Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 291 of 378
Found at i:88022023 original size:27 final size:27
Alignment explanation
Indices: 88021984--88022057 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
88021974 GTGAAATCTG
* *
88021984 TAGGCTAGTATTACTGAAATGCCCCTA
1 TAGGGTAGAATTACTGAAATGCCCCTA
88022011 TAGGGTAGAATTACTGAAATGCCCCTA
1 TAGGGTAGAATTACTGAAATGCCCCTA
88022038 TAGGGTAGAATTACTGAAAT
1 TAGGGTAGAATTACTGAAAT
88022058 ACCATTGGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATGCCCCTA
Found at i:88022086 original size:26 final size:26
Alignment explanation
Indices: 88022046--88022113 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 26
88022036 TATAGGGTAG
88022046 AATTACTGAAATACCATTGGTTTACAA
1 AATTACT-AAATACCATTGGTTTACAA
*
88022073 AATTACTAAATACCCTTGGTTTACAA
1 AATTACTAAATACCATTGGTTTACAA
*
88022099 AATTACCAAAATACC
1 AATTA-CTAAATACC
88022114 CTCGATTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 23 0.61
27 15 0.39
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
AATTACTAAATACCATTGGTTTACAA
Found at i:88022393 original size:27 final size:27
Alignment explanation
Indices: 88022054--88022393 Score: 290
Period size: 27 Copynumber: 12.6 Consensus size: 27
88022044 AGAATTACTG
* * * *
88022054 AAATACCATTGGTTTACAAAATTA-CT
1 AAATACCCTTGATTTGCAAAATTACCA
* *
88022080 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACCA
* *
88022107 AAATACCCTCGATTAGCAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACCA
* * *
88022134 AAGTACCCCT-AGTTTGTAAAATTACCA
1 AAATACCCTTGA-TTTGCAAAATTACCA
* * *
88022161 AAATACCCCTAATTTGTAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACCA
* ** * *
88022188 AAATACCCCTGATTTGTGAAACTACCG
1 AAATACCCTTGATTTGCAAAATTACCA
* *
88022215 AAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTTGATTTGCAAAATTACCA
* * **
88022242 AAATACCCCTGATTTGGAAAATTACTG
1 AAATACCCTTGATTTGCAAAATTACCA
* *
88022269 AAATACCCTTGATTTGGAAAATTA-TA
1 AAATACCCTTGATTTGCAAAATTACCA
* * *
88022295 GAAATACTCTTGATTTACAAAATTACAA
1 -AAATACCCTTGATTTGCAAAATTACCA
** *
88022323 AAATACCCTTGACTTTTAAAAATTACAA
1 AAATACCCTTGA-TTTGCAAAATTACCA
* * **
88022351 AAATACCATTGTTTTGCAAAATTACTG
1 AAATACCCTTGATTTGCAAAATTACCA
*
88022378 AAATACCCTTGGTTTG
1 AAATACCCTTGATTTG
88022394 TAGATTTTCC
Statistics
Matches: 265, Mismatches: 43, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
26 25 0.09
27 215 0.81
28 25 0.09
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTGCAAAATTACCA
Found at i:88022708 original size:40 final size:41
Alignment explanation
Indices: 88022653--88022772 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
88022643 GAAGGAAGAA
*
88022653 ATTGAGGATCGCATGGTTGCTTG-CGA-CTTTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATC-GTGGATCCACCG
* * *
88022693 ATTGAGGACCGCATGGTTACTTGACGATCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
* **
88022734 ATTAAGGATCGCATGGTTGCTTGATTATCGTGGATCCAC
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCAC
88022773 AGTGGCTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 21 0.30
41 47 0.68
42 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
Found at i:88022959 original size:25 final size:25
Alignment explanation
Indices: 88022923--88023061 Score: 140
Period size: 25 Copynumber: 5.6 Consensus size: 25
88022913 TTCTGTTATC
*
88022923 GATGGCTTTGTGCCGATATGATATT
1 GATGGCTATGTGCCGATATGATATT
* *
88022948 GATGGCTATGTGCCGATCT-ATTATC
1 GATGGCTATGTGCCGATATGA-TATT
*
88022973 GATGGCTTTGT-CACGATATGATATT
1 GATGGCTATGTGC-CGATATGATATT
* *
88022998 GATGGCTATGTGCCGATCTGTTA-T
1 GATGGCTATGTGCCGATATGATATT
* * *
88023022 CATTGTCTTTGTGCCGATATGATATT
1 GA-TGGCTATGTGCCGATATGATATT
*
88023048 GATGGATATGTGCC
1 GATGGCTATGTGCC
88023062 AATCTATTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
24 4 0.04
25 82 0.91
26 4 0.04
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (25 bp):
GATGGCTATGTGCCGATATGATATT
Found at i:88022975 original size:50 final size:50
Alignment explanation
Indices: 88022925--88023089 Score: 235
Period size: 50 Copynumber: 3.3 Consensus size: 50
88022915 CTGTTATCGA
88022925 TGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGATCTATTATC-G
1 TGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGATCTATTATCAG
* *
88022974 ATGGCTTTGT-CACGATATGATATTGATGGCTATGTGCCGATCTGTTATCAT
1 -TGGCTTTGTGC-CGATATGATATTGATGGCTATGTGCCGATCTATTATCAG
* * *
88023025 TGTCTTTGTGCCGATATGATATTGATGGATATGTGCCAATCTATTATCAG
1 TGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGATCTATTATCAG
* *
88023075 TGGTTTTGTACCGAT
1 TGGCTTTGTGCCGAT
88023090 CGTATTATCA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
49 1 0.01
50 100 0.98
51 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (50 bp):
TGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGATCTATTATCAG
Found at i:88028488 original size:43 final size:43
Alignment explanation
Indices: 88028327--88028489 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 43
88028317 ATTTGATGTG
* *
88028327 TTACTGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGA
1 TTAC-GTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGA
* *
88028371 TTTACGTGTAAGACCACATATGAGACGTTGGCATC-ATATTTGA
1 -TTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGA
** ** * **
88028414 TTTTGTGTAAGACCTTATCTAGGACAATGGCATCGATATTTGA
1 TTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGA
*
88028457 TTACATGTAAGACCACATCTGGGACGTTGGCAT
1 TTACGTGTAAGACCACATCTGGGACGTTGGCAT
88028490 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 26 0.27
43 38 0.40
44 27 0.28
45 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGA
Found at i:88030114 original size:35 final size:35
Alignment explanation
Indices: 88030057--88030131 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
88030047 CTATATTTGT
* * *
88030057 ATCTGTATCTGTATCTGGAATGGGCTTAAGCCCGA
1 ATCTGCATCTGGATCAGGAATGGGCTTAAGCCCGA
* * *
88030092 ATCTGCATCTGGATCAGTAATGGGCTTAGGCCTGA
1 ATCTGCATCTGGATCAGGAATGGGCTTAAGCCCGA
88030127 ATCTG
1 ATCTG
88030132 TGTCTGATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (35 bp):
ATCTGCATCTGGATCAGGAATGGGCTTAAGCCCGA
Found at i:88031876 original size:30 final size:31
Alignment explanation
Indices: 88031782--88031888 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
88031772 CAACATATAT
*
88031782 TGGGCCAAAGCCTTTGCATTATTCATGTCAC
1 TGGGCCGAAGCCTTTGCATTATTCATGTCAC
88031813 TGGGCCGAAGCCTTTGCATTATTCATGTCAC
1 TGGGCCGAAGCCTTTGCATTATTCATGTCAC
* *
88031844 TGGGCCGAAGCCTTTTCATTA-TCATATCAC
1 TGGGCCGAAGCCTTTGCATTATTCATGTCAC
88031874 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
88031889 ACTGTAAACA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 23 0.32
31 50 0.68
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTGCATTATTCATGTCAC
Found at i:88032147 original size:25 final size:25
Alignment explanation
Indices: 88032109--88032203 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
88032099 CTCTTTTAAT
* * *
88032109 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
88032134 ACCTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
88032159 AACTAGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
88032184 AACTGGGGCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTT
88032204 GCACTTCCTC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:88032163 original size:50 final size:50
Alignment explanation
Indices: 88032109--88032203 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
88032099 CTCTTTTAAT
* * *
88032109 AACTAGGGCAAAGCCCTTTTTGATAACCTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAACCCTTTTCGGTA
* *
88032159 AACTAGGGTAAAGCCCTTTTCGGTAAACTGGGGCAAAACCCTTTT
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAACCCTTTT
88032204 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAACCCTTTTCGGTA
Found at i:88032344 original size:25 final size:25
Alignment explanation
Indices: 88032316--88032364 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
88032306 ATAATTAAAC
* **
88032316 CCTAGGGGTACAATGGTCATTTTTA
1 CCTAGGGGTAAAACAGTCATTTTTA
88032341 CCTAGGGGTAAAACAGTCATTTTT
1 CCTAGGGGTAAAACAGTCATTTTT
88032365 TGTATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAACAGTCATTTTTA
Found at i:88034354 original size:3 final size:3
Alignment explanation
Indices: 88034346--88034388 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
88034336 ATTTAATTAC
88034346 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
88034389 TTCATAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:88034910 original size:3 final size:3
Alignment explanation
Indices: 88034895--88034968 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
88034885 GAAGTTAATG
*
88034895 AAC AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
88034943 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
88034969 TCCTCAAACT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.68, C:0.31, G:0.00, T:0.01
Consensus pattern (3 bp):
AAC
Found at i:88037596 original size:40 final size:39
Alignment explanation
Indices: 88037431--88037614 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
88037421 AAATTGAATG
* * *
88037431 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
88037471 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
88037511 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
88037551 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
88037590 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
88037615 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:88037639 original size:80 final size:81
Alignment explanation
Indices: 88037471--88037659 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
