Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 41 of 167
Found at i:12508603 original size:43 final size:42
Alignment explanation
Indices: 12508456--12508607 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
12508446 TGTGTTTTCG
* * * *
12508456 TGTAAGACTACATCTGGGACGTTGGCATCGACT-TATAATTTACA
1 TGTAAGACCATATCTGGGACGTTGGCATC-A-TATTTGA-TTACA
** * *
12508500 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTTCG
1 TGTAAGACCATATCTGGGACGTTGGCATCATATTTGATTACA
* *
12508542 TGTAAGACCCTATCTGGGACAGTT-GTATCGATATTTGATTACA
1 TGTAAGACCATATCTGGGAC-GTTGGCATC-ATATTTGATTACA
* *
12508585 TGTAATACCATATTTGGGACGTT
1 TGTAAGACCATATCTGGGACGTT
12508608 TGGGGTTTGG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.31
43 35 0.39
44 27 0.30
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACGTTGGCATCATATTTGATTACA
Found at i:12511364 original size:46 final size:46
Alignment explanation
Indices: 12511274--12511428 Score: 258
Period size: 46 Copynumber: 3.3 Consensus size: 46
12511264 AGTAGCTCCT
* *
12511274 TTAATGCTGTCCATGCATGCTTTTTCTTTAAGGCTTCAGC-AGCATCA
1 TTAATGCCGTCCATGCTTGC-TTTTCTTTAAGGCTTCA-CTAGCATCA
12511321 TTAATGCCGTCCATGCTTGCTTTTCTTTAAGGCTTCACTAGCATCA
1 TTAATGCCGTCCATGCTTGCTTTTCTTTAAGGCTTCACTAGCATCA
*
12511367 TTAATGCCATCCATGCTTGCTTTTCTTTAAGGCTTCACTAGCATCA
1 TTAATGCCGTCCATGCTTGCTTTTCTTTAAGGCTTCACTAGCATCA
12511413 TTAATGCCGTCCATGC
1 TTAATGCCGTCCATGC
12511429 ATGTTAGCTG
Statistics
Matches: 103, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
45 1 0.01
46 84 0.82
47 18 0.17
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (46 bp):
TTAATGCCGTCCATGCTTGCTTTTCTTTAAGGCTTCACTAGCATCA
Found at i:12521104 original size:46 final size:46
Alignment explanation
Indices: 12521037--12521250 Score: 363
Period size: 46 Copynumber: 4.8 Consensus size: 46
12521027 TGTAACCCGC
12521037 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
*
12521083 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
12521129 CCATAAGTGAACTCGGACTCAACTCAACGAG-T----TATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
12521170 CCATAAGTGAACTC-G--TCAACTCAACGAGTTCGGATATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
12521213 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
12521251 GCTCAACCAT
Statistics
Matches: 158, Mismatches: 2, Indels: 16
0.90 0.01 0.09
Matches are distributed among these distances:
38 13 0.08
39 1 0.01
40 1 0.01
41 22 0.14
43 23 0.15
44 1 0.01
45 1 0.01
46 96 0.61
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
Found at i:12521216 original size:84 final size:86
Alignment explanation
Indices: 12521037--12521245 Score: 341
Period size: 84 Copynumber: 2.4 Consensus size: 86
12521027 TGTAACCCGC
12521037 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-T----TATTCGCATCCATAAGTGAACTCGGA-T
12521102 CAACTCAACGAGTTCGGACATTCGCAT
60 CAACTCAACGAGTTCGGACATTCGCAT
12521129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTATTCGCATCCATAAGTGAACTC-G-TCAACTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTATTCGCATCCATAAGTGAACTCGGATCAACTC
*
12521192 AACGAGTTCGGATATTCGCAT
66 AACGAGTTCGGACATTCGCAT
12521213 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
12521246 CGGATGCTCA
Statistics
Matches: 116, Mismatches: 1, Indels: 8
0.93 0.01 0.06
Matches are distributed among these distances:
84 60 0.52
86 1 0.01
87 23 0.20
91 1 0.01
92 31 0.27
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (86 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTATTCGCATCCATAAGTGAACTCGGATCAACTC
AACGAGTTCGGACATTCGCAT
Found at i:12525720 original size:17 final size:17
Alignment explanation
Indices: 12525698--12525731 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12525688 ATAGCTGAAG
12525698 CCACATGAGAAAAACTA
