Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 8 of 187
Found at i:1876264 original size:18 final size:18
Alignment explanation
Indices: 1876230--1876264 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1876220 TGTAGAAATG
*
1876230 GTATCGATGTTTATTTAA
1 GTATCGATATTTATTTAA
*
1876248 GTATCGATATTTTTTTA
1 GTATCGATATTTATTTA
1876265 TTGATACCAG
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:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (18 bp):
GTATCGATATTTATTTAA
Found at i:1880049 original size:24 final size:24
Alignment explanation
Indices: 1880006--1880052 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1879996 CCATCTGCTT
*
1880006 CTGATATGTATGATATGAGATGAA
1 CTGATATGAATGATATGAGATGAA
1880030 CTGATATGAAGTGATA-GAGATGA
1 CTGATATGAA-TGATATGAGATGA
1880053 GGAGATACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (24 bp):
CTGATATGAATGATATGAGATGAA
Found at i:1882017 original size:33 final size:33
Alignment explanation
Indices: 1881944--1882020 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
1881934 GCTAATGTGC
* *
1881944 TTGATTTCCAACAGCAGATACAATGACAAATTG
1 TTGATTTCCAACAGCAAATACAATGACAAATCG
* *
1881977 TTAATTTCCAACAGCAAATACAATGGCAAACTCG
1 TTGATTTCCAACAGCAAATACAATGACAAA-TCG
1882011 -TGATTTCCAA
1 TTGATTTCCAA
1882021 AAGGAAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 36 0.95
34 2 0.05
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (33 bp):
TTGATTTCCAACAGCAAATACAATGACAAATCG
Found at i:1887134 original size:23 final size:23
Alignment explanation
Indices: 1887108--1887183 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
1887098 AGTGTTATTG
1887108 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
1887131 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
1887154 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
1887177 ATCAGTG
1 ATCAGTG
1887184 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:1887355 original size:38 final size:37
Alignment explanation
Indices: 1887313--1887385 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
1887303 ATGTGTGGAA
* *
1887313 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
1887351 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1887386 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:1893247 original size:27 final size:27
Alignment explanation
Indices: 1893209--1893336 Score: 161
Period size: 27 Copynumber: 4.7 Consensus size: 27
1893199 GTGAGGTCAA
*
1893209 TAAAATAATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCTATAGGG
*
1893236 TAAAATGATCGAAATACCCTTATAGGG
1 TAAAATGATCGAAATACCCCTATAGGG
* * *
1893263 TAAAATAACCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCTATAGGG
*
1893290 TAAAATGAGT-GAAATA-CCCTGATATGG
1 TAAAATGA-TCGAAATACCCCT-ATAGGG
*
1893317 TAAAATGACCGAAATACCCC
1 TAAAATGATCGAAATACCCC
1893337 CATAAGTTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
26 3 0.03
27 80 0.93
28 3 0.03
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCTATAGGG
Found at i:1893291 original size:54 final size:54
Alignment explanation
Indices: 1893209--1893349 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
1893199 GTGAGGTCAA
* * *
1893209 TAAAATAATCGAAATACCCCTATAGGGTAAAATGA-TCGAAATACCCTTATAGGG
1 TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGT-GAAATACCCTGATAGGG
*
1893263 TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGTGAAATACCCTGATATGG
1 TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGTGAAATACCCTGATAGGG
* * *
1893317 TAAAATGACCGAAATACCCCCATAAGTTAAAAT
1 TAAAATAACCGAAATACCCCCATAGGGTAAAAT
1893350 AACTGTTATA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 78 0.99
55 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (54 bp):
TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGTGAAATACCCTGATAGGG
Found at i:1893560 original size:26 final size:26
Alignment explanation
Indices: 1893507--1893561 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
1893497 TCTGGCACAT
* *
1893507 ATACTGTTACTGGCAGCTTTGTTACG
1 ATACTGATACTGGCAGCTTTGCTACG
*
1893533 ATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTACG
1893559 ATA
1 ATA
1893562 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTACG
Found at i:1900652 original size:27 final size:28
Alignment explanation
Indices: 1900614--1900678 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
1900604 TGAGGTTAAT
*
1900614 AAAATGACTGAAATATCCC-T-ATAGGGC
1 AAAATGATTGAAATA-CCCTTCATAGGGC
*
1900641 AAAATGATTGAAATACCCTTCATAGGGT
1 AAAATGATTGAAATACCCTTCATAGGGC
1900669 AAAATGATTG
1 AAAATGATTG
1900679 TTATACCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.09
27 15 0.44
28 16 0.47
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (28 bp):
AAAATGATTGAAATACCCTTCATAGGGC
Found at i:1901067 original size:33 final size:34
Alignment explanation
Indices: 1901002--1901072 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
1900992 GCATTATTAC
* * * *
1901002 ACTGTTACTGTATTGGGCTAAGGCCTACACTG-T
1 ACTGATACTGAATAGGGCTAAGGCCCACACTGTT
* *
1901035 ACTGATACTGAATAGGGCTCAGGCCCAGACTGTT
1 ACTGATACTGAATAGGGCTAAGGCCCACACTGTT
1901069 ACTG
1 ACTG
1901073 CATGTTGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGATACTGAATAGGGCTAAGGCCCACACTGTT
Found at i:1907845 original size:6 final size:6
Alignment explanation
Indices: 1907834--1907893 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
1907824 GCAACCCAAA
* *
1907834 TTTATT TTTATT TTTATT TTT-TA TATA-T TTTATT TTTATT TTCTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT
1907881 TTTA-T TTTATT TT
1 TTTATT TTTATT TT
1907894 ATTGCATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 11 0.24
6 29 0.63
7 6 0.13
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:1907856 original size:13 final size:13
Alignment explanation
Indices: 1907834--1907888 Score: 67
Period size: 13 Copynumber: 4.1 Consensus size: 13
1907824 GCAACCCAAA
1907834 TTTATTTTTA-TT
1 TTTATTTTTATTT
1907846 TTTATTTTTTATATAT
1 TTTA-TTTTTAT-T-T
1907862 TTTATTTTTATTT
1 TTTATTTTTATTT
*
1907875 TCTATTTTTATTT
1 TTTATTTTTATTT
1907888 T
1 T
1907889 ATTTTATTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 4 0.11
13 20 0.53
14 1 0.03
15 8 0.21
16 5 0.13
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:1907866 original size:22 final size:24
Alignment explanation
Indices: 1907839--1907893 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 24
1907829 CCAAATTTAT
1907839 TTTTATTTTTATTTT-T-TATATA
1 TTTTATTTTTATTTTCTATATATA
* *
1907861 TTTTATTTTTATTTTCTATTTTTA
1 TTTTATTTTTATTTTCTATATATA
1907885 TTTTATTTT
1 TTTTATTTT
1907894 ATTGCATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 15 0.52
23 1 0.03
24 13 0.45
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTATTTTCTATATATA
Found at i:1907872 original size:28 final size:29
Alignment explanation
Indices: 1907834--1907896 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
1907824 GCAACCCAAA
1907834 TTTATTTTTATTTT-TATTTTT-TATATAT
1 TTTATTTTTATTTTCTATTTTTAT-TATAT
*
1907862 TTTATTTTTATTTTCTATTTTTATTTTAT
1 TTTATTTTTATTTTCTATTTTTATTATAT
1907891 TTTATT
1 TTTATT
1907897 GCATGTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 14 0.44
29 17 0.53
30 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTATTTTTATTTTCTATTTTTATTATAT
Found at i:1910608 original size:19 final size:20
Alignment explanation
Indices: 1910586--1910624 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1910576 TCTTAATTTT
*
1910586 ATTTC-TTTTTACAATTTCG
1 ATTTCATTTATACAATTTCG
1910605 ATTTCAATTTATACAATTTC
1 ATTTC-ATTTATACAATTTC
1910625 AACCCCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTCATTTATACAATTTCG
Found at i:1915928 original size:4 final size:4
Alignment explanation
Indices: 1915919--1915949 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
1915909 TTCAAACTTC
1915919 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
1915950 CAGAAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:1920422 original size:100 final size:100
Alignment explanation
Indices: 1920249--1920452 Score: 390
Period size: 100 Copynumber: 2.0 Consensus size: 100
1920239 AAGAAAAGGG
*
1920249 TTTTTGAGGTTTCATTCTGAAATAAAAATCCAAGAAAAAAGCAAAGAAACACAAAGGTTTTCCTA
1 TTTTTGAGGTTTCATTCTGAAATAAAAAGCCAAGAAAAAAGCAAAGAAACACAAAGGTTTTCCTA
1920314 GTTTTCCAACTTTATTTATCTATTCGTTTTTCTAT
66 GTTTTCCAACTTTATTTATCTATTCGTTTTTCTAT
*
1920349 TTTTTGAGGTTTCATTCTGAAATAAAAAGCCAAGAAAAACGCAAAGAAACACAAAGGTTTTCCTA
1 TTTTTGAGGTTTCATTCTGAAATAAAAAGCCAAGAAAAAAGCAAAGAAACACAAAGGTTTTCCTA
1920414 GTTTTCCAACTTTATTTATCTATTCGTTTTTCTAT
66 GTTTTCCAACTTTATTTATCTATTCGTTTTTCTAT
1920449 TTTT
1 TTTT
1920453 GATTTGTAAT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (100 bp):
TTTTTGAGGTTTCATTCTGAAATAAAAAGCCAAGAAAAAAGCAAAGAAACACAAAGGTTTTCCTA
GTTTTCCAACTTTATTTATCTATTCGTTTTTCTAT
Found at i:1921255 original size:18 final size:18
Alignment explanation
Indices: 1921234--1921282 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
1921224 CTATTATAAC
1921234 TATTTATATATATCATCT
1 TATTTATATATATCATCT
*
1921252 TATTATATATTTAT-ATCT
1 TATT-TATATATATCATCT
1921270 TA-TTATATATATC
1 TATTTATATATATC
1921283 TATATATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 1 0.04
18 10 0.37
19 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATATATATCATCT
Found at i:1921450 original size:30 final size:29
Alignment explanation
Indices: 1921415--1921471 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
1921405 TTTTATATAT
*
1921415 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
1921445 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
1921472 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:1925683 original size:11 final size:11
Alignment explanation
Indices: 1925663--1925749 Score: 72
Period size: 11 Copynumber: 7.8 Consensus size: 11
1925653 ACAATGGAGG
*
1925663 CAAAATAAAAA
1 CAAAAAAAAAA
1925674 C-AAAAAAAAA
1 CAAAAAAAAAA
1925684 CAAAAAAGAGAAA
1 CAAAAAA-A-AAA
**
1925697 -AAAAGAGCAAA
1 CAAAA-AAAAAA
*
1925708 -AAAAACAAAA
1 CAAAAAAAAAA
*
1925718 CAAAATAAAAA
1 CAAAAAAAAAA
1925729 CAAAATAAAAAA
1 CAAAA-AAAAAA
1925741 CAAAAAAAA
1 CAAAAAAAA
1925750 CTCTACCGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
10 13 0.21
11 30 0.48
12 15 0.24
13 4 0.06
ACGTcount: A:0.83, C:0.09, G:0.05, T:0.03
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:1926204 original size:17 final size:17
