Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 133 of 276
Found at i:43101792 original size:11 final size:11
Alignment explanation
Indices: 43101776--43101834 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
43101766 CATGATTGGT
43101776 ATGATATGCAC
1 ATGATATGCAC
*
43101787 ATGATATG--T
1 ATGATATGCAC
* *
43101796 ATAAAATGCAC
1 ATGATATGCAC
*
43101807 ATGATAT--AT
1 ATGATATGCAC
43101816 ATGATATGCAC
1 ATGATATGCAC
43101827 ATGATATG
1 ATGATATG
43101835 TATGAAATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
9 14 0.39
11 22 0.61
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43101809 original size:40 final size:40
Alignment explanation
Indices: 43101775--43101851 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
43101765 ACATGATTGG
43101775 TATGATATGCACATGATATGTATAAAATGCACATGATATA
1 TATGATATGCACATGATATGTATAAAATGCACATGATATA
* *
43101815 TATGATATGCACATGATATGTATGAAATGCACGTGAT
1 TATGATATGCACATGATATGTATAAAATGCACATGAT
43101852 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (40 bp):
TATGATATGCACATGATATGTATAAAATGCACATGATATA
Found at i:43101931 original size:26 final size:26
Alignment explanation
Indices: 43101901--43101976 Score: 134
Period size: 26 Copynumber: 2.9 Consensus size: 26
43101891 GAGGAAGTGC
*
43101901 AAAAGGGCTTATGCCCTAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
43101927 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
43101953 AAAAGGGCTTATGCCCCAATTTAC
1 AAAAGGGCTTATGCCCCAGTTTAC
43101977 TGAAAGGGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:43102011 original size:25 final size:25
Alignment explanation
Indices: 43101901--43102011 Score: 89
Period size: 26 Copynumber: 4.4 Consensus size: 25
43101891 GAGGAAGTGC
* * * *
43101901 AAAAGGGCTTATGCCCTAGTTTACCA
1 AAAAGGGCTTATACCCCAATTTA-CT
* * *
43101927 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATACCCCAATTTA-CT
*
43101953 AAAAGGGCTTATGCCCCAATTTACT
1 AAAAGGGCTTATACCCCAATTTACT
* * *
43101978 GAAAGGGCTTTTACCCCAA-TTATT
1 AAAAGGGCTTATACCCCAATTTACT
43102002 AAAAGAGGCT
1 AAAAG-GGCT
43102012 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
24 8 0.11
25 21 0.28
26 47 0.62
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTATACCCCAATTTACT
Found at i:43106318 original size:768 final size:768
Alignment explanation
Indices: 43104842--43106381 Score: 3026
Period size: 768 Copynumber: 2.0 Consensus size: 768
43104832 ATTTTATCCT
*
43104842 TTAAAACCCAACTTTAAGACTATATGGCCTAATTTTATTTGAACCCTTGCAATATTTAGCCATCA
1 TTAAAACCCAACTTTAAGACTATATGGCCTAATTTTATTTGAACCCTTGCAAGATTTAGCCATCA
43104907 CTTCTCTCTTAATTATCTTTAAATTGTCCCAAACACTAGACTTAGTACTATTCAAAAAATTCTTT
66 CTTCTCTCTTAATTATCTTTAAATTGTCCCAAACACTAGACTTAGTACTATTCAAAAAATTCTTT
* *
43104972 GAAAATAAGTTTGGAGGAGTTGAAAAGAAGTATCAAATGCTCAAAAGTTGTAGTACATACAACAA
131 GAAAATAAGTTTGGAGGAGTTGAAAAGAAATATCAAATGATCAAAAGTTGTAGTACATACAACAA
43105037 AATGCTCATGAAAAAAAGAAGAAGAGAAGAGCATATGTACTTGAAAGAAAACAAATGTACAAAAG
196 AATGCTCATGAAAAAAAGAAGAAGAGAAGAGCATATGTACTTGAAAGAAAACAAATGTACAAAAG
43105102 AGCATGTGAGAGCGAAATAAGTTGGTATATTGAGGCTAAATATTCCAAAGGTCGGATTAAAGCTA
261 AGCATGTGAGAGCGAAATAAGTTGGTATATTGAGGCTAAATATTCCAAAGGTCGGATTAAAGCTA
43105167 AGTCTAGGGTTTTAAGCCTAATTTTATATATCTTTTACCTACCCCTAGCCTAGCCACGTGTCAGC
326 AGTCTAGGGTTTTAAGCCTAATTTTATATATCTTTTACCTACCCCTAGCCTAGCCACGTGTCAGC
43105232 CTAGTTAAAAGACCTATTGATTCAAGTTTCTATGCTACCTACATTAGTGGAGAGAATTTGCTATG
391 CTAGTTAAAAGACCTATTGATTCAAGTTTCTATGCTACCTACATTAGTGGAGAGAATTTGCTATG
43105297 CTCAACATATGAAGCCATAAATTAAACTTGATGATTGCATCTTAATCTTAAATAAGGGAATAAAA
456 CTCAACATATGAAGCCATAAATTAAACTTGATGATTGCATCTTAATCTTAAATAAGGGAATAAAA
43105362 TCATATTGGTAGGGATTTAACATGTCTTTATTGAGTAAGCATTTAGTCTATTTTCTCTATCATAA
521 TCATATTGGTAGGGATTTAACATGTCTTTATTGAGTAAGCATTTAGTCTATTTTCTCTATCATAA
43105427 TAATAATTGAGATTAATTTGAATGATATGTATACCTAAGTAATGTAAATCTCAAAATTCTTGTTC
586 TAATAATTGAGATTAATTTGAATGATATGTATACCTAAGTAATGTAAATCTCAAAATTCTTGTTC
43105492 TTGAGCATAAGTATACTAAATTCATAATTTTGGGAAGAATGTTGTTTTGAACAAATTTTTCAAAG
651 TTGAGCATAAGTATACTAAATTCATAATTTTGGGAAGAATGTTGTTTTGAACAAATTTTTCAAAG
43105557 GTGTTTTTGAGAAATTCTTTTCAATTTGTGCATTACTCGGGATTAGTAATAAA
716 GTGTTTTTGAGAAATTCTTTTCAATTTGTGCATTACTCGGGATTAGTAATAAA
43105610 TTAAAACCCAACTTTAAGACTATATGGCCTAATTTTATTTGAACCCTTGCAAGATTTAGCCATCA
1 TTAAAACCCAACTTTAAGACTATATGGCCTAATTTTATTTGAACCCTTGCAAGATTTAGCCATCA
*
43105675 CTTCTCTCTTAATTATCTTTAAATTGTCCCAAACACTAGACTTAGTACTATTCAAAACATTCTTT
66 CTTCTCTCTTAATTATCTTTAAATTGTCCCAAACACTAGACTTAGTACTATTCAAAAAATTCTTT
* *
43105740 GAAAATAAGTTTGGGGGAGTTGAAAATAAATATCAAATGATCAAAAGTTGTAGTACATACAACAA
131 GAAAATAAGTTTGGAGGAGTTGAAAAGAAATATCAAATGATCAAAAGTTGTAGTACATACAACAA
43105805 AATGCTCATGAAAAAAAGAAGAAGAGAAGAGCATATGTACTTGAAAGAAAACAAATGTACAAAAG
196 AATGCTCATGAAAAAAAGAAGAAGAGAAGAGCATATGTACTTGAAAGAAAACAAATGTACAAAAG
43105870 AGCATGTGAGAGCGAAATAAGTTGGTATATTGAGGCTAAATATTCCAAAGGTCGGATTAAAGCTA
261 AGCATGTGAGAGCGAAATAAGTTGGTATATTGAGGCTAAATATTCCAAAGGTCGGATTAAAGCTA
43105935 AGTCTAGGGTTTTAAGCCTAATTTTATATATCTTTTACCTACCCCTAGCCTAGCCACGTGTCAGC
326 AGTCTAGGGTTTTAAGCCTAATTTTATATATCTTTTACCTACCCCTAGCCTAGCCACGTGTCAGC
43106000 CTAGTTAAAAGACCTATTGATTCAAGTTTCTATGCTACCTACATTAGTGGAGAGAATTTGCTATG
391 CTAGTTAAAAGACCTATTGATTCAAGTTTCTATGCTACCTACATTAGTGGAGAGAATTTGCTATG
43106065 CTCAACATATGAAGCCATAAATTAAACTTGATGATTGCATCTTAATCTTAAATAAGGGAATAAAA
456 CTCAACATATGAAGCCATAAATTAAACTTGATGATTGCATCTTAATCTTAAATAAGGGAATAAAA
43106130 TCATATTGGTAGGGATTTAACATGTCTTTATTGAGTAAGCATTTAGTCTATTTTCTCTATCATAA
521 TCATATTGGTAGGGATTTAACATGTCTTTATTGAGTAAGCATTTAGTCTATTTTCTCTATCATAA
43106195 TAATAATTGAGATTAATTTGAATGATATGTATACCTAAGTAATGTAAATCTCAAAATTCTTGTTC
586 TAATAATTGAGATTAATTTGAATGATATGTATACCTAAGTAATGTAAATCTCAAAATTCTTGTTC
43106260 TTGAGCATAAGTATACTAAATTCATAATTTTGGGAAGAATGTTGTTTTGAACAAATTTTTCAAAG
651 TTGAGCATAAGTATACTAAATTCATAATTTTGGGAAGAATGTTGTTTTGAACAAATTTTTCAAAG
43106325 GTGTTTTTGAGAAATTCTTTTCAATTTGTGCATTACTCGGGATTAGTAATAAA
716 GTGTTTTTGAGAAATTCTTTTCAATTTGTGCATTACTCGGGATTAGTAATAAA
43106378 TTAA
1 TTAA
43106382 GTTTGGGGTG
Statistics
Matches: 766, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
768 766 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (768 bp):
TTAAAACCCAACTTTAAGACTATATGGCCTAATTTTATTTGAACCCTTGCAAGATTTAGCCATCA
CTTCTCTCTTAATTATCTTTAAATTGTCCCAAACACTAGACTTAGTACTATTCAAAAAATTCTTT
GAAAATAAGTTTGGAGGAGTTGAAAAGAAATATCAAATGATCAAAAGTTGTAGTACATACAACAA
AATGCTCATGAAAAAAAGAAGAAGAGAAGAGCATATGTACTTGAAAGAAAACAAATGTACAAAAG
AGCATGTGAGAGCGAAATAAGTTGGTATATTGAGGCTAAATATTCCAAAGGTCGGATTAAAGCTA
AGTCTAGGGTTTTAAGCCTAATTTTATATATCTTTTACCTACCCCTAGCCTAGCCACGTGTCAGC
CTAGTTAAAAGACCTATTGATTCAAGTTTCTATGCTACCTACATTAGTGGAGAGAATTTGCTATG
CTCAACATATGAAGCCATAAATTAAACTTGATGATTGCATCTTAATCTTAAATAAGGGAATAAAA
TCATATTGGTAGGGATTTAACATGTCTTTATTGAGTAAGCATTTAGTCTATTTTCTCTATCATAA
TAATAATTGAGATTAATTTGAATGATATGTATACCTAAGTAATGTAAATCTCAAAATTCTTGTTC
TTGAGCATAAGTATACTAAATTCATAATTTTGGGAAGAATGTTGTTTTGAACAAATTTTTCAAAG
GTGTTTTTGAGAAATTCTTTTCAATTTGTGCATTACTCGGGATTAGTAATAAA
Found at i:43109748 original size:29 final size:29
Alignment explanation
Indices: 43109685--43109752 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
43109675 TAATCAACCG
*
43109685 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
43109714 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
43109743 CGCACACTTA
1 CGCACACTTA
43109753 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:43109865 original size:174 final size:174
Alignment explanation
Indices: 43109574--43109901 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
43109564 AACTCAAGGT
* * *
43109574 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
43109639 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
43109704 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
43109748 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
43109813 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
43109878 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
43109902 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:43109893 original size:29 final size:30
Alignment explanation
Indices: 43109854--43109932 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
43109844 CTTAATAATC
43109854 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
43109884 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
43109913 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43109933 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:43113316 original size:27 final size:27
Alignment explanation
Indices: 43113286--43113463 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43113276 ATATTGAGTC
* * * *
43113286 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43113313 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43113340 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43113368 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43113395 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43113422 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43113449 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43113464 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43113425 original size:82 final size:81
Alignment explanation
Indices: 43113307--43113462 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43113297 TGCTATATAA
* *
43113307 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43113372 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43113389 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43113453 CACTTAGTGC
65 CACTTAGTGC
43113463 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43116868 original size:141 final size:145
Alignment explanation
Indices: 43116609--43116973 Score: 387
Period size: 141 Copynumber: 2.6 Consensus size: 145
43116599 ATATGTGTGC
* * ** * * *
43116609 TAGTGTAAGACATGTCTGGGACAT-GCATCTGCCTCGAGATATACAAGCCAGTGTAAGA-CATGT
1 TAGTGTAAGACCTGTCTGGGACATGGCATC-GACT-TTGATGTGCTAGCCAGTGTAAGACCATGT
* ** ** *
43116672 CTGGGACAT-GCATCAACATTG--AGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCG
64 CTAGGACATGGCATCGGCACCGATAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCG
43116733 GCCTTGAGATAT-ACAAG
129 GCCTTGAGATATGA-AAG
* ** * *
43116750 CTAGTGTAAGACCTGTCTGGGACGTGGTGTC-AGC-TTGTTGT-CT-GTCAGTGTAAGACC-TGT
1 -TAGTGTAAGACCTGTCTGGGACATGGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCATGT
*
43116810 CTAGGACATGGCATCGGCACCGATAGATGAGAGCCT-GTGTAAGACCTGTCTGGGACATGGCATC
64 CTAGGACATGGCATCGGCACCGATAGATGAGAG-CTAGTGTAAGACATGTCTGGGACATGGCATC
*
43116874 GGCCTTGATATATGAAAG
128 GGCCTTGAGATATGAAAG
*
43116892 TAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTTT
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCT
*
43116957 AGGACATGGCTTCGGCA
66 AGGACATGGCATCGGCA
43116974 TCTTATCCCA
Statistics
Matches: 183, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
138 22 0.12
139 10 0.05
140 3 0.02
141 57 0.31