88037461 GCTGGAAATT
* * * *
88037471 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
88037536 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
88037552 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
88037615 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
88037631 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
88037660 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:88042904 original size:16 final size:16
Alignment explanation
Indices: 88042849--88042907 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
88042839 TCCAGTGTTG
*
88042849 TTATTTGAGAACAACTC
1 TTATTT-AGAACAACTA
* *
88042866 CTATTGAGAACAACTA
1 TTATTTAGAACAACTA
*
88042882 -AAGTTTAGAACAACTA
1 TTA-TTTAGAACAACTA
88042898 TTATTTAGAA
1 TTATTTAGAA
88042908 TAATGGCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.82
17 5 0.15
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (16 bp):
TTATTTAGAACAACTA
Found at i:88043824 original size:32 final size:32
Alignment explanation
Indices: 88043783--88043846 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
88043773 GATAGTGGGA
88043783 GAAAATCAAGGGATTTTCAGTCACATCTTGGT
1 GAAAATCAAGGGATTTTCAGTCACATCTTGGT
**
88043815 GAAAATCAAGGGATTTTTGGTCACATCTTGGT
1 GAAAATCAAGGGATTTTCAGTCACATCTTGGT
88043847 TTTCTCTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (32 bp):
GAAAATCAAGGGATTTTCAGTCACATCTTGGT
Found at i:88048934 original size:39 final size:39
Alignment explanation
Indices: 88048880--88049022 Score: 232
Period size: 39 Copynumber: 3.6 Consensus size: 39
88048870 AATGTTCGAG
88048880 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
* *
88048919 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
* *
88048958 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
*
88048997 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
88049023 CTTTGTGCGG
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.91
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
Found at i:88054567 original size:28 final size:28
Alignment explanation
Indices: 88054527--88054583 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
88054517 TGGGTAAGTT
88054527 TTTTAATATGAACCCTAACTTAAAATAA
1 TTTTAATATGAACCCTAACTTAAAATAA
88054555 TTTTAATATGAACCCTAACTTAAAATAA
1 TTTTAATATGAACCCTAACTTAAAATAA
88054583 T
1 T
88054584 GGTAGAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.37
Consensus pattern (28 bp):
TTTTAATATGAACCCTAACTTAAAATAA
Found at i:88069289 original size:40 final size:40
Alignment explanation
Indices: 88069207--88069384 Score: 195
Period size: 39 Copynumber: 4.5 Consensus size: 40
88069197 GCTCGATTGT
* *
88069207 CTTCGGGACA-TAGCCCGG-TTATAGT-ATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGC
88069246 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
88069286 CTTCGGGACTTA-ACCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
88069325 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
88069366 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTAGCCCGGA
88069385 CATATTCGAA
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 54 0.46
40 36 0.31
41 26 0.22
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:88077303 original size:80 final size:81
Alignment explanation
Indices: 88077204--88077353 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 81
88077194 CCCGGTTATA
* * * * *
88077204 GTAATTCGTACAATTGCCTTCGGGAATTAACCCGGATCTAGTAAC-TCGCACAAATGCCTTCGGG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATCTAGTAACTTAGCACAAAAGCCTTCGGG
88077268 ACTTAACTCGATTTTG
66 ACTTAACTCGATTTTG
* * *
88077284 GTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGG
1 GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATCTAGTAACTTAGCACAAAAGCCTTCGGG
88077349 ACTTA
66 ACTTA
88077354 GCCCGGACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
80 39 0.64
81 22 0.36
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (81 bp):
GTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATCTAGTAACTTAGCACAAAAGCCTTCGGG
ACTTAACTCGATTTTG
Found at i:88077336 original size:41 final size:40
Alignment explanation
Indices: 88077194--88077360 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
88077184 TGGGACATAG
* * *
88077194 CCCGG-TTATAGTAATTCGTACAATTGCCTTCGGGAATTAA
1 CCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGAATTAA
* *
88077234 CCCGGATCTAGTAACTCGCACAAATGCCTTCGGGACTTAA
1 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
* * *
88077274 CTC-GATTTTGGTAACTCGCACAAATGCCTTCGGGAATTGA
1 CCCGGA-TTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
* * * * *
88077314 CCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAG
1 CCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGAATTAA
88077355 CCCGGA
1 CCCGGA
88077361 CATCATTCGA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 74 0.70
41 29 0.28
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAA
Found at i:88084896 original size:16 final size:18
Alignment explanation
Indices: 88084877--88084911 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
88084867 ATATTATGAG
88084877 ATAATTTAT-TT-TAGGA
1 ATAATTTATATTATAGGA
88084893 ATAATTTATATTATAGGA
1 ATAATTTATATTATAGGA
88084911 A
1 A
88084912 GTAGAGGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
ATAATTTATATTATAGGA
Found at i:88086265 original size:45 final size:47
Alignment explanation
Indices: 88086201--88086381 Score: 215
Period size: 45 Copynumber: 3.9 Consensus size: 47
88086191 GACATTTGGG
* * *
88086201 TGACATGTGAGTCAATGTAAGACCATGT-TGGATATGGCATCGGCGT
1 TGACATGTGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGGCGT
* * *
88086247 TGA-TTGTGAGCCAGTGTAAGACAATGT-TGGACATGGCATTGGCGT
1 TGACATGTGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGGCGT
* * * * *
88086292 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
1 TGACATGTGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCGGCGT
* *
88086340 CGACATGTGAGCCAGTGTAAGACCATGTCGGGACATGGCATC
1 TGACATGTGAGCCAGTGTAAGACCATGTCTGGACATGGCATC
88086382 AGCAATTCAC
Statistics
Matches: 113, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
45 39 0.35
46 22 0.19
47 13 0.12
48 39 0.35
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (47 bp):
TGACATGTGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGGCGT
Found at i:88095504 original size:45 final size:45
Alignment explanation
Indices: 88095440--88095562 Score: 185
Period size: 45 Copynumber: 2.7 Consensus size: 45
88095430 TTGGGTGACA
*
88095440 TGTGAGCCAGTGTAAGACCATGCTAG-ACATGGCATCAGCGTTGAT
1 TGTGAGCCAGTGTAAGACCATG-TAGCACATGGCATCAGCGTTAAT
* *
88095485 TGTGAGCCAGTGTAAGACCATGTTGCACATGGCATCAGTGTTAAT
1 TGTGAGCCAGTGTAAGACCATGTAGCACATGGCATCAGCGTTAAT
* *
88095530 TGTGAGCCAGTGTAAGACCATGTTGTACATGGC
1 TGTGAGCCAGTGTAAGACCATGTAGCACATGGC
88095563 CTCGGCCTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 2 0.03
45 71 0.97
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (45 bp):
TGTGAGCCAGTGTAAGACCATGTAGCACATGGCATCAGCGTTAAT
Found at i:88095635 original size:48 final size:48
Alignment explanation
Indices: 88095530--88095660 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 48
88095520 CAGTGTTAAT
* * * * * * *
88095530 TGTGAGCCAGTGTAAGACCATGT-T-GTACATGGCCTCGGCCTTGAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACCTCGACA
* *
88095576 CGAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACCTCGACA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACCTCGACA
*
88095624 TGTGAGCTAGTGTAAGACCATGACTGGGACATGACAT
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACATGACAT
88095661 TGGCAATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 20 0.28
47 1 0.01
48 50 0.70
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
TGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACCTCGACA
Found at i:88096895 original size:2 final size:2
Alignment explanation
Indices: 88096888--88096917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88096878 TGGAATATTG
88096888 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
88096918 GCTAAGTGTT
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:88103494 original size:46 final size:45
Alignment explanation
Indices: 88103442--88103645 Score: 188
Period size: 46 Copynumber: 4.5 Consensus size: 45
88103432 GTCGATGCCG
* * *
88103442 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGCCGACGCA
*
88103488 TGTCCCATACATGTCTTACACT-AGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
* *
88103532 TGTCCCAGACATGTCTGACACTG-GCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC-A-CATCTCGTA-GCCGACGCA
* * * *
88103578 TGTCCCAGACATGTCTTACACTG-GCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-C-GTAGCCGACGCA
88103624 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
88103646 AGCCCTCGTC
Statistics
Matches: 137, Mismatches: 11, Indels: 20
0.82 0.07 0.12
Matches are distributed among these distances:
43 5 0.04
44 32 0.23
45 4 0.03
46 96 0.70
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
Found at i:88103645 original size:92 final size:91
Alignment explanation
Indices: 88103485--88103701 Score: 249
Period size: 92 Copynumber: 2.4 Consensus size: 91
88103475 CCGTGCTGAC
*
88103485 GCATGTCCCATACATGTCTTACACTAG-CACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
1 GCATGTCCCATACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
* * *
88103549 ACACTGGCTATCATCTCGAGGCCGAT
66 ACACTAGCCATCATCTCAAGGCCGAT
* * * * *
88103575 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTC
1 GCATGTCCCATACATGTCTTACACTGGC-CACAT-CTCGTAGCCGACGCATGTCCCAGACATGTC
* * * *
88103639 TTACACTAGCCCTCGTCTCAATGCCGAT
64 TGACACTAGCCATCATCTCAAGGCCGAT
*
88103667 GCCATGTCTCATACATGGTCTTACACTGGCACACA