1 CCACATGAGAAAAACTA
*
12525715 CCACATGAGAGAAACTA
1 CCACATGAGAAAAACTA
12525732 ACCAACGTAT
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:0.50, C:0.24, G:0.15, T:0.12
Consensus pattern (17 bp):
CCACATGAGAAAAACTA
Found at i:12526072 original size:22 final size:22
Alignment explanation
Indices: 12526047--12526088 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
12526037 AGATGACTCT
12526047 GAACAAGACAGATTGTGAATCA
1 GAACAAGACAGATTGTGAATCA
12526069 GAACAAGACAGATTGTGAAT
1 GAACAAGACAGATTGTGAAT
12526089 TAGACTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (22 bp):
GAACAAGACAGATTGTGAATCA
Found at i:12527317 original size:30 final size:30
Alignment explanation
Indices: 12527282--12527362 Score: 144
Period size: 30 Copynumber: 2.7 Consensus size: 30
12527272 TTTACGAGCC
*
12527282 TAGGGGCAAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAATTGTAATTTTGACAAAGTT
12527312 TAGGGGCAAAATTGTAATTTTGACAAAGTT
1 TAGGGGCAAAATTGTAATTTTGACAAAGTT
*
12527342 TAGGGGCAAAATTATAATTTT
1 TAGGGGCAAAATTGTAATTTT
12527363 CCAAAATATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATTGTAATTTTGACAAAGTT
Found at i:12527695 original size:27 final size:27
Alignment explanation
Indices: 12527665--12527718 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12527655 TGTCATGTGA
* *
12527665 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
12527692 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
12527719 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:12528076 original size:51 final size:49
Alignment explanation
Indices: 12527967--12528210 Score: 281
Period size: 49 Copynumber: 4.9 Consensus size: 49
12527957 TATTTTGAGG
* *
12527967 TCACGTGTATAGTACGAAGTGCAGGCTACTACGTGTACCGGATAATTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGA
* * * * * *
12528016 TCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATTACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA-TAATT-GA
* * ** *
12528067 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCGGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GA
* *
12528117 TCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGA
* * * * *
12528166 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
12528211 CCTTGTCTAC
Statistics
Matches: 165, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 76 0.46
50 50 0.30
51 39 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGA
Found at i:12531999 original size:46 final size:48
Alignment explanation
Indices: 12531946--12532065 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 48
12531936 TATGTGTGCT
***
12531946 AGTGTAAGACATGTCTGGAACATGCATCGG-C-C-ACATATTGTGAGCC
1 AGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACATA-TACCAGCC
* *
12531992 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACATATACCAGTC
1 AGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACATATACCAGCC
12532040 AGTGTAA-ACATGTCTGGAACATGCAT
1 AGTGTAAGACATGTCTGGAACATGCAT
12532066 TAGTATTGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
46 29 0.45
47 19 0.29
48 12 0.18
49 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGAACATGCATCGGCCTCGACATATACCAGCC
Found at i:12532236 original size:49 final size:50
Alignment explanation
Indices: 12532177--12532302 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 50
12532167 GTTATGTGTT
* * *
12532177 AGTGTAAGACCTATCTGGGACATGGCATTGA-CAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTCAGC-CTCAATAGATGAAAGCC
* * * * * *
12532226 AGTGTAAGACCTGTCTGGAACACGACA-TCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATTCAGCCTCAATAGATGAAAGCC
12532275 AGTGTAAGACCTGTCTGGGACATGGCAT
1 AGTGTAAGACCTGTCTGGGACATGGCAT
12532303 CGACTTTGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
