Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 116 of 259
Found at i:37766281 original size:31 final size:31
Alignment explanation
Indices: 37766206--37766284 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
37766196 TGTTTACAGT
* *
37766206 AAAGGCTTCAGCCAAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
37766237 AAAGGC-TCTGGCCCAGTGATATGATTTATTA
1 AAAGGCTTC-GGCCCAGTGAAATGATTTATGA
37766268 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
37766285 AATCGTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:37767892 original size:17 final size:17
Alignment explanation
Indices: 37767870--37767904 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37767860 CCTATACATG
37767870 CCACTCACACAAATACA
1 CCACTCACACAAATACA
37767887 CCACTCACACAAATACA
1 CCACTCACACAAATACA
37767904 C
1 C
37767905 TTAAGGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (17 bp):
CCACTCACACAAATACA
Found at i:37771231 original size:17 final size:18
Alignment explanation
Indices: 37771200--37771234 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37771190 TTTTACTTTA
*
37771200 TTTTTTATTTATTTTAAT
1 TTTTTTATGTATTTTAAT
37771218 TTTTTTATGT-TTTTAAT
1 TTTTTTATGTATTTTAAT
37771235 CACCCTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTATGTATTTTAAT
Found at i:37774691 original size:30 final size:29
Alignment explanation
Indices: 37774648--37774711 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
37774638 CAAGTAACCG
37774648 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
37774677 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
37774707 AAGCT
1 AAGCT
37774712 TCTGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:37787122 original size:12 final size:13
Alignment explanation
Indices: 37787100--37787128 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
37787090 AGAGATGATA
37787100 ATTATTAATATAT
1 ATTATTAATATAT
37787113 ATTA-TAATATAT
1 ATTATTAATATAT
37787125 ATTA
1 ATTA
37787129 ATTATTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATTAATATAT
Found at i:37789233 original size:15 final size:15
Alignment explanation
Indices: 37789213--37789242 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37789203 TTCTTGAGGT
37789213 GAAATCCTAGGAAGC
1 GAAATCCTAGGAAGC
37789228 GAAATCCTAGGAAGC
1 GAAATCCTAGGAAGC
37789243 ATGGAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (15 bp):
GAAATCCTAGGAAGC
Found at i:37798992 original size:27 final size:27
Alignment explanation
Indices: 37798751--37798995 Score: 244
Period size: 27 Copynumber: 9.1 Consensus size: 27
37798741 GGCAAATCAA
* * * *
37798751 TCATTTTACCTTACAGGGGTGTTAT-AG
1 TCATTTTACCCTATAGGGGTATT-TCGG
* * *
37798778 TCATTTTACCCTATAGGCGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * * *
37798805 TCATTTTACCCTACAAGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
37798832 TCATTTTACCTTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
37798859 TCATTTTACCCTATATGTGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
37798886 TCATTTTAACCTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
37798913 TCATTTTGCCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCTATAG-GGGTATTTCGG
37798940 TCATTTTACCCTAT-GGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
37798966 TCATTTTACACTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
37798993 TCA
1 TCA
37798996 CCATTTCGGC
Statistics
Matches: 187, Mismatches: 28, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
26 24 0.13
27 163 0.87
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGG
Found at i:37799901 original size:27 final size:27
Alignment explanation
Indices: 37799860--37800227 Score: 459
Period size: 27 Copynumber: 13.7 Consensus size: 27
37799850 CCTAAATTAA
** * *
37799860 TAAAATGACAATTTTGCTCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
37799887 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* **
37799914 TAAATTGACTGTTTTGCCCTTATGTCG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
37799941 TAAAATGACTATTTAGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
37799968 TAAAATAACTGTTTTGCCATTGTGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
37799995 TAAAATGACTATTTTTCCTTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
37800022 TAAATTGACTGTTTTGCCTTTTTGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
37800049 T-AAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
37800075 TAAAATGACTATTTTGCCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
37800102 TAAAATGGCTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
37800129 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
**
37800156 TAAAATGGTTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
37800183 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
37800210 TAAAATGATTGTTTTGCC
1 TAAAATGACTGTTTTGCC
37800228 TTTTTATTGT
Statistics
Matches: 295, Mismatches: 45, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.07
27 273 0.93
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:37800641 original size:18 final size:18
Alignment explanation
Indices: 37800582--37800641 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
37800572 TACTATTCAA
*
37800582 ACTGTTACTGCACGGATT
1 ACTGTTACTGCACTGATT
* *
37800600 ACTATTACTGCATTGATT
1 ACTGTTACTGCACTGATT
*
37800618 ATTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
37800636 ACTGTT
1 ACTGTT
37800642 GCATGGTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:37810015 original size:40 final size:40
Alignment explanation
Indices: 37809960--37810137 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
37809950 TGGATGATAA
*
37809960 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
* **
37810000 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
37810040 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
* * * * *
37810080 CAGGGGTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTA-CTATAT
* *
37810120 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37810138 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 15 0.12
40 108 0.88
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
Found at i:37818097 original size:40 final size:40
Alignment explanation
Indices: 37818042--37818258 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
37818032 TGGATGATAA
* * * *
37818042 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TAT
37818082 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-TATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
37818121 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
37818161 CCAGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* * * *
37818201 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
* *
37818241 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37818259 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 51 0.32
40 107 0.67
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:37818173 original size:79 final size:79
Alignment explanation
Indices: 37818042--37818258 Score: 296
Period size: 79 Copynumber: 2.7 Consensus size: 79
37818032 TGGATGATAA
* * *
37818042 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTA-TATCC-GGCTAAGTCCCGAAGGCATTG
37818106 GTGCGAGTTA-TATAT
64 GTGCGAGTTACTATAT
* *
37818121 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTGG
37818186 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
* * * *
37818201 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTATATCCGGCTAAGTCCCGAAGG
37818259 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 84 0.67
80 40 0.32
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTATAT
Found at i:37823860 original size:47 final size:47
Alignment explanation
Indices: 37823806--37823974 Score: 257
Period size: 47 Copynumber: 3.6 Consensus size: 47
37823796 TTAGGATTTT
** * * **
37823806 ATGTGATGAATGTGAATGTGTATATATGAGATAAAGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
37823853 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
* *
37823900 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
37823947 ATGTGATGAATGTGAACAAGCATATATG
1 ATGTGATGAATGTGAACATGCATATATG
37823975 GCCAATGTGA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:37823863 original size:41 final size:43
Alignment explanation
Indices: 37823818--37824319 Score: 139
Period size: 47 Copynumber: 11.1 Consensus size: 43
37823808 GTGATGAATG
37823818 TGAATGTG-T-ATATATGAGATAAAGCCGAATGGAAAATGTGA
1 TGAATGTGATCATATATGAGATAAAGCCGAATGGAAAATGTGA
* **
37823859 TGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * **
37823906 TGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * **
37823953 TGAATGTGA--ACA-A-G-CAT--A----TATGGCCAATGTGA
1 TGAATGTGATCATATATGAGATAAAGCCGAATGGAAAATGTGA
* * **
37823985 TGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * **
37824032 TGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * **
37824079 TGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * ***
37824126 TGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCGATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * **
37824173 TGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * * ** *
37824220 TGAATGTGAACATGCATATGTGTGATAAGGCCGAATAGCCAATCTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
* * * **
37824267 TGAATGAGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTG---AT-CATATATGAGATAAAGCCGAATGGAAAATGTGA
37824314 TGAATG
1 TGAATG
37824320 AGAACATGTA
Statistics
Matches: 415, Mismatches: 25, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
32 21 0.05
35 1 0.00
38 4 0.01
39 2 0.00
40 1 0.00
41 12 0.03
44 1 0.00
45 1 0.00
47 372 0.90
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (43 bp):
TGAATGTGATCATATATGAGATAAAGCCGAATGGAAAATGTGA
Found at i:37823973 original size:141 final size:141
Alignment explanation
Indices: 37823806--37824404 Score: 807
Period size: 141 Copynumber: 4.4 Consensus size: 141
37823796 TTAGGATTTT
** * * * **
37823806 ATGTGATGAATGTGAATGTGTATATATGAGATAAAGCCGAATGGAAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
37823871 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
37823936 CCGAATGGCCA
131 CCGAATGGCCA
*
37823947 ATGTGATGAATGTGAACAAGC----A--T-AT--------ATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
37823997 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAGG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
37824062 CCGAATGGCCA
131 CCGAATGGCCA
*
37824073 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
37824138 TGCATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAACATGCATATGTGTGATAAGG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
37824203 CCGAATGGCCA
131 CCGAATGGCCA
* * * *
37824214 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATAGCCAATCTGATGAATGAGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
37824279 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAACATGTATATATGTGATAAGG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
**
37824344 CAAAATGGCCA
131 CCGAATGGCCA
* * * * * * *
37824355 ATGTGACGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATG
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
37824405 CGAAATGTGT
Statistics
Matches: 406, Mismatches: 36, Indels: 32
0.86 0.08 0.07
Matches are distributed among these distances:
126 116 0.29
132 1 0.00
133 2 0.00
134 2 0.00
137 1 0.00
141 281 0.69
142 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
CCGAATGGCCA
Found at i:37823976 original size:32 final size:32
Alignment explanation
Indices: 37823940--37824006 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
37823930 ATAAGGCCGA
37823940 ATGGCCAATGTGATGAATGTGAACAAGCATAT
1 ATGGCCAATGTGATGAATGTGAACAAGCATAT
*
37823972 ATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGGCCAATGTGATGAATGTGAACAAGCATAT
37824004 ATG
1 ATG
37824007 TGATAAGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (32 bp):
ATGGCCAATGTGATGAATGTGAACAAGCATAT
Found at i:37824029 original size:47 final size:47
Alignment explanation
Indices: 37823972--37824404 Score: 670
Period size: 47 Copynumber: 9.2 Consensus size: 47
37823962 ACAAGCATAT
37823972 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
*
37824019 ATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
*
37824066 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
*
37824113 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* *
37824160 ATGGCCGATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
*
37824207 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* * *
37824254 ATAGCCAATCTGATGAATGAGAACATGCATATATGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* * **
37824301 ATGGCCAATGTGATGAATGAGAACATGTATATATGTGATAAGGCAAA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* * * * * *
37824348 ATGGCCAATGTGACGAACGTGGAA-GTGTATATATGTGGTAAAGCCGA
1 ATGGCCAATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGA
*
37824395 ATGGCTAATG
1 ATGGCCAATG
37824405 CGAAATGTGT
Statistics
Matches: 362, Mismatches: 23, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 359 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
Found at i:37824079 original size:22 final size:22
Alignment explanation
Indices: 37824051--37824126 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
37824041 ACATGCATAT
37824051 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
37824073 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
37824095 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
37824120 ATGTGAT
1 ATGTGAT
37824127 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:37824434 original size:46 final size:46
Alignment explanation
Indices: 37824378--37824496 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
37824368 GGAAGTGTAT
*
37824378 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
37824424 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
37824470 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
37824497 TGAGAGATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:37828232 original size:46 final size:46
Alignment explanation
Indices: 37828180--37828407 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
37828170 AGTGTGCTCT
37828180 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
37828226 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
37828272 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
37828318 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
37828364 ATGACA-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
37828408 TCACGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:37829081 original size:22 final size:22
Alignment explanation
Indices: 37829053--37829096 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37829043 TCTGGCAGCG
*
37829053 GATACGGGTTAGGGGTGTTACA
1 GATACGGGATAGGGGTGTTACA
37829075 GATACGGGATAGGGGTGTTACA
1 GATACGGGATAGGGGTGTTACA
37829097 AAGCCTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.41, T:0.25
Consensus pattern (22 bp):
GATACGGGATAGGGGTGTTACA
Found at i:37836081 original size:8 final size:8
Alignment explanation
Indices: 37836068--37836096 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
37836058 TTGAATGAAA
37836068 TGAATGGT
1 TGAATGGT
37836076 TGAATGGT
1 TGAATGGT
37836084 TGAATGGT
1 TGAATGGT
37836092 TGAAT
1 TGAAT
37836097 TTGTATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TGAATGGT
Found at i:37851064 original size:28 final size:28
Alignment explanation
Indices: 37851012--37851096 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
37851002 AATCTCTTTC
*
37851012 ATATGGCCCATTAGGCCC-ATTCACATTT
1 ATATGG-CCATTAGGCCCAAATCACATTT
* * *
37851040 ATGTGGCCATTAGGCCCAAAGCACATTC
1 ATATGGCCATTAGGCCCAAATCACATTT
* *
37851068 ATATGGCCACTAAGCCCAAATCACATTT
1 ATATGGCCATTAGGCCCAAATCACATTT
37851096 A
1 A
37851097 CACTCATGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 11 0.23
28 36 0.77
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCATTAGGCCCAAATCACATTT
Found at i:37856337 original size:17 final size:17
Alignment explanation
Indices: 37856315--37856349 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37856305 GACTTATAGC
37856315 TTGGGTGATGATAGAAA
1 TTGGGTGATGATAGAAA
37856332 TTGGGTGATGATAGAAA
1 TTGGGTGATGATAGAAA
37856349 T
1 T
37856350 CAAAGGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (17 bp):
TTGGGTGATGATAGAAA
Found at i:37867959 original size:32 final size:32
Alignment explanation
Indices: 37867921--37867984 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
37867911 GAGTTTCCAT
37867921 AAGAATTATTGCAGATGTTACTGACATAAAAG
1 AAGAATTATTGCAGATGTTACTGACATAAAAG
37867953 AAGAATTATTGCAGATGTTACTGACATAAAAG
1 AAGAATTATTGCAGATGTTACTGACATAAAAG
37867985 GCATTCTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (32 bp):
AAGAATTATTGCAGATGTTACTGACATAAAAG
Found at i:37868178 original size:12 final size:12
Alignment explanation
Indices: 37868161--37868185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37868151 CAAGACTTAA
37868161 TAGATTGGGCCC
1 TAGATTGGGCCC
37868173 TAGATTGGGCCC
1 TAGATTGGGCCC
37868185 T
1 T
37868186 CGAGGCCCCA