1 G-CATGTCCCATACAT-GTCTTACACTGGC-CACA
88103702 AATCTCATGT
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
90 25 0.24
92 50 0.48
93 14 0.13
94 16 0.15
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (91 bp):
GCATGTCCCATACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
ACACTAGCCATCATCTCAAGGCCGAT
Found at i:88103668 original size:46 final size:44
Alignment explanation
Indices: 88103485--88103693 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 44
88103475 CCGTGCTGAC
* *
88103485 GCATGTCCCATACATGTCTTACACTAGCACATC-TCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TATGCCGAT
* * * *
88103529 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* * *
88103575 GCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTAT-GCCGAT
* *
88103621 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* *
88103667 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
88103694 GGCACACAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 27 0.20
45 4 0.03
46 77 0.56
47 15 0.11
48 10 0.07
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCATCTATGCCGAT
Found at i:88110564 original size:20 final size:20
Alignment explanation
Indices: 88110531--88110574 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
88110521 AATGAGCACA
* *
88110531 AAAACAGAAGAAATCAAGAAG
1 AAAACAGAACAAAT-AAGAAC
88110552 AAAA-AGAACAAATAAGAAC
1 AAAACAGAACAAATAAGAAC
88110571 AAAA
1 AAAA
88110575 GAAAGAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 8 0.38
21 4 0.19
ACGTcount: A:0.73, C:0.09, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAACAGAACAAATAAGAAC
Found at i:88114686 original size:243 final size:243
Alignment explanation
Indices: 88114258--88114744 Score: 965
Period size: 243 Copynumber: 2.0 Consensus size: 243
88114248 TGTGTTAAGG
88114258 ACTAAATTGCAAAGTAGTCAAAAGTCTAGGAGTAAAATTATAATTTAGCAAAAATAAATGTTTTA
1 ACTAAATTGCAAAGTAGTCAAAAGTCTAGGAGTAAAATTATAATTTAGCAAAAATAAATGTTTTA
88114323 GGCTAAATTGAATTGAATGAAAGTTTGAATGAGCTAATTTGATATAATATAGATCTAGATAAGCA
66 GGCTAAATTGAATTGAATGAAAGTTTGAATGAGCTAATTTGATATAATATAGATCTAGATAAGCA
88114388 AATACCGAAAATAGATCGAGGAAAACGGAAAGTGTACGAATAGCTGATAGTTTTATCTGAGGATA
131 AATACCGAAAATAGATCGAGGAAAACGGAAAGTGTACGAATAGCTGATAGTTTTATCTGAGGATA
*
88114453 TGACGTAAGTTCGTATAATTAGAATCAAACTTTTATACACTTGTAATT
196 CGACGTAAGTTCGTATAATTAGAATCAAACTTTTATACACTTGTAATT
88114501 ACTAAATTGCAAAGTAGTCAAAAGTCTAGGAGTAAAATTATAATTTAGCAAAAATAAATGTTTTA
1 ACTAAATTGCAAAGTAGTCAAAAGTCTAGGAGTAAAATTATAATTTAGCAAAAATAAATGTTTTA
88114566 GGCTAAATTGAATTGAATGAAAGTTTGAATGAGCTAATTTGATATAATATAGATCTAGATAAGCA
66 GGCTAAATTGAATTGAATGAAAGTTTGAATGAGCTAATTTGATATAATATAGATCTAGATAAGCA
88114631 AATACCGAAAATAGATCGAGGAAAACGGAAAGTGTACGAATAGCTGATAGTTTTATCTGAGGATA
131 AATACCGAAAATAGATCGAGGAAAACGGAAAGTGTACGAATAGCTGATAGTTTTATCTGAGGATA
88114696 CGACGTAAGTTCGTATAATTAGAATCAAACTTTTATACACTTGTAATT
196 CGACGTAAGTTCGTATAATTAGAATCAAACTTTTATACACTTGTAATT
88114744 A
1 A
88114745 TTGAAATGAA
Statistics
Matches: 243, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 243 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (243 bp):
ACTAAATTGCAAAGTAGTCAAAAGTCTAGGAGTAAAATTATAATTTAGCAAAAATAAATGTTTTA
GGCTAAATTGAATTGAATGAAAGTTTGAATGAGCTAATTTGATATAATATAGATCTAGATAAGCA
AATACCGAAAATAGATCGAGGAAAACGGAAAGTGTACGAATAGCTGATAGTTTTATCTGAGGATA
CGACGTAAGTTCGTATAATTAGAATCAAACTTTTATACACTTGTAATT
Found at i:88115042 original size:23 final size:23
Alignment explanation
Indices: 88114945--88115071 Score: 114
Period size: 23 Copynumber: 5.4 Consensus size: 23
88114935 TCAACTCATA
*
88114945 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* ** *
88114969 GGAGCTTACCATTTCAGCTC-GT
1 AGAGCTTACTGTTTCAGCTCAAT
**
88114991 ATGAGCTTACTG-TTCAGCTTGAT
1 A-GAGCTTACTGTTTCAGCTCAAT
*
88115014 AAAGCTTACTGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
88115037 AGAGCTTACTGTTCATCAGCTCAAG
1 AGAGCTTACTGTT--TCAGCTCAAT
88115062 AGGAGCTTAC
1 A-GAGCTTAC
88115072 CGATCATGGC
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
22 17 0.20
23 40 0.48
24 8 0.10
25 10 0.12
26 8 0.10
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:88115078 original size:26 final size:25
Alignment explanation
Indices: 88115027--88115078 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
88115017 GCTTACTGTT
* * *
88115027 TCAGCTCAATAGAGCTTACTGTTCA
1 TCAGCTCAAGAGAGCTTACCGATCA
88115052 TCAGCTCAAGAGGAGCTTACCGATCA
1 TCAGCTCAAGA-GAGCTTACCGATCA
88115078 T
1 T
88115079 GGCTCGAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
TCAGCTCAAGAGAGCTTACCGATCA
Found at i:88133245 original size:24 final size:23
Alignment explanation
Indices: 88133182--88133273 Score: 87
Period size: 23 Copynumber: 3.8 Consensus size: 23
88133172 GGACTCACCA
*
88133182 CAGCTCGTTTGAGCTTACTGATATAT
1 CAGCTCG-TTGAGCTTACT-AT-TTT
*
88133208 CAGCTCGTAAGAGCTTACTATTTT
1 CAGCTCGT-TGAGCTTACTATTTT
* *
88133232 CAGCTCATTGGAGCTTAC-AGTTT
1 CAGCTCGTT-GAGCTTACTATTTT
88133255 CAGCTCGTATGAGCTTACT
1 CAGCTCGT-TGAGCTTACT
88133274 GTTCAGCTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 19 0.34
24 18 0.32
25 3 0.05
26 16 0.29
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (23 bp):
CAGCTCGTTGAGCTTACTATTTT
Found at i:88133259 original size:23 final size:23
Alignment explanation
Indices: 88133207--88133316 Score: 91
Period size: 23 Copynumber: 4.8 Consensus size: 23
88133197 TACTGATATA
* * *
88133207 TCAGCTCGTAAGAGCTTACTATTT
1 TCAGCTCATTAGAGCTTAC-AGTT
*
88133231 TCAGCTCATTGGAGCTTACAGTT
1 TCAGCTCATTAGAGCTTACAGTT
* *
88133254 TCAGCTC-GTATGAGCTTACTG-T
1 TCAGCTCATTA-GAGCTTACAGTT
* *
88133276 TCAGCTTGA-TAAAGCTTACAGTT
1 TCAGC-TCATTAGAGCTTACAGTT
*
88133299 TCAGCTCAATAGAGCTTA
1 TCAGCTCATTAGAGCTTA
88133317 TTGTTCATCA
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
22 17 0.25
23 36 0.52
24 16 0.23
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (23 bp):
TCAGCTCATTAGAGCTTACAGTT
Found at i:88133291 original size:22 final size:22
Alignment explanation
Indices: 88133266--88133323 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
88133256 AGCTCGTATG
**
88133266 AGCTTACTGTTCAGCTTGATAA
1 AGCTTACTGTTCAGCTCAATAA
* *
88133288 AGCTTACAGTTTCAGCTCAATAG
1 AGCTTACTG-TTCAGCTCAATAA
*
88133311 AGCTTATTGTTCA
1 AGCTTACTGTTCA
88133324 TCAGCTCAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (22 bp):
AGCTTACTGTTCAGCTCAATAA
Found at i:88141601 original size:6 final size:6
Alignment explanation
Indices: 88141590--88141633 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
88141580 CCTCCTATCG
*
88141590 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
88141634 CAATTTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:88141639 original size:18 final size:18
Alignment explanation
Indices: 88141600--88141640 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
88141590 TTTTATTTTT
* **
88141600 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTCATTTCA
88141618 ATTTTTATTTTCATTTCA
1 ATTTTTATTTTCATTTCA
88141636 ATTTT
1 ATTTT
88141641 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTCATTTCA
Found at i:88147272 original size:12 final size:12
Alignment explanation
Indices: 88147255--88147279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88147245 GTATTCAGGA
88147255 GTGCCGAAAGAG
1 GTGCCGAAAGAG
88147267 GTGCCGAAAGAG
1 GTGCCGAAAGAG
88147279 G
1 G
88147280 CACAATAGGG
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:0.32, C:0.16, G:0.44, T:0.08
Consensus pattern (12 bp):
GTGCCGAAAGAG
Found at i:88150164 original size:25 final size:25
Alignment explanation
Indices: 88150112--88150171 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
88150102 TACTGCCTAG
88150112 CAGGCTTTGATGCTGGTGTATGATAT
1 CAGGCTTT-ATGCTGGTGTATGATAT
88150138 CAGGCTTTATGGC-GGTGTATTGA-AT
1 CAGGCTTTAT-GCTGGTGTA-TGATAT
88150163 CAGG-TTTAT
1 CAGGCTTTAT
88150172 TACCTAGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.16
25 14 0.44
26 13 0.41
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (25 bp):
CAGGCTTTATGCTGGTGTATGATAT
Found at i:88153017 original size:42 final size:42
Alignment explanation
Indices: 88152963--88153064 Score: 163
Period size: 42 Copynumber: 2.5 Consensus size: 42
88152953 AACTTTGAAA
*
88152963 CAGTG-AT-ATATCAGGCTTATTGCCTAGCAGGTTTTGATGC
1 CAGTGTATGATATCAGGCTTATTGCCTAGCAGGCTTTGATGC
* *
88153003 CGGTGTATGATATCAGGCTTATTTCCTAGCAGGCTTTGATGC
1 CAGTGTATGATATCAGGCTTATTGCCTAGCAGGCTTTGATGC
88153045 CAGTGTATGATATCAGGCTT
1 CAGTGTATGATATCAGGCTT
88153065 TATGCTGGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 4 0.07
41 2 0.04
42 50 0.89
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (42 bp):
CAGTGTATGATATCAGGCTTATTGCCTAGCAGGCTTTGATGC
Found at i:88153075 original size:25 final size:25
Alignment explanation
Indices: 88153032--88153091 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
88153022 TATTTCCTAG
88153032 CAGGCTTTGATGCCAGTGTA-TGATAT
1 CAGGCTTT-ATGCCAGTGTATTGA-AT
**
88153058 CAGGCTTTATGCTGGTGTATTGAAT
1 CAGGCTTTATGCCAGTGTATTGAAT
88153083 CAGG-TTTAT
1 CAGGCTTTAT
88153092 TACCTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 5 0.16
25 15 0.48
26 11 0.35
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (25 bp):
CAGGCTTTATGCCAGTGTATTGAAT
Found at i:88155048 original size:41 final size:41
Alignment explanation
Indices: 88154984--88155124 Score: 158
Period size: 41 Copynumber: 3.4 Consensus size: 41
88154974 GTGTAAACAA
* * * * * *
88154984 GGGCACGTAGGTGCTATTAAGGGGTA-CTGAAGTACAAACAA
1 GGGCACATATGTGCAATTCAGGGGTATC-GAAGTACAAATAG
* * *
88155025 GGGCAAATTTGTGCAATTCAGGGGTATCGAAATACAAATAG
1 GGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAATAG
* * *
88155066 GGGCACGTATGTGCAATTCAAGGGTATCAAAGTACAAATAG