48 3 0.05
49 59 0.95
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (50 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTCAGCCTCAATAGATGAAAGCC
Found at i:12539092 original size:16 final size:16
Alignment explanation
Indices: 12539064--12539097 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12539054 AGATTTGAGG
12539064 GATATTGGGAGTCATT
1 GATATTGGGAGTCATT
12539080 GATA-TGGGAAGTCATT
1 GATATTGGG-AGTCATT
12539096 GA
1 GA
12539098 AATTATCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (16 bp):
GATATTGGGAGTCATT
Found at i:12547850 original size:12 final size:13
Alignment explanation
Indices: 12547814--12547850 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
12547804 CTATTTGAAA
12547814 AAAAAGTAAAAA-T
1 AAAAA-TAAAAACT
12547827 AAAAATAAAAACT
1 AAAAATAAAAACT
12547840 AAAAA-AAAAAC
1 AAAAATAAAAAC
12547851 GATTGTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.81, C:0.05, G:0.03, T:0.11
Consensus pattern (13 bp):
AAAAATAAAAACT
Found at i:12553642 original size:30 final size:30
Alignment explanation
Indices: 12553602--12553676 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 30
12553592 TATGAAATAA
12553602 GGACTAAATTGTAAAAATGTGAAAGTTTAG
1 GGACTAAATTGTAAAAATGTGAAAGTTTAG
*
12553632 GGACTGAATTGTAAAAATGTGAAAGTTTAG
1 GGACTAAATTGTAAAAATGTGAAAGTTTAG
12553662 GGA--AAATGTGTAAAA
1 GGACTAAAT-TGTAAAA
12553677 TAACCCTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
28 3 0.07
29 7 0.17
30 32 0.76
ACGTcount: A:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (30 bp):
GGACTAAATTGTAAAAATGTGAAAGTTTAG
Found at i:12555144 original size:12 final size:12
Alignment explanation
Indices: 12555127--12555167 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
12555117 ATAGGATTAG
*
12555127 CACGGTTTAGCA
1 CACGGTTTGGCA
12555139 CACGGTTTGGCA
1 CACGGTTTGGCA
12555151 CACGGTTTGGCA
1 CACGGTTTGGCA
12555163 CACGG
1 CACGG
12555168 GCATGTGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (12 bp):
CACGGTTTGGCA
Found at i:12559578 original size:14 final size:13
Alignment explanation
Indices: 12559554--12559591 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
12559544 TTCCCATATA
12559554 AAAAT-CCAATTC
1 AAAATACCAATTC
12559566 AAACATACCAATTC
1 AAA-ATACCAATTC
*
12559580 AAAATACAAATT
1 AAAATACCAATT
12559592 TTATATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 3 0.13
13 10 0.43
14 10 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATACCAATTC
Found at i:12561433 original size:49 final size:49
Alignment explanation
Indices: 12561374--12561504 Score: 174
Period size: 51 Copynumber: 2.6 Consensus size: 49
12561364 GGAATGCATG
* *
12561374 GTAGCCTGCACTTAGTACTACACATGTGACCAACAG-TCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGTGACC-ACAGTTCGGGTACACATA
* * *
12561423 GTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACATGTGACCACAG--TTCGGGTACACATA
*
12561474 GTAGCCTGCACTTAGTACTACACATGCGACC
1 GTAGCCTGCACTTAGTACTACACATGTGACC
12561505 TCACAATAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
48 4 0.06
49 29 0.41
51 38 0.54
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (49 bp):
GTAGCCTGCACTTAGTACTACACATGTGACCACAGTTCGGGTACACATA
Found at i:12563465 original size:42 final size:43
Alignment explanation
Indices: 12563383--12563483 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
12563373 TCCAAAACGT
* *
12563383 GGTCTTACATGCAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
* * *
12563426 GGTCTTACACGAAATCAAATA-CGATGTCGA-TGTTCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATG-CCACTGTCCCAGACAG
*
12563468 GGTCTTACACGTAATC
1 GGTCTTACACGAAATC
12563484 TCAAATTTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.59
43 21 0.41