Alignment explanation
Indices: 1926182--1926214 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1926172 ACTTCACTTG
1926182 AAAAAAA-AAAGAGAAAT
1 AAAAAAAGAAA-AGAAAT
1926199 AAAAAAAGAAAAGAAA
1 AAAAAAAGAAAAGAAA
1926215 AGAAGAACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAAGAAAT
Found at i:1926752 original size:108 final size:108
Alignment explanation
Indices: 1926563--1926759 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
1926553 TCCCATTTTG
* *
1926563 TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGGGCTTTGCTCTCAATAAATTTCCATCT
1 TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
1926628 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCATATCT
66 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCATATCT
* * * *
1926671 TAGCAAAATTTGCTATCTTGATTGATTTATTT-GTTTAGAGTTTTTCTCTCAACAAAATTT-CAT
1 TAGCAAAATTTGCTATCTTGATTAATTT-TTTCATTTAGAGCTTTGCTCTCAA-AAAATTTCCAT
* *
1926734 CTTGTCCATTTTGATAATCTTTTTCA
64 CTTATCCATTGTGATAATCTTTTTCA
1926760 AGCGTTTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
108 70 0.89
109 9 0.11
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (108 bp):
TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCATATCT
Found at i:1927720 original size:46 final size:46
Alignment explanation
Indices: 1927652--1929037 Score: 2131
Period size: 46 Copynumber: 30.1 Consensus size: 46
1927642 ACTAGAAGCA
1927652 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* * * *
1927698 GCAGAACTTGTCTTCCTATATTTGGCAGCGGAGTAGATCGAAAATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* * * *
1927744 GTAGAACTTGCCTTCCTGTATTTGGTAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* *
1927790 GCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* * *
1927836 GTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* * *
1927882 GTAGATCTTGTCTTCCTGTATTTGGCAG-TAGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATT
*
1927928 GTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1927974 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928020 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928066 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928112 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928158 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928204 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928250 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928296 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928342 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* *
1928388 GCAGATCTTGTCTTCCTGTATTTGGCAG-TAGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATT
* * *
1928434 GTAGATCTTGTCTTCCTGTATTTGGCAG-TAGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATT
* * *
1928480 GTAGATCTTGTCTTCCTGTATTTGGCAG-TAGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATT
* * *
1928526 GTAGATCTTGTCTTCCTGTATTTGGCAG-TAGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATT
* * *
1928572 GTAGATCTTGTCTTCCTGTATTTGGCAG-TAGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATT
* *
1928618 GTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* * * *
1928664 ACAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1928710 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTA-AGTCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA-TCGAAGATT
* * * *
1928756 ACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* * *
1928802 GCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
** *
1928848 ATAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
** * * *
1928894 ATAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
* * *
1928940 GTAGATCTTGTCTTCCTGTATTTGGCAGC-AGAGCAGATCGAAGATA
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATT
* *
1928986 GCAGGTCTTATCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1 GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
1929032 GCAGAT
1 GCAGAT
1929038 TCTGTCACCC
Statistics
Matches: 1267, Mismatches: 65, Indels: 16
0.94 0.05 0.01
Matches are distributed among these distances:
45 2 0.00
46 1261 1.00
47 4 0.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (46 bp):
GCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATT
Found at i:1929308 original size:44 final size:44
Alignment explanation
Indices: 1929259--1929934 Score: 271
Period size: 44 Copynumber: 15.8 Consensus size: 44
1929249 CCATCAGTCC
* ** *
1929259 TATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCCCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACACCAGATCT
* * **
1929303 TATCTCTCTGAAGTTGCAGTAGAGCAGA-T--CGCATCCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACA-CCAGATCT
** * ** * *
1929344 TATCTCCCT-AAGCAGTAGTGGAGCAGACGAAAGAAATCA-ATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACACCAGATCT
* * *
1929387 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACACCAGATCT
* * *** *
1929431 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCA--AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACACCAGATCT
** * * ** * * *
1929472 TATCTCCCT-AAGCAGTAGTGGAGTAGACGAAAGAAATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACACCAGATCT
* * *
1929515 TATCTCTCTGAAGTTGCAATAGAGCAGATTAAAAC-CACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAC-CAGATCT
* * * *** *
1929559 TATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCA--AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACACCAGATCT
*** * * * ** * *
1929600 TATCTCCCT-AAAAAGTAATGGAGTAGACGGAAGAA-ATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACACCAGATCT
* * * *
1929643 TATCTCCCTGAAGTTACAGTGGGGCGGATTAAAACCCCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACACCAGATCT
* * * **
1929687 TATCTCTCTGAAGTTGCAATAGAGCAGA-T--CGCATCCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACA-CCAGATCT
** * * ** * * *
1929728 TATCTCCCT-AAGCAGTAGTGGAGTAGACGAAAGAAATCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACACCAGATCT
* *
1929771 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAC-CACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAC-CAGATCT
* * * * * *
1929815 TATCTCTCTTAAGTTACAGTAGAGCAGA-T--CACATCTAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACA-CCAGATCT
* * *
1929856 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ACACCAGATCT
* *
1929900 TATCTCCCTGAAGTTGCAGTGGAGCGGATGAAAAC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
1929935 CACGAATCTC
Statistics
Matches: 447, Mismatches: 144, Indels: 83
0.66 0.21 0.12
Matches are distributed among these distances:
40 51 0.11
41 77 0.17
42 16 0.04
43 69 0.15
44 231 0.52
45 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACACCAGATCT
Found at i:1929393 original size:128 final size:128
Alignment explanation
Indices: 1929251--1929937 Score: 1043
Period size: 128 Copynumber: 5.4 Consensus size: 128
1929241 TATTTAAGCC
* * * *
1929251 ATCAGTCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCCCAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
* *
1929316 TTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * *
1929379 ATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAACAAATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
1929444 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * * * *
1929507 ATCAATCCTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAACCACAGATCTTATCTCTCTAAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
** * *
1929572 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAAAAGTAATGGAGTAGACGGAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * *
1929635 ATCAATCCTATCTCCCTGAAGTTACAGTGGGGCGGATTAAAACCCCAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
* *
1929700 TTGCAATAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* *
1929763 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTTAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
* * * ** * *
1929828 TTACAGTAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AGAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGCAGTAGTGGAGTAGACGA-AAGAA
* *
1929892 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATGAAAACCAC
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
1929938 GAATCTCGTC
Statistics
Matches: 508, Mismatches: 49, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
128 445 0.88
129 63 0.12
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (128 bp):
ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
Found at i:1936870 original size:23 final size:22
Alignment explanation
Indices: 1936827--1936871 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1936817 CAATTTAATC
* *
1936827 TATATTTTTCATTTTAATATTA
1 TATATTTTTAATATTAATATTA
*
1936849 TATATATTTTAATATTATTATTA
1 TATAT-TTTTAATATTAATATTA
1936872 ATTAATTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTTTTAATATTAATATTA
Found at i:1940856 original size:14 final size:14
Alignment explanation
Indices: 1940837--1940865 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1940827 AATATAGAAA
1940837 AGCAAGTAAATTGT
1 AGCAAGTAAATTGT
1940851 AGCAAGTAAATTGT
1 AGCAAGTAAATTGT
1940865 A
1 A
1940866 CCTAAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AGCAAGTAAATTGT
Found at i:1945413 original size:6 final size:6
Alignment explanation
Indices: 1945356--1945393 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
1945346 GGTTATTGGA
1945356 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
1945394 TTGGTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.37
Consensus pattern (6 bp):
TTAGGG
Found at i:1945737 original size:90 final size:89
Alignment explanation
Indices: 1945518--1945738 Score: 243
Period size: 94 Copynumber: 2.4 Consensus size: 89
1945508 GTTTATTATT
* * *
1945518 TTTTAAGAAAAAATCAATTAAATTAGGGTTTATGGTTTCTTGAGTAATTCAATTAAAAAATTTTA
1 TTTTAAG-AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAATTCAATTAAAAAATTTTA
1945583 AAAATCAGATTAGGGTTTAAAGTTAAGAG
65 AAAATCAGATTAGGGTTT-AAG---AGAG
* * * *
1945612 TTTTATGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATT-AATTATAAATTTTT
1 TTTTA-AGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGT-AATTCAATTAAAAAATTTT
*
1945676 AAAAAAATTAGATTAGGGTTT-AG-G-G
64 --AAAAATCAGATTAGGGTTTAAGAGAG
1945701 TTTTAAGTAAAAACTCAAATAAATTAGGGTTTAGGGTT
1 TTTTAAG-AAAAA-TCAAATAAATTAGGGTTTAGGGTT
1945739 TAGGGTTACT
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