142 52 0.28
143 6 0.03
144 13 0.07
145 20 0.11
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (145 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGGCACCGATAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGC
CTTGAGATATGAAAG
Found at i:43116909 original size:48 final size:48
Alignment explanation
Indices: 43116607--43116972 Score: 249
Period size: 48 Copynumber: 7.7 Consensus size: 48
43116597 TGATATGTGT
* * *
43116607 GCTAGTGTAAGACATGTCTGGGACAT-GCATCTGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGA-ATATGA-AA
* * ** * * * *
43116655 GCCAGTGTAAGACATGTCTGGGACAT-GCATCAACATTG-AGACGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGAATATGAAA
*
43116701 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGA-ATATGA-AA
* ** * ***
43116749 GCTAGTGTAAGACCTGTCTGGGACGTGGTGTCAG-CTTG--T-TGTCT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGAATATGAAA
* * * *
43116793 G-TCAGTGTAAGACCTGTCTAGGACATGGCATCGGCAC-CGATAGATGAGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTTGA-ATATGAAA
43116842 GCCT-GTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGATATATGAAA
1 G-CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGA-ATATGAAA
* * * **
43116891 G-TAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTG-ATGTGCTA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGAATATGAAA
* * * *
43116937 GCCAGTGTAAGACCATGTTTAGGACATGGCTTCGGC
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGC
43116973 ATCTTATCCC
Statistics
Matches: 252, Mismatches: 47, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 28 0.11
45 2 0.01
46 44 0.17
47 14 0.06
48 115 0.46
49 47 0.19
51 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGAATATGAAA
Found at i:43126167 original size:166 final size:166
Alignment explanation
Indices: 43125893--43126224 Score: 619
Period size: 166 Copynumber: 2.0 Consensus size: 166
43125883 GATATACCCA
* *
43125893 TAGGGTTTAAATTGGCTAAACTGCATGATTGATTAATACTTTATTTTACATGATATTCTTTTATT
1 TAGGGTTTAAATTGGCTAAACTGCATGATTGATTAATACTGTATTTTACATGATATGCTTTTATT
43125958 AATATCTGTTGCATGGGATTGGGGTATTGATGGAAGAAGTATTGAAAGTGGTTCATCCACGTACT
66 AATATCTGTTGCATGGGATTGGGGTATTGATGGAAGAAGTATTGAAAGTGGTTCATCCACGTACT
*
43126023 GGAGGCTTTGCCTCAACTTACTGATATTTGAGCAGC
131 AGAGGCTTTGCCTCAACTTACTGATATTTGAGCAGC
43126059 TAGGGTTTAAATTGGCTAAACTGCATGATTGATTAATACTGTATTTTACATGATATGCTTTTATT
1 TAGGGTTTAAATTGGCTAAACTGCATGATTGATTAATACTGTATTTTACATGATATGCTTTTATT
*
43126124 AATATCTGTTGCATGGGATTGGGGTATTGATGGAGGAAGTATTGAAAGTGGTTCATCCACGTACT
66 AATATCTGTTGCATGGGATTGGGGTATTGATGGAAGAAGTATTGAAAGTGGTTCATCCACGTACT
*
43126189 AGAGGCTTTGCCTCGACTTACTGATATTTGAGCAGC
131 AGAGGCTTTGCCTCAACTTACTGATATTTGAGCAGC
43126225 GTTGCTGCAA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
166 161 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (166 bp):
TAGGGTTTAAATTGGCTAAACTGCATGATTGATTAATACTGTATTTTACATGATATGCTTTTATT
AATATCTGTTGCATGGGATTGGGGTATTGATGGAAGAAGTATTGAAAGTGGTTCATCCACGTACT
AGAGGCTTTGCCTCAACTTACTGATATTTGAGCAGC
Found at i:43135397 original size:24 final size:25
Alignment explanation
Indices: 43135349--43135398 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
43135339 TCTTTATGAA
43135349 ATTGATCCATGAAGTCTCAATGACG
1 ATTGATCCATGAAGTCTCAATGACG
43135374 ATTGATCCATG-AGTCTCAATGACG
1 ATTGATCCATGAAGTCTCAATGACG
43135398 A
1 A
43135399 CTCGACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
ATTGATCCATGAAGTCTCAATGACG
Found at i:43135688 original size:42 final size:42
Alignment explanation
Indices: 43135629--43135812 Score: 194
Period size: 42 Copynumber: 4.4 Consensus size: 42
43135619 ATTATGAGAC
* * * *
43135629 TTCATGTCAGACCATGTCTGGGACATGGCTTTGATATAATAT
1 TTCATGTAAGACCATGTCTGGGACATGGCATCGATATGATAT
* * *
43135671 TTCATGTAAGACCATGTCTAGGACATGGCATCGATACGAGAT
1 TTCATGTAAGACCATGTCTGGGACATGGCATCGATATGATAT
*
43135713 TTCATGTAAGACCATAGT-TGGG-CTATTGGCATCGGTATGATAT
1 TTCATGTAAGACCAT-GTCTGGGAC-A-TGGCATCGATATGATAT
* * *
43135756 TAT-GTGTAAGACCATGTCTGGGACATGGCATCGTTATGAGAT
1 T-TCATGTAAGACCATGTCTGGGACATGGCATCGATATGATAT
**
43135798 TTTGTGTAAGACCAT
1 TTCATGTAAGACCAT
43135813 AGCTGGGCTA
Statistics
Matches: 121, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
41 2 0.02
42 84 0.69
43 33 0.27
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
TTCATGTAAGACCATGTCTGGGACATGGCATCGATATGATAT
Found at i:43135764 original size:43 final size:43
Alignment explanation
Indices: 43135717--43135852 Score: 151
Period size: 42 Copynumber: 3.3 Consensus size: 43
43135707 CGAGATTTCA
*
43135717 TGTAAGACCATAGTTGGGCTATTGGCATCGGTATGATATTATG
1 TGTAAGACCATAGTTGGGCTATTGGCATCGGTATGAGATTATG
* *
43135760 TGTAAGACCAT-GTCTGGGAC-A-TGGCATCGTTATGAGATTTTG
1 TGTAAGACCATAGT-TGGG-CTATTGGCATCGGTATGAGATTATG
* **
43135802 TGTAAGACCATAGCTGGGCTATTGGCA----TATGAGATTACA
1 TGTAAGACCATAGTTGGGCTATTGGCATCGGTATGAGATTATG
43135841 TGTAAGACCATA
1 TGTAAGACCATA
43135853 TCTGAGATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
39 21 0.26
41 1 0.01
42 36 0.44
43 22 0.27
44 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATAGTTGGGCTATTGGCATCGGTATGAGATTATG
Found at i:43153982 original size:48 final size:48
Alignment explanation
Indices: 43153911--43154089 Score: 340
Period size: 48 Copynumber: 3.7 Consensus size: 48
43153901 AGATAAATAT
43153911 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
43153959 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
43154007 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
43154055 ATATGTATATGTGGTAAAGCCGAATGCCTAATGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
43154090 GTAAAGCCGA
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:43154091 original size:22 final size:22
Alignment explanation
Indices: 43154063--43154111 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
43154053 AGATATGTAT
43154063 ATGTGGTAAAGCCGAATGCCTA
1 ATGTGGTAAAGCCGAATGCCTA
*
43154085 ATGTGGTAAAGCCGAATGGCTA
1 ATGTGGTAAAGCCGAATGCCTA
43154107 ATGTG
1 ATGTG
43154112 AAATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (22 bp):
ATGTGGTAAAGCCGAATGCCTA
Found at i:43154097 original size:70 final size:70
Alignment explanation
Indices: 43154015--43154159 Score: 272
Period size: 70 Copynumber: 2.1 Consensus size: 70
43154005 AGATATGTAT
43154015 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
43154080 GCCTA
66 GCCTA
43154085 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
*
43154150 GGCTA
66 GCCTA
*
43154155 GTGTG
1 ATGTG
43154160 AAATATGTAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (70 bp):
ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
GCCTA
Found at i:43154365 original size:37 final size:37
Alignment explanation
Indices: 43154315--43154417 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
43154305 GGAAATATAT
43154315 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
43154352 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
43154389 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
43154418 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:43157207 original size:48 final size:48
Alignment explanation
Indices: 43157146--43157246 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 48
43157136 TCTCATATCA
43157146 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
* *
43157194 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
43157242 ATGCC
1 ATGCC
43157247 GATAACATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
Found at i:43157260 original size:48 final size:48
Alignment explanation
Indices: 43157146--43157272 Score: 164
Period size: 48 Copynumber: 2.6 Consensus size: 48
43157136 TCTCATATCA
** * *
43157146 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACG
1 ATGCCAATAACATATCCCAGACATGGTCTTACATGGGATCACATAACG
** * *
43157194 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCCAATAACATATCCCAGACATGGTCTTACATGGGATCACATAACG
* *
43157242 ATGCCGATAACATATCCCAGATATGGTCTTA
1 ATGCCAATAACATATCCCAGACATGGTCTTA
43157273 TACATGATCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCAATAACATATCCCAGACATGGTCTTACATGGGATCACATAACG
Found at i:43174466 original size:40 final size:40
Alignment explanation
Indices: 43174422--43174515 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 40
43174412 CTATGTTCGA
* **
43174422 CACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATAG
1 CACTAAGTGTGCAAACTGAAATAGCTTCGGCTATAAATAG
* ** *
43174462 CACTAAGTGTGCAAACTGGAATAGCTTCGGCTATATGTGG
1 CACTAAGTGTGCAAACTGAAATAGCTTCGGCTATAAATAG
43174502 CACTAAGTGTGCAA
1 CACTAAGTGTGCAA
43174516 TATTGAGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (40 bp):
CACTAAGTGTGCAAACTGAAATAGCTTCGGCTATAAATAG
Found at i:43179396 original size:40 final size:40
Alignment explanation
Indices: 43179351--43179432 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
43179341 TAAAATGCCC
* *
43179351 TAAATATATGTATATGGATCAAATTGAATGACTTGTTGAA
1 TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
43179391 TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
1 TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
43179431 TA
1 TA
43179433 CAAGGGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.38
Consensus pattern (40 bp):
TAAATATATATATATGGATAAAATTGAATGACTTGTTGAA
Found at i:43179703 original size:40 final size:40
Alignment explanation
Indices: 43179658--43179769 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
43179648 ACTATGTTCG
**
43179658 GCACTAAGTGTGCAATTTGAAATAGCTTCGTTTATAAATA
1 GCACTAAGTGTGCAATTTGAAATAGCTTCGGCTATAAATA
* ** *
43179698 GCACTAAGTGTGCGAATTAG-AATAGCTTCGGCTATATGTG
1 GCACTAAGTGTGC-AATTTGAAATAGCTTCGGCTATAAATA
* * *
43179738 GCACTAAGTGTGAAATATTGAGATAGTTTCGG
1 GCACTAAGTGTGCAAT-TTGAAATAGCTTCGG
43179770 TTCAATATGA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
39 3 0.05
40 42 0.71
41 14 0.24
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (40 bp):
GCACTAAGTGTGCAATTTGAAATAGCTTCGGCTATAAATA
Found at i:43179800 original size:44 final size:41
Alignment explanation
Indices: 43179699--43179813 Score: 101
Period size: 44 Copynumber: 2.8 Consensus size: 41
43179689 TTATAAATAG
* *
43179699 CACTAAGTGTGCGA-ATTAGAATAGCTTCGGCTATATGTGG
1 CACTAAGTGTGCGATATTAGAATAGCTTCGGCAATATGTGA
** *
43179739 CACTAAGTGTGAAATATT-GAGATAGTTTCGGTTCAATATGATGA
1 CACTAAGTGTGCGATATTAGA-ATAGCTTCGG--CAATATG-TGA
* **
43179783 CATTAAGTGTGCGATATT-TTATAGCTTCGGC
1 CACTAAGTGTGCGATATTAGAATAGCTTCGGC
43179814 TAGATTATTG
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
40 14 0.24
41 13 0.22
43 15 0.25
44 17 0.29
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (41 bp):
CACTAAGTGTGCGATATTAGAATAGCTTCGGCAATATGTGA
Found at i:43183986 original size:5 final size:5
Alignment explanation
Indices: 43183976--43184111 Score: 138
Period size: 5 Copynumber: 27.4 Consensus size: 5
43183966 GGTTGTTACT
* *
43183976 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG TTAGG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