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:12570742 original size:26 final size:27
Alignment explanation
Indices: 12570688--12570742 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
12570678 ATTTGGTAAG
* * *
12570688 GTATGGCATAAAAAGCCTTCTGGTCTA
1 GTATGACAAAAAAAGCCTGCTGGTCTA
*
12570715 GTATGACAAAAAAAGCCTGC-GGTTTA
1 GTATGACAAAAAAAGCCTGCTGGTCTA
12570741 GT
1 GT
12570743 GGATAATGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (27 bp):
GTATGACAAAAAAAGCCTGCTGGTCTA
Found at i:12572910 original size:39 final size:39
Alignment explanation
Indices: 12572856--12572934 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
12572846 GAAGACACTA
12572856 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
*
12572895 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
12572934 G
1 G
12572935 TAATATAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
GAAATGTATCCGAGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:12576186 original size:27 final size:27
Alignment explanation
Indices: 12576156--12576217 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
12576146 GGAGGAAGTG
12576156 TACTGTTACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
*
12576183 TACTATTACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
12576210 TACTGTTA
1 TACTGTTA
12576218 TTGGCAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATA
Found at i:12576228 original size:27 final size:27
Alignment explanation
Indices: 12576171--12576230 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
12576161 TTACTGGTGG
***
12576171 CTTTGCCACATATACTATTACTGGTGG
1 CTTTGCCACATATACTATTACTGGCAA
* *
12576198 CTTTGCCACATATACTGTTATTGGCAA
1 CTTTGCCACATATACTATTACTGGCAA
12576225 CTTTGC
1 CTTTGC
12576231 TATGATACTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
CTTTGCCACATATACTATTACTGGCAA
Found at i:12577797 original size:19 final size:20
Alignment explanation
Indices: 12577765--12577807 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
12577755 ATGGAGTTGG
*
12577765 TAAT-TACATGTGTA-AAAA
1 TAATATACATATGTATAAAA
12577783 TAATATACATATGTATAAAA
1 TAATATACATATGTATAAAA
12577803 TAATA
1 TAATA
12577808 AATTATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (20 bp):
TAATATACATATGTATAAAA
Found at i:12577940 original size:22 final size:22
Alignment explanation
Indices: 12577887--12577932 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12577877 AAATAAAAAG
12577887 AATAAAAATAGAAACAAAGTTA
1 AATAAAAATAGAAACAAAGTTA
12577909 AATAAAAATAGAAACAAAGTTA
1 AATAAAAATAGAAACAAAGTTA
12577931 AA
1 AA
12577933 ACGAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (22 bp):
AATAAAAATAGAAACAAAGTTA
Found at i:12577971 original size:17 final size:16
Alignment explanation
Indices: 12577947--12577978 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12577937 AATATAGAAG
12577947 AAAAAGAAAGAAAAGA
1 AAAAAGAAAGAAAAGA
12577963 AAAAGAGAAAGAAAAG
1 AAAA-AGAAAGAAAAG
12577979 GAGAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAGA
Found at i:12585846 original size:16 final size:16
Alignment explanation
Indices: 12585825--12585858 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
12585815 TGAAGTCTAG
12585825 GTGGATTTGTCCTTAA
1 GTGGATTTGTCCTTAA
12585841 GTGGATTTGTCCTTAA
1 GTGGATTTGTCCTTAA
12585857 GT
1 GT
12585859 ATTGTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (16 bp):
GTGGATTTGTCCTTAA
Found at i:12589295 original size:55 final size:53
Alignment explanation
Indices: 12589176--12589304 Score: 134
Period size: 55 Copynumber: 2.4 Consensus size: 53
12589166 TGCGACATGG
* * *
12589176 CCGTGGGTGAACCTGCCAAAACAACACGGGCATTCGACACGCCCGTGCCTCGAAA
1 CCGTGGGTGAACCTGTC-AAACAACACGGGCATGCGACACACCCGTGCCTC-AAA
* * * * *
12589231 CCATAGGTGAACCTGTCAAACTAGCACGGGTATGCGACACACCCGTGCC-CATCAT