88 1 0.01
89 11 0.10
90 24 0.22
94 52 0.47
95 5 0.05
96 18 0.16
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (89 bp):
TTTTAAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAATTCAATTAAAAAATTTTAA
AAATCAGATTAGGGTTTAAGAGAG
Found at i:1946002 original size:126 final size:126
Alignment explanation
Indices: 1945771--1946188 Score: 640
Period size: 126 Copynumber: 3.3 Consensus size: 126
1945761 CTATTAATTT
* * *
1945771 AAAGAATCTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAAATAATTTCGAGTAGA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG-AAAAAATAATTTCGAGTTGA
*
1945836 CGTTTCTAAGCAAATAGTGTCAAAAACACTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
65 CGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
* * *
1945898 AAAGAAGCTCCCACCTGGACGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTTGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
* * * * *
1945963 GTTTCTGAGCAAATATTGTCAAAAACGCTTTAAGCAGGATACTTTGTCAGCAATAGTACTA
66 GTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
* *
1946024 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCTTGAAAAAATAATTTCGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
* *
1946089 GTTTCTAAGCAAATAGTGTCAAAAACGCTTCAAGTAGGATGCTTTGTCAGCAGA-AGTATTG
66 GTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCA-ATAGTACTG
* * *
1946150 AAAGAAGCTCCCACGTGGATGTGCTTTTGCTACAATAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1946189 GCATGTTTGG
Statistics
Matches: 264, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
126 223 0.84
127 41 0.16
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
Found at i:1959451 original size:53 final size:55
Alignment explanation
Indices: 1959336--1959554 Score: 253
Period size: 55 Copynumber: 4.0 Consensus size: 55
1959326 AATTAAAATT
* * * * * **
1959336 ACAATTAATTTAAATATATAAACAATCAATTTAAAATAAGTAGTATTCTAACACA
1 ACAATTGATTTAAACATATAAACAATCAATTTAAAAGAAATAGTATTCCAACATG
* *
1959391 ACAATTGATTTAAACATGTAAACAATCTA-TTAAAA-AAATAGTATTCCAACATG
1 ACAATTGATTTAAACATATAAACAATCAATTTAAAAGAAATAGTATTCCAACATG
* *
1959444 ACAATTGATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCTAACATG
1 ACAATTGATTTAAACATATAAACAATCAATTTAAAAGAAATAGTATTCCAACATG
* * * * * * * *
1959499 ACAATCGGTTTAAACATAAAAACAATCGATTCAAAAGAAATAATATTTCAGCATG
1 ACAATTGATTTAAACATATAAACAATCAATTTAAAAGAAATAGTATTCCAACATG
1959554 A
1 A
1959555 TAATCAATTA
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
53 41 0.29
54 12 0.09
55 87 0.62
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (55 bp):
ACAATTGATTTAAACATATAAACAATCAATTTAAAAGAAATAGTATTCCAACATG
Found at i:1959525 original size:108 final size:110
Alignment explanation
Indices: 1959336--1959563 Score: 289
Period size: 108 Copynumber: 2.1 Consensus size: 110
1959326 AATTAAAATT
* * ** *
1959336 ACAATTAATTTAAATATATAAACAATCAATTTAAAATAAGTAGTATTCTAACACAACAATTGATT
1 ACAATTAATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCTAACACAACAATCGATT
** * *
1959401 TAAACATGTAAACAATCTATT-AAAA-AAATAGTATTCCAACATG
66 TAAACATAAAAACAATCGATTCAAAAGAAATAATATTCCAACATG
* ** *
1959444 ACAATTGATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCTAACATGACAATCGGTT
1 ACAATTAATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCTAACACAACAATCGATT
* *
1959509 TAAACATAAAAACAATCGATTCAAAAGAAATAATATTTCAGCATG
66 TAAACATAAAAACAATCGATTCAAAAGAAATAATATTCCAACATG
* *
1959554 ATAATCAATT
1 ACAATTAATT
1959564 AAGTGCAACC
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
108 74 0.74
109 4 0.04
110 22 0.22
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (110 bp):
ACAATTAATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCTAACACAACAATCGATT
TAAACATAAAAACAATCGATTCAAAAGAAATAATATTCCAACATG
Found at i:1961168 original size:38 final size:38
Alignment explanation
Indices: 1961097--1961174 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
1961087 CATCATCCAA
* *
1961097 TCTATCCATAAAATCCCCCCACCCCCATGTTCTCTATC
1 TCTATCCATAAAAACCCCCCACCCCCATATTCTCTATC
* *
1961135 TNCTATCCA-AAAAACCCCCCCCCCCCCTATTCTCTATC
1 T-CTATCCATAAAAACCCCCCACCCCCATATTCTCTATC
1961173 TC
1 TC
1961175 AAGTCATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.03
38 27 0.77
39 7 0.20
ACGTcount: A:0.23, C:0.47, G:0.01, T:0.27
Consensus pattern (38 bp):
TCTATCCATAAAAACCCCCCACCCCCATATTCTCTATC
Found at i:1961604 original size:18 final size:17
Alignment explanation
Indices: 1961580--1961615 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1961570 CTGATGTTTT
1961580 CGGCATTCCTCATCCTA
1 CGGCATTCCTCATCCTA
*
1961597 CNGGCATTCCTCCTCCTA
1 C-GGCATTCCTCATCCTA
1961615 C
1 C
1961616 TGCTTCCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.14, C:0.44, G:0.11, T:0.28
Consensus pattern (17 bp):
CGGCATTCCTCATCCTA
Found at i:1976577 original size:12 final size:11
Alignment explanation
Indices: 1976553--1976587 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
1976543 TTTCAACAAG
1976553 TTTTCC-TTCA
1 TTTTCCTTTCA
1976563 TTTTCCTTGTCA
1 TTTTCCTT-TCA
1976575 TTTTCCTTTCA
1 TTTTCCTTTCA
1976586 TT
1 TT
1976588 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:1991099 original size:15 final size:15
Alignment explanation
Indices: 1991060--1991111 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
1991050 AACATGCATG
1991060 AATAATAATGCAAGTAAC
1 AATAATAAT--AA-TAAC
1991078 AAT-ATAATAATAAC
1 AATAATAATAATAAC
*
1991092 AATAATAACAATAAC
1 AATAATAATAATAAC
*
1991107 GATAA
1 AATAA
1991112 AGATAATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 7 0.23
15 16 0.52
17 5 0.16
18 3 0.10
ACGTcount: A:0.62, C:0.10, G:0.06, T:0.23
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:2009790 original size:15 final size:15
Alignment explanation
Indices: 2009770--2009811 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2009760 TGTAGGTATA
*
2009770 ATAATAATATATAA-T
1 ATAATAATA-AAAATT
2009785 ATAATAATAAAAATT
1 ATAATAATAAAAATT
*
2009800 ATAATAACAAAA
1 ATAATAATAAAA
2009812 TTAATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAATAAAAATT
Found at i:2009806 original size:18 final size:18
Alignment explanation
Indices: 2009766--2009806 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2009756 TATATGTAGG
*
2009766 TATAATAATAATATATAA
1 TATAATAATAATAAATAA
2009784 TATAATAATAA-AAAT--
1 TATAATAATAATAAATAA
2009799 TATAATAA
1 TATAATAA
2009807 CAAAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
17 3 0.14
18 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAATAATAATAAATAA
Found at i:2010067 original size:20 final size:22
Alignment explanation
Indices: 2010028--2010068 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
2010018 CCCTTTTTAA
*
2010028 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAATAAGAAAAAAAAT
2010050 AATCG-AAA-AAGAAAAAAAA
1 AATCGTAAATAAGAAAAAAAA
2010069 ACAGTAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AATCGTAAATAAGAAAAAAAAT
Found at i:2010287 original size:21 final size:21
Alignment explanation
Indices: 2010261--2010336 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
2010251 AATCATATCT
2010261 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
2010282 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
2010303 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
*
2010322 TCTAAGATTGTATAT
1 TCTAAGATTGCATAT
2010337 CTTCGAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 18 0.35
21 34 0.65
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:2010593 original size:44 final size:44
Alignment explanation
Indices: 2010540--2010624 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
2010530 AGGAATTCGT
2010540 GCTTCAATCTACTCCACTGCAACTTCAGG-GAGATAAGACTTATA
1 GCTTCAATCTACTCCACTGCAACTTCAGGAG-GATAAGACTTATA
* *
2010584 GCTTTAATCTGCTCCACTGCAACTTCAGGAGGATAAGACTT
1 GCTTCAATCTACTCCACTGCAACTTCAGGAGGATAAGACTT
2010625 GCTGGCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTGCAACTTCAGGAGGATAAGACTTATA
Found at i:2010767 original size:132 final size:132
Alignment explanation
Indices: 2010622--2011812 Score: 2013
Period size: 132 Copynumber: 9.0 Consensus size: 132
2010612 GAGGATAAGA
* *
2010622 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* *
2010687 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTGCTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2010752 GG
131 GG
* * *
2010754 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATTTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
*
2010819 CACTACTTCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2010884 GG
131 GG
* * *
2010886 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATTTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
*
2010951 CACTACTTCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2011016 GG
131 GG
* *
2011018 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* * *
2011083 CACTACTGCTTAGGGAGATAAGATTTACAATCTTCAGCCTACTCCGCTACTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2011148 GG
131 GG
* * * *
2011150 CTTGGTGGCTTAAATTTGCTTCCCAGTATCTTGGAAAGATAAGATTTGCCATCTTCGATCTTCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* * * *
2011215 TACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACAGCTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2011280 GG
131 GG
* **
2011282 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCCTCGATCTATTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
*
2011347 CACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2011412 GG
131 GG
* *
2011414 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
*
2011479 CACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2011544 GG
131 GG
* *
2011546 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCAATCTTCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* *
2011611 CACTACTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCTGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2011676 GG
131 GG
* *
2011678 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCCTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* * *
2011743 CACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGCTGTTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
2011808 GG
131 GG
2011810 CTT
1 CTT
2011813 AGTGTTTCAC
Statistics
Matches: 1004, Mismatches: 55, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 1004 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