* * * **
43184026 ATATA ATATG ATATG AT-TCA ATATG ATATG ATAT- AGTGTG ATATG -TCCG
1 ATATG ATATG ATATG ATAT-G ATATG ATATG ATATG A-TATG ATATG ATATG
43184075 ATATG AT-TCG ATATG ATATG ATAT- AGTATG ATATG AT
1 ATATG ATAT-G ATATG ATATG ATATG A-TATG ATATG AT
43184112 CCAATACGTT
Statistics
Matches: 108, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
4 6 0.06
5 98 0.91
6 4 0.04
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:43184089 original size:39 final size:39
Alignment explanation
Indices: 43184035--43184109 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
43184025 GATATAATAT
*
43184035 GATATGATTCAATATGATATGATATAGTGTGATATGTCC
1 GATATGATTCAATATGATATGATATAGTATGATATGTCC
*
43184074 GATATGATTCGATATGATATGATATAGTATGATATG
1 GATATGATTCAATATGATATGATATAGTATGATATG
43184110 ATCCAATACG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (39 bp):
GATATGATTCAATATGATATGATATAGTATGATATGTCC
Found at i:43185971 original size:20 final size:20
Alignment explanation
Indices: 43185942--43186031 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
43185932 AGCTGTGCCC
*
43185942 CTATTCGCACTTCGGTGTCT
1 CTATTTGCACTTCGGTGTCT
* *
43185962 CTATTTGCACGTCTGTG-CT
1 CTATTTGCACTTCGGTGTCT
* * *
43185981 CCTGTTCGCACTTTGGTGTC-
1 -CTATTTGCACTTCGGTGTCT
*
43186001 CT-TGTATACACTTCGGTGTCT
1 CTAT-T-TGCACTTCGGTGTCT
43186022 CTATTTGCAC
1 CTATTTGCAC
43186032 ATTTATGCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
18 1 0.02
19 5 0.10
20 41 0.79
21 4 0.08
22 1 0.02
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.41
Consensus pattern (20 bp):
CTATTTGCACTTCGGTGTCT
Found at i:43186021 original size:60 final size:60
Alignment explanation
Indices: 43185949--43186124 Score: 217
Period size: 60 Copynumber: 2.9 Consensus size: 60
43185939 CCCCTATTCG
* * * *
43185949 CACTTCGGTGTCTCTATTTGCACGTCTGTGCTCCTGTTCGCACTTTGGTGTCCTTGTATA
1 CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTGTATA
* * * * *
43186009 CACTTCGGTGTCTCTATTTGCACATTTATGCTCCTATTCACACTCTAGTGCCCCTGTATA
1 CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTGTATA
* * * * * *
43186069 CACTTTGGTGTCCCTGTTTGCACATTTGTTCCCCTGTTGGCACTTTGGTGCCCCTG
1 CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTG
43186125 ACTGTATGTA
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 96 1.00
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (60 bp):
CACTTCGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTTTGGTGCCCCTGTATA
Found at i:43186122 original size:20 final size:19
Alignment explanation
Indices: 43186056--43186124 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
43186046 TCACACTCTA
*
43186056 GTGCCCCTGTATACACTTTG
1 GTGCCCCTGT-TGCACTTTG
*
43186076 GTGTCCCTGTTTGCACATTT-
1 GTGCCCCTG-TTGCAC-TTTG
*
43186096 GTTCCCCTGTTGGCACTTTG
1 GTGCCCCTGTT-GCACTTTG
43186116 GTGCCCCTG
1 GTGCCCCTG
43186125 ACTGTATGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 5 0.12
20 31 0.77
21 4 0.10
ACGTcount: A:0.09, C:0.30, G:0.23, T:0.38
Consensus pattern (19 bp):
GTGCCCCTGTTGCACTTTG
Found at i:43191786 original size:43 final size:44
Alignment explanation
Indices: 43191725--43191845 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
43191715 ACAACGACAA
* *
43191725 TGTCCCAGACGTGGTCTTACATGAAATCACATATCGATGCC-AC
1 TGTCCCAGACGTGGTCTTACAAGAAATCACATATCGACGCCAAC
* * *
43191768 TGTCCCAGACAG-GGTCTTACACAAAAATTACAAATCGACGCCAAC
1 TGTCCCAGAC-GTGGTCTTACA-AGAAATCACATATCGACGCCAAC
*
43191813 -GTCCCAGACGTGGTCTTACACG-AATCACATATC
1 TGTCCCAGACGTGGTCTTACAAGAAATCACATATC
43191846 AGAATCCTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
42 9 0.14
43 20 0.31
44 34 0.52
45 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (44 bp):
TGTCCCAGACGTGGTCTTACAAGAAATCACATATCGACGCCAAC
Found at i:43203620 original size:12 final size:12
Alignment explanation
Indices: 43203603--43203628 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43203593 TAAATAACAA
43203603 ATTCTTTACTCG
1 ATTCTTTACTCG
43203615 ATTCTTTACTCG
1 ATTCTTTACTCG
43203627 AT
1 AT
43203629 GCATCACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTCTTTACTCG
Found at i:43205684 original size:26 final size:26
Alignment explanation
Indices: 43205655--43205706 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
43205645 TCGAATCTTT
*
43205655 TACACATTATGGCTTCAGTTGAAACA
1 TACACATTATGGCTTCAGTGGAAACA
43205681 TACACATTATGGCTTCAGTGGAAACA
1 TACACATTATGGCTTCAGTGGAAACA
43205707 CACTCTCGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (26 bp):
TACACATTATGGCTTCAGTGGAAACA
Found at i:43207119 original size:40 final size:40
Alignment explanation
Indices: 43207064--43207146 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
43207054 ATCCAACATA
43207064 ACATCAATTTAGTTAGCTATTAAACACCACATCTACTCTT
1 ACATCAATTTAGTTAGCTATTAAACACCACATCTACTCTT
43207104 ACATCAATTTAGTTAGCTATTAAACACCACATCTACTCTT
1 ACATCAATTTAGTTAGCTATTAAACACCACATCTACTCTT
43207144 ACA
1 ACA
43207147 ATTATAAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (40 bp):
ACATCAATTTAGTTAGCTATTAAACACCACATCTACTCTT
Found at i:43217432 original size:24 final size:23
Alignment explanation
Indices: 43217384--43217430 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
43217374 TCCAGACAAA
43217384 TGGTACTCCTTTCCTTATGAGTT
1 TGGTACTCCTTTCCTTATGAGTT
*
43217407 TGGTACTCCTTTTCTTATGAGTT
1 TGGTACTCCTTTCCTTATGAGTT
43217430 T
1 T
43217431 TGTCAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.51
Consensus pattern (23 bp):
TGGTACTCCTTTCCTTATGAGTT
Found at i:43222539 original size:18 final size:18
Alignment explanation
Indices: 43222516--43222551 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
43222506 GCAGCACCCG
43222516 CTGGTCCAGCATCCCTCC
1 CTGGTCCAGCATCCCTCC
43222534 CTGGTCCAGCATCCCTCC
1 CTGGTCCAGCATCCCTCC
43222552 TGAACCGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.50, G:0.17, T:0.22
Consensus pattern (18 bp):
CTGGTCCAGCATCCCTCC
Found at i:43229849 original size:25 final size:26
Alignment explanation
Indices: 43229821--43229875 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
43229811 TGGAGGAAGT
43229821 GAAAAAGGGCTATGCCCCA-ATTACC
1 GAAAAAGGGCTATGCCCCAGATTACC
* * *
43229846 G-AAAAGGGCTTTGCCTCAGTTTACC
1 GAAAAAGGGCTATGCCCCAGATTACC
43229871 GAAAA
1 GAAAA
43229876 GGGATTTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 15 0.60
25 7 0.28
26 3 0.12
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (26 bp):
GAAAAAGGGCTATGCCCCAGATTACC
Found at i:43229876 original size:25 final size:25
Alignment explanation
Indices: 43229823--43229917 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
43229813 GAGGAAGTGA
* *
43229823 AAAAGGGCTATGCCCCA-ATTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
43229847 AAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
43229872 AAAAGGGATTTTGCCCCAGTTTATC-
1 AAAAGGG-CTTTGCCCCAGTTTACCG
*
43229897 AAAAGGGCTTTTTCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
43229918 ATTAAAAGAG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.25
25 31 0.52
26 14 0.23
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:43229930 original size:25 final size:25
Alignment explanation
Indices: 43229847--43229930 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
43229837 CCAATTACCG
* *
43229847 AAAAGGGC-TTTGCCTCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
*
43229871 GAAAAGGGATTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
* *
43229897 AAAAGGGCTTTTTCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
43229921 AAAAGAGGCT
1 AAAAG-GGCT
43229931 AGGGCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
24 9 0.18
25 28 0.55
26 14 0.27
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:43230175 original size:31 final size:31
Alignment explanation
Indices: 43230137--43230220 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
43230127 TTGTTACAGT
*
43230137 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
43230168 AAAGGCTTCAGCCCAGTGATATGCATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
43230199 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
43230221 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:43234510 original size:53 final size:53
Alignment explanation
Indices: 43234428--43234534 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
43234418 TTTTCCTTTT
* * * * * *
43234428 TGAACTTACCATTGCTATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTA
*
43234481 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTA
43234534 T
1 T
43234535 AGTCTTACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
52 2 0.04
53 44 0.96
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTA
Found at i:43234541 original size:26 final size:26
Alignment explanation
Indices: 43234510--43234560 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
43234500 CCTTGGCATG
*
43234510 GTCTTACATGGGACCTTTGCCTTATA
1 GTCTTACATGGGACCTTCGCCTTATA
43234536 GTCTTACATGGGACCTTCGCCTTAT
1 GTCTTACATGGGACCTTCGCCTTAT
43234561 GGTAACTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCTTACATGGGACCTTCGCCTTATA
Found at i:43234701 original size:47 final size:47
Alignment explanation
Indices: 43234642--43234936 Score: 192
Period size: 47 Copynumber: 6.3 Consensus size: 47
43234632 CATGCCTTGG
* * *
43234642 CATGGTTTTACATGATATCCTTATCTTACCAAATGTCATGCTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
** *
43234689 TGTGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
* * ***
43234736 CATGGTCTTACATGGTATCCTTGTCTTAGTGCC-AACGCCA--CATCTTGA
1 CATGGTCTTACATGATATCCTTGTCTTA---CCAAATGCCATGC-TCCAAA
** * * * * * * ***
43234784 TGTAGTCCTACATGA-AGTCCTTAATCAATGCC-GATGCCATG-TCTTGA
1 CATGGTCTTACATGATA-TCCTT-GTC-TTACCAAATGCCATGCTCCAAA
* ** * ***
43234831 CATGGTCTTACACGGGATCCTTGCCTTACC-AATGCCATG-TCTTGA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
* *
43234876 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
43234923 CATGGTCTTACATG
1 CATGGTCTTACATG
43234937 GTCTTACATA
Statistics
Matches: 193, Mismatches: 43, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
45 42 0.22
46 10 0.05
47 111 0.58
48 19 0.10
49 8 0.04
50 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGCTCCAAA
Found at i:43234872 original size:45 final size:46
Alignment explanation
Indices: 43234817--43234934 Score: 148
Period size: 45 Copynumber: 2.6 Consensus size: 46
43234807 ATCAATGCCG
* *
43234817 ATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTACC-A
1 ATGCCATGTCTTGACATGGTCTTACACGAGATCCTTACCTTACCAA
* * *
43234862 ATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAA
1 ATGCCATGTCTTGACATGGTCTTACACGAGATCCTTACCTTACCAA
***
43234908 ATGCCATGTTCCAAACATGGTCTTACA
1 ATGCCATG-TCTTGACATGGTCTTACA
43234935 TGGTCTTACA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 39 0.62
46 9 0.14
47 15 0.24
