Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 345 of 770
Found at i:105914877 original size:46 final size:46
Alignment explanation
Indices: 105914683--105914863 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
105914673 TGTAACCCGC
* * *
105914683 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
105914729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* * *
105914779 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
105914822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
105914864 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:105918579 original size:34 final size:33
Alignment explanation
Indices: 105918515--105918617 Score: 84
Period size: 34 Copynumber: 3.1 Consensus size: 33
105918505 TTTGCATCTT
* * *
105918515 TGATACTGTACTG-AATTGGGCTACGACCCACAC
1 TGATACTGTAATGTAA-TGGGCTAAGGCCCACAC
*
105918548 TGATACTGTTAATGTAATGGGCTAAGGCCCACAT
1 TGATACTG-TAATGTAATGGGCTAAGGCCCACAC
* * * *
105918582 TGATAATGCTATTGTTAA-GGGCTTAGGCCCAAAC
1 TGATACTG-TAATG-TAATGGGCTAAGGCCCACAC
105918616 TG
1 TG
105918618 TTTGTACTGC
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 8 0.14
34 44 0.77
35 5 0.09
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (33 bp):
TGATACTGTAATGTAATGGGCTAAGGCCCACAC
Found at i:105920087 original size:19 final size:19
Alignment explanation
Indices: 105920059--105920156 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
105920049 AATCTTTAAG
*
105920059 GATATCCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105920078 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105920097 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105920114 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105920133 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
105920154 GAT
1 GAT
105920157 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:105920089 original size:36 final size:37
Alignment explanation
Indices: 105920049--105920156 Score: 116
Period size: 36 Copynumber: 2.9 Consensus size: 37
105920039 ATGGAAATAT
*
105920049 AATCTTTA-AGGAT-ATCCAATCTTAGATATGATATGC
1 AATCTTTAGA-GATGATACAATCTTAGATATGATATGC
*
105920085 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGAGATGATACAATCTTAGATATGATATGC
*
105920121 AATC-TTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTTTAGAGATGATA--CAATCTT--AGATATGAT
105920157 CTTGTAATCT
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
35 5 0.08
36 43 0.67
38 7 0.11
40 9 0.14
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
AATCTTTAGAGATGATACAATCTTAGATATGATATGC
Found at i:105920095 original size:14 final size:15
Alignment explanation
Indices: 105920078--105920134 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
105920068 TCTTAGATAT
105920078 GATATG-CAATCTTA
1 GATATGACAATCTTA
105920092 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
105920109 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
105920128 GATATGA
1 GATATGA
105920135 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:105920168 original size:22 final size:21
Alignment explanation
Indices: 105920059--105920173 Score: 124
Period size: 19 Copynumber: 5.9 Consensus size: 21
105920049 AATCTTTAAG
*
105920059 GATATCCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
105920078 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
105920097 GATA--CAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
105920114 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
105920133 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
* *
105920154 GATCTTGTAATCTTGAAGAT
1 GAT-ATGCAATCTTGAAGAT
105920174 TTAATTTGTA
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
17 17 0.19
19 48 0.55
21 9 0.10
22 14 0.16
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:105925779 original size:11 final size:12
Alignment explanation
Indices: 105925763--105925813 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 12
105925753 CTTCTATTTC
105925763 AAAAAAAAG-GA
1 AAAAAAAAGAGA
105925774 AAAAAAAAGAG-
1 AAAAAAAAGAGA
*
105925785 AAAAAAAAGAAA
1 AAAAAAAAGAGA
105925797 AAGAGAAAAAG-GA
1 AA-A-AAAAAGAGA
105925810 AAAA
1 AAAA
105925814 GGAAAAATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 20 0.59
12 4 0.12
13 4 0.12
14 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAGA
Found at i:105925791 original size:15 final size:15
Alignment explanation
Indices: 105925773--105925820 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
105925763 AAAAAAAAGG
105925773 AAAAAAAAAGAGAAAA
1 AAAAAAAAAGAG-AAA
105925789 AAAAGAAAAAGAGAAA
1 AAAA-AAAAAGAGAAA
**
105925805 AAGGAAAAAG-GAAA
1 AAAAAAAAAGAGAAA
105925819 AA
1 AA
105925821 TGGAGAGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 9 0.31
17 8 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAGAAA
Found at i:105925799 original size:17 final size:16
Alignment explanation
Indices: 105925773--105925806 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
105925763 AAAAAAAAGG
105925773 AAAAAAAAAGAGAAAA
1 AAAAAAAAAGAGAAAA
105925789 AAAAGAAAAAGAGAAAA
1 AAAA-AAAAAGAGAAAA
105925806 A
1 A
105925807 GGAAAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAGAAAA
Found at i:105925811 original size:7 final size:7
Alignment explanation
Indices: 105925766--105925820 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
105925756 CTATTTCAAA
105925766 AAAAAGG
1 AAAAAGG
105925773 AAAAA--
1 AAAAAGG
*
105925778 AAAAGAGAA
1 AAAA-AG-G
*
105925787 AAAAAAG
1 AAAAAGG
105925794 AAAAAGAG
1 AAAAAG-G
105925802 AAAAAGG
1 AAAAAGG
105925809 AAAAAGG
1 AAAAAGG
105925816 AAAAA
1 AAAAA
105925821 TGGAGAGGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
5 4 0.10
6 1 0.03
7 23 0.57
8 8 0.20
9 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:105926888 original size:44 final size:44
Alignment explanation
Indices: 105926674--105927167 Score: 387
Period size: 44 Copynumber: 11.2 Consensus size: 44
105926664 CAAAGAAATA
*
105926674 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * * * * * **
105926718 AGATCTGACA-CTCCTGTGCTTACAGCGAAGTAGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAATCGAAGATAGC
* * **
105926763 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* *
105926806 AGCA--TGGCGTCCCTGTATTTATAGGGAACAAGAT-GAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAA-ATCGAAGATAGC
*
105926849 AGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * * * * * * ***
105926893 AAATCTGACATTCCTGTGCTTATAGCGAAGCAGATCAAAGATTTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGC
* *
105926938 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
105926981 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* ** * * * * * *
105927025 AGATCTAACATTCCTGTGCTTACAGCGAAGCAGATCGAAGA-ATTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATA-GC
** * *
105927070 A-ACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * *
105927113 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAG--ATAGC
*
105927159 TGATTTGGC
1 AGATTTGGC
105927168 TTTCACGGCT
Statistics
Matches: 350, Mismatches: 82, Indels: 34
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.01
43 72 0.21
44 225 0.64
45 36 0.10
46 15 0.04
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
Found at i:105926965 original size:175 final size:175
Alignment explanation
Indices: 105926674--105927028 Score: 561
Period size: 175 Copynumber: 2.0 Consensus size: 175
105926664 CAAAGAAATA
* *
105926674 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAAATCTGACACTCCTGTGCTT
* * *
105926739 ACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATT
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* *
105926804 TCAGCA-TGGCGTCCCTGTATTTATAGGGAACAAGAT-GAAGATAGC
131 GCAG-ATTGGCATCCCTGTATTTATAGGGAACAA-ATCGAAGATAGC
* *
105926849 AGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGCAAATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAAATCTGACACTCCTGTGCTT
* *
105926914 ATAGCGAAGCAGATCAAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
105926979 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
131 GCAGA-TTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGC
105927025 AGAT
1 AGAT
105927029 CTAACATTCC
Statistics
Matches: 165, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
174 1 0.01
175 126 0.76
176 38 0.23
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (175 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAAATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCAGATTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGC
Found at i:105926967 original size:132 final size:131
Alignment explanation
Indices: 105926679--105927152 Score: 571
Period size: 132 Copynumber: 3.6 Consensus size: 131
105926669 AAATAAGATT
* * *
105926679 TGGCATCCTTGTGTTTATAGGGAACAA-ATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACA
1 TGGCATCCCTGTGTTTATAGGGAACAAGAT-GAAGATAGCAGATTTGGCATC-CCTGTGCTTACA
* * * ** * * * * * *
105926742 GCGAAGTAGATCGAAGATTTC-AGCATGGCATCCCTGTGTTTATAGGGAA-CA-AGTTGAAGATT