GG
Found at i:2012905 original size:54 final size:54
Alignment explanation
Indices: 2012823--2012930 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
2012813 ACATGTATTT
2012823 AGGATATCTACATTACTCTATCAATGCCCCAAGATATCGCGTACCCTTTCCTGC
1 AGGATATCTACATTACTCTATCAATGCCCCAAGATATCGCGTACCCTTTCCTGC
*
2012877 AGGATATCTACATTACTCTATCAATGCCCCAAGATATCTCGTACCCTTTCCTGC
1 AGGATATCTACATTACTCTATCAATGCCCCAAGATATCGCGTACCCTTTCCTGC
2012931 TGACTAAGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (54 bp):
AGGATATCTACATTACTCTATCAATGCCCCAAGATATCGCGTACCCTTTCCTGC
Found at i:2012915 original size:30 final size:30
Alignment explanation
Indices: 2012825--2012915 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
2012815 ATGTATTTAG
2012825 GATATCTACATTACTCTATCAATGCCCCAA
1 GATATCTACATTACTCTATCAATGCCCCAA
* * * * * *
2012855 GATATC-GC-GTACCCTTTC-CTG---CAG
1 GATATCTACATTACTCTATCAATGCCCCAA
2012879 GATATCTACATTACTCTATCAATGCCCCAA
1 GATATCTACATTACTCTATCAATGCCCCAA
2012909 GATATCT
1 GATATCT
2012916 CGTACCCTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
24 8 0.19
25 1 0.02
26 7 0.16
27 4 0.09
28 7 0.16
29 1 0.02
30 15 0.35
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.31
Consensus pattern (30 bp):
GATATCTACATTACTCTATCAATGCCCCAA
Found at i:2026037 original size:21 final size:21
Alignment explanation
Indices: 2026011--2026065 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
2026001 AATCATATCT
2026011 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
2026032 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
2026051 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
2026066 CCTCGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:2026051 original size:24 final size:20
Alignment explanation
Indices: 2026002--2026053 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
2025992 ATATTACAAA
2026002 ATCATATCTTCTAAGATTGT
1 ATCATATCTTCTAAGATTGT
2026022 AT-ATATCATATCTAAGATTGCAT
1 ATCATATC-T-TCTAAGATTG--T
2026045 ATCATATCT
1 ATCATATCT
2026054 AAGATTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 10 0.37
23 4 0.15
24 5 0.19
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (20 bp):
ATCATATCTTCTAAGATTGT
Found at i:2026145 original size:20 final size:21
Alignment explanation
Indices: 2026120--2026163 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
2026110 GTATTACATT
2026120 AAAAATAATGTTTTTG-TAAA
1 AAAAATAATGTTTTTGTTAAA
*
2026140 AAAAATAATTTTTTTGTTAAA
1 AAAAATAATGTTTTTGTTAAA
2026161 AAA
1 AAA
2026164 TAAAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
AAAAATAATGTTTTTGTTAAA
Found at i:2028363 original size:3 final size:3
Alignment explanation
Indices: 2028355--2028382 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2028345 AATATTATCT
2028355 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2028383 CATAGTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2030368 original size:21 final size:17
Alignment explanation
Indices: 2030330--2030364 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2030320 CTTCAAGAAA
2030330 AAGTTAGTGAGACTGAC
1 AAGTTAGTGAGACTGAC
2030347 AAGTTAGTGAGACTGAC
1 AAGTTAGTGAGACTGAC
2030364 A
1 A
2030365 GACATGACTG
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:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (17 bp):
AAGTTAGTGAGACTGAC
Found at i:2040310 original size:69 final size:68
Alignment explanation
Indices: 2040143--2040317 Score: 190
Period size: 70 Copynumber: 2.5 Consensus size: 68
2040133 CTTTCCAAGG
* * * **
2040143 AAAATCAACTCATATTGTGAGAGATGAATTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
2040208 TTT
66 TTT
* ** * *
2040211 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
1 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT
2040276 ATGTTTT
64 -T-TTTT
** *
2040283 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
2040318 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
69 31 0.35
70 53 0.60
71 1 0.01
72 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
TTT
Found at i:2040449 original size:75 final size:74
Alignment explanation
Indices: 2040335--2040582 Score: 338
Period size: 72 Copynumber: 3.3 Consensus size: 74
2040325 TTTGTTTTTC
* **
2040335 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
2040400 GTTGTTAAAA
66 GTT-TTAAAA
2040410 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
2040475 ATTTT--CA
66 GTTTTAAAA
* * * * *
2040482 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
2040547 GTTTTCAAAAAAAA
66 GTTTT-----AAAA
2040561 AAAATCAACTCATATTGCGAGA
1 AAAATCAACTCATATTGCGAGA
2040583 GGTGGGTTGA
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
72 65 0.43
74 2 0.01
75 64 0.42
79 21 0.14
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:2040989 original size:72 final size:73
Alignment explanation
Indices: 2040869--2041051 Score: 280
Period size: 72 Copynumber: 2.5 Consensus size: 73
2040859 TTTTTGAAAG
*
2040869 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGT
*
2040934 TTTC-AAA
66 TGTCAAAA
* * *
2040941 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGT
2041006 TGTCAAAAA
66 TGTC-AAAA
*
2041015 AATCAACTCATATTGC-AAAAAGTGAGTTGAGCCTCAA
1 AATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCAA
2041052 TTCACATGTT
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
72 64 0.64
73 4 0.04
74 32 0.32
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (73 bp):
AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGT
TGTCAAAA
Found at i:2046009 original size:30 final size:29
Alignment explanation
Indices: 2045965--2046024 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
2045955 TCCGAGCCTT
*
2045965 GGGGAAAAAATGTAATTATGTAAAAATTTA
1 GGGGAAAAAATGTAATTATG-AAAAAGTTA
* * *
2045995 GGGGCAAAATTGTAATTTTGAAAAAGTTA
1 GGGGAAAAAATGTAATTATGAAAAAGTTA
2046024 G
1 G
2046025 AGTCGAGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (29 bp):
GGGGAAAAAATGTAATTATGAAAAAGTTA
Found at i:2046252 original size:13 final size:13
Alignment explanation
Indices: 2046234--2046265 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2046224 TTTCCAGCAA
2046234 TTATGAATTTATT
1 TTATGAATTTATT
2046247 TTATGAATTTATT
1 TTATGAATTTATT
*
2046260 TGATGA
1 TTATGA
2046266 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2046467 original size:229 final size:229
Alignment explanation
Indices: 2046130--2046592 Score: 917
Period size: 229 Copynumber: 2.0 Consensus size: 229
2046120 AATAAAGTTG
*
2046130 AAGACTAAGTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACGGTAAATAAATGCAAT
1 AAGAGTAAGTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACGGTAAATAAATGCAAT
2046195 ATTTCAATATTTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTTATTTTATGAATTTATT
66 ATTTCAATATTTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTTATTTTATGAATTTATT
2046260 TGATGATGATCCAAGCATGAAATGATAGAGAATTAAAATTTAAAAGTCCCGTTGATACATAAGGA
131 TGATGATGATCCAAGCATGAAATGATAGAGAATTAAAATTTAAAAGTCCCGTTGATACATAAGGA
2046325 TGGTACTGGATACGAATGTCATGACATTTGGGTA
196 TGGTACTGGATACGAATGTCATGACATTTGGGTA
2046359 AAGAGTAAGTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACGGTAAATAAATGCAAT
1 AAGAGTAAGTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACGGTAAATAAATGCAAT
2046424 ATTTCAATATTTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTTATTTTATGAATTTATT
66 ATTTCAATATTTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTTATTTTATGAATTTATT
2046489 TGATGATGATCCAAGCATGAAATGATAGAGAATTAAAATTTAAAAGTCCCGTTGATACATAAGGA
131 TGATGATGATCCAAGCATGAAATGATAGAGAATTAAAATTTAAAAGTCCCGTTGATACATAAGGA
2046554 TGGTACTGGATACGAATGTCATGACATTTGGGTA
196 TGGTACTGGATACGAATGTCATGACATTTGGGTA
2046588 AAGAG
1 AAGAG
2046593 ATCCCATGTA
Statistics
Matches: 233, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 233 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (229 bp):
AAGAGTAAGTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACGGTAAATAAATGCAAT
ATTTCAATATTTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTTATTTTATGAATTTATT
TGATGATGATCCAAGCATGAAATGATAGAGAATTAAAATTTAAAAGTCCCGTTGATACATAAGGA
TGGTACTGGATACGAATGTCATGACATTTGGGTA
Found at i:2046481 original size:13 final size:13
Alignment explanation
Indices: 2046463--2046494 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2046453 TTTCCAGCAA
2046463 TTATGAATTTATT
1 TTATGAATTTATT
2046476 TTATGAATTTATT
1 TTATGAATTTATT
*
2046489 TGATGA
1 TTATGA
2046495 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2049304 original size:15 final size:15
Alignment explanation
Indices: 2049284--2049313 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2049274 CATTTTGTAA
*
2049284 TTTTAAAATATTATT
1 TTTTAAAATAATATT
2049299 TTTTAAAATAATATT
1 TTTTAAAATAATATT
2049314 AATATTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAAATAATATT
Found at i:2049354 original size:12 final size:12
Alignment explanation
Indices: 2049309--2049336 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2049299 TTTTAAAATA
2049309 ATATTAATATTT
1 ATATTAATATTT
2049321 ATATTAATATTT
1 ATATTAATATTT
2049333 ATAT
1 ATAT
2049337 ATTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTAATATTT
Found at i:2050969 original size:21 final size:21
Alignment explanation
Indices: 2050945--2050990 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2050935 TACAAGTGAA
*
2050945 AAATAT-TATGCATAAAATAAT
1 AAATATATATACATAAAA-AAT
2050966 AAAT-TATATACATAAAAAAT
1 AAATATATATACATAAAAAAT
2050986 AAATA
1 AAATA
2050991 ATTGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATATATACATAAAAAAT
Found at i:2051008 original size:17 final size:18
Alignment explanation
Indices: 2050977--2051016 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2050967 AATTATATAC
2050977 ATAAAAAATAAATAATTG
1 ATAAAAAATAAATAATTG
*
2050995 ATAAAAAA-AGATAATTG
1 ATAAAAAATAAATAATTG
2051012 -TAAAA
1 ATAAAA
2051017 TTTATATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (18 bp):
ATAAAAAATAAATAATTG
Found at i:2055781 original size:17 final size:16
Alignment explanation
Indices: 2055751--2055789 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2055741 TTTAAAAATT
2055751 ATAA-TAAAAATATAA
1 ATAATTAAAAATATAA
*
2055766 ATCATTAAAAACTATAA
1 ATAATTAAAAA-TATAA
2055783 ATAATTA
1 ATAATTA
2055790 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 3 0.15
16 6 0.30
17 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATTAAAAATATAA