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (46 bp):
ATGCCATGTCTTGACATGGTCTTACACGAGATCCTTACCTTACCAA
Found at i:43234926 original size:92 final size:93
Alignment explanation
Indices: 43234691--43234934 Score: 262
Period size: 92 Copynumber: 2.6 Consensus size: 93
43234681 GCTCCAAATG
* * *
43234691 TGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCC
1 TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACACGGGATCC
* **
43234756 TTGTCTTAGTGCCAACGCCACATCTTGATG
66 TTGCCTTA--GCCAACGCCACATCTTGACA
* * * * * ***
43234786 TAGTCCTACATGA-AGTCCTTAATCAATGCC-GATGCCATG-TCTTGACATGGTCTTACACGGGA
1 TGGTCTTACATGATA-TCCTT-ATC-TTACCAAATGCCATGTTCCAAACATGGTCTTACACGGGA
* **
43234848 TCCTTGCCTTA-CCAATGCCATGTCTTGACA
63 TCCTTGCCTTAGCCAACGCCACATCTTGACA
43234878 TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACA
1 TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACA
43234935 TGGTCTTACA
Statistics
Matches: 118, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
90 3 0.03
91 11 0.09
92 45 0.38
93 1 0.01
94 1 0.01
95 44 0.37
96 10 0.08
97 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (93 bp):
TGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACACGGGATCC
TTGCCTTAGCCAACGCCACATCTTGACA
Found at i:43241861 original size:27 final size:27
Alignment explanation
Indices: 43241830--43242007 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43241820 TAAATTGTAC
43241830 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43241857 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43241883 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43241911 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43241939 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43241966 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43241993 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43242008 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43241944 original size:82 final size:81
Alignment explanation
Indices: 43241831--43241986 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43241821 AAATTGTACA
* *
43241831 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43241895 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43241912 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43241977 TGCGAGTTGA
65 TGCGAATTGA
43241987 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43241998 original size:82 final size:81
Alignment explanation
Indices: 43241827--43242007 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43241817 GATTAAATTG
* *
43241827 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43241892 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43241908 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43241972 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43241990 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43242008 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43244248 original size:55 final size:53
Alignment explanation
Indices: 43244123--43244311 Score: 245
Period size: 55 Copynumber: 3.5 Consensus size: 53
43244113 AACTTACCAT
* * *
43244123 TGCCATGCCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
43244176 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
43244231 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
43244285 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
43244312 ATATCCTTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 35 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:43244606 original size:47 final size:47
Alignment explanation
Indices: 43244298--43244599 Score: 215
Period size: 47 Copynumber: 6.4 Consensus size: 47
43244288 CATGCCTTGG
43244298 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * ** ***
43244345 CATGGTCTTACATGGTATCCTTGTCTTAGTGCC-AATGCCA-CATCTTGA
1 CATGGTCTTACATGATATCCTTATCTTA---CCAAATGCCATGTTCCAAA
** * * * * ***
43244393 TGTGGTCTTACATGGA-GTCCTTAATCAATGCC-GATGCCATG-TCTTGA
1 CATGGTCTTACAT-GATATCCTT-ATC-TTACCAAATGCCATGTTCCAAA
* *** * ***
43244440 CATGGTCTTACACGGGGTCCTT-GCTTTACC-AATGCCATG-TCTTGA
1 CATGGTCTTACATGATATCCTTATC-TTACCAAATGCCATGTTCCAAA
* * *
43244485 CACGGGCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
* * *
43244532 CATGGTCTTACATGGTATGCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
43244579 CATGGTCTTACATGATATCCT
1 CATGGTCTTACATGATATCCT
43244600 CTTCTTAGTG
Statistics
Matches: 200, Mismatches: 44, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
45 39 0.19
46 10 0.05
47 119 0.60
48 19 0.09
49 10 0.05
50 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:43244635 original size:187 final size:186
Alignment explanation
Indices: 43244282--43244696 Score: 460
Period size: 187 Copynumber: 2.2 Consensus size: 186
43244272 TAGAACTTAT
* *
43244282 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACA
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACA
*** ** *
43244347 TGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGGAGTC
66 TGGTCTTACATGGTATCCTTGTCTTA--GCCAATGCCACATCCAAACATGGTCTTACATGGAATC
** * **
43244412 CTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGGTCCTT-GCTTTAC
129 CTTAATCAATGCCGATGCCACATCTTGACATGGTCTTACACGGAGTCCTTAGCAATAC
* * *
43244469 CAATGCCATGTCTTGACACGGGCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAACA
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACA
* **
43244534 TGGTCTTACATGGTATGCTTGTCTTA-CCAAATGCCATGTTCCAAACATGGTCTTACAT-GATAT
66 TGGTCTTACATGGTATCCTTGTCTTAGCC-AATGCCA-CATCCAAACATGGTCTTACATGGA-AT
** * * ** * * *
43244597 CCTCTTCTTAGTGCC-AGTGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATCAATGC
128 CCT-TAATCAATGCCGA-TGCCACATCTTGACATGGTCTTACACGGAGTCCTT-AGCAATAC
* *
43244658 CGATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTA
43244697 ACTGTCAATT
Statistics
Matches: 189, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
184 2 0.01
185 9 0.05
186 19 0.10
187 121 0.64
189 38 0.20
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (186 bp):
CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACA
TGGTCTTACATGGTATCCTTGTCTTAGCCAATGCCACATCCAAACATGGTCTTACATGGAATCCT
TAATCAATGCCGATGCCACATCTTGACATGGTCTTACACGGAGTCCTTAGCAATAC
Found at i:43246935 original size:48 final size:48
Alignment explanation
Indices: 43246853--43247139 Score: 299
Period size: 48 Copynumber: 5.9 Consensus size: 48
43246843 ATACTAGGGT
* * * *
43246853 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGGATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* ** * **
43246901 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAACCTCAA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* * * *
43246949 TATGTGAGCTAGTGTAAGACCGTGTTTGGAACATGGCATCGGTATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* *
43246997 TATGAGAGCTAGTGTAAGACCATATTTGGGACATGGCATC-G-ATCTAGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT-T-GA
* * * * * *
43247045 CATGTGAGCTAGTGTAAGACGATGTTTGGAATATGGCATCGACACTGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG--A
* * *
43247095 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
43247140 CTTACCATTT
Statistics
Matches: 192, Mismatches: 41, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 149 0.78
49 1 0.01
50 38 0.20
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
Found at i:43247017 original size:96 final size:96
Alignment explanation
Indices: 43246853--43247134 Score: 379
Period size: 96 Copynumber: 2.9 Consensus size: 96
43246843 ATACTAGGGT
* * * * *
43246853 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGGATTGATATGAGAGCTAGTGTAA
1 TATGTGAGCTAGTGTAAGACCGTGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
43246918 GACCATGTTTGGGACATGGCATCAACCTCA-A
66 GACCATGTTTGGGACATGGCATCAACCT-AGA
*
43246949 TATGTGAGCTAGTGTAAGACCGTGTTTGGAACATGGCATCGGTATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCTAGTGTAAGACCGTGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* * *
43247014 GACCATATTTGGGACATGGCATCGATCTAGA
66 GACCATGTTTGGGACATGGCATCAACCTAGA
* * * * *
43247045 CATGTGAGCTAGTGTAAGA-CGATGTTTGGAATATGGCATCGACACTGATATATGAGAGCCAGTG
1 TATGTGAGCTAGTGTAAGACCG-TGTTTGGAACATGGCATCGGCA-T-TTATATGAGAGCTAGTG
*
43247109 TAAGACCATGTCTGGGACATGGCATC
63 TAAGACCATGTTTGGGACATGGCATC
43247135 GGCATCTTAC
Statistics
Matches: 166, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
95 3 0.02
96 123 0.74
97 1 0.01
98 39 0.23
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (96 bp):
TATGTGAGCTAGTGTAAGACCGTGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTTTGGGACATGGCATCAACCTAGA
Found at i:43251932 original size:79 final size:81
Alignment explanation
Indices: 43251796--43251980 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
43251786 TTGAATGATG
*
43251796 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
43251860 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
43251875 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43251937 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
43251955 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43251981 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:43251994 original size:40 final size:40
Alignment explanation
Indices: 43251797--43251980 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
43251787 TGAATGATGT
* * * *
43251797 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
43251837 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
43251877 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43251915 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43251956 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43251981 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43252002 original size:79 final size:79
Alignment explanation
Indices: 43251797--43252013 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
43251787 TGAATGATGT
** * * * **
43251797 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
43251860 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
43251877 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
43251942 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
43251956 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
43252014 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:43259835 original size:39 final size:40
Alignment explanation
Indices: 43259740--43259962 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
43259730 TTGAATGATG
*
43259740 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
43259778 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
43259819 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
43259858 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
43259897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
43259936 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43259963 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:43259926 original size:79 final size:81