1 GGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAATAG
88155107 GGGCACATATGTGCAATT
1 GGGCACATATGTGCAATT
88155125 TAAGGAAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 82 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (41 bp):
GGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAATAG
Found at i:88161583 original size:40 final size:40
Alignment explanation
Indices: 88161517--88161683 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
88161507 AAATTGAATG
* * *
88161517 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
88161556 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
88161596 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
88161636 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
88161676 ATATCCGG
1 ATATCCGG
88161684 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:88168624 original size:40 final size:40
Alignment explanation
Indices: 88168558--88168724 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
88168548 AAATTGAATG
* * *
88168558 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
88168597 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
88168637 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
88168677 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
88168717 ATATCCGG
1 ATATCCGG
88168725 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:88179472 original size:40 final size:40
Alignment explanation
Indices: 88179427--88179556 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
88179417 CGGAATACAA
88179427 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
88179467 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
88179507 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
88179547 CCGGATATAA
1 CCGGATATAA
88179557 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:88184396 original size:46 final size:43
Alignment explanation
Indices: 88184342--88184518 Score: 167
Period size: 46 Copynumber: 3.9 Consensus size: 43
88184332 ATATTTGGGC
88184342 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GA
* *** * *
88184386 ATGTCCGAACTCGGTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGA
88184435 ATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGA
1 ATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GA
* * *
88184479 ACACCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 A-TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88184519 GCAGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 3 0.03
46 64 0.60
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGA
Found at i:88184498 original size:93 final size:93
Alignment explanation
Indices: 88184339--88184511 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
88184329 AGGATATTTG
**
88184339 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGGTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGGTGAG
88184404 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
88184432 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-CACCTGAGCTCGTTG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGGTG
88184495 AGTTGAGTCCGAGTTCG
64 AGTTGAGTCCGAGTTCG
88184512 CTTATGGGCA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGGTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:88186483 original size:22 final size:22
Alignment explanation
Indices: 88186458--88186501 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
88186448 CGTCTCAGCA
88186458 ACCACCCCCCTCTCGTCCAGTT
1 ACCACCCCCCTCTCGTCCAGTT
88186480 ACCACCCCCCTCTCGTCCAGTT
1 ACCACCCCCCTCTCGTCCAGTT
88186502 CATGCGACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.55, G:0.09, T:0.23
Consensus pattern (22 bp):
ACCACCCCCCTCTCGTCCAGTT
Found at i:88193703 original size:46 final size:46
Alignment explanation
Indices: 88193634--88193997 Score: 280
Period size: 46 Copynumber: 7.8 Consensus size: 46
88193624 GATATTTGGG
*
88193634 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
* * * *
88193680 CGTCCGAACTCGTTGAGTTGAGTCCGAATTC-GTGA--GATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A
* * **
88193725 GGCATCCGAACTCATTGAGTTGAGTCAGAGTTCACTTATGGATGCGAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
* * * *
88193773 CATCCGAAATCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A
* * **
88193818 GGCATCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
* * * * *
88193866 CGTACGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A
*
88193911 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 --CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
** * * * *
88193959 CGCCCGAGCTCATTGAGTTGAGTCCAAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88193998 GCGGGTTATA
Statistics
Matches: 245, Mismatches: 50, Indels: 46
0.72 0.15 0.13
Matches are distributed among these distances:
43 16 0.07
45 9 0.04
46 115 0.47
47 80 0.33
48 9 0.04
50 16 0.07
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAA
Found at i:88193989 original size:93 final size:93
Alignment explanation
Indices: 88193632--88193990 Score: 560
Period size: 93 Copynumber: 3.9 Consensus size: 93
88193622 CGGATATTTG
*
88193632 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
88193697 TTGAGTCCGAA-TTCGTGAGATGTAACTA
66 TTGAGTCC-AAGTTCGTGAGATGTAACTA
* * * *
88193725 GGCATCCGAACTCATTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACATCCGAAATCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
88193790 TTGAGTCCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * * *
88193818 GGCATCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGTACGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
88193883 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * * *
88193911 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGA
88193975 GTTGAGTCCAAGTTCG
65 GTTGAGTCCAAGTTCG
88193991 CTTATGGGCG
Statistics
Matches: 241, Mismatches: 23, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
92 3 0.01
93 238 0.99
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:88199472 original size:46 final size:46
Alignment explanation
Indices: 88199422--88199782 Score: 191
Period size: 46 Copynumber: 7.8 Consensus size: 46
88199412 TATTTGGGCA
88199422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * * * *
88199468 TCCGAACTAGTTGAGTTGAGCCCGAGTTC-GTGA-GATATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GAT-ACGA-ACG
* * * * * *
88199515 TCTGAGCTCGTTGAGTTGAGTCTGA-TTCACTAATAGATTCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * * * * *
88199560 TACGAACTCTTTGAGTTGAGTCCAAGTTC-GTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
* * *
88199607 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * * *
88199653 TTCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAATTA-G-GCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-TACGAACG
* * * *
88199700 TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * *
88199746 -CTTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88199783 GCGAGTTACA
Statistics
Matches: 225, Mismatches: 71, Indels: 38
0.67 0.21 0.11
Matches are distributed among these distances:
44 2 0.01
45 28 0.12
46 104 0.46
47 86 0.38
48 4 0.02
49 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:88199626 original size:47 final size:47
Alignment explanation
Indices: 88199477--88199728 Score: 175
Period size: 47 Copynumber: 5.4 Consensus size: 47
88199467 GTCCGAACTA
* *
88199477 GTTGAGTTGAGCCCGAGTTCGTGAGATATAACTAGGCA-TCTGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATTC-GAGCTC
* * * * * * * *
88199524 GTTGAGTTGAGTCTGA-TTCACT-A-A--TAGATTCGAACGTACGAACTC
1 GTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-ACTAG-GCATTCGAGCTC
* * *
88199569 TTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATTCGAGCTC
* * * * * *
88199616 GTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAAC---G--TTCAAACTC
1 GTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATTCGAGCTC
*
88199662 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAATTAGGCATTCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATTCGAGCTC
88199709 GTTGAGTTGAGTCCGAGTTC
1 GTTGAGTTGAGTCCGAGTTC
88199729 ACTTACGGAT
Statistics
Matches: 152, Mismatches: 35, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
42 2 0.01
43 6 0.04
44 3 0.02
45 24 0.16
46 34 0.22
47 68 0.45
48 6 0.04
49 2 0.01
50 4 0.03
51 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (47 bp):
GTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATTCGAGCTC
Found at i:88199687 original size:93 final size:93
Alignment explanation
Indices: 88199418--88199775 Score: 504
Period size: 93 Copynumber: 3.9 Consensus size: 93
88199408 CGGATATTTG
* * * *
88199418 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTAGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAG
* *
88199483 TTGAGCCCGAGTTCGTGAGATATAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * * * *
88199511 GGCATCTGAGCTCGTTGAGTTGAGTCTGA-TTCACTAATAGATTCGAACGTACGAACTCTTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAG
*
88199575 TTGAGTCCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
88199603 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTTCAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAG
*
88199668 TTGAGTCCGAGTTCGTGAGATGTAATTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
88199696 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTT-GAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-TTCGAACTCGTTGA
*
88199760 GTTGAGTCTGAGTTCG
65 GTTGAGTCCGAGTTCG
88199776 CTTATGGGCG
Statistics
Matches: 234, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
92 80 0.34
93 152 0.65