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:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (12 bp):
TAGATTGGGCCC
Found at i:37873021 original size:26 final size:25
Alignment explanation
Indices: 37872953--37873022 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
37872943 GAGGAAGTGC
* * *
37872953 AAAGGGCTATGCCCTAGTTTATCGA
1 AAAGGGCTTTGCCCCAGTTTACCGA
37872978 AAAGGGCTTTGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTACCGA
37873003 AAAGGGCTTTTGCCCCAGTT
1 AAAGGGC-TTTGCCCCAGTT
37873023 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 29 0.71
26 12 0.29
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTACCGA
Found at i:37877512 original size:25 final size:25
Alignment explanation
Indices: 37877483--37877530 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
37877473 TTATAATATG
* *
37877483 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
37877508 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
37877531 GTTTAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:37877740 original size:25 final size:25
Alignment explanation
Indices: 37877663--37877733 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
37877653 GAGGAAGTGC
* *
37877663 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
37877688 AAAAGGGCTTTGCCTCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
37877713 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
37877734 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 30 0.73
26 11 0.27
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:37877991 original size:31 final size:31
Alignment explanation
Indices: 37877953--37878036 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
37877943 TTGTTACAGT
37877953 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
37877984 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
37878015 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
37878037 CTGAGATTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:37883838 original size:21 final size:22
Alignment explanation
Indices: 37883798--37883841 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
37883788 ACCAGTTATA
37883798 ATTTTCATATGCACATACTTTT
1 ATTTTCATATGCACATACTTTT
37883820 ATTTTCATCATG-A-ATACTTTT
1 ATTTTCAT-ATGCACATACTTTT
37883841 A
1 A
37883842 CATATGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTTCATATGCACATACTTTT
Found at i:37884168 original size:56 final size:56
Alignment explanation
Indices: 37884108--37884374 Score: 403
Period size: 56 Copynumber: 4.8 Consensus size: 56
37884098 AGACAGGGTT
* * *
37884108 TTACTCGTACACATATATCGGAGTCATATATCGATGCCAACATATTAAACGTGGTC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
* *
37884164 TTACTCGCACACATATATTGGAGTCACATATCGATGCCAACATATTAAACGTGGTC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
* **
37884220 TTACTCGCACACATATATTGGAGTCACATATCGATGCCAACGCATTAAACGTGGAC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
* * *
37884276 TTACTCACACATATATATCGGAGTCACA-ATCGATGCCAACGTATTAAACGTGGAC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
* *
37884331 TTACTCGCACAAATATATCGGAGCCACATATCGATGCC-ACATAT
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATAT
37884375 ACTTCCAGGT
Statistics
Matches: 196, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
55 56 0.29
56 140 0.71
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (56 bp):
TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
Found at i:37887850 original size:40 final size:39
Alignment explanation
Indices: 37887756--37887900 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 39
37887746 TACTCGAATG
*
37887756 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCT-AGCGACT
* *
37887797 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
37887837 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCTAGCGACT
* *
37887877 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
37887901 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 2 0.02
40 59 0.65
41 29 0.32
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:37895861 original size:40 final size:40
Alignment explanation
Indices: 37895767--37895911 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
37895757 TACTCGAATG
*
37895767 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
37895808 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
37895848 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
37895888 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
37895912 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:37897346 original size:38 final size:38
Alignment explanation
Indices: 37897290--37897431 Score: 153
Period size: 38 Copynumber: 3.7 Consensus size: 38
37897280 GGTACGGGGT
* *
37897290 GTTACAATATCCAAGCTAAGTCCGAA-GCATTTGTGCAA
1 GTTACTATATCC-GGCTAAGTCCGAAGGCATTTGTGCAA
* *
37897328 GTTACTATATCCGGGCTAAGTCCGAAGGCA-TTATGCTA
1 GTTACTATATCC-GGCTAAGTCCGAAGGCATTTGTGCAA
* * *
37897366 GTGACTATATCCGGCTAAGACCCGAAGGCATTTGTGCGA
1 GTTACTATATCCGGCTAAG-TCCGAAGGCATTTGTGCAA
* *
37897405 GTTGCTATATCCGGCTAAATCCCGAAG
1 GTTACTATATCCGGCTAAGT-CCGAAG
37897432 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
37 7 0.08
38 49 0.56
39 31 0.36
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (38 bp):
GTTACTATATCCGGCTAAGTCCGAAGGCATTTGTGCAA
Found at i:37897419 original size:39 final size:39
Alignment explanation
Indices: 37897311--37897431 Score: 135
Period size: 39 Copynumber: 3.2 Consensus size: 39
37897301 CAAGCTAAGT
* *
37897311 CCGAA-GCATTTGTGCAAGTTACTATATCCGGGCTAAG-T
1 CCGAAGGCATTTGTGCAAGTTGCTATATCC-GGCTAAGAC
* *
37897349 CCGAAGGCA-TTATGCTAG-TGACTATATCCGGCTAAGAC
1 CCGAAGGCATTTGTGCAAGTTG-CTATATCCGGCTAAGAC
*
37897387 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAA-ATC
1 CCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAGA-C
37897426 CCGAAG
1 CCGAAG
37897432 ATACTTGGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
37 8 0.11
38 30 0.42
39 31 0.44
40 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAGAC
Found at i:37899680 original size:46 final size:46
Alignment explanation
Indices: 37899630--37899785 Score: 176
Period size: 46 Copynumber: 3.4 Consensus size: 46
37899620 TGGTTGAGCA
*
37899630 TCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37899676 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
*
37899720 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
37899769 CCCGAGCTCGTTGAGTT
1 TCCGAACTCGTTGAGTT
37899786 ATCCATGTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 43 0.47
47 29 0.32
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37907066 original size:43 final size:43
Alignment explanation
Indices: 37907006--37907126 Score: 151
Period size: 43 Copynumber: 2.8 Consensus size: 43
37906996 GGTTGAGCAT
37907006 CCGAA-TCGTTGAGTTGAGTCCGGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGGTTCACTTATGG-TGCGAA-GC
*
37907049 TCGAACTCGTTG-GTTGAGTCCGGTTCACTT-TGGTGCGAAGC
1 CCGAACTCGTTGAGTTGAGTCCGGTTCACTTATGGTGCGAAGC
* *
37907090 CCGAGGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGA-ACTCGTTGAGTTGAGTCCG-GTTCACTTATGG
37907127 GGGTTACATG
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
40 1 0.01
41 9 0.13
42 10 0.15
43 32 0.47
44 13 0.19
45 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.31
Consensus pattern (43 bp):
CCGAACTCGTTGAGTTGAGTCCGGTTCACTTATGGTGCGAAGC
Found at i:37921989 original size:26 final size:26
Alignment explanation
Indices: 37921950--37922023 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
37921940 TCATCCCTAT
*
37921950 TTTACCCCTGGTAAAATTTTGACGAA
1 TTTACCCCTAGTAAAATTTTGACGAA
* *
37921976 TTTACCCCTAGTAAAATTTTGATGAT
1 TTTACCCCTAGTAAAATTTTGACGAA
37922002 TTTACCCCTAGTAAAATTTTGA
1 TTTACCCCTAGTAAAATTTTGA
37922024 AAAAATATGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTACCCCTAGTAAAATTTTGACGAA
Found at i:37925936 original size:26 final size:26
Alignment explanation
Indices: 37925907--37925959 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
37925897 TCAAACATGC
37925907 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
37925933 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
37925959 A
1 A
37925960 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:37927478 original size:26 final size:26
Alignment explanation
Indices: 37927448--37927503 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
37927438 TGAAATGCCC
* *
37927448 ATCATGGAACATTTAGCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
37927474 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