Alignment explanation
Indices: 43259740--43259962 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
43259730 TTGAATGATG
* * *
43259740 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
43259802 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
43259819 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
43259880 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
43259897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
43259961 TG
66 TG
43259963 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:43259984 original size:79 final size:79
Alignment explanation
Indices: 43259740--43259995 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
43259730 TTGAATGATG
* * * *
43259740 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
43259801 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
43259819 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
43259883 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
43259897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
43259960 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
43259977 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
43259996 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:43262834 original size:15 final size:15
Alignment explanation
Indices: 43262814--43262845 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43262804 ATGTGTAATA
43262814 AAATATTACCTTAGT
1 AAATATTACCTTAGT
43262829 AAATATTACCTTAGT
1 AAATATTACCTTAGT
43262844 AA
1 AA
43262846 CTATCCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (15 bp):
AAATATTACCTTAGT
Found at i:43264544 original size:14 final size:16
Alignment explanation
Indices: 43264520--43264552 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
43264510 ATTTTCTATG
43264520 TTTATTATGTGTGA-A
1 TTTATTATGTGTGACA
43264535 TTTA-TATGTGTGACA
1 TTTATTATGTGTGACA
43264550 TTT
1 TTT
43264553 TCATGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (16 bp):
TTTATTATGTGTGACA
Found at i:43265756 original size:89 final size:89
Alignment explanation
Indices: 43265644--43265908 Score: 267
Period size: 89 Copynumber: 3.0 Consensus size: 89
43265634 TAGGATTCTG
* * *
43265644 ATATGTGTTTTTGTGTAACACCACTTCTGGGACGTTGGCATCGATATATGTGTTTTCTTGTACGA
1 ATATGTG-TTTTGTGTAAGACCACTTCTGGGACGTTGGCATCGATATATGTGTTTTCATGTAAGA
* *
43265709 -CACGTCTGGGACATTGGCATCGAT
65 CCACATCTAGGACATTGGCATCGAT
* *
43265733 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGATATATGTGTTTTCATGTAAGA
1 ATATGTGTTTT-GTGTAAGACCACTTCTGGGACGTTGGCATCGATATATGTGTTTTCATGTAAGA
**
43265798 CCACATCTAGGATGTTGGCATCGAT
65 CCACATCTAGGACATTGGCATCGAT
* * * * ** * *
43265823 ATGTG-GTTATGAGTAAGACCA-TCTCTGGGACATCAGCATCG-TAT-T-TG-ATTCGTGTAAGA
1 ATATGTGTTTTGTGTAAGACCACT-TCTGGGACGTTGGCATCGATATATGTGTTTTCATGTAAGA
* *
43265882 CC-CTATCTGGGACAGTGGCATCGAT
65 CCAC-ATCTAGGACATTGGCATCGAT
43265907 AT
1 AT
43265909 GAGATAGCAT
Statistics
Matches: 149, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
83 1 0.01
84 31 0.21
85 2 0.01
86 1 0.01
87 3 0.02
88 28 0.19
89 59 0.40
90 24 0.16
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (89 bp):
ATATGTGTTTTGTGTAAGACCACTTCTGGGACGTTGGCATCGATATATGTGTTTTCATGTAAGAC
CACATCTAGGACATTGGCATCGAT
Found at i:43265773 original size:45 final size:45
Alignment explanation
Indices: 43265644--43265824 Score: 256
Period size: 45 Copynumber: 4.0 Consensus size: 45
43265634 TAGGATTCTG
* * * *
43265644 ATATGTGTTTTTGTGTAACACCACTTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* * * *
43265689 ATATGTGTTTTCTTGTACGA-CACGTCTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
43265733 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* * *
43265778 ATATGTGTTTTCATGTAAGACCACATCTAGGATGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
43265823 AT
1 AT
43265825 GTGGTTATGA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
44 40 0.33
45 82 0.67
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
Found at i:43266335 original size:13 final size:13
Alignment explanation
Indices: 43266291--43266343 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
43266281 ACTTTGGCAA
43266291 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * * *
43266304 TACTGTGGAAAAA
1 TGCTTTTGAAAAG
* *
43266317 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
43266330 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
43266343 T
1 T
43266344 TTGGTTTAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:43266897 original size:18 final size:19
Alignment explanation
Indices: 43266876--43266913 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
43266866 AACTTTTCTT
43266876 CCAAAAGT-TCTTTTTAAG
1 CCAAAAGTGTCTTTTTAAG
*
43266894 CCAAAAGTGTTTTTTTAAG
1 CCAAAAGTGTCTTTTTAAG
43266913 C
1 C
43266914 ACAGAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (19 bp):
CCAAAAGTGTCTTTTTAAG
Found at i:43273512 original size:32 final size:32
Alignment explanation
Indices: 43273471--43273555 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
43273461 ATAAGTGTGA
*
43273471 ATATATGTGTAGTTGGATA-AAGTTGAATGTCT
1 ATATATGTGTAGTTGGATATAA-TCGAATGTCT
*
43273503 ATATATGTGT-GATTGGATATAATCGAATGTGT
1 ATATATGTGTAG-TTGGATATAATCGAATGTCT
* * *
43273535 ATCTAGGTGTAGTTTGATATA
1 ATATATGTGTAGTTGGATATA
43273556 GCCGATTGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 1 0.02
32 41 0.91
33 3 0.07
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.41
Consensus pattern (32 bp):
ATATATGTGTAGTTGGATATAATCGAATGTCT
Found at i:43273724 original size:27 final size:26
Alignment explanation
Indices: 43273693--43273788 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 26
43273683 TTTGAGGGAT
*
43273693 GCACTAAGTGTGGGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGAT-CTGA
* * * *
43273720 GCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * *
43273746 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
43273773 GCACTAAGTGTGCGAA
1 GCACTAAGTGTGCGAA
43273789 ATCAGTTATT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
26 17 0.32
27 36 0.68
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTTGATCTGA
Found at i:43276984 original size:28 final size:28
Alignment explanation
Indices: 43276944--43277010 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
43276934 CACACAGGCT
43276944 AGGACACGGGCGTGTCATGGCCGTGTGA
1 AGGACACGGGCGTGTCATGGCCGTGTGA
43276972 AGGACACGGGCGTGTCATGGCCGTGTGA
1 AGGACACGGGCGTGTCATGGCCGTGTGA
43277000 AGGACACGGGC
1 AGGACACGGGC
43277011 CAGAGACACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.15
Consensus pattern (28 bp):
AGGACACGGGCGTGTCATGGCCGTGTGA
Found at i:43278603 original size:80 final size:80
Alignment explanation
Indices: 43278519--43278707 Score: 342
Period size: 80 Copynumber: 2.4 Consensus size: 80
43278509 TATTACCACA
43278519 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
43278584 CCGGATAAAATCACT
66 CCGGATAAAATCACT
43278599 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
43278664 CCGGATAAAATCACT
66 CCGGATAAAATCACT
* * * *
43278679 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAATTGCCTTCGGGTCTTAACCCGG
43278708 ATATCATTCA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 105 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACT
Found at i:43278708 original size:40 final size:40
Alignment explanation
Indices: 43278519--43278710 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
43278509 TATTACCACA
* * * * *
43278519 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
*
43278559 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
* * * * *
43278599 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
*
43278639 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
* *
43278679 AGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
43278711 TCATTCAAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 119 0.93
41 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
Found at i:43285619 original size:33 final size:33
Alignment explanation
Indices: 43285577--43285666 Score: 171
Period size: 33 Copynumber: 2.7 Consensus size: 33
43285567 GAATTCGATC
43285577 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
1 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
43285610 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
1 CACACGGCCGTGTGTTCAGACACACGGGCAAGG
*
43285643 CACATGGCCGTGTGTTCAGACACA
1 CACACGGCCGTGTGTTCAGACACA
43285667 TAGGCGTGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.24, C:0.30, G:0.31, T:0.14
Consensus pattern (33 bp):
CACACGGCCGTGTGTTCAGACACACGGGCAAGG
Found at i:43286413 original size:17 final size:17
Alignment explanation
Indices: 43286379--43286463 Score: 70
Period size: 17 Copynumber: 5.1 Consensus size: 17
43286369 GGATTTTATT
43286379 TCTTTATCTTTA-TCTTTG
1 TCTTTAT-TTTAGT-TTTG
43286397 TCTTTATTTTAGTTTTG
1 TCTTTATTTTAGTTTTG
* **
43286414 T-TTTATTAT-GCATT-
1 TCTTTATTTTAGTTTTG
*
43286428 TCAGTTATTTTAGTTTTG
1 TC-TTTATTTTAGTTTTG
*
43286446 TCTTAATTTTAGTTTTG
1 TCTTTATTTTAGTTTTG
43286463 T
1 T
43286464 TTGTTACAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.02
15 3 0.06
16 13 0.25
17 26 0.49
18 10 0.19
ACGTcount: A:0.15, C:0.08, G:0.11, T:0.66
Consensus pattern (17 bp):
TCTTTATTTTAGTTTTG
Found at i:43287970 original size:6 final size:6
Alignment explanation
Indices: 43287959--43287989 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
43287949 GTCCCTTTAA
43287959 TTATTT TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
43287990 CCTTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:43288987 original size:4 final size:4
Alignment explanation
Indices: 43288980--43289010 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
43288970 TTAAAAAAAA
43288980 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
43289011 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:43292733 original size:40 final size:40
Alignment explanation
Indices: 43292678--43292905 Score: 420
Period size: 40 Copynumber: 5.7 Consensus size: 40
43292668 GAGCATTGGA
43292678 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
43292718 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
43292758 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
43292798 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
43292838 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
43292878 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
43292906 ATGTGTTTGC
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:43298304 original size:86 final size:86
Alignment explanation
Indices: 43298194--43298368 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
43298184 GAAAGGTAAT
43298194 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
43298259 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
43298280 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