Found at i:2055855 original size:16 final size:16
Alignment explanation
Indices: 2055806--2055855 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
2055796 AATTCTAAAA
*
2055806 AAATAAAAAAAATATT
1 AAATAATAAAAATATT
2055822 -AATAATAGAAAA-ATT
1 AAATAATA-AAAATATT
*
2055837 AAATTATAAAAATATT
1 AAATAATAAAAATATT
2055853 AAA
1 AAA
2055856 AAGTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAATAATAAAAATATT
Found at i:2056074 original size:26 final size:25
Alignment explanation
Indices: 2056040--2056089 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
2056030 AATTTTAATA
* * *
2056040 AATTTTATATTTTTATAATTATTTG
1 AATTTTATAATTTTAAAAATATTTG
2056065 AATTTCTATAATTTTAAAAATATTT
1 AATTT-TATAATTTTAAAAATATTT
2056090 TATGATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
AATTTTATAATTTTAAAAATATTTG
Found at i:2059959 original size:19 final size:20
Alignment explanation
Indices: 2059931--2059968 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2059921 TAGTAAGAGG
2059931 ATTGTC-AAAAAAAATTCTA
1 ATTGTCAAAAAAAAATTCTA
*
2059950 ATTGTTAAAAAAAAATTCT
1 ATTGTCAAAAAAAAATTCT
2059969 TTAAAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTGTCAAAAAAAAATTCTA
Found at i:2060555 original size:31 final size:31
Alignment explanation
Indices: 2060515--2060618 Score: 104
Period size: 31 Copynumber: 3.3 Consensus size: 31
2060505 TTAAAACAGG
*
2060515 TGAGTTAATAATATTTTCATCATTATCTAAT
1 TGAGTTAATAATATTTTCATCATTATCCAAT
* ** * * *
2060546 TAAGTTAAT-ATCCGTTTAACTCATGA-CACAAG
1 TGAGTTAATAAT-ATTTTCA-TCATTATC-CAAT
2060578 TGAGTTAATAATATTTTCATCATTATCCAAT
1 TGAGTTAATAATATTTTCATCATTATCCAAT
2060609 TGAGTTAATA
1 TGAGTTAATA
2060619 TCCGTTTAAC
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
30 2 0.04
31 31 0.56
32 20 0.36
33 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (31 bp):
TGAGTTAATAATATTTTCATCATTATCCAAT
Found at i:2060586 original size:32 final size:32
Alignment explanation
Indices: 2060548--2060643 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 32
2060538 TATCTAATTA
*
2060548 AGTTAATATCCGTTTAACTCATGACACAAGTG
1 AGTTAATATCCGTTTAACTCATCACACAAGTG
** * * *
2060580 AGTTAATAAT-ATTTTCA-TCATTATC-CAATTG
1 AGTTAAT-ATCCGTTTAACTCATCA-CACAAGTG
*
2060611 AGTTAATATCCGTTTAACTCATCACACAGGTG
1 AGTTAATATCCGTTTAACTCATCACACAAGTG
2060643 A
1 A
2060644 TTATCTCCCA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
30 2 0.04
31 22 0.46
32 22 0.46
33 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
AGTTAATATCCGTTTAACTCATCACACAAGTG
Found at i:2060588 original size:63 final size:63
Alignment explanation
Indices: 2060514--2060643 Score: 224
Period size: 63 Copynumber: 2.1 Consensus size: 63
2060504 CTTAAAACAG
* *
2060514 GTGAGTTAATAATATTTTCATCATTATCTAATTAAGTTAATATCCGTTTAACTCATGACACAA
1 GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
* *
2060577 GTGAGTTAATAATATTTTCATCATTATCCAATTGAGTTAATATCCGTTTAACTCATCACACAG
1 GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
2060640 GTGA
1 GTGA
2060644 TTATCTCCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (63 bp):
GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
Found at i:2063284 original size:33 final size:34
Alignment explanation
Indices: 2063241--2063308 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
2063231 AGCATGTTTA
* *
2063241 TTTTTATTTTAAAAATAGG-AATTTTTTTTATTT
1 TTTTTATTTTAAAAATAGGAAACTTTTATTATTT
* *
2063274 TTTTTTTTTTAAACATAGGAAACTTTTATTATTT
1 TTTTTATTTTAAAAATAGGAAACTTTTATTATTT
2063308 T
1 T
2063309 AATTTGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 17 0.57
34 13 0.43
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (34 bp):
TTTTTATTTTAAAAATAGGAAACTTTTATTATTT
Found at i:2063610 original size:15 final size:15
Alignment explanation
Indices: 2063592--2063626 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
2063582 TTAGTCACTG
2063592 AATTTACAGTGAATT
1 AATTTACAGTGAATT
2063607 AATTTACAGTGAATT
1 AATTTACAGTGAATT
2063622 AATTT
1 AATTT
2063627 GGAAGCAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (15 bp):
AATTTACAGTGAATT
Found at i:2067020 original size:26 final size:28
Alignment explanation
Indices: 2066966--2067029 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
2066956 TAAGAATAAG
* * *
2066966 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
2066994 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
2067020 AATTATATTT
1 AATTATATTT
2067030 TAGTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:2067105 original size:17 final size:17
Alignment explanation
Indices: 2067085--2067118 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2067075 TTTATTAACA
2067085 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
2067102 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
2067119 TCTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:2067310 original size:39 final size:41
Alignment explanation
Indices: 2067265--2067370 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
2067255 TTTCCTTATG
* *
2067265 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
2067305 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
2067350 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
2067371 ACGCTTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:2067345 original size:44 final size:46
Alignment explanation
Indices: 2067282--2067372 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
2067272 ACCTCTATTC
*
2067282 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
2067326 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
2067372 C
1 C
2067373 GCTTCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:2067373 original size:16 final size:16
Alignment explanation
Indices: 2067352--2067388 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2067342 AGAATTACCT
2067352 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
2067368 ATTACGCTTCTATTCT
1 ATTACGCCTCTATTCC
2067384 ATTAC
1 ATTAC
2067389 AGCGAACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.30, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:2073601 original size:17 final size:16
Alignment explanation
Indices: 2073581--2073621 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
2073571 ATTAATGTTC
2073581 TTATTATTATAATTACA
1 TTATTATTATAATTA-A
* *
2073598 TTATTATTATATTTAT
1 TTATTATTATAATTAA
2073614 TTATTATT
1 TTATTATT
2073622 TATCATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTATTATAATTAA
Found at i:2074298 original size:42 final size:42
Alignment explanation
Indices: 2074251--2074497 Score: 280
Period size: 42 Copynumber: 5.8 Consensus size: 42
2074241 CAACCAAAAA
*
2074251 CGCCGCTAAAGAACATGATCTTTAACGGCGTTTTTTTATAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
*
2074293 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTATAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
* * *
2074335 CGCCACTAAAGAACATGATTTTTAGTGGCG-TTTTTTATTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA-TAAG
* * * * * * *
2074377 CGCAGCTAAAGAACATGTTCTTTAACGGCGCTTTGTATAAAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTATAAG
* * * * *
2074420 TGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTTTTTTACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTATAAG
* * *
2074463 CACCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
2074498 GTACAAAAAC
Statistics
Matches: 175, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.03
42 99 0.57
43 65 0.37
44 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
Found at i:2074399 original size:84 final size:84
Alignment explanation
Indices: 2074246--2074510 Score: 309
Period size: 84 Copynumber: 3.1 Consensus size: 84
2074236 GTTTACAACC
* * *
2074246 AAAAACGCCGCTAAAGAACATGATCTTTAACGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGA
1 AAAAACGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGT
*
2074311 TCTTTAGCGGCGTTTTTCT
66 TCTTTAGCGGCGTTTTTAT
* * * * *
2074330 ATAAGCGCCACTAAAGAACATGATTTTTAGTGGCG-TTTTTTATTAAGCGCAGCTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTTTA-TAAGCGCCGCTAAAGAACATG
* *
2074394 TTCTTTAACGGCGCTTTGTAT
65 TTCTTTAGCGGCG-TTTTTAT
* * * * *
2074415 AAAAATGCCGCTAAAGAACATG-TTCTTCAGCGGCGCTTTTTTTACAAACACCGCTAAAGAACAT
1 AAAAACGCCGCTAAAGAACATGATT-TTTAGCGGCG-TTTTTTTATAAGCGCCGCTAAAGAACAT
*
2074479 GTTCTTTAGCGGCGCTTTTGTAC
64 GTTCTTTAGCGGCG-TTTT-TAT
2074502 AAAAACGCC
1 AAAAACGCC
2074511 ACTATTTTGG
Statistics
Matches: 150, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
83 7 0.05
84 62 0.41
85 31 0.21
86 33 0.22
87 17 0.11
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGT
TCTTTAGCGGCGTTTTTAT
Found at i:2074905 original size:21 final size:21
Alignment explanation
Indices: 2074881--2074931 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2074871 TTCTTTTGAA
*
2074881 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
2074902 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
*
2074923 CGTCTGCTT
1 CCTCTGCTT
2074932 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.45, G:0.20, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:2086316 original size:16 final size:15
Alignment explanation
Indices: 2086303--2086615 Score: 85
Period size: 16 Copynumber: 19.7 Consensus size: 15
2086293 TCGTATTATG
2086303 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
2086318 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
2086334 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
* **
2086350 T--GTATCATTTATCCA
1 TAAGT-T-ATGTATTAA
*
2086365 TAA---ATATATTAA
1 TAAGTTATGTATTAA
*
2086377 TAAGTTATGTCGTATTATG
1 TAAGTTA--T-GTATTA-A
2086396 TAAGTTATGTATTATA
1 TAAGTTATGTATTA-A
2086412 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
2086427 TAAGTTATGTAAGTTATGTA
1 TAAGTTATGT-A-TTA---A
* * ** *
2086447 TCA-TTTTAAAATATA
1 TAAGTTATGTATTA-A
*
2086462 TAAGTTATGTCGTATTATG
1 TAAGTTA--T-GTATTA-A
*
2086481 TAAGTTATCTATTAA
1 TAAGTTATGTATTAA
*
2086496 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
2086512 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
* **
2086528 T--GTATCATTTATCCA
1 TAAGT-T-ATGTATTAA
*
2086543 TAA---ATATATTAA
1 TAAGTTATGTATTAA
*
2086555 TAAGTTATGTCGTATTATG
1 TAAGTTA--T-GTATTA-A
*
2086574 TAAGTTATATATTATA
1 TAAGTTATGTATTA-A
2086590 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
2086605 TAAGTTATGTA
1 TAAGTTATGTA
2086616 AGTTATGTAT
Statistics