37927500 ATCA
1 ATCA
37927504 ATTTTTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:37937023 original size:45 final size:44
Alignment explanation
Indices: 37936885--37937099 Score: 279
Period size: 45 Copynumber: 4.9 Consensus size: 44
37936875 ATTTATTCAT
* * * * *
37936885 CGGCATT-TTGCCTACTAGGCCCGAGGCCCCAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
37936928 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
* * * * *
37936972 CAGCATTATAGCCTACTAGGCTCAGAGGCCTGAATAATATCTCAT
1 CGGCATTATAGCCTGCTAGGCTCA-AGGCCCGAATAGTATCTCAC
* * *
37937017 CGGCATTATAGTCTGCTAGGGTCAAAGGCCCGAATACTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAGTATCTCAC
*
37937062 CAGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTA
1 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTA
37937100 CTGTATAATA
Statistics
Matches: 148, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
43 7 0.05
44 67 0.45
45 73 0.49
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
Found at i:37943709 original size:19 final size:20
Alignment explanation
Indices: 37943685--37943722 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
37943675 GGTACCTCCA
37943685 AAACAT-ATATCAT-ATCTTT
1 AAACATCAT-TCATCATCTTT
37943704 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
37943723 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:37944111 original size:93 final size:93
Alignment explanation
Indices: 37943952--37944122 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
37943942 GCCCCTAAGT
* *
37943952 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
37944017 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
37944045 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
37944110 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37944123 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:37944112 original size:46 final size:46
Alignment explanation
Indices: 37943947--37944119 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
37943937 AACCCGCCCC
* * * * *
37943947 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
37943993 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
37944041 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
37944086 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37944120 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 59 0.57
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:37944578 original size:30 final size:30
Alignment explanation
Indices: 37944544--37944603 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37944534 ATTTAATACG
37944544 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
37944574 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
37944604 GGCTCGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:37947937 original size:26 final size:26
Alignment explanation
Indices: 37947901--37947953 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
37947891 AAAGTAAACT
37947901 TATCGAGTAATCAGCATACATCCATA
1 TATCGAGTAATCAGCATACATCCATA
*
37947927 TATCGAGTAATTAGCATACATCCATA
1 TATCGAGTAATCAGCATACATCCATA
37947953 T
1 T
37947954 CTAAATCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (26 bp):
TATCGAGTAATCAGCATACATCCATA
Found at i:37961653 original size:17 final size:18
Alignment explanation
Indices: 37961631--37961666 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37961621 GATATGATAC
*
37961631 TAAAAT-TATGAAAAAAT
1 TAAAATATATAAAAAAAT
37961648 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
37961666 T
1 T
37961667 CGGGAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:37961962 original size:23 final size:22
Alignment explanation
Indices: 37961919--37961976 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
37961909 AAAAGGTATC
* *
37961919 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
37961940 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
37961963 TACATATCATATCT
1 TACAAATCATATCT
37961977 AATATTGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:37962010 original size:35 final size:36
Alignment explanation
Indices: 37961967--37962037 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
37961957 TAAGATTACA
*
37961967 TATCATATCTAATATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
37962002 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
37962038 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:37962026 original size:19 final size:19
Alignment explanation
Indices: 37961955--37962045 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
37961945 AATCATATCT
*
37961955 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
37961974 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
37961992 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
37962009 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37962028 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
37962046 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.23
19 35 0.53
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37962207 original size:22 final size:21
Alignment explanation
Indices: 37962164--37962204 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37962154 TTGGACTTCG
* **
37962164 TTTTTTTTTTTGGGTTTATTA
1 TTTTTATTTTTGGACTTATTA
37962185 TTTTTATTTTTGGACTTATT
1 TTTTTATTTTTGGACTTATT
37962205 TATGGGCCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (21 bp):
TTTTTATTTTTGGACTTATTA
Found at i:37963230 original size:21 final size:20
Alignment explanation
Indices: 37963196--37963249 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
37963186 TCAGATCGTG
* *
37963196 TGACAGGGATACACAGCCATC
1 TGACA-GGACACACACCCATC
* *
37963217 TGACTGAGACACACACCCATG
1 TGACAG-GACACACACCCATC
37963238 TGACAGGACACA
1 TGACAGGACACA
37963250 GTCGTGTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.35, C:0.30, G:0.22, T:0.13
Consensus pattern (20 bp):
TGACAGGACACACACCCATC
Found at i:37964013 original size:10 final size:10
Alignment explanation
Indices: 37963988--37964035 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
37963978 GGAGAACCAA
*
37963988 AAAGAGAAAC
1 AAAGAAAAAC
37963998 -AAGAAAAAC
1 AAAGAAAAAC
*
37964007 AAAGAAATAC
1 AAAGAAAAAC
*
37964017 AAATAAAAATC
1 AAAGAAAAA-C
37964028 AAAGAAAA
1 AAAGAAAA
37964036 TTGGGAGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.26
10 15 0.48
11 8 0.26
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.06
Consensus pattern (10 bp):
AAAGAAAAAC
Found at i:37965447 original size:19 final size:18
Alignment explanation
Indices: 37965407--37965452 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
37965397 ATTAAAAAAT
*
37965407 ATTTTTATATTTTTAATC
1 ATTTTTATATTTTTAATA
37965425 ATTTTTA-ATTTTTAAAGTA
1 ATTTTTATATTTTT-AA-TA
37965444 ATTTTTATA
1 ATTTTTATA
37965453 ATTCACTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 8 0.33
20 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTATATTTTTAATA
Found at i:37970255 original size:29 final size:28
Alignment explanation
Indices: 37970131--37970265 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 28
37970121 TCGATAACTA
*
37970131 AAACTATCCCTTTTCATAATTTTGATGGTC
1 AAACTATCCCTTTTCAT-A-TTCGATGGTC
** * * * *
37970161 GTCACCATGCCTTTTCATATTCAATTGTC
1 -AAACTATCCCTTTTCATATTCGATGGTC
* * * * * *
37970190 GAAACCATCCCTTTTCACAATCGGTAGCC
1 -AAACTATCCCTTTTCATATTCGATGGTC
37970219 AAAGCTATCCCTTTTCATATTCGATGGTC
1 AAA-CTATCCCTTTTCATATTCGATGGTC
*
37970248 ATCACTATCCCTTTTCAT
1 A-AACTATCCCTTTTCAT
37970266 TGTTCGATAG
Statistics
Matches: 79, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
28 3 0.04
29 61 0.77
30 2 0.03
31 13 0.16
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.38
Consensus pattern (28 bp):
AAACTATCCCTTTTCATATTCGATGGTC
Found at i:37987527 original size:15 final size:15
Alignment explanation
Indices: 37987498--37987526 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37987488 TGTTTTGTTG
37987498 GGTTTTAGTGTTTTT
1 GGTTTTAGTGTTTTT
37987513 GGTTTTAG-GTTTTT
1 GGTTTTAGTGTTTTT
37987527 TTTGGGCCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.07, C:0.00, G:0.28, T:0.66
Consensus pattern (15 bp):
GGTTTTAGTGTTTTT
Found at i:37987985 original size:18 final size:18
Alignment explanation
Indices: 37987962--37987996 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37987952 TCAAATCCAA
37987962 CTCTCTCAATTCTCTCAC
1 CTCTCTCAATTCTCTCAC
* *
37987980 CTCTCTTAATTTTCTCA
1 CTCTCTCAATTCTCTCA
37987997 AATTTTGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCTCTCAATTCTCTCAC
Found at i:37988207 original size:9 final size:9