64 GGGAA-CAAATCGAAGATAGCAATC-TGACATTCCTGTGCTTATAGCGAAGCAGA-TCGAAGATT
105926804 TCAGCA
126 TCAGCA
* * * *
105926810 TGGCGTCCCTGTATTTATAGGGAACAAGATGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGATGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
* * *
105926875 GAATAAATCGAAGATAGCAAATCTGACATTCCTGTGCTTATAGCGAAGCAGATCAAAGATTTTAG
66 GAACAAATCGAAGATAGC-AATCTGACATTCCTGTGCTTATAGCGAAGCAGATCGAAGATTTCAG
105926940 CA
130 CA
* * *
105926942 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGATGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
* * * *
105927007 GAACAAATCGAAGATAGCAGATCTAACATTCCTGTGCTTACAGCGAAGCAGATCGAAGAATTCAA
66 GAACAAATCGAAGATAGCA-ATCTGACATTCCTGTGCTTATAGCGAAGCAGATCGAAGATTTCAG
105927072 CA
130 CA
* * *
105927074 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGATGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
105927139 GAACAAATCGAAGA
66 GAACAAATCGAAGA
105927153 CATAGCTGAT
Statistics
Matches: 303, Mismatches: 33, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
130 12 0.04
131 76 0.25
132 214 0.71
133 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (131 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGATGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
GAACAAATCGAAGATAGCAATCTGACATTCCTGTGCTTATAGCGAAGCAGATCGAAGATTTCAGC
A
Found at i:105927854 original size:206 final size:206
Alignment explanation
Indices: 105927114--105927841 Score: 1172
Period size: 205 Copynumber: 3.5 Consensus size: 206
105927104 GAAGATAGCA
*
105927114 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
*
105927178 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* ** * *
105927243 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGACCTGGCCTTCATATGTTTATACTGAAGT
131 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
105927308 AGATCCAAGGT
196 AGATCCAAGAT
* * * *
105927319 GATTTGGCATTCTTATGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
*
105927384 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCAGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
105927449 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATA-TGAAGC
131 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
105927513 AAATCCAAGAT
196 AGATCCAAGAT
* * * * *
105927524 GATTTGCCGTTCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGTTTTCGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
105927589 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * *
105927654 CGTCTCCATATTCGACGGAGGGTAAACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
105927719 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * *
105927730 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGTTGATTTGGTTTTCGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
105927795 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
105927842 AAATAGATCG
Statistics
Matches: 487, Mismatches: 34, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
205 248 0.51
206 239 0.49
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:105928289 original size:19 final size:19
Alignment explanation
Indices: 105928242--105928301 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
105928232 AATCTTTAAG
105928242 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105928261 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
105928278 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
105928299 GAT
1 GAT
105928302 CTTGTAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
21 9 0.24
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:105931215 original size:16 final size:17
Alignment explanation
Indices: 105931194--105931228 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
105931184 TAAATAATTG
*
105931194 AAATAAATAAACAA-TA
1 AAATAAACAAACAACTA
105931210 AAATAAACAAACAACTA
1 AAATAAACAAACAACTA
105931227 AA
1 AA
105931229 CCAATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAATAAACAAACAACTA
Found at i:105936065 original size:18 final size:18
Alignment explanation
Indices: 105936038--105936078 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
105936028 TAATTATCAC
105936038 AATT-TTTTTAAAAT-TAT
1 AATTATTTTT-AAATGTAT
*
105936055 AATTATTTTTAGATGTAT
1 AATTATTTTTAAATGTAT
105936073 AATTAT
1 AATTAT
105936079 GACAACTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
AATTATTTTTAAATGTAT
Found at i:105936291 original size:6 final size:6
Alignment explanation
Indices: 105936247--105936314 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
105936237 TAAAACTTTT
* * * * * * *
105936247 TAATTAA TAATTG TAATTG TGATTA CAATTA TAA-TA TTATAA TTATTA
1 TAATT-A TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
105936295 TAATTA TAATTA TAATTA TA
1 TAATTA TAATTA TAATTA TA
105936315 TTTTAGAGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
5 4 0.08
6 41 0.82
7 5 0.10
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (6 bp):
TAATTA
Found at i:105936406 original size:17 final size:18
Alignment explanation
Indices: 105936384--105936417 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105936374 TAATTGTAAA
105936384 TTAAAT-TATAATTATTT
1 TTAAATGTATAATTATTT
*
105936401 TTAAATGTTTAATTATT
1 TTAAATGTATAATTATT
105936418 ACAACTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAAATGTATAATTATTT
Found at i:105937904 original size:10 final size:10
Alignment explanation
Indices: 105937877--105937910 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
105937867 AATTTTGCAA
*
105937877 ATATATGTTT
1 ATATATTTTT
105937887 ATATTATTTTT
1 ATA-TATTTTT
105937898 ATATATTTTT
1 ATATATTTTT
105937908 ATA
1 ATA
105937911 ATTACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (10 bp):
ATATATTTTT
Found at i:105943837 original size:31 final size:31
Alignment explanation
Indices: 105943802--105943865 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
105943792 CCTTTTCATA
* *
105943802 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
* **
105943833 TTTCAAATTTTATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
105943864 TT
1 TT
105943866 ACGGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:105944111 original size:24 final size:24
Alignment explanation
Indices: 105944059--105944296 Score: 356
Period size: 24 Copynumber: 10.0 Consensus size: 24
105944049 GCTTTATCAT
* *
105944059 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
105944084 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
* *
105944108 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
105944131 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105944155 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105944179 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105944203 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105944227 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
105944251 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
105944274 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105944297 TCACTTCCTC
Statistics
Matches: 197, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
23 41 0.21
24 144 0.73
25 12 0.06
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:105944368 original size:9 final size:9
Alignment explanation
Indices: 105944354--105944410 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
105944344 ATCTCGTGTG
105944354 CATATCATA
1 CATATCATA
*
105944363 CATATCATGTG
1 CATATCA--TA
105944374 CATATCATA
1 CATATCATA
* *
105944383 CATGTCATGTG
1 CATATCA--TA
105944394 CATATCATA
1 CATATCATA
105944403 CATATCAT
1 CATATCAT
105944411 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:105944373 original size:20 final size:20
Alignment explanation
Indices: 105944350--105944412 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
105944340 GAACATCTCG
105944350 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
105944370 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
105944390 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
105944410 TGT
1 TGT
105944413 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:105944495 original size:25 final size:25
Alignment explanation
Indices: 105944449--105944496 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
105944439 ATATATAAAC
* * * *
105944449 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105944474 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105944497 ATATTATAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105945751 original size:27 final size:26
Alignment explanation
Indices: 105945652--105945744 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 26
105945642 GGGCATATTC
*
105945652 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
105945679 GTCACTTTACCTACAGGGGCTTTACG
1 GTCACTTTACCTACAGGGGCTTTACG
105945705 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
105945732 GTCTTTTTACCTA
1 GTCACTTTACCTA
105945745 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
26 26 0.43
27 35 0.57