Matches: 223, Mismatches: 36, Indels: 78
0.66 0.11 0.23
Matches are distributed among these distances:
12 18 0.08
14 6 0.03
15 55 0.25
16 87 0.39
17 14 0.06
18 12 0.05
19 28 0.13
20 3 0.01
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.46
Consensus pattern (15 bp):
TAAGTTATGTATTAA
Found at i:2086391 original size:93 final size:92
Alignment explanation
Indices: 2086288--2086694 Score: 625
Period size: 93 Copynumber: 4.5 Consensus size: 92
2086278 ATTTATGTTA
2086288 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
2086353 ATCATTTATCCATAAATATATTAATAAG
66 ATCATTT-TCCATAAATATATTAATAAG
*
2086381 TTATGTCGTATTATGTAAGTTATGTATTATATAA-GTTATGTATTAATAAGTTATGTAAGTTATG
1 TTATGTCGTATTATGTAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTATGTAAGTTATG
2086445 TATCA-TTT---TAAA-ATA-T-ATAAG
65 TATCATTTTCCATAAATATATTAATAAG
*
2086466 TTATGTCGTATTATGTAAGTTATCTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
2086531 ATCATTTATCCATAAATATATTAATAAG
66 ATCATTT-TCCATAAATATATTAATAAG
* *
2086559 TTATGTCGTATTATGTAAGTTATATATTATATAA-GTTATGTATTAATAAGTTATGTAAGTTATG
1 TTATGTCGTATTATGTAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTATGTAAGTTATG
** *
2086623 TATCATTTTAAAATATATATATTAATAAG
65 TATCATTTT-CCATAAATATATTAATAAG
* *
2086652 TTATGTCGTATTATATAAGTTATGTATTAAAAATGATATGTAT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTAT
2086695 AAGTTATGTC
Statistics
Matches: 289, Mismatches: 12, Indels: 26
0.88 0.04 0.08
Matches are distributed among these distances:
84 3 0.01
85 68 0.24
86 3 0.01
87 4 0.01
88 4 0.01
90 4 0.01
91 4 0.01
92 7 0.02
93 186 0.64
94 6 0.02
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (92 bp):
TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
ATCATTTTCCATAAATATATTAATAAG
Found at i:2086405 original size:9 final size:9
Alignment explanation
Indices: 2086391--2086446 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
2086381 TTATGTCGTA
2086391 TTATGTAAG
1 TTATGTAAG
2086400 TTATGT-A-
1 TTATGTAAG
*
2086407 TTATATAAG
1 TTATGTAAG
2086416 TTATGT-A-
1 TTATGTAAG
*
2086423 TTA-ATAAG
1 TTATGTAAG
2086431 TTATGTAAG
1 TTATGTAAG
2086440 TTATGTA
1 TTATGTA
2086447 TCATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 6 0.16
9 22 0.58
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:2086437 original size:40 final size:40
Alignment explanation
Indices: 2086391--2086532 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 40
2086381 TTATGTCGTA
2086391 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
* * * **
2086431 TTATGTAAGTTATGTATCATTTTAAAATATATAAGTTATGTCGT-A-
1 TTATGTAAGTTATGTATTA-TAT-AAGT-TAT--G-TAT-TAATAAG
* *
2086476 TTATGTAAGTTATCTATTA-AAAATGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATTATATAA-GTTATGTATTAATAAG
2086516 TTATGTAAGTTATGTAT
1 TTATGTAAGTTATGTAT
2086533 CATTTATCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
38 2 0.03
39 4 0.05
40 35 0.44
41 2 0.03
42 8 0.10
43 4 0.05
45 18 0.23
46 4 0.05
47 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (40 bp):
TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
Found at i:2086515 original size:50 final size:50
Alignment explanation
Indices: 2086461--2086694 Score: 187
Period size: 43 Copynumber: 5.0 Consensus size: 50
2086451 TTTAAAATAT
*
2086461 ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGTTATGTATTA
1 ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGATATGTATTA
* * * ** *
2086511 ATAAGTTATGT--AAGTTATGT-A-TCATTTATCCATAA--ATA--TATTA
1 ATAAGTTATGTCGTA-TTATGTAAGTTATCTATTAAAAATGATATGTATTA
* * *
2086554 ATAAGTTATGTCGTATTATGTAAGTTATATATTATATAA-GTTATGTATTA
1 ATAAGTTATGTCGTATTATGTAAGTTATCTATTA-AAAATGATATGTATTA
* * *
2086604 ATAAGTTATGT--AAGTTATGT-A-TCAT-T-TT-AAAAT-ATATATATTA
1 ATAAGTTATGTCGTA-TTATGTAAGTTATCTATTAAAAATGATATGTATTA
* *
2086647 ATAAGTTATGTCGTATTATATAAGTTATGTATTAAAAATGATATGTAT
1 ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGATATGTAT
2086695 AAGTTATGTC
Statistics
Matches: 143, Mismatches: 22, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
43 38 0.27
44 11 0.08
45 8 0.06
46 10 0.07
47 17 0.12
48 8 0.06
49 17 0.12
50 34 0.24
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.46
Consensus pattern (50 bp):
ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGATATGTATTA
Found at i:2086530 original size:24 final size:24
Alignment explanation
Indices: 2086500--2086625 Score: 74
Period size: 24 Copynumber: 5.4 Consensus size: 24
2086490 TATTAAAAAT
2086500 GTTATGTATTAATAAGTTATGTAA
1 GTTATGTATTAATAAGTTATGTAA
* *
2086524 GTTATGTA-TCAT---TTATCCATAA
1 GTTATGTATTAATAAGTTAT--GTAA
* *
2086546 ---ATATATTAATAAGTTATGT-C
1 GTTATGTATTAATAAGTTATGTAA
*
2086566 GTATTATGTAAGTT-ATATA-TTATATAA
1 G--TTATGT-A-TTAATA-AGTTATGTAA
2086593 GTTATGTATTAATAAGTTATGTAA
1 GTTATGTATTAATAAGTTATGTAA
2086617 GTTATGTAT
1 GTTATGTAT
2086626 CATTTTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 34
0.63 0.08 0.29
Matches are distributed among these distances:
19 4 0.05
20 7 0.09
21 1 0.01
22 3 0.04
23 10 0.13
24 28 0.37
25 9 0.12
26 9 0.12
27 4 0.05
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (24 bp):
GTTATGTATTAATAAGTTATGTAA
Found at i:2086548 original size:178 final size:184
Alignment explanation
Indices: 2086288--2086694 Score: 718
Period size: 178 Copynumber: 2.2 Consensus size: 184
2086278 ATTTATGTTA
2086288 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
*
2086353 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATGTATTATATAAGTT
66 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
2086418 ATGTATTAATAAGTTATGTAAGTTATGTATCATTTT-A-A-A-ATA-T-ATAAG
131 ATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAATATATATATTAATAAG
*
2086466 TTATGTCGTATTATGTAAGTTATCTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
2086531 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
66 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
2086596 ATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
131 ATGTATTAATAAGTTATGTAAGTTATGTATCATTTT--AATATATATATTAATAAG
* *
2086652 TTATGTCGTATTATATAAGTTATGTATTAAAAATGATATGTAT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTAT
2086695 AAGTTATGTC
Statistics
Matches: 216, Mismatches: 5, Indels: 8
0.94 0.02 0.03
Matches are distributed among these distances:
178 164 0.76
181 1 0.00
182 1 0.00
183 1 0.00
184 3 0.01
185 1 0.00
186 45 0.21
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (184 bp):
TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
ATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAATATATATATTAATAAG
Found at i:2086575 original size:53 final size:51
Alignment explanation
Indices: 2086516--2086678 Score: 143
Period size: 53 Copynumber: 3.3 Consensus size: 51
2086506 TATTAATAAG
2086516 TTATGTAAGTTATGTATCATTTATCCATAAATATATTAATAAGTTATGTCGTA
1 TTATGTAAGTTATGTATCATTTAT--ATAAATATATTAATAAGTTATGTCGTA
* * *
2086569 TTATGTAAGTTA--TAT-A-TTATATAAGT-TATGTATTAA--TA---AG--
1 TTATGTAAGTTATGTATCATTTATATAAATATAT-TAATAAGTTATGTCGTA
* *
2086609 TTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAGTTATGTCGTA
1 TTATGTAAGTTATGTATCA-TTT-ATATAAATATATTAATAAGTTATGTCGTA
*
2086662 TTATATAAGTTATGTAT
1 TTATGTAAGTTATGTAT
2086679 TAAAAATGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
40 12 0.14
42 4 0.05
43 1 0.01
45 4 0.05
46 13 0.15
47 13 0.15
48 2 0.02
49 4 0.05
50 1 0.01
51 4 0.05
53 28 0.33
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (51 bp):
TTATGTAAGTTATGTATCATTTATATAAATATATTAATAAGTTATGTCGTA
Found at i:2086622 original size:9 final size:9
Alignment explanation
Indices: 2086569--2086624 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
2086559 TTATGTCGTA
2086569 TTATGTAAG
1 TTATGTAAG
*
2086578 TTATAT-A-
1 TTATGTAAG
*
2086585 TTATATAAG
1 TTATGTAAG
2086594 TTATGT-A-
1 TTATGTAAG
*
2086601 TTA-ATAAG
1 TTATGTAAG
2086609 TTATGTAAG
1 TTATGTAAG
2086618 TTATGTA
1 TTATGTA
2086625 TCATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.03
7 10 0.26
8 6 0.16
9 21 0.55
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:2088606 original size:15 final size:15
Alignment explanation
Indices: 2088588--2088621 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2088578 ATAAAACTCA
2088588 TAAACCACAAAACAC
1 TAAACCACAAAACAC
* *
2088603 TAAACCACCAAACCC
1 TAAACCACAAAACAC
2088618 TAAA
1 TAAA
2088622 ATCCAAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.35, G:0.00, T:0.09
Consensus pattern (15 bp):
TAAACCACAAAACAC
Found at i:2089768 original size:206 final size:205
Alignment explanation
Indices: 2089408--2089783 Score: 540
Period size: 206 Copynumber: 1.8 Consensus size: 205
2089398 TTTTTTAGGC
* ** * *
2089408 AAAGCGCCGCTAAATGCCACTATACCTCACGGCCAAACGATGCATTTTGGTTAACTTTTTGCGGC
1 AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCATTTTGGTTAACTTTCTGCGGC
* *
2089473 GTTTACTAGTTAAGCGTCGTTAATACCGATCTTTAGCGGCGTTTTTCAATTAGCGCCGCGAAATC
66 GTTTACTAGTTAAGCGCCGTTAATACCGATATTTAGCGGCGTTTTTCAATTAGCGCCGCGAAATC
* *
2089538 CAGAATTGATCAAAACCGAACGCTGCGTTTAGTTTTAACATATTTTACGGCGTTTTTCTTTAGTG
131 CA-AATTGATCAAAACCAAACGCTGCATTTAGTTTTAACATATTTTACGGCGTTTTTCTTTAGTG
2089603 GCGTTTGGTTT
195 GCGTTTGGTTT
*
2089614 AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCGTTTTGGTTAACTTTCTGCGGC
1 AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCATTTTGGTTAACTTTCTGCGGC
* * * * * * *
2089679 GTTTATTCGTTAAGCGCCGTTAATTCTGATATTTCGCGGCGATTTTT-TATTAGCGCCGCTGGAA
66 GTTTACTAGTTAAGCGCCGTTAATACCGATATTTAGCGGCG-TTTTTCAATTAGCGCCGC-GAAA
*
2089743 TCGC-AATTGATTAAAACCAAACGCTGCATTTAGTTTTAACA
129 TC-CAAATTGATCAAAACCAAACGCTGCATTTAGTTTTAACA
2089784 GACTCGGCGG
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
206 138 0.93
207 10 0.07
208 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (205 bp):
AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCATTTTGGTTAACTTTCTGCGGC
GTTTACTAGTTAAGCGCCGTTAATACCGATATTTAGCGGCGTTTTTCAATTAGCGCCGCGAAATC
CAAATTGATCAAAACCAAACGCTGCATTTAGTTTTAACATATTTTACGGCGTTTTTCTTTAGTGG
CGTTTGGTTT
Found at i:2090050 original size:230 final size:226
Alignment explanation
Indices: 2089594--2090231 Score: 703
Period size: 230 Copynumber: 2.8 Consensus size: 226
2089584 ACGGCGTTTT
* *
2089594 TCTTTAGTGGCGTTTGGTTTAAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCGT
1 TCTTTAGTGGCG-TTGGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCGT
* *