Alignment explanation
Indices: 37988195--37988223 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
37988185 ATTAAGTTAA
37988195 TTTTAATTT
1 TTTTAATTT
37988204 TTTTAATTT
1 TTTTAATTT
37988213 TTTTAATTT
1 TTTTAATTT
37988222 TT
1 TT
37988224 AAATTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:37988233 original size:18 final size:18
Alignment explanation
Indices: 37988195--37988244 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
37988185 ATTAAGTTAA
*
37988195 TTTTAATTTTTTTAATTT
1 TTTTAATTTTTTAAATTT
*
37988213 TTTTAA-TTTTTAAATTA
1 TTTTAATTTTTTAAATTT
*
37988230 TTTT-ATTTTGTAAAT
1 TTTTAATTTTTTAAAT
37988245 AGAAATAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 21 0.75
18 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTAATTTTTTAAATTT
Found at i:37994221 original size:14 final size:14
Alignment explanation
Indices: 37994202--37994229 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37994192 GATGAAAGGA
37994202 AGAGGGTCGCTATC
1 AGAGGGTCGCTATC
37994216 AGAGGGTCGCTATC
1 AGAGGGTCGCTATC
37994230 TTCGCCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (14 bp):
AGAGGGTCGCTATC
Found at i:38031637 original size:45 final size:45
Alignment explanation
Indices: 38031586--38031672 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
38031576 CCAAAACATG
*
38031586 TGTCACATAAATCACGAACTCAGACCACAACTCAATGAGTTTGGA
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTTGGA
* *
38031631 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTT
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTT
38031673 AGATTACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTTGGA
Found at i:38042386 original size:45 final size:45
Alignment explanation
Indices: 38042322--38042414 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
38042312 GACTTCCTAC
38042322 TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
1 TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
* *
38042367 TCAAGGCGTCAGCGGCCACACTCGCGTTACCCGGATGGTAATTGG
1 TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
38042412 TCA
1 TCA
38042415 CAAGCTCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (45 bp):
TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
Found at i:38048186 original size:28 final size:28
Alignment explanation
Indices: 38048154--38048218 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
38048144 ATTTACTAGA
*
38048154 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
38048182 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
38048210 ATACCCCTA
1 ATACCCCTA
38048219 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:38048365 original size:28 final size:29
Alignment explanation
Indices: 38048324--38048386 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
38048314 AGGAAGCGTC
*
38048324 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
38048352 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
38048381 CTGGTG
1 CTGGTG
38048387 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:38048397 original size:29 final size:28
Alignment explanation
Indices: 38048334--38048397 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
38048324 CTGGTGGCTA
* *
38048334 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
38048362 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
38048391 TGTCACA
1 TGCCACA
38048398 TTTTCTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:38048874 original size:19 final size:19
Alignment explanation
Indices: 38048850--38048888 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38048840 TTTTAATTAT
* *
38048850 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
38048869 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
38048888 T
1 T
38048889 ATGGTGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:38056182 original size:43 final size:43
Alignment explanation
Indices: 38056133--38056218 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
38056123 GTTTGAACCT
38056133 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
1 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
38056176 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
1 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
38056219 AAAGTCTGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (43 bp):
TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
Found at i:38061360 original size:43 final size:43
Alignment explanation
Indices: 38061313--38061419 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
38061303 TGAGATTACA
38061313 TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATTAT-G
1 TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATT-TCG
* * * * *
38061356 TGTAAGACCATGTTTGGGGCATTGGCATCGTTTATTGATTTCG
1 TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATTTCG
* * *
38061399 TGGAAGACCCTGTCTGGGACA
1 TGTAAGACCATGTATGGGACA
38061420 GTGGTATCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATTTCG
Found at i:38065692 original size:40 final size:40
Alignment explanation
Indices: 38065655--38065732 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
38065645 AGTAAACGCA
* *
38065655 AGAATGCAATTGATTTAGAAAGCTTCCGCTATAAAACGAT
1 AGAATGCAATTGATTTACAAAGCTTCCACTATAAAACGAT
* *
38065695 ATAATGCAATTGATTTACAAAGCTTCCATTATAAAACG
1 AGAATGCAATTGATTTACAAAGCTTCCACTATAAAACG
38065733 TTATCTTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (40 bp):
AGAATGCAATTGATTTACAAAGCTTCCACTATAAAACGAT
Found at i:38075431 original size:47 final size:49
Alignment explanation
Indices: 38075358--38075486 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 49
38075348 ATTCGTGTGT
* * *
38075358 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCAT-A-TTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CATGAGATATGA
38075404 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATGAGATATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATGAGATATGA
*
38075453 -A-CCAGTGTAAGACCGTGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
38075487 GCACCTTACC
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
46 13 0.17
47 48 0.64
48 9 0.12
49 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATGAGATATGA
Found at i:38076191 original size:45 final size:45
Alignment explanation
Indices: 38076141--38076230 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
38076131 GTAAGAGTGG
38076141 CAATGGGGCTTGGTAAATAGCCTTATATTGTCCACACGAGTAGGC
1 CAATGGGGCTTGGTAAATAGCCTTATATTGTCCACACGAGTAGGC
38076186 CAATGGGGCTTGGTAAATAGCCTTATATTGTCCACACGAGTAGGC
1 CAATGGGGCTTGGTAAATAGCCTTATATTGTCCACACGAGTAGGC
38076231 ACACGGGCGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (45 bp):
CAATGGGGCTTGGTAAATAGCCTTATATTGTCCACACGAGTAGGC
Found at i:38076710 original size:21 final size:22
Alignment explanation
Indices: 38076671--38076711 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
38076661 TTGGAATGCT
38076671 CACACGGCCGTGTTGCCCCTCC
1 CACACGGCCGTGTTGCCCCTCC
38076693 CACACAGG-CGTG-TGCCCCT
1 CACAC-GGCCGTGTTGCCCCT
38076712 GTGCCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.12, C:0.46, G:0.24, T:0.17
Consensus pattern (22 bp):
CACACGGCCGTGTTGCCCCTCC
Found at i:38083341 original size:42 final size:43
Alignment explanation
Indices: 38083283--38083394 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 43
38083273 TGATTTAAGC
* * *
38083283 GTAAGACCAC-GTCTGGGACATTGGCATC-TTATTTGATTTCGT
1 GTAAGACC-CTGTCTGGGACATTGGCATCGATATTTGATTACAT
*
38083325 GTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACAT
1 GTAAGACCCTGTCTGGGACATTGGCATCGATATTTGATTACAT
*
38083368 GTAAGACCATGTCTGGGACATTGGCAT
1 GTAAGACCCTGTCTGGGACATTGGCAT
38083395 TGTACGAGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 25 0.40
43 36 0.58
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
GTAAGACCCTGTCTGGGACATTGGCATCGATATTTGATTACAT
Found at i:38085522 original size:43 final size:43
Alignment explanation
Indices: 38085467--38085621 Score: 190
Period size: 43 Copynumber: 3.7 Consensus size: 43
38085457 ATATTGTACA
*
38085467 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
38085510 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
38085551 ATGCTAATGTCCCAGACATGGTCTTACATGTAATCGCACATTG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
*
38085594 ATGCCAACGTTCCAGACATGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
38085622 CGAGAACACA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 26 0.28
42 17 0.18
43 50 0.54
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:38086239 original size:15 final size:15