94 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:88201436 original size:28 final size:28
Alignment explanation
Indices: 88201404--88201488 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
88201394 GGAGTATATT
* *
88201404 GGTAATTTTGCTATTTAGGGGTCATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
88201432 GGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
*
88201460 AGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTCTTTAGGGGTAATTTC
88201488 G
1 G
88201489 TGATCTACGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.46
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTC
Found at i:88202139 original size:27 final size:27
Alignment explanation
Indices: 88202109--88202170 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
88202099 GGGCAAAATG
88202109 GTAATTTTACCCCACAAAGGTATTTCA
1 GTAATTTTACCCCACAAAGGTATTTCA
* ** *
88202136 GTAATTTTACCCTACATGGGTATTTTA
1 GTAATTTTACCCCACAAAGGTATTTCA
88202163 GTAATTTT
1 GTAATTTT
88202171 TCAAACCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (27 bp):
GTAATTTTACCCCACAAAGGTATTTCA
Found at i:88202213 original size:81 final size:80
Alignment explanation
Indices: 88202122--88202276 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 80
88202112 ATTTTACCCC
** * *
88202122 ACAAAGGTATTTCAGTAATTTTACCCTA-CATGGGTATTTTAGTAATTTT-TCAAACCATGGGTA
1 ACAAAGGTATTTCAGTAATTTTA-CAAACCAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTA
88202185 TTTTGGTAATTTTATAA
64 TTTTGGTAATTTTATAA
* * *
88202202 ACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTAT
1 ACAAA-GGTATTTCAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTATAAACCAAGGGTAT
88202267 TTTGGTAATT
65 TTTGGTAATT
88202277 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
80 7 0.11
81 57 0.88
82 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (80 bp):
ACAAAGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATT
TTGGTAATTTTATAA
Found at i:88202283 original size:27 final size:27
Alignment explanation
Indices: 88202153--88202276 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
88202143 TACCCTACAT
* *
88202153 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
88202180 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
88202207 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
88202234 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
88202261 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
88202277 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:88202290 original size:27 final size:27
Alignment explanation
Indices: 88202260--88202330 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
88202250 TTATAAACCA
* *
88202260 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
88202287 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
88202314 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
88202331 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:88202292 original size:54 final size:54
Alignment explanation
Indices: 88202153--88202276 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
88202143 TACCCTACAT
* *
88202153 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
88202207 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
88202261 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
88202277 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:88207976 original size:17 final size:19
Alignment explanation
Indices: 88207934--88207977 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
88207924 ATGAAATTTT
*
88207934 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
88207953 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
88207971 AA-TATTA
1 AATTATTA
88207978 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:88208895 original size:9 final size:10
Alignment explanation
Indices: 88208874--88208941 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
88208864 GGATTCAGTT
88208874 TTTTCTTCTTC
1 TTTTC-TCTTC
88208885 TTTTC-CTTC
1 TTTTCTCTTC
*
88208894 TTTTCTTTTC
1 TTTTCTCTTC
*
88208904 TTTTCTTTTC
1 TTTTCTCTTC
* *
88208914 TCTTCATCTAC
1 TTTTC-TCTTC
88208925 TTTCTCTTCTTC
1 TTT-TC-TCTTC
88208937 TTTTC
1 TTTTC
88208942 CTCCATAGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 9 0.19
10 17 0.36
11 12 0.26
12 9 0.19
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCTCTTC
Found at i:88208901 original size:5 final size:5
Alignment explanation
Indices: 88208874--88208914 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
88208864 GGATTCAGTT
*
88208874 TTTTC TTCTTC TTTTC -CTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
88208915 CTTCATCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:88212771 original size:15 final size:15
Alignment explanation
Indices: 88212753--88212781 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88212743 ATATTTATAA
88212753 AATTATTATTATTAT
1 AATTATTATTATTAT
88212768 AATTATTATTATTA
1 AATTATTATTATTA
88212782 GATAGAAATA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:88215127 original size:33 final size:34
Alignment explanation
Indices: 88215090--88215185 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 34
88215080 CTATGGGCCA
*
88215090 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGT-T-
1 TACTGTTATCTGAAAA-GGGCTTAGGCCCAGTATC
*
88215123 TACTG-TATTCTGAAAAGGGCTTCGGCCCAGTATC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGTATC
** *
88215157 CGCTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
88215186 ATGGGCTTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
32 15 0.28
33 14 0.26
34 22 0.42
35 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (34 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTATC
Found at i:88218959 original size:31 final size:31
Alignment explanation
Indices: 88218924--88218990 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
88218914 CTTTCTGCAT
* *
88218924 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
88218955 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
88218986 TAAAA
1 TAAAA
88218991 AATACAGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.57, C:0.18, G:0.07, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:88224773 original size:9 final size:9
Alignment explanation
Indices: 88224759--88225042 Score: 72
Period size: 9 Copynumber: 30.7 Consensus size: 9
88224749 TAAGTATAAT
88224759 TAAGTTATG
1 TAAGTTATG
88224768 TAAGTTATG
1 TAAGTTATG
* * *
88224777 ATATGATATA
1 -TAAGTTATG
*
88224787 T-ATTTATG
1 TAAGTTATG
88224795 T-A-TTATG
1 TAAGTTATG
88224802 TAAGTTATG
1 TAAGTTATG
* *
88224811 TAAATTGTG
1 TAAGTTATG
88224820 TAAGTTATCCG
1 TAAGTTAT--G
88224831 -AA-TTATG
1 TAAGTTATG
*
88224838 TAAATTATG
1 TAAGTTATG
* *
88224847 TACGATATGATA
1 TAAG-T-T-ATG
*
88224859 TATATTTATG
1 TA-AGTTATG
88224869 TATTA-TATATG
1 TA--AGT-TATG
88224880 TAAGTTATG
1 TAAGTTATG
*
88224889 TAAATTATG
1 TAAGTTATG
88224898 TAAGTTATCCG
1 TAAGTTAT--G
88224909 -AA-TTATG
1 TAAGTTATG
**
88224916 TAAACTATG
1 TAAGTTATG
* *
88224925 TACGATATAATA
1 TAAG-T-T-ATG
*
88224937 TATACTTATG
1 TA-AGTTATG
*
88224947 T--GTTACG
1 TAAGTTATG
88224954 TAAGTTATG
1 TAAGTTATG
*
88224963 TAAATTATG
1 TAAGTTATG
* *
88224972 TAAGTTGTT
1 TAAGTTATG
**
88224981 TATCTTATG
1 TAAGTTATG
*
88224990 TAATTTATG
1 TAAGTTATG
88224999 TAA-TATATG
1 TAAGT-TATG
*
88225008 ATATATATTTATG
1 ---TA-AGTTATG
88225021 T-A-TTATG
1 TAAGTTATG
88225028 TAAGTTATG
1 TAAGTTATG
88225037 TAAGTT
1 TAAGTT
88225043 GTTGATGGGA
Statistics
Matches: 203, Mismatches: 40, Indels: 64
0.66 0.13 0.21
Matches are distributed among these distances:
7 19 0.09
8 13 0.06
9 118 0.58
10 21 0.10
11 14 0.07
12 12 0.06
13 5 0.02
14 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:88224823 original size:18 final size:18
Alignment explanation
Indices: 88224796--88225039 Score: 100
Period size: 18 Copynumber: 13.0 Consensus size: 18
88224786 ATATTTATGT
88224796 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* ***
88224814 ATTGTGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
88224832 ATTATGTAAATTATGTACGA
1 ATTATGTAAGTTATGTA--A
* * * *
88224852 TATGATATATATTTATGTATT
1 -ATTATGTA-AGTTATGTA-A
88224873 ATATATGTAAGTTATGTAA
1 AT-TATGTAAGTTATGTAA
***
88224892 ATTATGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
**
88224910 ATTATGTAAACTATGTACGA
1 ATTATGTAAGTTATGTA--A
* * *
88224930 TATAATATATACTTATGT--
1 -ATTATGTA-AGTTATGTAA
* *
88224948 GTTACGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
88224966 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
* *
88224984 CTTATGTAATTTATGTAA
1 ATTATGTAAGTTATGTAA
* *
88225002 TATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
88225022 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
88225040 GTTGTTGATG
Statistics
Matches: 160, Mismatches: 49, Indels: 34
0.66 0.20 0.14
Matches are distributed among these distances:
16 14 0.09
17 8 0.05
18 78 0.49
19 5 0.03
20 13 0.08
21 20 0.12
22 22 0.14
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:88224827 original size:27 final size:26
Alignment explanation
Indices: 88224806--88224926 Score: 83
Period size: 27 Copynumber: 4.6 Consensus size: 26
88224796 ATTATGTAAG
*
88224806 TTATGTAAATTGTGTAAGTTATCCGAA
1 TTATGTAAATTATGTAAGTTAT-CGAA
* *
88224833 TTATGTAAATTATGTACGATAT-G-A
1 TTATGTAAATTATGTAAGTTATCGAA
* *
88224857 -TATAT-ATTTATGTATTA-TATAT-GTAA
1 TTATGTAAATTATGTA--AGT-TATCG-AA
88224883 GTTATGTAAATTATGTAAGTTATCCGAA
1 -TTATGTAAATTATGTAAGTTAT-CGAA
*
88224911 TTATGTAAACTATGTA
1 TTATGTAAATTATGTA
88224927 CGATATAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 22
0.70 0.10 0.21
Matches are distributed among these distances:
22 8 0.11
23 4 0.05
24 5 0.07
25 1 0.01
26 1 0.01
27 38 0.52