1 CCGTGGGTGAACCTGTCAAAC-AACACGGGCATGCGACACACCCGTGCCTCA--AA
12589286 CCGTGGGTGAACCTGTCAA
1 CCGTGGGTGAACCTGTCAA
12589305 GTTAACACGG
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.02
54 5 0.08
55 55 0.90
ACGTcount: A:0.26, C:0.33, G:0.25, T:0.16
Consensus pattern (53 bp):
CCGTGGGTGAACCTGTCAAACAACACGGGCATGCGACACACCCGTGCCTCAAA
Found at i:12596377 original size:16 final size:16
Alignment explanation
Indices: 12596356--12596391 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
12596346 ATGATATGAG
*
12596356 AAGATTATTTGAGAAT
1 AAGATTATTTGAGAAA
12596372 AAGATTATTTGAGAAA
1 AAGATTATTTGAGAAA
12596388 AAGA
1 AAGA
12596392 CAAAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (16 bp):
AAGATTATTTGAGAAA
Found at i:12596908 original size:25 final size:26
Alignment explanation
Indices: 12596859--12596916 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
12596849 ATGAAACCTA
*
12596859 AAAATGAAATAGTATTAAATGAAGAT
1 AAAATGAAAAAGTATTAAATGAAGAT
12596885 AAAAT-AAAAAGTACTTAAAT-AAGAT
1 AAAATGAAAAAGTA-TTAAATGAAGAT
12596910 -AAATGAA
1 AAAATGAA
12596917 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.14
25 14 0.48
26 11 0.38
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (26 bp):
AAAATGAAAAAGTATTAAATGAAGAT
Found at i:12607748 original size:46 final size:46
Alignment explanation
Indices: 12607571--12607752 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
12607561 TTTGACATGA
* * * * * * *
12607571 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
12607617 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
12607663 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
12607709 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
12607753 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:12609709 original size:20 final size:20
Alignment explanation
Indices: 12609681--12609720 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12609671 ACACCTTTGA
12609681 TTTTCCTTTTTC-TTCTTTC
1 TTTTCCTTTTTCTTTCTTTC
12609700 TTTTCTCTTTTTCTTTCTTTC
1 TTTTC-CTTTTTCTTTCTTTC
12609721 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCCTTTTTCTTTCTTTC
Found at i:12609775 original size:29 final size:30
Alignment explanation
Indices: 12609742--12609803 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
12609732 TTCTGTTTCG
12609742 TTTGCTTTGTTTCTTTATTTC-TCTCCTTT
1 TTTGCTTTGTTTCTTTATTTCTTCTCCTTT
* * *
12609771 TTTGCTTTTTTTCTTTTTTTCTTTTCCTTT
1 TTTGCTTTGTTTCTTTATTTCTTCTCCTTT
12609801 TTT
1 TTT
12609804 TATATATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.76
Consensus pattern (30 bp):
TTTGCTTTGTTTCTTTATTTCTTCTCCTTT
Found at i:12612281 original size:46 final size:44
Alignment explanation
Indices: 12612228--12612396 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 44
12612218 ATTGTGGGCT
* *
12612228 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAT-TGA-GAGAGCC
*
12612274 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCATTGAGA-GA--GCC
*
12612322 AGTGTAAGACATGTCT-GTGACATGCATCGGCC-TTGGGACGTAAGCC
1 AGTGTAAGACATGTCTAG-GACATGCATCGGCCATTGAGA-G--AGCC
*
12612368 AGTGTAAGACATGTCTAGGACATGTATCG
1 AGTGTAAGACATGTCTAGGACATGCATCG
12612397 ACTACGAAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
45 2 0.02
46 56 0.52
47 30 0.28
48 19 0.18
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCATTGAGAGAGCC
Found at i:12612474 original size:50 final size:49
Alignment explanation
Indices: 12612412--12612541 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 49
12612402 GAAATGTGTC
* * * *
12612412 AGTGTAAGACCATGCCTAGGACATGGCGTTGG-CACGGAT-ATGTGAGAGCT
1 AGTGTAAAACCATGTCTAGGACATGGCATCGGCCACGG-TGA--TGAGAGCT
* * *
12612462 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGGTGATGATAGCT
1 AGTGTAAAACCATGTCTAGGACATGGCATCGGCCACGGTGATGAGAGCT
*
12612511 AGTGTAAAACCATGTCTAAGACATGGCATCG
1 AGTGTAAAACCATGTCTAGGACATGGCATCG
12612542 ACAACTTGCC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 36 0.52
50 28 0.41
51 5 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
AGTGTAAAACCATGTCTAGGACATGGCATCGGCCACGGTGATGAGAGCT
Found at i:12621213 original size:9 final size:9
Alignment explanation
Indices: 12621199--12621240 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
12621189 ATAATAAAAG
12621199 AAGAAAGCA
1 AAGAAAGCA
*
12621208 AAGAAAGTA
1 AAGAAAGCA
* *
12621217 AAAAAAACA
1 AAGAAAGCA
12621226 AAGAAA-CA
1 AAGAAAGCA
12621234 AAGAAAG
1 AAGAAAG
12621241 AACAAGCAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.74, C:0.07, G:0.17, T:0.02
Consensus pattern (9 bp):
AAGAAAGCA
Found at i:12625463 original size:30 final size:30
Alignment explanation
Indices: 12625429--12625489 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12625419 TCCTTAACTC
12625429 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
12625459 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
12625489 A
1 A
12625490 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:12628534 original size:20 final size:20
Alignment explanation
Indices: 12628509--12628554 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
12628499 ATAACCGATT
12628509 ATATATATATGTACATGAAC
1 ATATATATATGTACATGAAC
* *
12628529 ATATATATATGTTCATGTAC
1 ATATATATATGTACATGAAC
12628549 ATATAT
1 ATATAT
12628555 TTGTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (20 bp):
ATATATATATGTACATGAAC
Found at i:12628552 original size:18 final size:19
Alignment explanation
Indices: 12628511--12628559 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
12628501 AACCGATTAT
*
12628511 ATATATATGTACATGAACA
1 ATATATATGTTCATGAACA
*
12628530 TATATATATGTTCATGTAC-
1 -ATATATATGTTCATGAACA
*
12628549 ATATATTTGTT
1 ATATATATGTT
12628560 TTTATCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
20 16 0.62
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (19 bp):
ATATATATGTTCATGAACA
Found at i:12628858 original size:56 final size:55
Alignment explanation
Indices: 12628798--12628949 Score: 232
Period size: 56 Copynumber: 2.7 Consensus size: 55
12628788 CAGACAGGGT
* *
12628798 CTTACTTACACACATATATCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
1 CTTACTTGCACACATATATC-GAATCACATATCGATGCCAACGTATGAAACATGGA
* *
12628854 CTTACTCGCACACATATATCGATATCACATATCGATGCCAATGTATGAAACATGGA
1 CTTACTTGCACACATATATCGA-ATCACATATCGATGCCAACGTATGAAACATGGA
*
12628910 CTCACTTGCACACATATATCGGAATCACATATCGATGCCA
1 CTTACTTGCACACATATATC-GAATCACATATCGATGCCA
12628950 CATATACTTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
55 2 0.02
56 84 0.95
57 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.26
Consensus pattern (55 bp):
CTTACTTGCACACATATATCGAATCACATATCGATGCCAACGTATGAAACATGGA
Found at i:12630588 original size:20 final size:19
Alignment explanation
Indices: 12630546--12630619 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
12630536 TGTTACACGG
*
12630546 ATGAATTACT-GTTATATGA
1 ATGAATTACTATTTATA-GA
*
12630565 ATGAAATACTATTTATAGA
1 ATGAATTACTATTTATAGA
* *
12630584 GATGAGTTACTA-TTATCGA
1 -ATGAATTACTATTTATAGA
*
12630603 ATGAATTACTGTTTATA
1 ATGAATTACTATTTATA
12630620 TGATTGAGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 9 0.20
19 21 0.48
20 14 0.32
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (19 bp):
ATGAATTACTATTTATAGA
Found at i:12630618 original size:38 final size:39
Alignment explanation
Indices: 12630545--12630619 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
12630535 GTGTTACACG
* *
12630545 GATGAATTACTGTTATATGAATGAAATACTATTTATAGA