Alignment explanation
Indices: 38086215--38086246 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38086205 ATCAAAAATT
38086215 TCAATACAAAACATA
1 TCAATACAAAACATA
*
38086230 TCAATCCAAAACATA
1 TCAATACAAAACATA
38086245 TC
1 TC
38086247 TTTCATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (15 bp):
TCAATACAAAACATA
Found at i:38088217 original size:47 final size:47
Alignment explanation
Indices: 38088147--38088275 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
38088137 CACAATCAAT
* * * *
38088147 AAGTACCTATATCATGGCTCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * * *
38088194 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGATAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * *
38088241 AAATACCTATACCATGGCCCGTAGCGAAATTAAGG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGG
38088276 CATTTACTCG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:38101721 original size:29 final size:29
Alignment explanation
Indices: 38101658--38101725 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
38101648 TAATCAACCG
38101658 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38101687 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38101716 CGCACACTTA
1 CGCACACTTA
38101726 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38101837 original size:174 final size:174
Alignment explanation
Indices: 38101547--38101874 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
38101537 AACTCAAGGT
* *
38101547 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
38101612 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
38101677 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
38101721 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
38101786 GAAAATATATATTGGGTTCGCACACATAGTGCTTAGTAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
38101851 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
38101875 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:38101866 original size:29 final size:30
Alignment explanation
Indices: 38101827--38101905 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
38101817 CTTAGTAATC
38101827 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
38101857 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
*
38101886 AACCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38101906 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:38108916 original size:47 final size:47
Alignment explanation
Indices: 38108853--38109102 Score: 392
Period size: 47 Copynumber: 5.3 Consensus size: 47
38108843 TGAATGTATA
*
38108853 TATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38108900 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38108947 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38108994 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
38109041 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38109088 TATAAATGTGATAAG
1 TATATATGTGATAAG
38109103 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 188 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:38111604 original size:40 final size:40
Alignment explanation
Indices: 38111325--38111597 Score: 397
Period size: 40 Copynumber: 6.8 Consensus size: 40
38111315 AGGTCTCGAC
38111325 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
38111364 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTTGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
38111404 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
38111444 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGC
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
38111484 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
38111524 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * *
38111564 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCAT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCAT
38111598 ACTGGTGACG
Statistics
Matches: 212, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.02
40 205 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:38114977 original size:47 final size:47
Alignment explanation
Indices: 38114914--38115162 Score: 383
Period size: 47 Copynumber: 5.3 Consensus size: 47
38114904 TGAATGTATA
*
38114914 TATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38114961 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38115008 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38115055 TATATATGTGATGAGGCCTAATGG-CGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
38115101 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
38115148 TATAAATGTGATAAG
1 TATATATGTGATAAG
38115163 TCCCGAAGGG
Statistics
Matches: 186, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 41 0.22
47 145 0.78
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:38115027 original size:94 final size:93
Alignment explanation
Indices: 38114914--38115162 Score: 381
Period size: 93 Copynumber: 2.7 Consensus size: 93
38114904 TGAATGTATA
*
38114914 TATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
38114979 TAATAGCCGATGTGATGAATGTGAAAGTG
66 TAAT-GCCGATGTGATGAATGTGAAAGTG
* *
38115008 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
38115073 TAATGGCGATGTGATGAATGTGAAAGTG
66 TAATGCCGATGTGATGAATGTGAAAGTG
* * * * * * * *
38115101 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38115163 TCCCGAAGGG
Statistics
Matches: 141, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 75 0.53
94 66 0.47
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (93 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGCCGATGTGATGAATGTGAAAGTG
Found at i:38116795 original size:46 final size:48
Alignment explanation
Indices: 38116745--38116978 Score: 193
Period size: 49 Copynumber: 4.9 Consensus size: 48
38116735 GCATCGACCT
*
38116745 CGAGATGTAAGCCAGTGTAAGA-CATATCTGGGACAT-GCATCGGCTA
1 CGAGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
* *
38116791 CGAGATGT--GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGC-A
1 CGAGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
* * * *
38116836 CGGATATGTGAGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCAGCCT-
1 C-GAGATGT-A-AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTA
* * * *
38116887 C-A-ATTTCAATAGTCAGTGTAAGACCATGTCTGGGACTTGGCATCGACT-
1 CGAGATGT--A-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
* *
38116935 TGATGGATG--AGCCAGTGTAAGAACATGTCTGGGACATGGCATCG
1 CGA--GATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
38116979 ACACTATACC
Statistics
Matches: 152, Mismatches: 22, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.07
45 15 0.10
46 21 0.14
47 32 0.21
48 6 0.04
49 33 0.22
50 29 0.19
51 3 0.02
52 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
CGAGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
Found at i:38116974 original size:96 final size:98
Alignment explanation
Indices: 38116799--38116977 Score: 249
Period size: 96 Copynumber: 1.8 Consensus size: 98
38116789 TACGAGATGT
* *
38116799 GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCACGGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCACGGA-ATGTGAGAGCCAGTGTAAGAACA
*
38116864 TGTCTTGGACATGGCATCAGCCTCAATTTCAATA
65 TGTCTGGGACATGGCATCAGCCTCAATTTCAATA
* * *
38116898 GTCAGTGTAAGACCATGTCTGGGACTTGGCATC-G-ACTTG-ATG-GATGAGCCAGTGTAAGAAC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCAC-GGAATGTGA-GAGCCAGTGTAAGAAC
38116959 ATGTCTGGGACATGGCATC
64 ATGTCTGGGACATGGCATC
38116978 GACACTATAC
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
95 2 0.03
96 35 0.49
97 2 0.03
98 2 0.03
99 31 0.43
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (98 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCACGGAATGTGAGAGCCAGTGTAAGAACAT
GTCTGGGACATGGCATCAGCCTCAATTTCAATA
Found at i:38120196 original size:38 final size:38
Alignment explanation
Indices: 38120135--38120253 Score: 132
Period size: 38 Copynumber: 3.1 Consensus size: 38
38120125 ATTTGATGTG
* * * *
38120135 TATCCGGGCTTAAAGACCAGCAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTATGTGCTGGTATTA
* * * *
38120175 TATCTGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTT
1 TATCCGGGTTAAATCCCGCAGGCTATGTGCTGGTATTA
38120213 TATCCGGGTTAAATCCCGCAGGCCTA-GTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGG-CTATGTGCTGGTATTA
38120251 TAT
1 TAT
38120254 TTGAGTTTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 52 0.79
39 7 0.11
40 7 0.11
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTATGTGCTGGTATTA
Found at i:38122082 original size:29 final size:28