28 7 0.10
29 9 0.12
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (26 bp):
TTATGTAAATTATGTAAGTTATCGAA
Found at i:88224901 original size:78 final size:74
Alignment explanation
Indices: 88224776--88225039 Score: 359
Period size: 74 Copynumber: 3.5 Consensus size: 74
88224766 TGTAAGTTAT
*
88224776 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTGTGTAAGTTATCCGAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
88224841 ATTATGTAC
66 ATTATGTAC
88224850 GATATGATATATATTTATGTATTATATATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTAT
1 GATATGATATATATTTATG---TAT-TATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTAT
*
88224915 GTAAACTATGTAC
62 GTAAATTATGTAC
* * * * * ** *
88224928 GATATAATATATACTTATGTGTTACGTAAGTTATGTAAATTATGTAAGTTGT-TTATCTTATGTA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGA-ATTATGTA
* *
88224992 ATTTATGTAA
65 AATTATGTAC
*
88225002 TATATGATATATATTTATGTATTATGTAAGTTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAA
88225040 GTTGTTGATG
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
73 1 0.01
74 94 0.56
75 2 0.01
77 3 0.02
78 67 0.40
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.46
Consensus pattern (74 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
ATTATGTAC
Found at i:88225275 original size:106 final size:106
Alignment explanation
Indices: 88225129--88225663 Score: 777
Period size: 106 Copynumber: 5.1 Consensus size: 106
88225119 ATTTTGAATT
88225129 AAAAATAAAAT-AAAGTAGAC--AATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAA
1 AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAA
* * *
88225191 AATAAAACTTTAAAGAAAAATTAATTTAATTAGATAATTTA
66 AATAAAACTTTAAAGACAATTTAATTTAATTAGGTAATTTA
88225232 AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAA
1 AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAA
* *
88225297 AATAAAACTTTAAAGACATTTTAATTTAGTTAGGTAATTTA
66 AATAAAACTTTAAAGACAATTTAATTTAATTAGGTAATTTA
*
88225338 AAAAATAAAATAAAAGTAGACAAAATATTTTTTGTGATTAAATTAAAATCTAA-TAAAATATTTA
1 AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATC-AAGTAAAATATTTA
*
88225402 AAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTA
65 AAATAAAACTTTAAAGACAATTTAATTTAATTAGGTAATTTA
* * * *
88225444 AAAATTAAAATAACAGTAGACAAAATATTTTTAGTGAGTAAATTCAAATCAAGTAAAATATTTAA
1 AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAA
88225509 AATAAAACTTTAAAGACAATTTAATTTAATTAGGTAATTT-
66 AATAAAACTTTAAAGACAATTTAATTTAATTAGGTAATTTA
* ** * * *
88225549 --AAA-AAAATAAAAGTAGATAAAATATTTTCCGTGATAAAATTAAAATCAAATAAAATA-TTCA
1 AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAA
* ** * *
88225610 AA-AAAACTTTAAATACGTTTTAATTTATTTCGGTAATTT-
66 AATAAAACTTTAAAGACAATTTAATTTAATTAGGTAATTTA
*
88225649 CAAAATAAAATAAAA
1 AAAAATAAAATAAAA
88225664 TTTTTAAAAT
Statistics
Matches: 394, Mismatches: 30, Indels: 16
0.90 0.07 0.04
Matches are distributed among these distances:
100 32 0.08
101 5 0.01
102 49 0.12
103 22 0.06
104 9 0.02
105 2 0.01
106 273 0.69
107 2 0.01
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (106 bp):
AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAA
AATAAAACTTTAAAGACAATTTAATTTAATTAGGTAATTTA
Found at i:88226063 original size:60 final size:60
Alignment explanation
Indices: 88225990--88226115 Score: 243
Period size: 60 Copynumber: 2.1 Consensus size: 60
88225980 CTTGTTCATT
*
88225990 AATAAACTATATCTATATATATTACCTTGTTCATAACTAATTTGTACAAAAGAACATGGA
1 AATAAACTATATCTATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
88226050 AATAAACTATATCTATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
1 AATAAACTATATCTATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
88226110 AATAAA
1 AATAAA
88226116 ATTAGGCCCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (60 bp):
AATAAACTATATCTATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
Found at i:88227635 original size:39 final size:39
Alignment explanation
Indices: 88227592--88227670 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
88227582 CATTGACAGA
*
88227592 AGCAGATCTCAAATAATCATGCAGAATAACAAATTTAAG
1 AGCAGATCTCAAATAATCATGCAAAATAACAAATTTAAG
*
88227631 AGCAGTTCTCAAATAATCATGCAAAATAACAAATTTAAG
1 AGCAGATCTCAAATAATCATGCAAAATAACAAATTTAAG
88227670 A
1 A
88227671 CAGTCATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.24
Consensus pattern (39 bp):
AGCAGATCTCAAATAATCATGCAAAATAACAAATTTAAG
Found at i:88229643 original size:19 final size:19
Alignment explanation
Indices: 88229619--88229682 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
88229609 TAAAATAATA
88229619 ATTTATATATATTTATCTT
1 ATTTATATATATTTATCTT
* * *
88229638 ATTTATATTAAAATAATC--
1 ATTTATA-TATATTTATCTT
88229656 ATTTATATATATTTATCTT
1 ATTTATATATATTTATCTT
88229675 ATTTATAT
1 ATTTATAT
88229683 TTATCTTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 7 0.19
18 7 0.19
19 15 0.42
20 7 0.19
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTATATATATTTATCTT
Found at i:88229644 original size:15 final size:15
Alignment explanation
Indices: 88229621--88229689 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 15
88229611 AAATAATAAT
88229621 TTATATATATTTATC
1 TTATATATATTTATC
*
88229636 TTATTTATATTAAAATAATC
1 TTATATATATT----T-ATC
88229656 ATTTATATATATTTATC
1 --TTATATATATTTATC
*
88229673 TTATTTATATTTATC
1 TTATATATATTTATC
88229688 TT
1 TT
88229690 CTAAATTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
15 26 0.59
17 3 0.07
18 1 0.02
19 1 0.02
20 3 0.07
22 10 0.23
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:88229650 original size:37 final size:37
Alignment explanation
Indices: 88229603--88229683 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
88229593 TTGATATATA
*
88229603 TTATTTTAAAATAATAATTTATATATATTTATCTTAT
1 TTATATTAAAATAATAATTTATATATATTTATCTTAT
*
88229640 TTATATTAAAATAATCATTTATATATATTTATCTTAT
1 TTATATTAAAATAATAATTTATATATATTTATCTTAT
88229677 TTATATT
1 TTATATT
88229684 TATCTTCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (37 bp):
TTATATTAAAATAATAATTTATATATATTTATCTTAT
Found at i:88229733 original size:14 final size:14
Alignment explanation
Indices: 88229714--88229748 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
88229704 AAATTATACT
*
88229714 CTAAACCCGAGACC
1 CTAAACCCGACACC
*
88229728 CTAAACCCTACACC
1 CTAAACCCGACACC
88229742 CTAAACC
1 CTAAACC
88229749 ACAAATACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.46, G:0.06, T:0.11
Consensus pattern (14 bp):
CTAAACCCGACACC
Found at i:88233877 original size:40 final size:40
Alignment explanation
Indices: 88233779--88234076 Score: 408
Period size: 40 Copynumber: 7.5 Consensus size: 40
88233769 AAGCCAAGTA
* * *
88233779 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
88233817 CCTTCGAGACATAGCTCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
88233857 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88233897 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
88233937 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
88233977 CCTTCGGGACTTAGCCCGGATATAATAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
88234017 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
88234058 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
88234077 TTATCATCCA
Statistics
Matches: 232, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
38 11 0.05
39 17 0.07
40 178 0.77
41 23 0.10
42 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88238808 original size:2 final size:2
Alignment explanation
Indices: 88238801--88238830 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88238791 CGGCTCTAGC
88238801 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
88238831 GTTTGCACAT
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:88239640 original size:40 final size:40
Alignment explanation
Indices: 88239539--88239717 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
88239529 CGAATGGTAT
* * * *
88239539 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
88239580 CTGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
88239620 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
88239660 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
88239700 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
88239718 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 92 0.79
41 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:88239686 original size:80 final size:81
Alignment explanation
Indices: 88239539--88239717 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
88239529 CGAATGGTAT
* * *
88239539 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCTGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
88239604 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
88239620 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
88239683 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
88239700 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
88239718 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 58 0.68
81 26 0.31
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:88239738 original size:40 final size:40
Alignment explanation
Indices: 88239660--88239743 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
88239650 GTTACTAAAT
* * *
88239660 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
88239700 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
88239740 CCGG
1 CCGG
88239744 ATAAAATCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:88239742 original size:80 final size:80
Alignment explanation
Indices: 88239573--88239743 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 80
88239563 GTGCTAAGTG
* * * * *