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:105945826 original size:27 final size:27
Alignment explanation
Indices: 105945796--105946024 Score: 131
Period size: 27 Copynumber: 8.4 Consensus size: 27
105945786 GTAAATCTAC
*
105945796 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
105945823 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
105945851 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
105945879 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
105945906 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
105945933 AAACCAA-GGTATTT-TGATAATTTTAC
1 AAACCAAGGGTATTTCAG-TAATTTTAT
* * ** *
105945959 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
105945986 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
105946013 AAATCGAGGGTA
1 AAACCAAGGGTA
105946025 AAATAGTAAT
Statistics
Matches: 160, Mismatches: 35, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
25 1 0.01
26 20 0.12
27 110 0.69
28 15 0.09
29 14 0.09
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:105945954 original size:53 final size:54
Alignment explanation
Indices: 105945802--105946024 Score: 168
Period size: 53 Copynumber: 4.1 Consensus size: 54
105945792 CTACAAACCA
* *** * * **
105945802 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCA
1 AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT-TGATAA-TTTTACAAA-TTG
* ** * * *
105945858 AGGGTATTTCTGTAACTTT-GTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAA-TTTCACAAACCAAGGGTATTTTGATAATTTTACAAATTG
*
105945912 AGGGTATTTCGGTAATTTCACAAACCAA-GGTATTTTGATAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAATTG
* * * ** *
105945964 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT-AGTAATTTTGTAAATCG
1 A-GGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGA-TAATTTTACAAATTG
105946019 AGGGTA
1 AGGGTA
105946025 AAATAGTAAT
Statistics
Matches: 138, Mismatches: 22, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
52 1 0.01
53 50 0.36
54 43 0.31
55 10 0.07
56 31 0.22
57 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAATTG
Found at i:105946031 original size:27 final size:27
Alignment explanation
Indices: 105946001--105946212 Score: 227
Period size: 27 Copynumber: 7.9 Consensus size: 27
105945991 AAGGGTATTT
*
105946001 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
105946028 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
105946055 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
105946082 CT-GTAATTCTATAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
** *
105946109 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
105946136 -CGATAATTATGTAAATC-AGGGGTAAAA
1 TAG-TAATTCTGTAAATCGA-GGGTAAAA
** *
105946163 CGGTAATTATGTAAATCG-GGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
105946189 -CGATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
105946213 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
25 1 0.01
26 24 0.15
27 137 0.84
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:105946143 original size:81 final size:81
Alignment explanation
Indices: 105946003--105946212 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 81
105945993 GGGTATTTTA
* ** * * *
105946003 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATATA
*
105946068 AATC-GAGGGTAAAACT
66 AATCAG-GGGTAAAACG
* * * *
105946084 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGA-TAATTATGT
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-GAGTAATTATAT
105946148 AAATCAGGGGTAAAACG
65 AAATCAGGGGTAAAACG
* *
105946165 GTAATTATGTAAATCG-GGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
105946213 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 29 0.26
81 81 0.72
82 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATATA
AATCAGGGGTAAAACG
Found at i:105946271 original size:26 final size:26
Alignment explanation
Indices: 105946218--105946306 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
105946208 GGGTACTTTG
*
105946218 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCG-AGGTATTTCA
105946245 GTAATTTTACAAATCGAGGTATTTCA
1 GTAATTTTACAAATCGAGGTATTTCA
* * *
105946271 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATC-GA-GGTATTTCA
105946298 GTAATTTTA
1 GTAATTTTA
105946307 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.02
26 23 0.42
27 31 0.56
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAATCGAGGTATTTCA
Found at i:105946320 original size:27 final size:27
Alignment explanation
Indices: 105946218--105946321 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
105946208 GGGTACTTTG
* *
105946218 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
*
105946245 GTAATTTTACAAA-T-CGAGGTATTTCA
1 GTAATTTTACAAACTAAGA-GTATTTCA
* * *
105946271 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
105946298 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
105946322 CTAAACATGG
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.02
26 20 0.32
27 33 0.53
28 8 0.13
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:105949375 original size:24 final size:24
Alignment explanation
Indices: 105949323--105949488 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
105949313 GCTTTATCAT
*
105949323 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
105949348 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
105949372 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
105949395 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
105949419 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
105949443 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
105949466 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105949489 TCACTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:105949399 original size:47 final size:48
Alignment explanation
Indices: 105949322--105949488 Score: 241
Period size: 47 Copynumber: 3.5 Consensus size: 48
105949312 TGCTTTATCA
* *
105949322 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
105949371 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
105949418 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
105949465 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
105949489 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 70 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:105949423 original size:71 final size:71
Alignment explanation
Indices: 105949323--105949488 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
105949313 GCTTTATCAT
* *
105949323 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
105949387 GCCCTTTA
64 GCCCTTTA
* * *
105949395 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
105949460 CCTTTA
66 CCTTTA
105949466 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105949489 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:105949560 original size:9 final size:9
Alignment explanation
Indices: 105949546--105949602 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
105949536 ATCTCGTGTG
105949546 CATATCATA
1 CATATCATA
*
105949555 CATATCATGTG
1 CATATCA--TA
105949566 CATATCATA
1 CATATCATA
* *
105949575 CATGTCATGTG
1 CATATCA--TA
105949586 CATATCATA
1 CATATCATA
105949595 CATATCAT
1 CATATCAT
105949603 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:105949565 original size:20 final size:20
Alignment explanation
Indices: 105949542--105949604 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
105949532 GAACATCTCG
105949542 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
105949562 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
105949582 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
105949602 TGT
1 TGT
105949605 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:105949687 original size:25 final size:25
Alignment explanation
Indices: 105949641--105949688 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
105949631 ATATATAAAC
* * * *
105949641 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105949666 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105949689 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105950937 original size:27 final size:27
Alignment explanation
Indices: 105950846--105950929 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
105950836 GGGCATATTC
*
105950846 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
105950873 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
* *
105950900 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCACTTTACCATACAGGGGCTTTACG
105950927 GTC
1 GTC
105950930 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:105950945 original size:27 final size:26
Alignment explanation
Indices: 105950846--105950939 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
105950836 GGGCATATTC
*
105950846 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
105950873 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
*
105950900 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
105950927 GTCTTTTTACCTA
1 GTCACTTTACCTA