2089659 TTTGGTTAACTTTCTGCGGCGTTTATTCGTTAAGCGCCGTTAAT-TCTGATATTTCGCGGCGATT
65 TTTGGTTAACTTTCTGCGGCGTTTA-TCGATAAGCGCCGTTAATATC-GATATTTAGCGGCG-TT
* * * * * * *
2089723 TTT-TATTAGCGCCGCTGGAATCGCAATTGATTAAAACCAAACGCTGCATTTAGTTTTAACAGAC
127 TTTATGTTAGCGCCGCT-AAACCACAATTGATCAACACCGAACGCTGCATTTAGTTTTAACAGAC
* * *
2089787 TCGGCGGCGTTTTAACAAAAACGCCGTTAATGAAGA
191 TCGGCGGCGCTATAACAAAAACGCCGCTAATGAAGA
*
2089823 TCTTTAGTGGCGTTCAGGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAATGATGCG
1 TCTTTAGTGGCGTT--GGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCG
* * * *
2089888 TTTTGGTTAGCTTTCTGCGGCGTTTATCCGGTAAGCGCTGTTAATATCGATTTTTAGCGGCGTTT
64 TTTTGGTTAACTTTCTGCGGCGTTTAT-CGATAAGCGCCGTTAATATCGATATTTAGCGGCGTTT
* * * *
2089953 TTATGTTTGCGCCGCTAAAGCCACAATTGATGAACACCGAACGCTGCGTTTAGTTTTAACA-TCT
128 TTATGTTAGCGCCGCTAAA-CCACAATTGATCAACACCGAACGCTGCATTTAGTTTTAACAGAC-
** **** *
2090017 TTTGCGGCGCTATGGTGAAATCGCCGCTAATGAAGA
191 TCGGCGGCGCTATAACAAAAACGCCGCTAATGAAGA
* * * * *
2090053 TCTTTAGTGGCGTT-GTAACTAAAGCGCCGCTAAATGCCACTATACCTCGAGGCCAAACGATGCA
1 TCTTTAGTGGCGTTGGTTA--AAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCG
* ** * * *
2090117 TTTTGGTTAACTTTCTGTGGCGTTTAGTATATAAGCGCCGTTAATACCGATCTTTGGCGGCGTTT
64 TTTTGGTTAACTTTCTGCGGCGTTTA-TCGATAAGCGCCGTTAATATCGATATTTAGCGGCGTTT
* * *
2090182 CTA-GATTAGCGCCGCTAAACCAACAATTGATCAACACTGAACCCTG-ATTT
128 TTATG-TTAGCGCCGCTAAACC-ACAATTGATCAACACCGAACGCTGCATTT
2090232 TCCTTTAATA
Statistics
Matches: 348, Mismatches: 49, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
227 3 0.01
228 8 0.02
229 150 0.43
230 185 0.53
231 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (226 bp):
TCTTTAGTGGCGTTGGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCGTT
TTGGTTAACTTTCTGCGGCGTTTATCGATAAGCGCCGTTAATATCGATATTTAGCGGCGTTTTTA
TGTTAGCGCCGCTAAACCACAATTGATCAACACCGAACGCTGCATTTAGTTTTAACAGACTCGGC
GGCGCTATAACAAAAACGCCGCTAATGAAGA
Found at i:2096528 original size:164 final size:164
Alignment explanation
Indices: 2096155--2096586 Score: 482
Period size: 164 Copynumber: 2.6 Consensus size: 164
2096145 TATCACATCC
* * * * * *
2096155 TTCTTCAGTTTCCCCTATCACGAATGGCAGCTT-TGACGTCGATTTCGCCTCCTTTTT-CTTCCC
1 TTCTTCAGGTTCCCCTATCACAAATGGCA-ATTGCGACGTCGATTCCGTCT-CTTTTTCCTTCCC
* * * * *
2096218 TACAATCCCACAACCAAAACCCCCCCAAGAAAACAGCCTTATATATGCTTGTCAAACCCTAAAAC
64 TACAATCCCATAACCAAAACCCCACCAAG-AAA-A--C--A-ATGT-C-AGTCAAACTCTAAAA-
* * * *
2096283 AAA---GT-AAAAAACGGTAACCGAGTTAAGAACTGAGTCACCTGT
119 AAATTTATAAAAAAACGATAACCGAGTTAAGAACGGACTCACCTGT
* * * *
2096325 TTCTTCAGGTTCCCCTCTCGCAAATGGCAGTTTCGACGTCGATTCCGTCTCTTCTTT-CTTCCCT
1 TTCTTCAGGTTCCCCTATCACAAATGGCAATTGCGACGTCGATTCCGTCTCTT-TTTCCTTCCCT
*
2096389 ATAATCCCATAACCAAAACCCCACCAAGAAAACAATGTCAGTCAAACTCTAAAAAAATTTATAAA
65 ACAATCCCATAACCAAAACCCCACCAAGAAAACAATGTCAGTCAAACTCTAAAAAAATTTATAAA
*
2096454 AAAACGATGACCGAGTTAAGAACGGACTCACCTGT
130 AAAACGATAACCGAGTTAAGAACGGACTCACCTGT
* **
2096489 TTCTTCAGGTTCCCCTATTACAAATGGCAATTGCGACGTCGATTTTGTCTCTTTTTCCTTCCCTA
1 TTCTTCAGGTTCCCCTATCACAAATGGCAATTGCGACGTCGATTCCGTCTCTTTTTCCTTCCCTA
2096554 CAATCCCATAACCAAAACCCCACCAAGAAAACA
66 CAATCCCATAACCAAAACCCCACCAAGAAAACA
2096587 GCATTATATA
Statistics
Matches: 228, Mismatches: 27, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
160 3 0.01
161 13 0.06
162 1 0.00
163 7 0.03
164 120 0.53
166 1 0.00
168 1 0.00
169 8 0.04
170 74 0.32
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (164 bp):
TTCTTCAGGTTCCCCTATCACAAATGGCAATTGCGACGTCGATTCCGTCTCTTTTTCCTTCCCTA
CAATCCCATAACCAAAACCCCACCAAGAAAACAATGTCAGTCAAACTCTAAAAAAATTTATAAAA
AAACGATAACCGAGTTAAGAACGGACTCACCTGT
Found at i:2097824 original size:18 final size:20
Alignment explanation
Indices: 2097789--2097845 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
2097779 TATATTTTTC
2097789 TGAAAATA-TAT-ATAAAATA
1 TGAAAATATTATAAT-AAATA
*
2097808 T-AAAATGTT-TAATAAATA
1 TGAAAATATTATAATAAATA
*
2097826 TGCAAATATTATAATAAATA
1 TGAAAATATTATAATAAATA
2097846 CCAGTCATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 12 0.39
19 10 0.32
20 9 0.29
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
TGAAAATATTATAATAAATA
Found at i:2100465 original size:13 final size:13
Alignment explanation
Indices: 2100447--2100480 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2100437 TTGACAATGT
2100447 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
*
2100460 TTTTGAGAAGTAC
1 TTTTGAAAAGTAC
2100473 TTTT-AAAA
1 TTTTGAAAA
2100481 ATTTTGAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 3 0.16
13 16 0.84
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:2101359 original size:27 final size:26
Alignment explanation
Indices: 2101329--2101384 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
2101319 TATTTTTGCT
*
2101329 TTTAATAAT-TAATGAATTATTTTTAAA
1 TTTAATAATAT-ATGAAATA-TTTTAAA
*
2101356 TTTAATGATATATGAAATATTTTAAA
1 TTTAATAATATATGAAATATTTTAAA
2101382 TTT
1 TTT
2101385 TTAGATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 15 0.58
28 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (26 bp):
TTTAATAATATATGAAATATTTTAAA
Found at i:2105844 original size:41 final size:41
Alignment explanation
Indices: 2105787--2105939 Score: 143
Period size: 41 Copynumber: 3.8 Consensus size: 41
2105777 TTATATAAAA
* *
2105787 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATACATTT
* * ** * ***
2105828 CACCGGCACAGAGCCTGCTAGGCA-TAA---TTATATAAAA
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATACATTT
* *
2105865 CACTGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATACATTT
* * *
2105906 CACCGGCACAGAGCCTGCTAGGCATAAAGTCCGA
1 CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGA
2105940 ACTTACAAAA
Statistics
Matches: 83, Mismatches: 25, Indels: 8
0.72 0.22 0.07
Matches are distributed among these distances:
37 25 0.30
38 2 0.02
40 2 0.02
41 54 0.65
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.17
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATACATTT
Found at i:2105906 original size:78 final size:78
Alignment explanation
Indices: 2105777--2105932 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
2105767 ACATAGAGCC
2105777 TTATATAAAACACCGGCATAAAGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAGAGC
1 TTATATAAAACACCGGCATAAAGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAGAGC
2105842 CTGCTAGGCATAA
66 CTGCTAGGCATAA
* *
2105855 TTATATAAAACACTGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTTCACCGGCACAGAGC
1 TTATATAAAACACCGGCATAAAGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAGAGC
2105920 CTGCTAGGCATAA
66 CTGCTAGGCATAA
2105933 AGTCCGAACT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (78 bp):
TTATATAAAACACCGGCATAAAGCCTGCTAGACACAAAGCCCGATACATTTCACCGGCACAGAGC
CTGCTAGGCATAA
Found at i:2106145 original size:47 final size:47
Alignment explanation
Indices: 2106044--2106180 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 47
2106034 TAACTTCAAA
* * *
2106044 TAATTTATTTCAATGCATAACAAATATATATATATACATTCAGCCATAGTT
1 TAATTCATTTCAATGCATAAC--A-AT-TATATATACATTCAGCTATAGAT
** *
2106095 TAATTCATTTCTCTGCATAACAATTACATATACATTCAGCTATAGAT
1 TAATTCATTTCAATGCATAACAATTATATATACATTCAGCTATAGAT
*
2106142 TAATTCATTTCAATGTATAACAAATATATATATACATTC
1 TAATTCATTTCAATGCATAAC-AAT-TATATATACATTC
2106181 GGCCATAACC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 38 0.51
48 5 0.07
49 13 0.18
51 18 0.24
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.39
Consensus pattern (47 bp):
TAATTCATTTCAATGCATAACAATTATATATACATTCAGCTATAGAT
Found at i:2106274 original size:47 final size:47
Alignment explanation
Indices: 2106205--2106342 Score: 159
Period size: 47 Copynumber: 2.9 Consensus size: 47
2106195 TAATTTCAAA
* * * *
2106205 TAATTTATTTCAATGCATAACAAATATATATACGTTCGGCCATAGCT
1 TAATTCATATCAATGCATAACAAATATATATACATTCGGCCATAGAT
** * * ** *
2106252 TAATTCATATCTCTGCATAACAATTACATATACATTCAACTATAGAT
1 TAATTCATATCAATGCATAACAAATATATATACATTCGGCCATAGAT
* *
2106299 TAATTCATTTCAATGTATAACAAATATATATACATTCGGCCATA
1 TAATTCATATCAATGCATAACAAATATATATACATTCGGCCATA
2106343 ACCTATGTAA
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (47 bp):
TAATTCATATCAATGCATAACAAATATATATACATTCGGCCATAGAT
Found at i:2106383 original size:155 final size:157
Alignment explanation
Indices: 2106008--2106397 Score: 633
Period size: 157 Copynumber: 2.5 Consensus size: 157
2105998 AACAATTCAC
* * *
2106008 TATAT-TACATTCGGCCATAGCTTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
1 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAAC--A-A-A
* * * *
2106072 TATATATACATTCAGCCATAGTTTAATTCATTTCTCTGCATAACAATTACATATACATTCAGCTA
62 TATATATACATTCGGCCATAGCTTAATTCATATCTCTGCATAACAATTACATATACATTCAACTA
2106137 TAGATTAATTCATTTCAATGTATAACAAATA
127 TAGATTAATTCATTTCAATGTATAACAAATA
2106168 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
1 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
*
2106233 TATACGTTCGGCCATAGCTTAATTCATATCTCTGCATAACAATTACATATACATTCAACTATAGA
66 TATACATTCGGCCATAGCTTAATTCATATCTCTGCATAACAATTACATATACATTCAACTATAGA
2106298 TTAATTCATTTCAATGTATAAC-AA-A
131 TTAATTCATTTCAATGTATAACAAATA
* *
2106323 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAAATTATTTTAATGCATAACAAATATA
1 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
2106388 TATACATTCG
66 TATACATTCG
2106398 TAGTTAATTT
Statistics
Matches: 218, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
155 73 0.33
156 2 0.01
157 87 0.40
158 1 0.00
159 1 0.00
160 5 0.02
161 49 0.22
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (157 bp):
TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
TATACATTCGGCCATAGCTTAATTCATATCTCTGCATAACAATTACATATACATTCAACTATAGA
TTAATTCATTTCAATGTATAACAAATA
Found at i:2123337 original size:41 final size:43
Alignment explanation
Indices: 2123233--2123337 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
2123223 GGAGCAACGT
* *
2123233 TAGCGGCGTTTTTCCCATAAATGCCGCAAAAGGTTAAATACGA
1 TAGCGGCGTTTTTCCCATAAACGCCGCAAAAGGTTAAATACAA
* ** * *
2123276 TAGCGGCATTTTTCTTATAAACGCCGCTAAAGG-TAAA-GCAA
1 TAGCGGCGTTTTTCCCATAAACGCCGCAAAAGGTTAAATACAA
*
2123317 TAGCGGCGTTTTGCCCATAAA
1 TAGCGGCGTTTTTCCCATAAA
2123338 TGCTATGAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 19 0.37
42 4 0.08
43 28 0.55
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTTTCCCATAAACGCCGCAAAAGGTTAAATACAA
Found at i:2129487 original size:20 final size:20