88239573 ACTAAATCTGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAA
1 ACTAAATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
* * * * *
88239637 GGCATTTGTGCGAGTT
65 GACAATCGAGCGAGTC
* * *
88239653 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
88239718 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
88239733 GCTATATCCGG
1 ACTAAATCCGG
88239744 ATAAAATCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 74 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:88245250 original size:40 final size:40
Alignment explanation
Indices: 88245157--88245454 Score: 408
Period size: 40 Copynumber: 7.5 Consensus size: 40
88245147 AAGCCAAGTA
* * *
88245157 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
88245195 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
88245235 CCTTTGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88245275 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
88245315 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
88245355 CCTTCGGGACTTAGCCCGGATATAATAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88245395 CCTTCGGGAGTTAGCCC-GAAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
88245436 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
88245455 TTATCATCCA
Statistics
Matches: 232, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
38 12 0.05
39 20 0.09
40 175 0.75
41 21 0.09
42 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88253318 original size:24 final size:22
Alignment explanation
Indices: 88253288--88253341 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
88253278 TGCCAGAAGT
88253288 AAATAAAATA-AAAATTAATAATTA
1 AAATAAAA-ACAAAATT-A-AATTA
*
88253312 AAATAAAAACAAAATTAAATTG
1 AAATAAAAACAAAATTAAATTA
88253334 AAATAAAA
1 AAATAAAA
88253342 CTAAGAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 12 0.43
23 2 0.07
24 14 0.50
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAAAAACAAAATTAAATTA
Found at i:88257945 original size:24 final size:24
Alignment explanation
Indices: 88257913--88257973 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
88257903 AAAATCCAAT
* * *
88257913 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
88257937 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
88257961 GCACTATGTGTGC
1 GCACTATGTGTGC
88257974 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:88265210 original size:24 final size:23
Alignment explanation
Indices: 88265178--88265239 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
88265168 AAAATCCAAT
* * *
88265178 GCACTATGTGTGCAGTTTACTATG
1 GCACTATGTGTGCAGTGTAAT-TA
88265202 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGC-AGTGTAATTA
88265226 GCACTATGTGTGCA
1 GCACTATGTGTGCA
88265240 AATACGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.79
25 6 0.18
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (23 bp):
GCACTATGTGTGCAGTGTAATTA
Found at i:88272894 original size:49 final size:49
Alignment explanation
Indices: 88272822--88272994 Score: 206
Period size: 49 Copynumber: 3.5 Consensus size: 49
88272812 CTGGTACGCA
* * *
88272822 TAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
* * * * **
88272871 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCCGGTACAC-
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCTAGTACACG
* *
88272921 AAGTAGCCTGCA-TTAGTACTACACATGCGACCAATTATCTTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
*
88272969 TAGTAGCCTGCACTTAGTGCTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
88272995 CGTGACCTCA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
47 12 0.12
48 12 0.12
49 56 0.55
50 12 0.12
51 10 0.10
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
Found at i:88275725 original size:15 final size:15
Alignment explanation
Indices: 88275679--88275733 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
88275669 CAAGAAAATC
88275679 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
88275694 -AGATAGA-AAACCCA
1 GA-ATAAAGAAATCCA
88275708 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
88275723 GAATAAAGAAA
1 GAATAAAGAAA
88275734 CCCAAGATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:88278813 original size:49 final size:49
Alignment explanation
Indices: 88278737--88278924 Score: 236
Period size: 49 Copynumber: 3.8 Consensus size: 49
88278727 TAGCTGAAGC
*
88278737 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
88278786 AATCTGGTACACATAGTAGCCTACACTTACTACTACACACTTGATC-ACC-GT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TG--CGACCAAT
* * * *
88278837 TTTCGGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
88278886 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
88278925 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 73 0.63
51 35 0.30
52 3 0.03
53 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:88278856 original size:100 final size:100
Alignment explanation
Indices: 88278742--88278925 Score: 323
Period size: 100 Copynumber: 1.8 Consensus size: 100
88278732 GAAGCTATCT
*
88278742 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCC
88278807 TACACTTACTACTACACACTTGATCACCGTTTTCG
66 TACACTTACTACTACACACTTGATCACCGTTTTCG
* *
88278842 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCC
* *
88278907 TGCACTTAGTACTACACAC
66 TACACTTACTACTACACAC
88278926 GTGACCTCAC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCC
TACACTTACTACTACACACTTGATCACCGTTTTCG
Found at i:88284666 original size:32 final size:32
Alignment explanation
Indices: 88284630--88284696 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
88284620 GAGTACGAGG
*
88284630 ATTGGTATGAGATGGTACATGTATGTATGGAA
1 ATTGGTACGAGATGGTACATGTATGTATGGAA
*
88284662 ATTGGTACGATATGGTACATGTATGTATGGAA
1 ATTGGTACGAGATGGTACATGTATGTATGGAA
88284694 ATT
1 ATT
88284697 CAATTGAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.36
Consensus pattern (32 bp):
ATTGGTACGAGATGGTACATGTATGTATGGAA
Found at i:88286400 original size:24 final size:24
Alignment explanation
Indices: 88286368--88286414 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
88286358 CTGTCAGGAG
*
88286368 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTAGATAAGGGAT
88286392 AGGATTTAGGAGTAGATAAGGGA
1 AGGATTTAGGAGTAGATAAGGGA
88286415 GGAAATATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTAGATAAGGGAT
Found at i:88287878 original size:26 final size:26
Alignment explanation
Indices: 88287821--88287930 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
88287811 AGGAAGCGTC
* *
88287821 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
88287848 CTGGTGGCTCTGCCACA-TATTCTGTT
1 CTGGTGGCTCTGCCACATTA-TCTGTT
88287874 CTGGTGG-TCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
88287901 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
88287927 CTGG
1 CTGG
88287931 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
25 10 0.14
26 24 0.32
27 33 0.45
28 7 0.09
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:88287905 original size:53 final size:53
Alignment explanation
Indices: 88287821--88287930 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 53
88287811 AGGAAGCGTC
*
88287821 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-TATTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTA-TCTGTT
* * *
88287874 CTGGTGG-TCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
88287927 CTGG
1 CTGG
88287931 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 15 0.29
53 34 0.67
54 2 0.04
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:88289012 original size:11 final size:10
Alignment explanation
Indices: 88288984--88289017 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
88288974 AGCCTGTAAG
88288984 TATTCTGAAT
1 TATTCTGAAT
*
88288994 TTTTCTGAAT
1 TATTCTGAAT
88289004 ATATTCTGAAT
1 -TATTCTGAAT
88289015 TAT
1 TAT
88289018 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:88290291 original size:6 final size:6
Alignment explanation
Indices: 88290280--88290304 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
88290270 AAGGTAGGGC
88290280 GAAATG GAAATG GAAATG GAAATG G
1 GAAATG GAAATG GAAATG GAAATG G
88290305 TGGTCGAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GAAATG
Found at i:88294194 original size:24 final size:24
Alignment explanation
Indices: 88294162--88294231 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
88294152 CTGTCAGGAG
88294162 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
88294186 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
88294210 AGGA-TTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
88294232 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 16 0.36
24 28 0.64
ACGTcount: A:0.36, C:0.01, G:0.39, T:0.24
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:88295679 original size:27 final size:26
Alignment explanation
Indices: 88295639--88295744 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 26
88295629 AGGAAGCGTC
*
88295639 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
88295666 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
88295693 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
88295721 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
88295745 TTTGGCAGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 51 0.74
28 16 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:88295743 original size:54 final size:54
Alignment explanation
Indices: 88295639--88295746 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
88295629 AGGAAGCGTC
*
88295639 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
88295693 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
88295747 TGGCAGCCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:88299946 original size:86 final size:86