105950940 ATAGGGTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.07
27 53 0.88
28 3 0.05
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:105951019 original size:26 final size:27
Alignment explanation
Indices: 105950990--105951040 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
105950980 GTAAATCTAC
105950990 AAACCAA-AGTATTTC-AGTAATTTTGT
1 AAACCAATAGTATTTCTA-TAATTTTGT
*
105951016 AAACCAATGGTATTTCTATAATTTT
1 AAACCAATAGTATTTCTATAATTTT
105951041 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 14 0.64
28 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (27 bp):
AAACCAATAGTATTTCTATAATTTTGT
Found at i:105951138 original size:54 final size:54
Alignment explanation
Indices: 105951079--105951218 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 54
105951069 TGTAAATCAG
105951079 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAA
* * * ** * *
105951133 TGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCAGTAATTTCACAAACCAA
* ** *
105951187 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
105951219 AAATAGTAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 68 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAA
Found at i:105951216 original size:27 final size:27
Alignment explanation
Indices: 105950998--105951271 Score: 146
Period size: 27 Copynumber: 10.1 Consensus size: 27
105950988 ACAAACCAAA
* * * *
105950998 GTATTTCAGTAATTTTGTAAACCAATG
1 GTATTTTAGTAATTTTATAAATCAAGG
*
105951025 GTATTTCTA-TAATTTTTAGAAAGTCAAGG
1 GTATTT-TAGTAA-TTTTATAAA-TCAAGG
* * *
105951054 GTATTTCT-GTAACTTTGTAAATCAGGG
1 GTATTT-TAGTAATTTTATAAATCAAGG
* * **
105951081 GTATTTTGGTAATTTTACAAATTGAGG
1 GTATTTTAGTAATTTTATAAATCAAGG
* * * * *
105951108 GTATTTCAGTAATTTCACAAACCAATG
1 GTATTTTAGTAATTTTATAAATCAAGG
* *
105951135 GTATTTT-GATAATTTTACAAA-CTAGGG
1 GTATTTTAG-TAATTTTATAAATC-AAGG
* *
105951162 GTATTTTGGTAATTTTACAAA-CTAAGG
1 GTATTTTAGTAATTTTATAAATC-AAGG
* *
105951189 GTATTTTAGTAATTTTGTAAATCGAGG
1 GTATTTTAGTAATTTTATAAATCAAGG
*** * *
105951216 GTAAAATAGTAATTCTGTAAATCAAGG
1 GTATTTTAGTAATTTTATAAATCAAGG
*** * *
105951243 GTAAAATAGTAA-TCTATAAATCGAGG
1 GTATTTTAGTAATTTTATAAATCAAGG
105951269 GTA
1 GTA
105951272 AAACTATAAT
Statistics
Matches: 200, Mismatches: 38, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
26 18 0.09
27 151 0.75
28 16 0.08
29 15 0.08
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
GTATTTTAGTAATTTTATAAATCAAGG
Found at i:105951293 original size:27 final size:27
Alignment explanation
Indices: 105951198--105951406 Score: 228
Period size: 27 Copynumber: 7.8 Consensus size: 27
105951188 GGTATTTTAG
* *
105951198 TAATTTTGTAAATCGAGGGTAAAA-TA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
105951224 GTAATTCTGTAAATCAAGGGTAAAA-TA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
* *
105951251 GTAA-TCTATAAATCGAGGGTAAAACTA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
* *
105951278 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
**
105951305 TAATTCTGTATGTCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
* *
105951332 TAATTATGTAAATC-AGCGGTAAAACGG
1 TAATTCTGTAAATCGAG-GGTAAAACGA
* *
105951359 TAATTATGTAAATCGGGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
105951386 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
105951407 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 23 0.14
27 137 0.85
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:105951344 original size:54 final size:54
Alignment explanation
Indices: 105951197--105951406 Score: 255
Period size: 54 Copynumber: 3.9 Consensus size: 54
105951187 GGGTATTTTA
* * * **
105951197 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAACG
* * *
105951251 GTAA-TCTATAAATCGAGGGTAAAACTATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACG
** *
105951304 GTAATTCTGTATGTCGAGGGTAAAACGATAATTATGTAAATC-AGCGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAG-GGTAAAACG
* * *
105951358 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
105951407 CTTTGGTAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
53 46 0.34
54 87 0.65
55 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACG
Found at i:105951433 original size:27 final size:27
Alignment explanation
Indices: 105951412--105951501 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 27
105951402 GGGTACTTTG
*
105951412 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
105951439 GTAATTTTACAAATCGATGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
105951466 GT-ATATTTACAAA-CTAAGGGTATTTC-
1 GTAAT-TTTACAAATCGAA-GGTATTTCA
105951492 GATAATTTTA
1 G-TAATTTTA
105951502 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.09
27 48 0.87
28 2 0.04
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:105953702 original size:41 final size:44
Alignment explanation
Indices: 105953621--105953717 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 44
105953611 AGATATTCTA
*
105953621 GGAA-TATTTTATTTTATCTTTTAGTAGTTTATTAGATAGAATAAG
1 GGAATTATTTTATCTTATCTTTTAGTAGTTTATT--ATAGAATAAG
105953666 GGAATTATTTT-TCTTATCTTTTAGTAGTTTA-T-TAGAATAAG
1 GGAATTATTTTATCTTATCTTTTAGTAGTTTATTATAGAATAAG
105953707 GGAATTATTTT
1 GGAATTATTTT
105953718 CTCAATTAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
41 20 0.40
44 1 0.02
45 23 0.46
46 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (44 bp):
GGAATTATTTTATCTTATCTTTTAGTAGTTTATTATAGAATAAG
Found at i:105957983 original size:28 final size:28
Alignment explanation
Indices: 105957943--105958000 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
105957933 TTTTTTTTAT
105957943 TTAATCTGAAAATGTTTGCTATGTGTTC
1 TTAATCTGAAAATGTTTGCTATGTGTTC
105957971 TTAATCTGAAAATGTTTGCTATGTGTTC
1 TTAATCTGAAAATGTTTGCTATGTGTTC
105957999 TT
1 TT
105958001 TGTTCTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48
Consensus pattern (28 bp):
TTAATCTGAAAATGTTTGCTATGTGTTC
Found at i:105960440 original size:40 final size:40
Alignment explanation
Indices: 105960374--105960540 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
105960364 AAATTGAATG
* * *
105960374 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
105960413 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
105960453 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
105960493 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
105960533 ATATCCGG
1 ATATCCGG
105960541 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:105968421 original size:40 final size:40
Alignment explanation
Indices: 105968355--105968521 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
105968345 AAATTGAATG
* * *
105968355 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
105968394 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
105968434 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
105968474 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
105968514 ATATCCGG
1 ATATCCGG
105968522 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:105971512 original size:40 final size:40
Alignment explanation
Indices: 105971446--105971596 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
105971436 AAATTGAATG
* * *
105971446 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
105971485 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
105971525 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
105971565 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
105971597 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:105971610 original size:40 final size:40
Alignment explanation
Indices: 105971483--105971612 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
105971473 ATGCTGGAAA
* * *
105971483 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
105971523 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
105971563 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
105971603 TTATATCCGG
1 TTATATCCGG
105971613 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:105979476 original size:40 final size:40
Alignment explanation
Indices: 105979410--105979560 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
105979400 AAATTGAATG
* * *
105979410 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
105979449 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
105979489 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
105979529 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
105979561 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:105979574 original size:40 final size:40
Alignment explanation
Indices: 105979447--105979576 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
105979437 ATGCTGGAAA
* * *
105979447 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
105979487 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
105979527 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
105979567 TTATATCCGG
1 TTATATCCGG
105979577 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:106003269 original size:56 final size:54
Alignment explanation
Indices: 106003149--106003304 Score: 161