Alignment explanation
Indices: 2129464--2129501 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2129454 ATTAAATATA
2129464 TTAAGTAAA-ACTATGTGACT
1 TTAA-TAAATACTATGTGACT
*
2129484 TTAATAAATATTATGTGA
1 TTAATAAATACTATGTGA
2129502 AAATAGTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (20 bp):
TTAATAAATACTATGTGACT
Found at i:2131948 original size:30 final size:31
Alignment explanation
Indices: 2131913--2131970 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2131903 ATGGTCACCA
2131913 AACTATTC-AAAGTTTTCATTTAAGTCATTG
1 AACTATTCGAAAGTTTTCATTTAAGTCATTG
*
2131943 AACTATTCGAAAGTTTTTATTTAAGTCA
1 AACTATTCGAAAGTTTTCATTTAAGTCA
2131971 CTGGCTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (31 bp):
AACTATTCGAAAGTTTTCATTTAAGTCATTG
Found at i:2138206 original size:16 final size:16
Alignment explanation
Indices: 2138185--2138215 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2138175 GGGTTGGATG
*
2138185 AATAGAATAGGATTGA
1 AATAGAATAGAATTGA
2138201 AATAGAATAGAATTG
1 AATAGAATAGAATTG
2138216 TAATCTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (16 bp):
AATAGAATAGAATTGA
Found at i:2141365 original size:21 final size:19
Alignment explanation
Indices: 2141309--2141376 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
2141299 TAATTATTTA
2141309 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
2141328 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
2141347 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
2141368 TTATAATTA
1 TTA-AATTA
2141377 GATATTGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.39
20 7 0.17
21 15 0.37
22 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:2151791 original size:23 final size:22
Alignment explanation
Indices: 2151753--2151801 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
2151743 AAAAACCTAT
2151753 AATATA-TAT-AAATTTATAAA
1 AATATATTATAAAATTTATAAA
*
2151773 AATATATTATAAAATTT-TATA
1 AATATATTATAAAATTTATAAA
2151794 AATATATT
1 AATATATT
2151802 TGTATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 14 0.54
22 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATATTATAAAATTTATAAA
Found at i:2151799 original size:37 final size:37
Alignment explanation
Indices: 2151719--2151816 Score: 94
Period size: 37 Copynumber: 2.6 Consensus size: 37
2151709 AAAATATATA
*
2151719 AAATATAAACTTATAAAAATAT-TTAAAAACCTATAAT
1 AAATATAAATTTATAAAAATATATTAAAAA-CTATAAT
* * *
2151756 ATATATAAATTTATAAAAATATATTATAAAA-TTTTAT
1 AAATATAAATTTATAAAAATATATTA-AAAACTATAAT
*
2151793 AAATAT-ATTTGTATAAAAAATATA
1 AAATATAAATT-TAT-AAAAATATA
2151817 AACATATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.06
37 32 0.63
38 12 0.24
39 4 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (37 bp):
AAATATAAATTTATAAAAATATATTAAAAACTATAAT
Found at i:2157716 original size:21 final size:20
Alignment explanation
Indices: 2157682--2157731 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
2157672 TTATATTGAG
*
2157682 ATTTTCAAAAATATATGAAA
1 ATTTTTAAAAATATATGAAA
*
2157702 ATTTTTAAAATATATATTAAA
1 ATTTTTAAAA-ATATATGAAA
*
2157723 ATATTTAAA
1 ATTTTTAAA
2157732 TTTTATTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTTTAAAAATATATGAAA
Found at i:2158538 original size:16 final size:16
Alignment explanation
Indices: 2158517--2158548 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2158507 ATCTCTCGTT
2158517 AGAAAAAAAAAAGAAA
1 AGAAAAAAAAAAGAAA
*
2158533 AGAAAAGAAAAAGAAA
1 AGAAAAAAAAAAGAAA
2158549 TGTGCAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAGAAA
Found at i:2161254 original size:15 final size:16
Alignment explanation
Indices: 2161236--2161269 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2161226 ATAAAACTCT
2161236 TTAAAA-TTAAAAAAA
1 TTAAAATTTAAAAAAA
*
2161251 TTAAAATTTCAAAAAA
1 TTAAAATTTAAAAAAA
2161267 TTA
1 TTA
2161270 TAAAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAATTTAAAAAAA
Found at i:2161726 original size:20 final size:20
Alignment explanation
Indices: 2161689--2161726 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2161679 AAGAGGTATG
*
2161689 ATTAAATTATTATTTTTATT
1 ATTAAATTATTATATTTATT
2161709 ATTAAATATATTA-ATTTA
1 ATTAAAT-TATTATATTTA
2161727 ATCTGTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTAAATTATTATATTTATT
Found at i:2171549 original size:170 final size:170
Alignment explanation
Indices: 2171268--2171607 Score: 470
Period size: 170 Copynumber: 2.0 Consensus size: 170
2171258 AAGACTCGAC
*
2171268 GATCTACTCTGCTGTAACCTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTC
1 GATCTACTCTACTGTAACCTCAAAGAGATAAGATCC----TTTTAATCCGCTCCACTGTAACTTC
* * *
2171333 AGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC
62 AAGGAGATAGGATACTATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC
2171398 TCCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATGT
127 TCCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATGT
* * * *
2171442 GATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAG
1 GATCTACTCTACTGTAACCTCAAAGAGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAG
2171505 GAGATAGGATTACTATCCTT-GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCT
65 GAGATAGGA-TACTAT-CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCT
** ** * *
2171569 TTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
128 CCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTG
2171608 TATAATAAAC
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
168 1 0.01
169 32 0.21
170 81 0.54
171 3 0.02
174 32 0.21
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (170 bp):
GATCTACTCTACTGTAACCTCAAAGAGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAGG
AGATAGGATACTATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTCCG
GTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATGT
Found at i:2172852 original size:62 final size:62
Alignment explanation
Indices: 2172775--2172923 Score: 289
Period size: 62 Copynumber: 2.4 Consensus size: 62
2172765 TCTTTGGTCT
*
2172775 CAAAGTGCCCTTTACGGGTTTTCACCTTAGCCTCTCCAAAGTTTTTTTTTTTTTTTAGGAAG
1 CAAAGCGCCCTTTACGGGTTTTCACCTTAGCCTCTCCAAAGTTTTTTTTTTTTTTTAGGAAG
2172837 CAAAGCGCCCTTTACGGGTTTTCACCTTAGCCTCTCCAAAGTTTTTTTTTTTTTTTAGGAAG
1 CAAAGCGCCCTTTACGGGTTTTCACCTTAGCCTCTCCAAAGTTTTTTTTTTTTTTTAGGAAG
2172899 CAAAGCGCCCTTTACGGGTTTTCAC
1 CAAAGCGCCCTTTACGGGTTTTCAC
2172924 TTTGGTTCCC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 86 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (62 bp):
CAAAGCGCCCTTTACGGGTTTTCACCTTAGCCTCTCCAAAGTTTTTTTTTTTTTTTAGGAAG
Found at i:2180700 original size:43 final size:42
Alignment explanation
Indices: 2180651--2180742 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
2180641 TAGTAGACTC
* *
2180651 TTTCCCAAGGCGACTTCTCGAGCTCGAGTATCCTGAAATTTCT
1 TTTCCCAAGG-AACTTCTCGAGCCCGAGTATCCTGAAATTTCT
** *
2180694 TTTCCCATTGAACTTCTCGAGCCCGAGTATCCTGGAATTTCT
1 TTTCCCAAGGAACTTCTCGAGCCCGAGTATCCTGAAATTTCT
2180736 TTTCCCA
1 TTTCCCA
2180743 TTGATTAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 36 0.82
43 8 0.18
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (42 bp):
TTTCCCAAGGAACTTCTCGAGCCCGAGTATCCTGAAATTTCT
Found at i:2180709 original size:42 final size:42
Alignment explanation
Indices: 2180663--2180746 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
2180653 TCCCAAGGCG
*
2180663 ACTTCTCGAGCTCGAGTATCCTGAAATTTCTTTTCCCATTGA
1 ACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGA
*
2180705 ACTTCTCGAGCCCGAGTATCCTGGAATTTCTTTTCCCATTGA
1 ACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGA
2180747 TTAGCTTTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.37
Consensus pattern (42 bp):
ACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGA
Found at i:2189898 original size:23 final size:23
Alignment explanation
Indices: 2189868--2189916 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2189858 ACTGTAATTG
* *
2189868 TAATATCTCGAAAATTATTACTA
1 TAATATCTCGAAAATTACTACAA
2189891 TAATATCTCGAAAATTACTACAA
1 TAATATCTCGAAAATTACTACAA
2189914 TAA
1 TAA
2189917 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (23 bp):
TAATATCTCGAAAATTACTACAA
Found at i:2189915 original size:20 final size:22
Alignment explanation
Indices: 2189869--2189915 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
2189859 CTGTAATTGT
*
2189869 AATATCTCGAAAATTATTACTAT
1 AATATCTCGAAAA-TATTACTAC
2189892 AATATCTCG-AAA-ATTACTAC
1 AATATCTCGAAAATATTACTAC
2189912 AATA
1 AATA
2189916 AGAAAGTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 11 0.48
22 3 0.13
23 9 0.39
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (22 bp):
AATATCTCGAAAATATTACTAC
Found at i:2196321 original size:21 final size:20
Alignment explanation
Indices: 2196295--2196333 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2196285 AATTTTTTCC
2196295 CCAAATTTTGGATAACTTTTT
1 CCAAATTTTGGAT-ACTTTTT
2196316 CCAAATTTTGGATACTTT
1 CCAAATTTTGGATACTTT
2196334 ACATATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
CCAAATTTTGGATACTTTTT
Found at i:2203603 original size:20 final size:20
Alignment explanation
Indices: 2203580--2203619 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2203570 TATTCAAACT
* *
2203580 ATATTACTTGAATAGTTATA
1 ATATTACATGAATAATTATA
*
2203600 ATATTAGATGAATAATTATA
1 ATATTACATGAATAATTATA
2203620 TGTCTTTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (20 bp):
ATATTACATGAATAATTATA
Found at i:2205188 original size:27 final size:27
Alignment explanation
Indices: 2205150--2205204 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
2205140 CTTCCGGAAA
*
2205150 AGGTTTTAACCTTGAATGACGTATATT
1 AGGTTTTAACCTTGAATGACGCATATT
*
2205177 AGGTTTTAACCTTGAATGATGCATATT
1 AGGTTTTAACCTTGAATGACGCATATT
2205204 A
1 A
2205205 TGTATCAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (27 bp):
AGGTTTTAACCTTGAATGACGCATATT
Found at i:2206787 original size:24 final size:25
Alignment explanation
Indices: 2206725--2206788 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
2206715 TCTTGGTACT
* * *
2206725 TAATTAGAAATA-TGTTAAAATCAT
1 TAATTAAAAATATTTTTAAAATCAC
2206749 TAATTAAAAAATATTTTTAAAAT-AC
1 TAATT-AAAAATATTTTTAAAATCAC
*
2206774 TAATTACAAATATTT
1 TAATTAAAAATATTT
2206789 AATGGTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 14 0.41
25 12 0.35
26 8 0.24
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (25 bp):
TAATTAAAAATATTTTTAAAATCAC
Done.