Alignment explanation
Indices: 88299801--88299975 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 86
88299791 CAACAGTTGG
88299801 CTGATTTGAGGGAGAGATTCAGATTCACAAGGTAATGTTTTTGTTATTGTGTTTTAAATTTTGAA
1 CTGATTTGAGGGAGAGATTCAGATTCACAAGGTAATGTTTTTGTTATTGTGTTTTAAATTTTGAA
*
88299866 AGCAACGGAGAAAGATATTTA
66 AGCAACGGAGAAAGACATTTA
88299887 CTGATTTGAGGGAGAGATTCAGATTCACAAGGTAATGTTTTTGTTATTGTGTTTTAAATTTTGAA
1 CTGATTTGAGGGAGAGATTCAGATTCACAAGGTAATGTTTTTGTTATTGTGTTTTAAATTTTGAA
88299952 AGCAACGGAGAAAGACATTTA
66 AGCAACGGAGAAAGACATTTA
88299973 CTG
1 CTG
88299976 TTATAAAAGT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (86 bp):
CTGATTTGAGGGAGAGATTCAGATTCACAAGGTAATGTTTTTGTTATTGTGTTTTAAATTTTGAA
AGCAACGGAGAAAGACATTTA
Found at i:88308676 original size:80 final size:80
Alignment explanation
Indices: 88308592--88308740 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
88308582 TATGGTAACC
* * * *
88308592 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
88308656 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
88308672 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
88308737 CCGG
66 CCGG
88308741 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:88308682 original size:40 final size:38
Alignment explanation
Indices: 88308633--88308740 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
88308623 ATCACGATTT
*
88308633 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
88308673 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
88308713 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
88308741 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:88314835 original size:27 final size:27
Alignment explanation
Indices: 88314804--88314913 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
88314794 GTGACGAAGT
*
88314804 CACCAGATACAGAT-ATTGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
*
88314831 TACCAGATCAGATAATTGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
88314858 CACCAGGA-CAGAT-ATATGTGGCAGAGC
1 CACCA-GATCAGATAAT-TGTGGCAGAGC
*
88314885 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
88314912 CA
1 CA
88314914 GCAGGACGCT
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.12
27 61 0.82
28 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:88314878 original size:54 final size:53
Alignment explanation
Indices: 88314812--88314920 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 53
88314802 GTCACCAGAT
* *
88314812 ACAGATATTGTGGTAGAGCTACCAGATCAGATAATTGTGGCAGAGCCACCAGG
1 ACAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCAGAGCCACCAGG
* *
88314865 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCAGCAGG
1 ACAGATAT-TGTGGCAGAGCCACCAGATCAGATAATTGTGGCAGAGCCACCAGG
88314919 AC
1 AC
88314921 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 8 0.16
54 43 0.84
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (53 bp):
ACAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCAGAGCCACCAGG
Found at i:88316570 original size:26 final size:26
Alignment explanation
Indices: 88316540--88316595 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
88316530 TGAAATTCCC
88316540 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88316566 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88316592 ATCA
1 ATCA
88316596 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88322421 original size:29 final size:28
Alignment explanation
Indices: 88322389--88322489 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
88322379 GTGACGAGAT
* *
88322389 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
88322418 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
88322447 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
88322476 TGGCACTAAGTGTG
1 TGGCACT-AGTGTG
88322490 TGTGATTGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 4 0.07
29 55 0.92
30 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.30
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGGAATATA
Found at i:88326092 original size:27 final size:27
Alignment explanation
Indices: 88326044--88326147 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
88326034 GCGAGGCTGC
* *
88326044 CAGATATTGTGAC-GAAGTCACCAAATA
1 CAGATATTGTGGCAG-AGCCACCAAATA
88326071 CAGATATTGTGGCAGAGCCACCAAA-A
1 CAGATATTGTGGCAGAGCCACCAAATA
*
88326097 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAAATA
*
88326124 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
88326148 GGACGCTTCC
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.12
27 58 0.84
28 3 0.04
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAAATA
Found at i:88326281 original size:26 final size:27
Alignment explanation
Indices: 88326252--88326327 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
88326242 CAAAATTAAC
*
88326252 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
88326278 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
88326306 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
88326328 AGCTGCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:88327398 original size:42 final size:42
Alignment explanation
Indices: 88327281--88327426 Score: 217
Period size: 42 Copynumber: 3.5 Consensus size: 42
88327271 TTGCGGCGTT
* *
88327281 TTTTGTTAAAACGCCGCTAAAA-A-CAGAGCATTAGTGGCGC
1 TTTTGGTAAAACGCCGCTAAAAGACCAGAGCATTAGCGGCGC
** *
88327321 TTTTGGTAAAATTCCGCT-AAAGACCAGAGCATTAGCGGCGT
1 TTTTGGTAAAACGCCGCTAAAAGACCAGAGCATTAGCGGCGC
*
88327362 TTTTGATAAAACGCCGCTAAAAGACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAGACCAGAGCATTAGCGGCGC
88327404 TTTTGGTAAAACGCCGCTAAAAG
1 TTTTGGTAAAACGCCGCTAAAAG
88327427 TCATATAGTC
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.03
40 16 0.17
41 30 0.32
42 44 0.47
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
TTTTGGTAAAACGCCGCTAAAAGACCAGAGCATTAGCGGCGC
Found at i:88327414 original size:83 final size:82
Alignment explanation
Indices: 88327273--88327424 Score: 243
Period size: 83 Copynumber: 1.8 Consensus size: 82
88327263 TAGAGTAATT
* * **
88327273 GCGGCGTTTTTTGTTAAAACGCCGCTAAAAACAGAGCATTAGTGGCGCTTTTGGTAAAATTCCGC
1 GCGGCGTTTTTTGATAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
88327338 TAAAGACCAGAGCATTA
66 TAAAGACCAGAGCATTA
88327355 GCGGCG-TTTTTGATAAAACGCCGCTAAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
1 GCGGCGTTTTTTGATAAAACGCCGCTAAAA-A-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
88327419 GCTAAA
64 GCTAAA
88327425 AGTCATATAG
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 22 0.34
82 7 0.11
83 35 0.55
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (82 bp):
GCGGCGTTTTTTGATAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
TAAAGACCAGAGCATTA
Found at i:88328670 original size:7 final size:7
Alignment explanation
Indices: 88328658--88328707 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
88328648 AAATCTTCAA
88328658 AAAAATT
1 AAAAATT
88328665 AAAAATT
1 AAAAATT
*
88328672 AAAAATA
1 AAAAATT
*
88328679 AAAAATA
1 AAAAATT
*
88328686 AAAAATA
1 AAAAATT
88328693 AAAAACTT
1 AAAAA-TT
88328701 AAAAATT
1 AAAAATT
88328708 TAATATTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:88328677 original size:14 final size:14
Alignment explanation
Indices: 88328658--88328706 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
88328648 AAATCTTCAA
*
88328658 AAAAATTAAAAATT
1 AAAAATAAAAAATT
*
88328672 AAAAATAAAAAATA
1 AAAAATAAAAAATT
88328686 AAAAATAAAAAACTT
1 AAAAATAAAAAA-TT
88328701 AAAAAT
1 AAAAAT
88328707 TTAATATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATAAAAAATT
Found at i:88328681 original size:20 final size:20
Alignment explanation
Indices: 88328657--88328696 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
88328647 AAAATCTTCA
*
88328657 AAAAAATTAAAAATTAAAAAT
1 AAAAAA-TAAAAAATAAAAAT
88328678 AAAAAATAAAAAATAAAAA
1 AAAAAATAAAAAATAAAAA
88328697 ACTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAAATAAAAAATAAAAAT
Found at i:88328715 original size:7 final size:7
Alignment explanation
Indices: 88328705--88328729 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88328695 AAACTTAAAA
88328705 ATTTAAT
1 ATTTAAT
88328712 ATTTAAT
1 ATTTAAT
88328719 ATTTAAT
1 ATTTAAT
88328726 ATTT
1 ATTT
88328730 TAGTCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTAAT
Found at i:88331651 original size:15 final size:16
Alignment explanation
Indices: 88331631--88331661 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
88331621 GTTTTTATCT
88331631 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
88331646 TATATATGATCTAAAA
1 TATATATGATCTAAAA
88331662 GCAAGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:88333100 original size:43 final size:43
Alignment explanation
Indices: 88333035--88333129 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
88333025 GATCATTATT
* * *
88333035 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATC
*
88333078 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATC
88333121 TTTAGCGGC
1 TTTAGCGGC
88333130 ATTTTTTTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATC
Found at i:88333941 original size:26 final size:26
Alignment explanation
Indices: 88333911--88334018 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
88333901 TGAAATTCCC
88333911 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
88333937 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
88333963 ATCATGAAACATTTACCAAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
88333989 ATCATGGAACATATACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88334015 ATCA
1 ATCA
88334019 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.