Period size: 56 Copynumber: 2.8 Consensus size: 54
106003139 ACATCGCACA
* ** * *
106003149 CCTCTCAACAGGGCTACATATAAGCACCTGGACCTAGCATGCATCACATAACCACG
1 CCTCTCAACAGGGCTACATA-AA-CTCCCAGACCTAGCATGTATCACATAAACACG
* *
106003205 CCTCTCAACAGGGCTACATAAACTCCCAGACCTAGCGTGTATCACATAATTACATG
1 CCTCTCAACAGGGCTACATAAACTCCCAGACCTAGCATGTATCACATAA--ACACG
* * * *
106003261 CCTTTCAAC-GTGGCTACACAAGCTCCCAGACCTAGCCTGTATCA
1 CCTCTCAACAG-GGCTACATAAACTCCCAGACCTAGCATGTATCA
106003305 TGTCATCATA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
54 22 0.26
55 3 0.03
56 61 0.71
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.21
Consensus pattern (54 bp):
CCTCTCAACAGGGCTACATAAACTCCCAGACCTAGCATGTATCACATAAACACG
Found at i:106010110 original size:40 final size:40
Alignment explanation
Indices: 106010048--106010265 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
106010038 AAACCATGTA
* * *
106010048 CCTTCGGGATTTTG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
106010087 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
106010127 CCTTCAGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
106010167 CCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
106010207 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
106010247 CCTTCGGGACCTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
106010266 TTATCATTCG
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:106012248 original size:18 final size:18
Alignment explanation
Indices: 106012225--106012273 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
106012215 GTACTGTTAT
106012225 TGTTACTGCAATGATTAC
1 TGTTACTGCAATGATTAC
* *
106012243 TGTTACTGCATTGTTTAC
1 TGTTACTGCAATGATTAC
106012261 TGTTACTGCAATG
1 TGTTACTGCAATG
106012274 GGCCAAGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (18 bp):
TGTTACTGCAATGATTAC
Found at i:106018832 original size:23 final size:23
Alignment explanation
Indices: 106018802--106018849 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
106018792 TTAACATAAA
106018802 AAGTAATTAAGTAAATAAATATC
1 AAGTAATTAAGTAAATAAATATC
106018825 AAGTAATTAAGTAAATAAATATC
1 AAGTAATTAAGTAAATAAATATC
106018848 AA
1 AA
106018850 TGCTGGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (23 bp):
AAGTAATTAAGTAAATAAATATC
Found at i:106021456 original size:46 final size:46
Alignment explanation
Indices: 106021406--106021581 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
106021396 TGGTTGAGCA
106021406 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
106021452 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
106021497 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
106021545 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
106021582 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:106021562 original size:93 final size:93
Alignment explanation
Indices: 106021403--106021574 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
106021393 GGATGGTTGA
* *
106021403 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106021468 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
*
106021496 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106021561 TGAGTCTGAGTTCG
66 TGAGTCTGAGTTCG
106021575 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:106028893 original size:46 final size:46
Alignment explanation
Indices: 106028843--106029018 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
106028833 TGGTTGAGCA
106028843 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
106028889 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
106028934 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
106028982 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
106029019 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:106028999 original size:93 final size:93
Alignment explanation
Indices: 106028840--106029011 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
106028830 GGATGGTTGA
* *
106028840 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106028905 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
106028933 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106028998 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
106029012 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:106032732 original size:9 final size:9
Alignment explanation
Indices: 106032720--106032776 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
106032710 TTTGATAAAC
106032720 ATGATATGT
1 ATGATATGT
*
106032729 ATGATATGCAC
1 ATGATATG--T
*
106032740 ATGACATGT
1 ATGATATGT
*
106032749 ATGATATGCAC
1 ATGATATG--T
106032760 ATGATATGT
1 ATGATATGT
106032769 ATGATATG
1 ATGATATG
106032777 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:106032743 original size:20 final size:20
Alignment explanation
Indices: 106032718--106032788 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
106032708 ATTTTGATAA
106032718 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106032738 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
106032758 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106032778 ACATGAGATGT
1 ACATGATATGT
106032789 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:106032765 original size:11 final size:11
Alignment explanation
Indices: 106032729--106032783 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
106032719 CATGATATGT
106032729 ATGATATGCAC
1 ATGATATGCAC
* *
106032740 ATGACATG--T
1 ATGATATGCAC
106032749 ATGATATGCAC
1 ATGATATGCAC
*
106032760 ATGATATG--T
1 ATGATATGCAC
106032769 ATGATATGCAC
1 ATGATATGCAC
106032780 ATGA
1 ATGA
106032784 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:106032884 original size:23 final size:23
Alignment explanation
Indices: 106032834--106033021 Score: 263
Period size: 23 Copynumber: 8.0 Consensus size: 23
106032824 GAGGAAGTGC
106032834 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
106032857 TAAAGGG-TTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
106032879 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
106032903 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
106032926 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
106032949 TAAAGGGCTCATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
106032973 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
106032997 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
106033021 A
1 A
106033022 TGATAAAGCA
Statistics
Matches: 151, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
22 15 0.10
23 78 0.52
24 48 0.32
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:106041454 original size:40 final size:39
Alignment explanation
Indices: 106041408--106041624 Score: 186
Period size: 40 Copynumber: 5.5 Consensus size: 39
106041398 TGAATGATAC
*
106041408 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-ATATAT
* * *
106041448 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGATATAT
* * * * *
106041488 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GATATAT
* * * * *
106041528 CC-AGCTAAATTCCGAAGAGCATTCGTGCTAATGATATAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGATATAT
* * * * *
106041567 CCGGGCTAAATTCTGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGATATAT
*
106041607 CCGGGCTAGGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
106041625 AGCAATCATG
Statistics
Matches: 145, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
39 20 0.14
40 122 0.84
41 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATATAT
Found at i:106045191 original size:49 final size:49
Alignment explanation
Indices: 106045133--106045563 Score: 755
Period size: 49 Copynumber: 8.9 Consensus size: 49
106045123 GTATGAGATG
*
106045133 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
106045182 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
106045231 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
106045280 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
106045329 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
106045376 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
106045425 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
106045472 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA-GTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
106045520 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
106045564 TATATGTGTG
Statistics
Matches: 365, Mismatches: 12, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
46 7 0.02
47 80 0.22
48 37 0.10
49 241 0.66
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:106045612 original size:48 final size:48
Alignment explanation
Indices: 106045555--106045706 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
106045545 CGATGTGATG
*
106045555 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
106045603 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
*
106045651 AATGTGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
106045699 AATGTGAA
1 AATGTGAA