43298345 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
43298366 GAA
1 GAA
43298369 TTCCTCTCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (86 bp):
GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
TTCGAAAGGGGGTTAGCAAAA
Found at i:43298484 original size:21 final size:21
Alignment explanation
Indices: 43298455--43298591 Score: 51
Period size: 21 Copynumber: 6.7 Consensus size: 21
43298445 CAAGCTCTCT
* *
43298455 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-ATTTC
* **
43298476 TTCTTTTTCAATTTTCATTTC
1 TTCATTTTCTTTTTTCATTTC
43298497 TTCATTTTCTTTTTCTCTCACTTT-
1 TTCATTTTC-TTTT-T-TCA-TTTC
*
43298521 TTCAATTTC-TTTTTC-TTT-
1 TTCATTTTCTTTTTTCATTTC
* *
43298539 TGCAATTTC-TTTTTC-TTT-
1 TTCATTTTCTTTTTTCATTTC
*
43298557 TTCGTTTTCTTTTTGT--TTTC
1 TTCATTTTCTTTTT-TCATTTC
*
43298577 TTTCAATTTCTTTTT
1 -TTCATTTTCTTTTT
43298592 CAATCTCTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
18 26 0.28
19 7 0.08
20 6 0.07
21 33 0.36
22 5 0.05
23 1 0.01
24 11 0.12
25 3 0.03
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.69
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCATTTC
Found at i:43298532 original size:12 final size:12
Alignment explanation
Indices: 43298475--43298601 Score: 55
Period size: 12 Copynumber: 10.6 Consensus size: 12
43298465 TTTTTCGCTT
43298475 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
43298487 TTTTCATTTCTTCAT
1 -TTTC-TTT-TTCAA
**
43298502 TTTCTTTTTCTC
1 TTTCTTTTTCAA
**
43298514 TCACTTTTTCAA
1 TTTCTTTTTCAA
*
43298526 TTTCTTTTTC-T
1 TTTCTTTTTCAA
** **
43298537 TTTGCAATTTCTT
1 TTT-CTTTTTCAA
**
43298550 TTTCTTTTTCGT
1 TTTCTTTTTCAA
*
43298562 TTTCTTTTT--G
1 TTTCTTTTTCAA
*
43298572 TTT-TCTTTCAA
1 TTTCTTTTTCAA
43298583 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
43298595 TCTCTTT
1 TTTCTTT
43298602 CTCCTTTTCT
Statistics
Matches: 87, Mismatches: 20, Indels: 15
0.71 0.16 0.12
Matches are distributed among these distances:
9 4 0.05
10 3 0.03
11 6 0.07
12 52 0.60
13 11 0.13
14 7 0.08
15 4 0.05
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:43298538 original size:18 final size:18
Alignment explanation
Indices: 43298472--43298592 Score: 98
Period size: 18 Copynumber: 6.4 Consensus size: 18
43298462 TCTTTTTTCG
43298472 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
43298491 CATTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* **
43298511 CTCTCACTTTTTCAATTT
1 CTTTTTCTTTTTCAATTT
*
43298529 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
**
43298547 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCAATTT
*
43298565 CTTTTTGTTTTCTTTCAATTT
1 C-TTTT-TCTT-TTTCAATTT
43298586 CTTTTTC
1 CTTTTTC
43298593 AATCTCTTTC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
18 39 0.51
19 8 0.10
20 14 0.18
21 16 0.21
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.69
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:43298592 original size:6 final size:6
Alignment explanation
Indices: 43298472--43298579 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
43298462 TCTTTTTTCG
* * * **
43298472 CTTTTT CTTTTT CAATTTT CATTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
43298523 CAATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
43298571 -GTTTT CTTT
1 CTTTTT CTTT
43298580 CAATTTCTTT
Statistics
Matches: 75, Mismatches: 24, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.77
7 10 0.13
8 3 0.04
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:43301586 original size:20 final size:20
Alignment explanation
Indices: 43301563--43301609 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
43301553 GGGTTAAGAT
*
43301563 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
43301583 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
43301603 TGAGCTG
1 TGAGCTG
43301610 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:43301878 original size:27 final size:28
Alignment explanation
Indices: 43301819--43301878 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
43301809 CATAGGCTGA
*
43301819 GACACGGGCGTGTCATGGCCGTGTGAGG
1 GACACAGGCGTGTCATGGCCGTGTGAGG
43301847 GACACAGGCGTGTCATGGCC-TGTGAGG
1 GACACAGGCGTGTCATGGCCGTGTGAGG
43301874 GACAC
1 GACAC
43301879 GGGCCATGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.18, C:0.23, G:0.42, T:0.17
Consensus pattern (28 bp):
GACACAGGCGTGTCATGGCCGTGTGAGG
Found at i:43312526 original size:20 final size:22
Alignment explanation
Indices: 43312492--43312532 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
43312482 GGGATTAAAT
43312492 CAAAAATTCAAAAATT-TTTTG
1 CAAAAATTCAAAAATTATTTTG
*
43312513 CAAAATTTC-AAAATTATTTT
1 CAAAAATTCAAAAATTATTTT
43312533 TAGATGCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
CAAAAATTCAAAAATTATTTTG
Found at i:43316444 original size:93 final size:93
Alignment explanation
Indices: 43316336--43316506 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43316326 GCCCCTAAGT
* * *
43316336 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43316401 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
43316429 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43316494 CGAGTTCGGATGC
66 CGAGTTCGGATGC
43316507 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:43316503 original size:46 final size:46
Alignment explanation
Indices: 43316331--43316503 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
43316321 AACCCGCCCC
* * * *
43316331 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
43316377 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
43316425 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
43316470 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43316504 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:43317920 original size:44 final size:44
Alignment explanation
Indices: 43317867--43318096 Score: 211
Period size: 44 Copynumber: 5.2 Consensus size: 44
43317857 CCATTATAAT
*
43317867 TTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * ** * ** *
43317911 TTCAAGGAGATACGA-A-TTGTGGCTTCTAGATGCTCCAAT-GACAT
1 TTCAAGGAGA-A-GAGATTTGTAGCTTCGATCTACTCCGCTGGA-AC
43317955 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * ** * ** *
43317999 TTCAAGGAGATACGA-A-TTGTGGCTTCTAGATGCTCCAAT-GACAT
1 TTCAAGGAGA-A-GAGATTTGTAGCTTCGATCTACTCCGCTGGA-AC
43318043 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
43318087 TTCAAGGAGA
1 TTCAAGGAGA
43318097 TAAGAATTGT
Statistics
Matches: 141, Mismatches: 33, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
42 4 0.03
43 8 0.06
44 117 0.83
45 8 0.06
46 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
Found at i:43317970 original size:88 final size:88
Alignment explanation
Indices: 43317865--43318106 Score: 466
Period size: 88 Copynumber: 2.8 Consensus size: 88
43317855 TTCCATTATA
*
43317865 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
43317930 TGGCTTCTAGATGCTCCAATGAC
66 TGGCTTCTAGATGCTCCAATGAC
43317953 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
43318018 TGGCTTCTAGATGCTCCAATGAC
66 TGGCTTCTAGATGCTCCAATGAC
*
43318041 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
43318106 T
66 T
43318107 TGATTTTGAC
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 152 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
TGGCTTCTAGATGCTCCAATGAC
Found at i:43318268 original size:130 final size:130
Alignment explanation
Indices: 43318120--43318358 Score: 306
Period size: 130 Copynumber: 1.8 Consensus size: 130
43318110 TTTTGACCTG
* *
43318120 CTCCACTATTGCTCAGGGAGATAGGACGGTGGCTTAAATCTGCTCCACTACTG-CTT-AGAGAGA
1 CTCCACTACTGCTCAGGGAGATAGGACGGAGGCTTAAATCT--TCC-CTACTGACTTCAGAGAGA
* * *
43318183 TAAGATTCGCCATCTTC-GATCTGCTCAACTACTACTT-AGGGAGACAACATCTACAATCTTCAG
63 TAAAATTCACCATCTTCAG-TCTGCTCAACTACAACTTCAGGGAGACAACATCTACAATCTTCAG
43318246 CCTA
127 CCTA
* * *
43318250 CTCCACTACTGCTTAGGGAGATAGGATGGAGGCTTAAATCTTCCCTACTGTAACTTCAGGGAGAT
1 CTCCACTACTGCTCAGGGAGATAGGACGGAGGCTTAAATCTTCCCTACTG--ACTTCAGAGAGAT
* *
43318315 AAAATTCACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
64 AAAATTCACCATCTTCAGTCTGCTCAACTACAACTTCAGGGAGA
43318359 TAAGACTTGC
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
127 6 0.06
128 3 0.03
130 40 0.43
131 36 0.39
132 8 0.09
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (130 bp):
CTCCACTACTGCTCAGGGAGATAGGACGGAGGCTTAAATCTTCCCTACTGACTTCAGAGAGATAA
AATTCACCATCTTCAGTCTGCTCAACTACAACTTCAGGGAGACAACATCTACAATCTTCAGCCTA
Found at i:43318354 original size:45 final size:44
Alignment explanation
Indices: 43318301--43318406 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
43318291 TCCCTACTGT
**
43318301 AACTTCAGGGAGATAA-AATT-CACTATCTTCAGTCTGCTCCACTAC
1 AACTTCAGGGAGATAAGAATTGCA--A-CTTCAACCTGCTCCACTAC
* *
43318346 AACTTCAGGGAGATAAGACTTGCAACTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGAATTGCAACTTCAACCTGCTCCACTAC
43318390 AACTTCAGGGAGATAAG
1 AACTTCAGGGAGATAAG
43318407 GTTAGCTATG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 33 0.60
45 17 0.31
46 3 0.05
47 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGAATTGCAACTTCAACCTGCTCCACTAC
Found at i:43318385 original size:131 final size:129
Alignment explanation
Indices: 43318115--43318387 Score: 304
Period size: 131 Copynumber: 2.1 Consensus size: 129
43318105 GTTGATTTTG
* *
43318115 ACCTGCTCCACTATTGCTCAGGGAGATAGGACGGTGGCTTAAATCTGCTCCACTACTGCTTAGAG
1 ACCTGCTCCACTACTGCTCAGGGAGATAGGACGGAGGCTTAAATCT-CTCCACTACTGCTTAGAG
* * *
43318180 AGATAAGATTCGCCATCTTCGATCTGCTCAACTACTACTTAGGGAGACAACATCTACAATCTTCA
65 AGATAAAATTCACCATCTTCGATCTGCTCAACTACAACTTAGGGAGACAACATCTACAATCTTCA
* * * *
43318245 GCCTACTCCACTACTGCTTAGGGAGATAGGATGGAGGCTTAAATCT-TCC-CTACTGTAACTTCA
1 ACCTGCTCCACTACTGCTCAGGGAGATAGGACGGAGGCTTAAATCTCTCCACTACTG---CTT-A
* * * * * *
43318308 GGGAGATAAAATTCACTATCTTC-AGTCTGCTCCACTACAACTTCAGGGAGATAAGA-CTTGCAA
62 GAGAGATAAAATTCACCATCTTCGA-TCTGCTCAACTACAACTT-AGGGAGACAACATC-TACAA
43318371 -CTTCA
124 TCTTCA
43318376 ACCTGCTCCACT
1 ACCTGCTCCACT
43318388 GCAACTTCAG
Statistics
Matches: 119, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
127 6 0.05
128 3 0.03
130 44 0.37
131 52 0.44
132 14 0.12
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (129 bp):
ACCTGCTCCACTACTGCTCAGGGAGATAGGACGGAGGCTTAAATCTCTCCACTACTGCTTAGAGA
GATAAAATTCACCATCTTCGATCTGCTCAACTACAACTTAGGGAGACAACATCTACAATCTTCA
Found at i:43318650 original size:88 final size:88
Alignment explanation
Indices: 43318454--43318880 Score: 608
Period size: 88 Copynumber: 4.8 Consensus size: 88
43318444 AAGATTTGCT
* * * * * *
43318454 ATCTTCGATCTGCTTCACTACTTCTTAGAGAGATAAAATC--TACATTCTTCAGCCTATTACCCT
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTA-ATT-TTCAGCCTGTTACCCT
*
43318517 ACTTGCTTAGGGGGTTAAGGCTCACC
64 AC-TACTTAGGGGGTTAAGGCTCACC
* * *
43318543 ATCTTCGGTCTGCTCCACTACTACTTAGAGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTAC
43318608 TACTTAGGGGGTTAAGGCTCACC
66 TACTTAGGGGGTTAAGGCTCACC
* *
43318631 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTTAGCCTGTTACCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTAC
* *
43318696 TGCTTAAGGGGTTAAGGCTCACC
66 TACTTAGGGGGTTAAGGCTCACC
* *
43318719 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGTCTGTTACCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTAC
*
43318784 TACTTAGGGGGTTAAGGATCACC
66 TACTTAGGGGGTTAAGGCTCACC
* * * *
43318807 GTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTAC
43318872 -AGCTTAGGG
66 TA-CTTAGGG
43318881 CGTTGGGATG
Statistics
Matches: 310, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
87 1 0.00
88 252 0.81
89 52 0.17
90 3 0.01
91 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (88 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTAC
TACTTAGGGGGTTAAGGCTCACC
Found at i:43318696 original size:44 final size:44
Alignment explanation
Indices: 43318648--43318880 Score: 131
Period size: 44 Copynumber: 5.3 Consensus size: 44
43318638 ATCTACTCCA
* *
43318648 CTACTGCTTAGGGAGATGAGATCTGTAATTTTTAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGTCTGTTACC
* * * ** * * *
43318692 CTACTGCTTAAGGG-GTTAAG-GCT-CACCGTCTTCGATCTGCT-CC
1 CTACTGCTT-AGGGAGATAAGATCTGTA-ATTTTTAG-TCTGTTACC
* *
43318735 ACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGTCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGTCTGTTACC
* * * ** * *
43318780 CTACTACTTAGGGGGTTAAGGATC---ACCGTCTTCGATCTGTT-CC
1 CTACTGCTTAGGGAGATAA-GATCTGTA-ATTTTTAG-TCTGTTACC
* * *
43318823 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGTCTGTTACC
*
43318868 CTACAGCTTAGGG
1 CTACTGCTTAGGG
43318881 CGTTGGGATG
Statistics
Matches: 133, Mismatches: 40, Indels: 32
0.65 0.20 0.16
Matches are distributed among these distances:
42 2 0.02
43 21 0.16
44 88 0.66
45 20 0.15
46 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTTAGTCTGTTACC
Found at i:43319011 original size:131 final size:130
Alignment explanation
Indices: 43318805--43319364 Score: 742
Period size: 131 Copynumber: 4.3 Consensus size: 130
43318795 TTAAGGATCA
* ** * ** * *
43318805 CCGTCTTCGATCTGTTCCACTACTGCTT-AGGGAGATAAGATCTGTAATTTTCAGCCTATTACC-
1 CCGTATTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACT-CCA
* * * *
43318868 CTACAGCTTAGGGCGTTGGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGAGAGACAAGATT
65 CTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAG-GAGACAAGATT
43318933 CG
129 CG
* * * *
43318935 CCGTATTCGATCTGTTCCACTGCAACTTCTGGGAGACAAGATCTACAATCTTTAGCTTACTCCAC
1 CCGTATTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCAC
* *
43319000 TACTGCTTAGGGAGATAGGATTGTGGCTTAAATCTACTCCACTACTGGTTAGGGAGACAAGATTC
66 TACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTA-GGAGACAAGATTC
*
43319065 A
130 G
43319066 CCGTATTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCAC
1 CCGTATTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCAC
* *
43319131 TACTGCTTAGGGAAATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAAGCCAAGATTC
66 TACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGG-AGACAAGATTC
43319196 G
130 G
*
43319197 CCGTCTTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCAC
1 CCGTATTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCAC
* * * *
43319262 TACTACTTAGGGAGAAAGGATGGTGGCTTAAATCTGTTCCACTA---G---GGAGACAAGATTCA
66 TACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAGACAAGATTCG
* * * * *
43319321 CCGTCTTCGATCTGCTCTACTACTACTT-AGGGAGATAAGATCTA
1 CCGTATTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTA
43319365 TGAATTCACC
Statistics
Matches: 387, Mismatches: 39, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
123 15 0.04
124 35 0.09
125 2 0.01
128 1 0.00
130 28 0.07
131 305 0.79
132 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (130 bp):
CCGTATTCGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCAC
TACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAGACAAGATTCG
Found at i:43319514 original size:64 final size:64
Alignment explanation
Indices: 43319431--43319558 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
43319421 TCATGTATCT
*
43319431 ATGCTTATTCCAAATAATTAGGATGCTATGACCGAAATGAATCAGATGCTCCTAACTAGATGTG
1 ATGCTTATTCCAAATAATTAGGATGCTATGACCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
43319495 ATGCTTATGT-CAACTAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTAT-TCCAAATAATTAGGATGCTATGACCGAAATGAATCAAATGCTCCTAACTAGATGTG
43319559 TTATGAATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 59 0.98
65 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (64 bp):
ATGCTTATTCCAAATAATTAGGATGCTATGACCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:43326204 original size:3 final size:3
Alignment explanation
Indices: 43326196--43326243 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
43326186 TAAATCAGTT
*
43326196 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43326244 CAACGTGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:43326372 original size:3 final size:3
Alignment explanation
Indices: 43326366--43326560 Score: 82
Period size: 3 Copynumber: 64.3 Consensus size: 3
43326356 CATTAATAGG
* *
43326366 AAT AAT AAT -AT AGACT AAT AAT AAC AAT AAC AGA- AA- AAT AAT AAT
1 AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * * * *
43326411 AA- AAT GAT AAA AAA AAT AAT -AT AAT GAAT AAT GAC AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * * * *
43326455 -AT AAAT AGT AAT AGA- AAA AAC AAT AAT AGA- AAT AAC AAC GAT AAT
1 AAT -AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
43326500 AAT AAAT AAT AAG AGT AAT AGT AAT AAT AAT AAT AAT AAAT AAT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
43326547 AAT ATGT AAT AAT A
1 AAT A-AT AAT AAT A
43326561 CTTTAAACGT
Statistics
Matches: 148, Mismatches: 27, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
2 13 0.09
3 115 0.78
4 18 0.12
5 2 0.01
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:43326422 original size:20 final size:20
Alignment explanation
Indices: 43326399--43326437 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43326389 ACAATAACAG
*
43326399 AAAAATAATAATAAAATGAT
1 AAAAAAAATAATAAAATGAT
*
43326419 AAAAAAAATAATATAATGA
1 AAAAAAAATAATAAAATGA
43326438 ATAATGACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAAAATAATAAAATGAT
Found at i:43326526 original size:37 final size:34
Alignment explanation
Indices: 43326478--43326545 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
43326468 GAAAAAACAA
43326478 TAATAGAAATAACAACGATAATAATAAATAATAAGAG
1 TAATAGAAATAA-AA--ATAATAATAAATAATAAGAG
* *
43326515 TAATAGTAATAATAATAATAATAAATAATAA
1 TAATAGAAATAAAAATAATAATAAATAATAA
43326546 TAATATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.59
36 1 0.03
37 11 0.38
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.26
Consensus pattern (34 bp):
TAATAGAAATAAAAATAATAATAAATAATAAGAG
Found at i:43326681 original size:5 final size:5
Alignment explanation
Indices: 43326666--43326695 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
43326656 ATACTTGAAG
43326666 AAATAA AAATA AAATA AAATA AAATA AAAT
1 AAAT-A AAATA AAATA AAATA AAATA AAAT
43326696 GCTGAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:43330650 original size:13 final size:13
Alignment explanation
Indices: 43330634--43330697 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
43330624 TTTAAACCAA
43330634 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
43330647 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
43330660 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
* **
43330673 ACTTCTCAAAATT
1 ACTTTTCAAAAGC
43330686 ACTTTTCAAAAG
1 ACTTTTCAAAAG
43330698 TATTGCCAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:43330673 original size:26 final size:26
Alignment explanation
Indices: 43330634--43330697 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
43330624 TTTAAACCAA
43330634 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
* * *
43330660 ACTTTTCCACAGCACTTCTCAAAATT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
43330686 ACTTTTCAAAAG
1 ACTTTTCAAAAG
43330698 TATTGCCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGT
Found at i:43343668 original size:49 final size:49
Alignment explanation
Indices: 43343602--43343776 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 49
43343592 ATTATGTGTG
* * * * *
43343602 AGTGTAAAACCTATCTGGGACGTGGCATCAACATCGATAGGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACATCGATAGATGAAAGCC
* * * *
43343651 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACATCGATAGATGAAAGCC
* * * ** **
43343700 AGTGTAAGACCTGTCTGGGACACGGCATCGACTTTAAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACATCGATAGATGAAAGCC
* *
43343747 AGTGCAAGACCATGTCTGGGAAATGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
43343777 GGCATCTTAT
Statistics
Matches: 103, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
47 15 0.15
48 16 0.16
49 72 0.70
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACATCGATAGATGAAAGCC
Found at i:43347972 original size:55 final size:56
Alignment explanation
Indices: 43347907--43348021 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
43347897 AGCATGGCTG
* *
43347907 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
43347963 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACATATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
43348018 CCAG
1 CCAG
43348022 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:43347984 original size:27 final size:27
Alignment explanation
Indices: 43347932--43348021 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
43347922 GTGACAGAGT
43347932 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
43347961 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
43347988 CACCAGAACATATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
43348016 CACCAG
1 CACCAG
43348022 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:43348017 original size:28 final size:27
Alignment explanation
Indices: 43347932--43348021 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
43347922 GTGACAGAGT
*
43347932 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
43347961 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
43347988 CACCAGAACATATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
43348016 CACCAG
1 CACCAG
43348022 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:43348174 original size:28 final size:28
Alignment explanation
Indices: 43348127--43348191 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
43348117 AAATTAACCC
*
43348127 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
43348155 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
43348183 TAGGGGTAT
1 TAGGGGTAT
43348192 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:43354840 original size:21 final size:20
