
32 11 0.31
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATCTTGAAACCAGATTTTTTTACAATAA
Found at i:88399235 original size:30 final size:30
Alignment explanation
Indices: 88399199--88399255 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
88399189 AAACCTATTT
* *
88399199 TTTTTTTATAATAACAATCTTGAAATCAGA
1 TTTTTTTACAATAAAAATCTTGAAATCAGA
88399229 TTTTTTTACAATAAAAATCTTGAAATC
1 TTTTTTTACAATAAAAATCTTGAAATC
88399256 GACAAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTTTTTACAATAAAAATCTTGAAATCAGA
Found at i:88401078 original size:44 final size:42
Alignment explanation
Indices: 88401030--88401118 Score: 133
Period size: 44 Copynumber: 2.1 Consensus size: 42
88401020 CCAAACTTAA
**
88401030 TTTAATTATTATATTTTTATTTTGAAGTAAATAAGATTATATTT
1 TTTAATTATTATATTTTTATTTTGAAACAAATAAGA-TAT-TTT
*
88401074 TTTAATTATTTTATTTTTATTTTGAAACAAATAAGATATTTT
1 TTTAATTATTATATTTTTATTTTGAAACAAATAAGATATTTT
88401116 TTT
1 TTT
88401119 CTGAGTTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 6 0.14
43 3 0.07
44 33 0.79
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (42 bp):
TTTAATTATTATATTTTTATTTTGAAACAAATAAGATATTTT
Found at i:88401179 original size:2 final size:2
Alignment explanation
Indices: 88401172--88401201 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88401162 CAAAAACTTA
88401172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88401202 GAAAGGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88401564 original size:5 final size:5
Alignment explanation
Indices: 88401554--88401581 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
88401544 TTGTGTGTTC
88401554 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
88401582 TCTCAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:88409106 original size:46 final size:46
Alignment explanation
Indices: 88409056--88409231 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
88409046 TGGTTGAGCA
88409056 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
88409102 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
88409147 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
88409195 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88409232 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 27 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88409212 original size:93 final size:93
Alignment explanation
Indices: 88409053--88409223 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
88409043 GGATGGTTGA
* *
88409053 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
88409118 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
88409146 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88409211 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
88409224 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88412657 original size:91 final size:91
Alignment explanation
Indices: 88412538--88412730 Score: 368
Period size: 91 Copynumber: 2.1 Consensus size: 91
88412528 TAGTTATGGT
88412538 GCTTGGGTAATTGTTGTTTTGAGCTGTTCAAAAGCTTCTAGTACACTATTAGACTAATTCCAAAC
1 GCTTGGGTAATTGTTGTTTTGAGCTGTTCAAAAGCTTCTAGTACACTATTAGACTAATTCCAAAC
88412603 CAACTCCTTTAATAGGACTATTAAGG
66 CAACTCCTTTAATAGGACTATTAAGG
*
88412629 GCTTGGGTAATTGTTGTTTTGAGCTGTTCAAAAGCTTCTAGTACATTATTAGACTAATTCCAAAC
1 GCTTGGGTAATTGTTGTTTTGAGCTGTTCAAAAGCTTCTAGTACACTATTAGACTAATTCCAAAC
88412694 CAACTCCTTTAATAGGACTATTAAGG
66 CAACTCCTTTAATAGGACTATTAAGG
*
88412720 GCTTGGCTAAT
1 GCTTGGGTAAT
88412731 ACCCCATATT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 100 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (91 bp):
GCTTGGGTAATTGTTGTTTTGAGCTGTTCAAAAGCTTCTAGTACACTATTAGACTAATTCCAAAC
CAACTCCTTTAATAGGACTATTAAGG
Found at i:88416137 original size:40 final size:40
Alignment explanation
Indices: 88416001--88416154 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
88415991 GTGTGCATGA
* *
88416001 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
88416041 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
88416081 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
88416121 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
88416155 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:88424303 original size:40 final size:40
Alignment explanation
Indices: 88424167--88424320 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
88424157 GTGTGCATGA
* *
88424167 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
88424207 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
88424247 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
88424287 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
88424321 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Done.