106045707 TGTTGTAACA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:106045802 original size:100 final size:100
Alignment explanation
Indices: 106045689--106045891 Score: 397
Period size: 100 Copynumber: 2.0 Consensus size: 100
106045679 TGTGGTAAAG
106045689 CCGAATGGCTAATGTGAATGTTGTAACATGTGATTAAATGTACATGAAACTTGGAAATATGTTCC
1 CCGAATGGCTAATGTGAATGTTGTAACATGTGATTAAATGTACATGAAACTTGGAAATATGTTCC
106045754 GGGTGAGACCCGATGACTACGTGTGCAGATTATGT
66 GGGTGAGACCCGATGACTACGTGTGCAGATTATGT
106045789 CCGAATGGCTAATGTGAATGTTGTAACATGTGATTAAATGTACATGAAACTTGGAAATATGTTCC
1 CCGAATGGCTAATGTGAATGTTGTAACATGTGATTAAATGTACATGAAACTTGGAAATATGTTCC
*
106045854 GGGTGAGACCCGATGACTACGTGTGGAGATTATGT
66 GGGTGAGACCCGATGACTACGTGTGCAGATTATGT
106045889 CCG
1 CCG
106045892 GGTAAGACCC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (100 bp):
CCGAATGGCTAATGTGAATGTTGTAACATGTGATTAAATGTACATGAAACTTGGAAATATGTTCC
GGGTGAGACCCGATGACTACGTGTGCAGATTATGT
Found at i:106045900 original size:37 final size:37
Alignment explanation
Indices: 106045846--106045936 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
106045836 AACTTGGAAA
*
106045846 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
106045884 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
106045921 TATGTCCAGGTAAGAC
1 TATGTCCGGGTAAGAC
106045937 TTCGTAATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 47 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:106047947 original size:9 final size:9
Alignment explanation
Indices: 106047935--106047991 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
106047925 TTTGATAAAC
106047935 ATGATATGT
1 ATGATATGT
*
106047944 ATGATATGCAC
1 ATGATATG--T
*
106047955 ATGACATGT
1 ATGATATGT
*
106047964 ATGATATGCAC
1 ATGATATG--T
106047975 ATGATATGT
1 ATGATATGT
106047984 ATGATATG
1 ATGATATG
106047992 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:106047958 original size:20 final size:20
Alignment explanation
Indices: 106047933--106048003 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
106047923 ATTTTGATAA
106047933 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106047953 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
106047973 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
106047993 ACATGAGATGT
1 ACATGATATGT
106048004 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:106047980 original size:11 final size:11
Alignment explanation
Indices: 106047944--106047998 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
106047934 CATGATATGT
106047944 ATGATATGCAC
1 ATGATATGCAC
* *
106047955 ATGACATG--T
1 ATGATATGCAC
106047964 ATGATATGCAC
1 ATGATATGCAC
*
106047975 ATGATATG--T
1 ATGATATGCAC
106047984 ATGATATGCAC
1 ATGATATGCAC
106047995 ATGA
1 ATGA
106047999 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:106048074 original size:24 final size:24
Alignment explanation
Indices: 106048047--106048258 Score: 301
Period size: 24 Copynumber: 9.0 Consensus size: 24
106048037 GGAGGAAGTG
106048047 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
106048071 T-AAAGGGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
106048093 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
106048116 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
106048140 CAAAAGGGCTTCTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
106048164 T-AAAGGGCTTATGCCCCCGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
106048187 T-AAAGGGCTCATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
106048210 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
106048234 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
106048259 ATGATAAAGC
Statistics
Matches: 172, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
22 22 0.13
23 63 0.37
24 76 0.44
25 11 0.06
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:106048078 original size:23 final size:23
Alignment explanation
Indices: 106048049--106048237 Score: 290
Period size: 23 Copynumber: 8.1 Consensus size: 23
106048039 AGGAAGTGTA
106048049 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
106048072 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
106048094 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
106048118 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
106048142 AAAGGGCTTCTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
106048165 AAAGGGCTTATGCCCCCGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
106048188 AAAGGGCTCATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
106048211 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
106048235 AAA
1 AAA
106048238 AGAGGCTAGG
Statistics
Matches: 154, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
22 22 0.14
23 66 0.43
24 66 0.43
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:106048201 original size:70 final size:70
Alignment explanation
Indices: 106048048--106048237 Score: 294
Period size: 70 Copynumber: 2.7 Consensus size: 70
106048038 GAGGAAGTGT
*
106048048 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
106048112 TTATC
66 TTATC
* *
106048117 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTCTGCCCCAGTTATTAAAGGGCTTATGCCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
106048182 GTTAT-
65 GTTATC
* * *
106048187 TAAAGGGCTCATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATTAAA
106048238 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
69 23 0.21
70 57 0.51
71 32 0.29
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
TTATC
Found at i:106050379 original size:38 final size:38
Alignment explanation
Indices: 106050320--106050427 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
106050310 TCAATCATGC
*
106050320 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
106050359 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
106050397 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
106050428 ACTGGGCCGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 55 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:106050385 original size:31 final size:31
Alignment explanation
Indices: 106050343--106050444 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
106050333 CCTTTTCATA
106050343 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
106050380 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
106050412 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
106050443 TT
1 TT
106050445 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
31 32 0.51
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:106050682 original size:24 final size:24
Alignment explanation
Indices: 106050636--106050707 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
106050626 GCTTTATCAT
*
106050636 ATAACTGGAGGCC-TAGCCTCTTTTA
1 ATAACTGG-GGCCAAAGCC-CTTTTA
*
106050661 ATAACTGGGGCCAAAGCCCTTTCA
1 ATAACTGGGGCCAAAGCCCTTTTA
106050685 ATAACTGGGG-CATAAGCCCTTTT
1 ATAACTGGGGCCA-AAGCCCTTTT
106050708 TCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 28 0.67
25 12 0.29
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCCAAAGCCCTTTTA
Found at i:106050783 original size:20 final size:20
Alignment explanation
Indices: 106050758--106050817 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
106050748 TATGATTACC
106050758 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
106050778 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
106050798 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
106050818 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:106050892 original size:25 final size:25
Alignment explanation
Indices: 106050860--106050907 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106050850 ATACATAAAC
* * *
106050860 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
106050885 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
106050908 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:106058673 original size:38 final size:38
Alignment explanation
Indices: 106058614--106058721 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
106058604 TCAATCATGC
*
106058614 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
106058653 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
106058691 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
106058722 ACTGGCCGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 55 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:106058679 original size:31 final size:31
Alignment explanation
Indices: 106058637--106058737 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 31
106058627 CCTTTTCATA
106058637 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
106058674 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
106058706 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
106058736 TT
1 TT
106058738 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
30 13 0.21
31 18 0.29
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.45
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:106058731 original size:30 final size:31