Alignment explanation
Indices: 43354796--43354842 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
43354786 AGGAGTCCAG
*
43354796 ATTTTTTTTTTAAAAAACTG
1 ATTTTTTTTTTAAAAAACTC
* *
43354816 ATTTTTTTTTTGAAAATCTTC
1 ATTTTTTTTTTAAAAAAC-TC
43354837 ATTTTT
1 ATTTTT
43354843 GTAAACCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTTTTTTTAAAAAACTC
Found at i:43355881 original size:55 final size:56
Alignment explanation
Indices: 43355816--43355930 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
43355806 AGCATGGCTG
* *
43355816 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
43355872 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
43355927 CCAG
1 CCAG
43355931 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:43355893 original size:27 final size:27
Alignment explanation
Indices: 43355841--43355930 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
43355831 GTGACAGAGT
43355841 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
43355870 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
43355897 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
43355925 CACCAG
1 CACCAG
43355931 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:43356083 original size:28 final size:28
Alignment explanation
Indices: 43356036--43356100 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
43356026 AAATTAACCC
*
43356036 TAGGGGTATAAAAGTCATTTTACATACA
1 TAGGGGTATAAAAGTAATTTTACATACA
** *
43356064 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAAGTAATTTTACATACA
43356092 TAGGGGTAT
1 TAGGGGTAT
43356101 TCTAGTACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAAGTAATTTTACATACA
Found at i:43361485 original size:40 final size:40
Alignment explanation
Indices: 43361401--43361625 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
43361391 TTGAATGATG
* * * *
43361401 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43361441 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43361481 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43361520 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43361560 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43361601 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43361626 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43369085 original size:96 final size:96
Alignment explanation
Indices: 43368967--43369374 Score: 468
Period size: 96 Copynumber: 4.3 Consensus size: 96
43368957 AGTGTCGATC
* * *
43368967 CCATGTCCTAGACATGGTCTTACATTGACACATATAACAATGCTGATGCCATGTTCCAAGCATGG
1 CCATGTCCTAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
43369032 TCTTACACTGGTTCGCATATTGAGGCCAATG
66 TCTTACACTGGTTCGCATATTGAGGCCAATG
* * **
43369063 CCATGTCCTAGACATGGTCTTACACTGGCTCACATAACAATGCCAATGCCATGTTCCAAACATGG
1 CCATGTCCTAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
*
43369128 TCTTACACTGGTTCGCTTATTGAGGCTC-ATG
66 TCTTACACTGGTTCGCATATTGAGGC-CAATG
* * ***
43369159 CCATGCCCCAGACATGGTCTTACACTGGGTCACATAACAATGCTGATGCCATGTTCCAAACATGG
1 CCATGTCCTAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
* * * * * *
43369224 TCTTACATTGGCTCTCATAAATCAGGGCTAATG
66 TCTTACACTGGTTCGCAT-ATTGA-GGCCAATG
** * * * * * *
43369257 CTGTGTCCCAGACATGGTCTTACACTG--ACACATATCGAGGCTGATGCCATGTCCCAGACATGG
1 CCATGTCCTAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
* * *
43369320 TCTTACACT-G-ACACATATCGAGGCCAATG
66 TCTTACACTGGTTCGCATATTGAGGCCAATG
43369349 CCATGT-CTCAGACATGGTCTTACACT
1 CCATGTCCT-AGACATGGTCTTACACT
43369375 AGCTTTCATA
Statistics
Matches: 268, Mismatches: 39, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
91 1 0.00
92 28 0.10
93 2 0.01
94 4 0.01
95 1 0.00
96 198 0.74
97 4 0.01
98 30 0.11
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (96 bp):
CCATGTCCTAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
TCTTACACTGGTTCGCATATTGAGGCCAATG
Found at i:43369176 original size:144 final size:143
Alignment explanation
Indices: 43368914--43369374 Score: 423
Period size: 144 Copynumber: 3.2 Consensus size: 143
43368904 TAAAATGACG
* * * * * * * * * *
43368914 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATACATC-AGTGTCGATCCCATGTCCTAG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAAATCAAG-GCCAATGCCATGTCCCAA
* * * * **
43368978 ACATGGTCTTACATTGACACATATAACAATGCTGATGCCATGTTCCA-AGCATGGTCTTACACTG
65 ACATGGTCTTACACTGACACATAT--CGAGGCTCATGCCATGCCCCAGA-CATGGTCTTACACTG
* *
43369042 GTTCGCATATTGAGGCCA
127 G-TCACATATCGAGGCCA
* *
43369060 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT-AA-CAATGCCAATGCCATGTTCCAAA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAAATCAAGGCCAATGCCATGTCCCAAA
* * * *
43369123 CATGGTCTTACACTGGTTCGCTTATTGAGGCTCATGCCATGCCCCAGACATGGTCTTACACTGGG
66 CATGGTCTTACACT-G-ACACATATCGAGGCTCATGCCATGCCCCAGACATGGTCTTACACT-GG
* * * **
43369188 TCACATAACAATGCTG
128 TCACATATCGAGGCCA
* * * * * ** *
43369204 ATGCCATGTTCC-AAACATGGTCTTACATTGGCTCTCATAAATCAGGGCTAATGCTGTGTCCCAG
1 ATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACATAAATCAAGGCCAATGCCATGTCCCAA
* * *
43369268 ACATGGTCTTACACTGACACATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACT-GAC
65 ACATGGTCTTACACTGACACATATCGAGGCTCATGCCATGCCCCAGACATGGTCTTACACTGGTC
43369332 ACATATCGAGGCCA
130 ACATATCGAGGCCA
43369346 ATGCCATGT-CTCAGACATGGTCTTACACT
1 ATGCCATGTCCT-AGACATGGTCTTACACT
43369375 AGCTTTCATA
Statistics
Matches: 252, Mismatches: 53, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
140 1 0.00
141 1 0.00
142 34 0.13
144 135 0.54
145 12 0.05
146 69 0.27
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (143 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAAATCAAGGCCAATGCCATGTCCCAAA
CATGGTCTTACACTGACACATATCGAGGCTCATGCCATGCCCCAGACATGGTCTTACACTGGTCA
CATATCGAGGCCA
Found at i:43369278 original size:50 final size:48
Alignment explanation
Indices: 43368914--43369374 Score: 351
Period size: 48 Copynumber: 9.6 Consensus size: 48
43368904 TAAAATGACG
* * * *
43368914 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCAT-ACATCAGTG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA--AG-GCT-A
* * * * * * * *
43368964 ATCCCATGTCCTAGACATGGTCTTACATTGACACATATAACAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTA
* * * *** *
43369012 ATGCCATGTTCCA-AGCATGGTCTTACACTGGTTCGCATATTGAGGCCA
1 ATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCACATAACAAGGCTA
* * *
43369060 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTA
* * * * * *** *
43369108 ATGCCATGTTCCAAACATGGTCTTACACTGGTTCGCTTATTGAGGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTA
* * * *
43369156 ATGCCATGCCCCAGACATGGTCTTACACTGGGTCACATAACAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTA
* * * * *
43369204 ATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATAAATCAGGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-AA-CAAGGCTA
** * * * *
43369254 ATGCTGTGTCCCAGACATGGTCTTACACT-G-ACACATATCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTA
* * * *
43369300 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTA
*
43369346 ATGCCATGTCTCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
43369375 AGCTTTCATA
Statistics
Matches: 324, Mismatches: 81, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
46 75 0.23
47 2 0.01
48 180 0.56
49 6 0.02
50 58 0.18
51 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTA
Found at i:43372833 original size:93 final size:93
Alignment explanation
Indices: 43372723--43372894 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
43372713 CGCCCATAAG
* *
43372723 CGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43372788 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * * *
43372816 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43372881 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43372895 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:43372891 original size:46 final size:46
Alignment explanation
Indices: 43372716--43372891 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
43372706 TGTAACCCGC
* * * *
43372716 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43372762 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
43372812 --TTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43372855 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43372892 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43378221 original size:13 final size:13
Alignment explanation
Indices: 43378178--43378212 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
43378168 GCTAAGTAAG
43378178 CTTCACAACCTTT
1 CTTCACAACCTTT
*
43378191 CTTCACAACCTCT
1 CTTCACAACCTTT
43378204 CTTCACAAC
1 CTTCACAAC
43378213 TTTTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.43, G:0.00, T:0.31
Consensus pattern (13 bp):
CTTCACAACCTTT
Found at i:43383199 original size:40 final size:40
Alignment explanation
Indices: 43383100--43383263 Score: 199
Period size: 40 Copynumber: 4.1 Consensus size: 40
43383090 TGGATGATAA
* * *
43383100 CCGGGCTAAGTCCCGAAGGCATTTTTCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGT-GCGAGTTACTA-TAT
*
43383141 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43383181 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * *
43383221 CTAGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
43383260 CCGG
1 CCGG
43383264 TTAAATTCCG
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.02
39 16 0.15
40 66 0.61
41 24 0.22
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43387995 original size:48 final size:48
Alignment explanation
Indices: 43387928--43388353 Score: 398
Period size: 48 Copynumber: 8.9 Consensus size: 48
43387918 TAATAATGCT
* * * * * *
43387928 GATGCTATGTTCCAAACATGGTCTTACACTGGTTCGCATATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * *
43387976 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * * *
43388024 GATGCCATGTTCCAAATATGGTCTTACGCTGG-TTAGCATATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATATCGAGGCC
* * * *
43388072 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * *
43388120 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATAAACCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT--ATCGAG-GCC
* * * *
43388170 GATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATATTGAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
43388216 AATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAATCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT--ATCGAG-GCC
* * *
43388266 AATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
43388312 CATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
43388354 ACCATGGTCC
Statistics
Matches: 303, Mismatches: 61, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
46 65 0.21
47 6 0.02
48 162 0.53
49 5 0.02
50 65 0.21
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
Done.