Alignment explanation
Indices: 38122049--38122205 Score: 86
Period size: 29 Copynumber: 5.5 Consensus size: 28
38122039 ATGATTAGAG
38122049 GCACTGTGTGTGCAAATTCCTTTAACTGA
1 GCACTGTGTGTGCAAATT-CTTTAACTGA
* ** **
38122078 GCACTATGTGTGTG-AGA-TCGGTAGTTGA
1 GCAC--TGTGTGTGCAAATTCTTTAACTGA
* *
38122106 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTGTGTGTGCAAATT-CTTTAACTGA
* * ** *
38122136 GCACTATGTGTGCGAGA-TCGATAATTGA
1 GCACTGTGTGTGC-AAATTCTTTAACTGA
* * *
38122164 GGCACTGTGTGTGCGAGTTCTTTAACCGA
1 -GCACTGTGTGTGCAAATTCTTTAACTGA
*
38122193 GCACTATGTGTGC
1 GCACTGTGTGTGC
38122206 GAGATCGATC
Statistics
Matches: 91, Mismatches: 28, Indels: 19
0.66 0.20 0.14
Matches are distributed among these distances:
27 8 0.09
28 25 0.27
29 42 0.46
30 8 0.09
31 8 0.09
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTGTGTGTGCAAATTCTTTAACTGA
Found at i:38122117 original size:58 final size:58
Alignment explanation
Indices: 38122022--38122214 Score: 279
Period size: 58 Copynumber: 3.4 Consensus size: 58
38122012 GAATGAATAT
* * * *
38122022 GAGCATTATGTGTGCGA-AT-GAT--TAGAGGCACTGTGTGTGCAAATTCCTTTAACT
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
* * *
38122076 GAGCACTATGTGTGTGAGATCGGTAGTTGAGGCACTGTGTGTGCGAATTCCTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
*
38122134 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAGTT-CTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
38122191 GAGCACTATGTGTGCGAGATCGAT
1 GAGCACTATGTGTGCGAGATCGAT
38122215 CAGTGGGCAC
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
54 15 0.12
55 2 0.02
56 2 0.02
57 32 0.26
58 74 0.59
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (58 bp):
GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
Found at i:38122224 original size:28 final size:28
Alignment explanation
Indices: 38122071--38122232 Score: 101
Period size: 29 Copynumber: 5.7 Consensus size: 28
38122061 CAAATTCCTT
* * *
38122071 TAACTGAGCACTATGTGTGTGAGATCGG
1 TAACTGGGCACTATGTGTGCGAGATCGA
** * **
38122099 TAGTTGAGGCACTGTGTGTGCGA-ATTCCTT
1 TAACTG-GGCACTATGTGTGCGAGA-T-CGA
* *
38122129 TAACCGAGCACTATGTGTGCGAGATCGA
1 TAACTGGGCACTATGTGTGCGAGATCGA
* * * **
38122157 TAATTGAGGCACTGTGTGTGCGAGTTCTT
1 TAACTG-GGCACTATGTGTGCGAGATCGA
* *
38122186 TAACCGAGCACTATGTGTGCGAGATCGA
1 TAACTGGGCACTATGTGTGCGAGATCGA
* * *
38122214 TCAGTGGGCACTAAGTGTG
1 TAACTGGGCACTATGTGTG
38122233 TGAAATGAGA
Statistics
Matches: 96, Mismatches: 33, Indels: 10
0.69 0.24 0.07
Matches are distributed among these distances:
28 41 0.43
29 50 0.52
30 5 0.05
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
TAACTGGGCACTATGTGTGCGAGATCGA
Found at i:38124533 original size:41 final size:40
Alignment explanation
Indices: 38124480--38124649 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 40
38124470 AGTCCGACTC
* *
38124480 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGA
* * *
38124519 TTAGACTACTGGCTC-GAAGACCCTTCAAAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAG-CCCTTCGAAACCAAGCT-CGGA
* *
38124559 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAAACCAAGCTCGG--A
* *
38124604 TTAG-CACTGGCTCAAAAGCCCTTTGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGA
38124643 TTTAGAC
1 -TTAGAC
38124650 CCTGATTAGC
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 5 0.05
40 20 0.19
41 47 0.44
42 17 0.16
43 13 0.12
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGA
Found at i:38139620 original size:10 final size:10
Alignment explanation
Indices: 38139604--38139660 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
38139594 TCAACCTGAC
38139604 CAGCTCAATT
1 CAGCTCAATT
* *
38139614 GAGCTCATTT
1 CAGCTCAATT
38139624 CAGCTCAA-T
1 CAGCTCAATT
38139633 CGAGCTC-ATT
1 C-AGCTCAATT
*
38139643 TAGCTACAATT
1 CAGCT-CAATT
38139654 CAGCTCA
1 CAGCTCA
38139661 TTATTTTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 7 0.19
10 23 0.62
11 7 0.19
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:38139629 original size:20 final size:20
Alignment explanation
Indices: 38139604--38139662 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
38139594 TCAACCTGAC
38139604 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
38139624 CAGCTCAATCGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
38139644 -AGCTACAATTCAGCTCATT
1 CAGCT-CAATTGAGCTCATT
38139663 ATTTTATGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:38141015 original size:10 final size:11
Alignment explanation
Indices: 38140993--38141027 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
38140983 AAAAAAATCG
38140993 AAATTCAAAAA
1 AAATTCAAAAA
38141004 AAATTCAAAAA
1 AAATTCAAAAA
* *
38141015 AAAGTGAAAAA
1 AAATTCAAAAA
38141026 AA
1 AA
38141028 TCGAGCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:38141038 original size:25 final size:26
Alignment explanation
Indices: 38141010--38141084 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
38141000 AAAAAAATTC
38141010 AAAAAA-AAGTGAAAAAAA-TCGAGCA
1 AAAAAACAAGTGAAAAAAAGT-GAGCA
* *
38141035 AAAAAAGAA-AGAAAAAAAGTGAGCA
1 AAAAAACAAGTGAAAAAAAGTGAGCA
*
38141060 AAAAAATCAAGTTAAAAAAAAGTGA
1 AAAAAA-CAAG-TGAAAAAAAGTGA
38141085 AAAGTCTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 25 0.61
26 5 0.12
28 11 0.27
ACGTcount: A:0.69, C:0.05, G:0.16, T:0.09
Consensus pattern (26 bp):
AAAAAACAAGTGAAAAAAAGTGAGCA
Found at i:38141977 original size:18 final size:18
Alignment explanation
Indices: 38141956--38141990 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38141946 AGAAAAGAAA
38141956 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
38141974 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
38141991 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:38144025 original size:10 final size:10
Alignment explanation
Indices: 38144009--38144066 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
38143999 CAACTCCGAC
38144009 CAGCTCAATT
1 CAGCTCAATT
* *
38144019 GAGCTCATTT
1 CAGCTCAATT
38144029 CAGCTCAA-T
1 CAGCTCAATT
38144038 CGAGCTCAATT
1 C-AGCTCAATT
*
38144049 TAGCTACAATT
1 CAGCT-CAATT
38144060 CAGCTCA
1 CAGCTCA
38144067 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:38144032 original size:20 final size:20
Alignment explanation
Indices: 38144009--38144069 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
38143999 CAACTCCGAC
38144009 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
38144029 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
38144050 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
38144070 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:38145991 original size:20 final size:20
Alignment explanation
Indices: 38145945--38145991 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38145935 AGCTTGTTTC
*
38145945 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
38145965 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38145985 CAGCTCA
1 CAGCTCA
38145992 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38147492 original size:11 final size:12
Alignment explanation
Indices: 38147476--38147509 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
38147466 ATTGGAGTAA
38147476 CAAAAAAAAA-T
1 CAAAAAAAAATT
38147487 CAAAAAAAAATT
1 CAAAAAAAAATT
38147499 CGAAAAAAAAA
1 C-AAAAAAAAA
38147510 ATTGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 2 0.10
13 9 0.43
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (12 bp):
CAAAAAAAAATT
Found at i:38147494 original size:12 final size:13
Alignment explanation
Indices: 38147477--38147511 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
38147467 TTGGAGTAAC
38147477 AAAAAAAAATC-A
1 AAAAAAAAATCGA
*
38147489 AAAAAAAATTCGA
1 AAAAAAAAATCGA
38147502 AAAAAAAAAT
1 AAAAAAAAAT
38147512 TGATTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATCGA
Found at i:38147547 original size:41 final size:42
Alignment explanation
Indices: 38147477--38147555 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
38147467 TTGGAGTAAC
*
38147477 AAAAAAAAATCAAAAAAAAATTCGAAAAAAAAAATTGATTGA
1 AAAAAAAAATCAAAAAAAAAGTCGAAAAAAAAAATTGATTGA
38147519 AAAAAAAATATTC-AAAAAAAAGT-G-AAAAAAAAATTGA
1 AAAAAAAA-A-TCAAAAAAAAAGTCGAAAAAAAAAATTGA
38147556 GCAAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
41 13 0.38
42 9 0.26
43 10 0.29
44 2 0.06
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (42 bp):
AAAAAAAAATCAAAAAAAAAGTCGAAAAAAAAAATTGATTGA
Found at i:38147561 original size:15 final size:16
Alignment explanation
Indices: 38147543--38147580 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38147533 AAAAAAAGTG
* *