Alignment explanation
Indices: 106058675--106058737 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
106058665 CCTTTTCATG
106058675 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
106058706 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
106058736 TT
1 TT
106058738 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:106058975 original size:24 final size:24
Alignment explanation
Indices: 106058929--106059000 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
106058919 GCTTTATCAT
*
106058929 ATAACTGGAGGCC-TAGCCTCTTTTA
1 ATAACTGG-GGCCAAAGCC-CTTTTA
*
106058954 ATAACTGGGGCCAAAGCCCTTTCA
1 ATAACTGGGGCCAAAGCCCTTTTA
106058978 ATAACTGGGG-CATAAGCCCTTTT
1 ATAACTGGGGCCA-AAGCCCTTTT
106059001 TCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 28 0.67
25 12 0.29
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCCAAAGCCCTTTTA
Found at i:106059074 original size:20 final size:20
Alignment explanation
Indices: 106059049--106059106 Score: 93
Period size: 18 Copynumber: 3.0 Consensus size: 20
106059039 TATGATTACC
106059049 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
106059069 TCATGTG--TATCATACATT
1 TCATGTGCATATCATACATA
106059087 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
106059107 CCATATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.50
20 17 0.50
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:106059181 original size:25 final size:25
Alignment explanation
Indices: 106059149--106059196 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106059139 ATACATAAAC
* * *
106059149 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
106059174 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
106059197 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:106067871 original size:24 final size:26
Alignment explanation
Indices: 106067831--106067881 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
106067821 ATTGGGACAT
106067831 TTTTCAATGTCAACATG-CAA-TGAA
1 TTTTCAATGTCAACATGACAATTGAA
*
106067855 TTTTC-ATGTGAATCATGACAATTGAA
1 TTTTCAATGTCAA-CATGACAATTGAA
106067881 T
1 T
106067882 AAACGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.26
24 9 0.39
25 3 0.13
26 5 0.22
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (26 bp):
TTTTCAATGTCAACATGACAATTGAA
Found at i:106069490 original size:28 final size:28
Alignment explanation
Indices: 106069448--106069549 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
106069438 TAATTATATG
** *
106069448 TGGCACTTAACGTGCGAAGTATAGGGGA
1 TGGCACTTAGTGTGCGAAGTATAGAGGA
* ** *
106069476 TGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCGA-AGTATAGAGGA
*
106069504 TGACACTTAGTGTGCGAAGTA-ACGAGGA
1 TGGCACTTAGTGTGCGAAGTATA-GAGGA
106069532 TGGCACTTAGTGTGCGAA
1 TGGCACTTAGTGTGCGAA
106069550 ACTTCCAGAA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
27 1 0.02
28 56 0.97
29 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATAGAGGA
Found at i:106069537 original size:56 final size:55
Alignment explanation
Indices: 106069459--106069609 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 55
106069449 GGCACTTAAC
* *
106069459 GTGCGAAGTATAGGGGATGGCACTTAGTGTGCGATACATCCAGAATGACACTTAGT
1 GTGCGAAGTA-ACGGGATGGCACTTAGTGTGCGATACATCCAGAAAGACACTTAGT
* * **
106069515 GTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACTTCCAGAAAGGTACTTAGT
1 GTGCGAAGTAACG-GGATGGCACTTAGTGTGCGATACATCCAGAAAGACACTTAGT
*
106069571 GTGC-AAGGTATCGGGTATGGCA-TCTAGTGTGCGATACAT
1 GTGCGAA-GTAACGGG-ATGGCACT-TAGTGTGCGATACAT
106069610 TGAATATTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
55 7 0.09
56 75 0.91
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (55 bp):
GTGCGAAGTAACGGGATGGCACTTAGTGTGCGATACATCCAGAAAGACACTTAGT
Found at i:106069726 original size:32 final size:32
Alignment explanation
Indices: 106069652--106069750 Score: 126
Period size: 32 Copynumber: 3.1 Consensus size: 32
106069642 TGAGTATGAG
* * * * *
106069652 ATTGGTACGAGATGATACAGGTATCTACGAAA
1 ATTGGTACAATATGGTACAAGTATGTACGAAA
106069684 ATTGGTACAATATGGTACAAGTATGTACGAAA
1 ATTGGTACAATATGGTACAAGTATGTACGAAA
* * *
106069716 ATTGGTACAATATAGTACATGTATGTACAAAA
1 ATTGGTACAATATGGTACAAGTATGTACGAAA
106069748 ATT
1 ATT
106069751 CAATTGAGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (32 bp):
ATTGGTACAATATGGTACAAGTATGTACGAAA
Found at i:106072359 original size:23 final size:23
Alignment explanation
Indices: 106072333--106072377 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
106072323 GTGTGTCACC
106072333 TCGTC-GAGACGTCCAGTGTCGCA
1 TCGTCAGA-ACGTCCAGTGTCGCA
**
106072356 TCGTCAGAACGTTGAGTGTCGC
1 TCGTCAGAACGTCCAGTGTCGC
106072378 GTCGGCCGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
TCGTCAGAACGTCCAGTGTCGCA
Found at i:106073127 original size:17 final size:17
Alignment explanation
Indices: 106073107--106073140 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
106073097 ATGGCAAAAA
106073107 CAACAACAAAACAATAG
1 CAACAACAAAACAATAG
*
106073124 CAACAACAAAATAATAG
1 CAACAACAAAACAATAG
106073141 AAAAATATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.65, C:0.21, G:0.06, T:0.09
Consensus pattern (17 bp):
CAACAACAAAACAATAG
Found at i:106074300 original size:24 final size:26
Alignment explanation
Indices: 106074264--106074312 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
106074254 TCAAACATGC
106074264 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
106074289 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
106074313 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:106075841 original size:25 final size:26
Alignment explanation
Indices: 106075798--106075903 Score: 162
Period size: 25 Copynumber: 4.2 Consensus size: 26
106075788 TGAAATTCCC
*
106075798 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
106075824 ATCATGGAA-ATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* **
106075849 ATCATGGAATATTTACCTAATTCATT
1 ATCATGGAACATTTACCTAACCCATT
106075875 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106075900 ATCA
1 ATCA
106075904 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
25 45 0.62
26 28 0.38
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106075868 original size:51 final size:51
Alignment explanation
Indices: 106075798--106075903 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
106075788 TGAAATTCCC
106075798 ATCATGGAACATTTACCTAAACCATTATCATGGAA-ATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
* **
106075849 ATCATGGAATATTTACCTAATTCATTATCATGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAACATTTACCTAACCCATT
106075900 ATCA
1 ATCA
106075904 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 3 0.06
51 48 0.94
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (51 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAACATTTACCTAACCCATT
Found at i:106077525 original size:19 final size:22
Alignment explanation
Indices: 106077486--106077525 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
106077476 AGAAACCCAA
106077486 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
106077508 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
106077526 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:106077624 original size:27 final size:28
Alignment explanation
Indices: 106077587--106077726 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
106077577 AGCATAGCTG
* *
106077587 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
106077613 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
106077641 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
106077668 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
106077695 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
106077722 CCAGA
1 CCAGA
106077727 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:106078136 original size:16 final size:15
Alignment explanation
Indices: 106078115--106078144 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
106078105 AAAATACCGA
106078115 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
106078131 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
106078145 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:106079350 original size:26 final size:26
Alignment explanation
Indices: 106079314--106079449 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
106079304 CATGATATTC
106079314 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
106079340 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
106079366 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
106079392 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
106079418 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
106079444 TTATCA
1 TTATCA
106079450 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:106079809 original size:15 final size:15
Alignment explanation
Indices: 106079786--106079825 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
106079776 GAGGTAGTAC
106079786 AACAAAACAAAGCAA
1 AACAAAACAAAGCAA
* *
106079801 AACAGAACAAAGCAG