38147543 AAAAAAAAA-TTGAGC
1 AAAAAAAAAGGTGACC
38147558 AAAAAAAAAGGTGACC
1 AAAAAAAAAGGTGACC
38147574 AAAAAAA
1 AAAAAAA
38147581 TCAAGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.71, C:0.08, G:0.13, T:0.08
Consensus pattern (16 bp):
AAAAAAAAAGGTGACC
Found at i:38147563 original size:41 final size:42
Alignment explanation
Indices: 38147477--38147566 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 42
38147467 TTGGAGTAAC
*
38147477 AAAAAAAAATCAAAAAAAAATTCGAAAAAAAAAATTGATTG-AA
1 AAAAAAAAATCAAAAAAAAAGTCGAAAAAAAAAATTGA--GCAA
*
38147520 AAAAAAATATTC-AAAAAAAAGT-G-AAAAAAAAATTGAGCAA
1 AAAAAAA-AATCAAAAAAAAAGTCGAAAAAAAAAATTGAGCAA
38147560 AAAAAAA
1 AAAAAAA
38147567 GGTGACCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
39 1 0.02
40 9 0.21
41 13 0.30
42 1 0.02
43 16 0.37
44 3 0.07
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (42 bp):
AAAAAAAAATCAAAAAAAAAGTCGAAAAAAAAAATTGAGCAA
Found at i:38147579 original size:57 final size:56
Alignment explanation
Indices: 38147476--38147603 Score: 127
Period size: 55 Copynumber: 2.3 Consensus size: 56
38147466 ATTGGAGTAA
* * * ** *
38147476 CAAAAAAAAATCAAAAAAAAATTCGAAAAAAAAAATTGATTGAAAAAAA-AATATT
1 CAAAAAAAAGTGAAAAAAAAATTCGAAAAAAAAAAGTGATCCAAAAAAATAAAATT
* *
38147531 CAAAAAAAAGTGAAAAAAAAATT-GAGCAAAAAAAAAGGTGA-CCAAAAAAATCAAGTT
1 CAAAAAAAAGTGAAAAAAAAATTCGA--AAAAAAAAA-GTGATCCAAAAAAATAAAATT
*
38147588 AAAAAAAAAGTGAAAA
1 CAAAAAAAAGTGAAAA
38147604 GTCTTGCGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
54 2 0.03
55 21 0.35
56 16 0.27
57 21 0.35
ACGTcount: A:0.70, C:0.06, G:0.10, T:0.14
Consensus pattern (56 bp):
CAAAAAAAAGTGAAAAAAAAATTCGAAAAAAAAAAGTGATCCAAAAAAATAAAATT
Found at i:38148450 original size:17 final size:17
Alignment explanation
Indices: 38148430--38148470 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
38148420 CAAAAAAGCG
38148430 AGAGAAAAA-GAAAATGA
1 AGAGAAAAATGAAAA-GA
38148447 AGAGAAAAATGAAAAGA
1 AGAGAAAAATGAAAAGA
38148464 A-AGAAAA
1 AGAGAAAA
38148471 GACAATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (17 bp):
AGAGAAAAATGAAAAGA
Found at i:38150051 original size:20 final size:20
Alignment explanation
Indices: 38150005--38150051 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38149995 TAGCTGTTTC
*
38150005 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
38150025 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38150045 CAGCTCA
1 CAGCTCA
38150052 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38156587 original size:12 final size:13
Alignment explanation
Indices: 38156570--38156602 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
38156560 TTGTAGATTC
38156570 AAAAAAAATCGA-
1 AAAAAAAATCGAG
38156582 AAAAAAAATCGAG
1 AAAAAAAATCGAG
38156595 AAAAAAAA
1 AAAAAAAA
38156603 ATTGCATACG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAAAATCGAG
Found at i:38163148 original size:49 final size:49
Alignment explanation
Indices: 38163091--38163184 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
38163081 AGGAGGGGAA
38163091 TGATGTGAGCTTGCCTACGAACCAAATGCAGAACGAACAAGAAGCCATT
1 TGATGTGAGCTTGCCTACGAACCAAATGCAGAACGAACAAGAAGCCATT
*
38163140 TGATGTGAGCTTGCCTACGAACCAAATGGAGAACGAACAAGAAGC
1 TGATGTGAGCTTGCCTACGAACCAAATGCAGAACGAACAAGAAGC
38163185 TATTAAGCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (49 bp):
TGATGTGAGCTTGCCTACGAACCAAATGCAGAACGAACAAGAAGCCATT
Found at i:38165204 original size:24 final size:25
Alignment explanation
Indices: 38165177--38165230 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
38165167 GATGAGTGAT
* *
38165177 AAAAAAGAGA-GAGTGATTTAAAA-G
1 AAAAAAGAAACGAGTGA-TGAAAATG
38165201 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATGAAAATG
38165225 AAAAAA
1 AAAAAA
38165231 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.22, T:0.13
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATGAAAATG
Found at i:38173770 original size:21 final size:21
Alignment explanation
Indices: 38173725--38173787 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
38173715 TTTGAACCAT
* *
38173725 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
38173747 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
38173768 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
38173788 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:38174697 original size:30 final size:30
Alignment explanation
Indices: 38174611--38174698 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
38174601 CTAGCTTATA
38174611 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * * *
38174641 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTTAGCTCACGAGCTAAACCTTAGCTCAAC
*
38174671 TTTAGCTCACGAGCTAAAACTTAGCTCA
1 TTTAGCTCACGAGCTAAACCTTAGCTCA
38174699 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
TTTAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:38176427 original size:10 final size:11
Alignment explanation
Indices: 38176411--38176465 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
38176401 GAAATTCAGA
38176411 AAAAAAAATTC-
1 AAAAAAAA-TCG
38176422 AAAAAAAATCG
1 AAAAAAAATCG
*
38176433 AAAAAAAA-GG
1 AAAAAAAATCG
38176443 AAAAAAAAGT-G
1 AAAAAAAA-TCG
*
38176454 ACAAAAAATCG
1 AAAAAAAATCG
38176465 A
1 A
38176466 GTTAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 12 0.32
11 26 0.68
ACGTcount: A:0.73, C:0.07, G:0.11, T:0.09
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:38177429 original size:37 final size:37
Alignment explanation
Indices: 38177378--38177448 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
38177368 CATTCTTGTA
38177378 AAGAGAAAATAAAGAAAA-GAAAAGAAAAAGAAAAAGT
1 AAGAGAAAATAAAGAAAATG-AAAGAAAAAGAAAAAGT
*
38177415 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AATAAAGAAAATGAAAGAAAAAGAAAA
38177449 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (37 bp):
AAGAGAAAATAAAGAAAATGAAAGAAAAAGAAAAAGT
Found at i:38177448 original size:6 final size:6
Alignment explanation
Indices: 38177388--38177437 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
38177378 AAGAGAAAAT
*
38177388 AAAG-A AAAG-A AAAGAA AAAGAA AAAGTAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
38177437 A
1 A
38177438 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (6 bp):
AAAGAA
Found at i:38177448 original size:21 final size:23
Alignment explanation
Indices: 38177392--38177450 Score: 59
Period size: 27 Copynumber: 2.5 Consensus size: 23
38177382 GAAAATAAAG
38177392 AAAAGAAAAGAAAAAGAAAAAGTA
1 AAAAGAAAAGAAAAAG-AAAAGTA
*
38177416 AGAGAAGAAAAAGAAAATG-AAA-TA
1 A-A-AAG-AAAAGAAAAAGAAAAGTA
38177440 AAAAGAAAAGA
1 AAAAGAAAAGA
38177451 GAGGCAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
21 6 0.19
22 3 0.10
23 1 0.03
24 4 0.13
25 4 0.13
26 3 0.10
27 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (23 bp):
AAAAGAAAAGAAAAAGAAAAGTA
Found at i:38177530 original size:11 final size:12
Alignment explanation
Indices: 38177498--38177528 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38177488 TTGAGAGAAC
38177498 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38177510 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38177522 TTGAAAA
1 TTGAAAA
38177529 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:38179417 original size:12 final size:12
Alignment explanation
Indices: 38179402--38179432 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38179392 TTCTTTTTGC
38179402 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38179414 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38179426 TTTTCAA
1 TTTTCAA
38179433 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:38179506 original size:21 final size:22
Alignment explanation
Indices: 38179480--38179538 Score: 57
Period size: 27 Copynumber: 2.5 Consensus size: 22
38179470 CTCTTGCCTC
38179480 TCTTTTCTTTTTA-TTTCATTT
1 TCTTTTCTTTTTATTTTCATTT
*
38179501 TCTTTTTCTTCTCTTACTTTTTCTTTT
1 TC-TTTTCTT-T-TTA--TTTTCATTT
38179528 TCTTTTCTTTT
1 TCTTTTCTTTT
38179539 CTTTATTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
21 2 0.06
22 7 0.23
23 1 0.03
24 4 0.13
25 1 0.03
26 7 0.23
27 9 0.29
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (22 bp):
TCTTTTCTTTTTATTTTCATTT
Found at i:38179509 original size:6 final size:6
Alignment explanation
Indices: 38179493--38179542 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
38179483 TTTCTTTTTA
*
38179493 TTTCAT TTTCTT TTTCTT CTCTTACTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
38179542 T
1 T
38179543 ATTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTCTT
Done.