1 AACAAAACAAAGCAA
*
106079816 AACAACACAA
1 AACAAAACAA
106079826 TTCAAATAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.68, C:0.23, G:0.10, T:0.00
Consensus pattern (15 bp):
AACAAAACAAAGCAA
Found at i:106084617 original size:21 final size:21
Alignment explanation
Indices: 106084576--106084619 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
106084566 AATTATTTTT
*
106084576 AAAATTTTTTAAAATTATAAA
1 AAAATTTTTTAAAAGTATAAA
*
106084597 AAAATTATTTTTAAAGT-TAAA
1 AAAATT-TTTTAAAAGTATAAA
106084618 AA
1 AA
106084620 TCATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAATTTTTTAAAAGTATAAA
Found at i:106087633 original size:28 final size:27
Alignment explanation
Indices: 106087561--106087634 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 27
106087551 AACTATTTAA
*
106087561 AAAGATAATAAACAAGTTTGAAAATAAAT
1 AAAG-TAA-AAACAATTTTGAAAATAAAT
* * *
106087590 AAAGTAAAAATGAATTTTTAAAATTAAT
1 AAAGTAAAAA-CAATTTTGAAAATAAAT
*
106087618 AATGTATAAAACAATTT
1 AAAGTA-AAAACAATTT
106087635 AAAAAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 3 0.08
28 26 0.70
29 8 0.22
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAGTAAAAACAATTTTGAAAATAAAT
Found at i:106091705 original size:26 final size:26
Alignment explanation
Indices: 106091674--106091807 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 26
106091664 ATACAAATTC
106091674 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
* * * *
106091700 ACAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
106091726 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
* *
106091752 ATAATGGGTTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
106091778 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTTCATG
106091804 ATAA
1 ATAA
106091808 GAATTTCATG
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 96 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTTCATG
Found at i:106091805 original size:52 final size:52
Alignment explanation
Indices: 106091674--106091807 Score: 250
Period size: 52 Copynumber: 2.6 Consensus size: 52
106091664 ATACAAATTC
*
106091674 ATAATGGGTTAGGTAAATGTTTCATGACAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTTCATGATAATGGATTAGGTAAATATTCCATG
*
106091726 ATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTTCATGATAATGGATTAGGTAAATATTCCATG
106091778 ATAATGGGTTAGGTAAATGTTTCATGATAA
1 ATAATGGGTTAGGTAAATGTTTCATGATAA
106091808 GAATTTCATG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (52 bp):
ATAATGGGTTAGGTAAATGTTTCATGATAATGGATTAGGTAAATATTCCATG
Found at i:106093839 original size:137 final size:137
Alignment explanation
Indices: 106093593--106093876 Score: 532
Period size: 137 Copynumber: 2.1 Consensus size: 137
106093583 TAGTCTCCCC
106093593 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
*
106093658 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
106093723 GTTACCA
131 GTTACCA
106093730 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
*
106093795 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
*
106093860 GTTACCT
131 GTTACCA
*
106093867 GAATGGGCTT
1 AAATGGGCTT
106093877 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (137 bp):
AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
GTTACCA
Found at i:106094679 original size:2 final size:2
Alignment explanation
Indices: 106094672--106094713 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
106094662 CTTCTAAATC
106094672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106094714 CATTTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:106094779 original size:31 final size:30
Alignment explanation
Indices: 106094717--106094781 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
106094707 ATATATACAT
*
106094717 TTTCTTTTAAATCTATTTATGTATATATTA
1 TTTCTTTTAAATCTATTTACGTATATATTA
106094747 TTTCTTCTTAAATC-ATCTTACGTAGTAT-TTA
1 TTTCTT-TTAAATCTAT-TTACGTA-TATATTA
106094778 TTTC
1 TTTC
106094782 GAAATTCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 8 0.26
31 20 0.65
32 3 0.10
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (30 bp):
TTTCTTTTAAATCTATTTACGTATATATTA
Found at i:106097981 original size:7 final size:7
Alignment explanation
Indices: 106097969--106097993 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
106097959 AGAGATGGAT
106097969 AGAATAA
1 AGAATAA
106097976 AGAATAA
1 AGAATAA
106097983 AGAATAA
1 AGAATAA
106097990 AGAA
1 AGAA
106097994 AATATGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (7 bp):
AGAATAA
Found at i:106099717 original size:2 final size:2
Alignment explanation
Indices: 106099705--106099747 Score: 68
Period size: 2 Copynumber: 20.5 Consensus size: 2
106099695 ATCAAATTGC
106099705 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
106099748 CCAACTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 35 0.90
3 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:106108030 original size:25 final size:26
Alignment explanation
Indices: 106107993--106108044 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
106107983 CCAAACATGC
106107993 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCTCTAGGGGT
*
106108019 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTATCTCTAGGGGT
106108044 A
1 A
106108045 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 3 0.12
25 14 0.58
26 7 0.29
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCTCTAGGGGT
Found at i:106109553 original size:26 final size:26
Alignment explanation
Indices: 106109523--106109578 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
106109513 TGAAATGCCC
106109523 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106109549 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106109575 ATCA
1 ATCA
106109579 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106111247 original size:8 final size:8
Alignment explanation
Indices: 106111222--106111273 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
106111212 TAATGATGTG
*
106111222 AATAATAA
1 AATATTAA
106111230 AATATATAA
1 AATAT-TAA
106111239 AATATT-A
1 AATATTAA
106111246 AATATTAA
1 AATATTAA
*
106111254 AATATCAA
1 AATATTAA
*
106111262 AATATTAG
1 AATATTAA
106111270 AATA
1 AATA
106111274 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
AATATTAA
Found at i:106111249 original size:24 final size:24
Alignment explanation
Indices: 106111221--106111277 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
106111211 ATAATGATGT
*
106111221 GAATAATAAAATATATAAAATATTA
1 GAATAATAAAATAT-CAAAATATTA
*
106111246 -AATATTAAAATATCAAAATATTA
1 GAATAATAAAATATCAAAATATTA
106111269 GAATAATAA
1 GAATAATAA
106111278 TAATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
GAATAATAAAATATCAAAATATTA
Found at i:106111489 original size:22 final size:24
Alignment explanation
Indices: 106111426--106111490 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
106111416 CGTGATAATA
*
106111426 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
106111451 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
106111474 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
106111491 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:106111517 original size:32 final size:31
Alignment explanation
Indices: 106111479--106111542 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
106111469 TATAGTTAAG
* *
106111479 ATATATACATAAGATAACATGTAAATATATAT
1 ATATATAAATAAGATAACAT-TAAAGATATAT
* *
106111511 ATATATAAATAATATAATATTAAAGATATAT
1 ATATATAAATAAGATAACATTAAAGATATAT
106111542 A
1 A
106111543 CATAAAAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (31 bp):
ATATATAAATAAGATAACATTAAAGATATAT
Found at i:106111564 original size:25 final size:25
Alignment explanation
Indices: 106111509--106111567 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
106111499 GTAAATATAT
* * *
106111509 ATATATATAAATAATATAATATTAA
1 ATATATATAAATAAAAGAATATAAA
* * *
106111534 AGATATATACATAAAAGAGTATAAA
1 ATATATATAAATAAAAGAATATAAA
106111559 ATATATATA
1 ATATATATA
106111568 TATATATATA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (25 bp):
ATATATATAAATAAAAGAATATAAA
Found at i:106111650 original size:23 final size:25
Alignment explanation
Indices: 106111607--106111652 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
106111597 TATACCTAAT
106111607 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
106111632 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
106111653 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:106111760 original size:33 final size:33
Alignment explanation
Indices: 106111718--106111787 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
106111708 TCGTCCGGTC
*
106111718 GCCGGACCGCCGCCGGCGCCACCGTACACGGCA
1 GCCGAACCGCCGCCGGCGCCACCGTACACGGCA
*
106111751 GCCGAACCGCCGTCGGCGCCACCGTACACGGCA
1 GCCGAACCGCCGCCGGCGCCACCGTACACGGCA
106111784 GCCG
1 GCCG
106111788 GACCTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.16, C:0.47, G:0.33, T:0.04
Consensus pattern (33 bp):
GCCGAACCGCCGCCGGCGCCACCGTACACGGCA
Done.