1 GATGAATTACTATTATACGAATGAAATACTATTTATAGA
* * *
12630584 GATGAGTTACTATTAT-CGAATGAATTACTGTTTATA
1 GATGAATTACTATTATACGAATGAAATACTATTTATA
12630620 TGATTGAGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 17 0.55
39 14 0.45
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (39 bp):
GATGAATTACTATTATACGAATGAAATACTATTTATAGA
Found at i:12633085 original size:26 final size:25
Alignment explanation
Indices: 12633048--12633121 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 25
12633038 TGAATGTCTG
12633048 TAAAT-AT-TATGAATAAAATAATAA
1 TAAATGATATATG-ATAAAATAATAA
12633072 TAAATGATATATGATAAAAT-A-AA
1 TAAATGATATATGATAAAATAATAA
* *
12633095 TAATTGATA-AT-ATAAAATAATAG
1 TAAATGATATATGATAAAATAATAA
12633118 TAAA
1 TAAA
12633122 ATTAATTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
21 7 0.16
22 3 0.07
23 14 0.33
24 6 0.14
25 9 0.21
26 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (25 bp):
TAAATGATATATGATAAAATAATAA
Found at i:12633104 original size:16 final size:17
Alignment explanation
Indices: 12633083--12633115 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12633073 AAATGATATA
12633083 TGATAAAAT-AAATAAT
1 TGATAAAATAAAATAAT
*
12633099 TGATAATATAAAATAAT
1 TGATAAAATAAAATAAT
12633116 AGTAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TGATAAAATAAAATAAT
Found at i:12635534 original size:12 final size:12
Alignment explanation
Indices: 12635517--12635541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12635507 AGATGTGTGT
12635517 TGAGAATGTGCC
1 TGAGAATGTGCC
12635529 TGAGAATGTGCC
1 TGAGAATGTGCC
12635541 T
1 T
12635542 TAGACTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TGAGAATGTGCC
Found at i:12637730 original size:11 final size:11
Alignment explanation
Indices: 12637714--12637740 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12637704 CAAAATGCTC
12637714 AAATTAGGCTA
1 AAATTAGGCTA
12637725 AAATTAGGCTA
1 AAATTAGGCTA
12637736 AAATT
1 AAATT
12637741 TGTTAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (11 bp):
AAATTAGGCTA
Found at i:12638212 original size:18 final size:18
Alignment explanation
Indices: 12638185--12638227 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12638175 AATTTTCATT
*
12638185 TAAAATATTTAAAAATAA
1 TAAAAAATTTAAAAATAA
* * *
12638203 TAAAAAATTTTAAACTTA
1 TAAAAAATTTAAAAATAA
12638221 TAAAAAA
1 TAAAAAA
12638228 ATAGAATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAAATTTAAAAATAA
Found at i:12638259 original size:17 final size:17
Alignment explanation
Indices: 12638221--12638260 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
12638211 TTTAAACTTA
12638221 TAAAAAAATAGAATTTC
1 TAAAAAAATAGAATTTC
* *
12638238 AAAAAAAATAGAATTTT
1 TAAAAAAATAGAATTTC
12638255 TAAAAA
1 TAAAAA
12638261 TATATGGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAAAAAATAGAATTTC
Found at i:12638372 original size:19 final size:19
Alignment explanation
Indices: 12638350--12638459 Score: 52
Period size: 18 Copynumber: 5.7 Consensus size: 19
12638340 ATAAAAAGGA
12638350 AAAATTATAAAAATATATT
1 AAAATTATAAAAATATATT
* *
12638369 AAAATTTATTTAAAATAATATA
1 AAAA-TTA-TAAAAAT-ATATT
* *
12638391 AAAATGTA-AAAACT-TATA
1 AAAAT-TATAAAAATATATT
** *
12638409 AAAATTGCAAACA-ATATT
1 AAAATTATAAAAATATATT
12638427 AAAA--ATAGAAAAT-TATT
1 AAAATTATA-AAAATATATT
12638444 AAAAATTATATAAAAT
1 -AAAATTATA-AAAAT
12638460 TATGAAAAAG
Statistics
Matches: 68, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
16 1 0.01
17 8 0.12
18 23 0.34
19 4 0.06
20 15 0.22
21 7 0.10
22 10 0.15
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAATATATT
Found at i:12638460 original size:20 final size:19
Alignment explanation
Indices: 12638349--12638468 Score: 79
Period size: 20 Copynumber: 6.3 Consensus size: 19
12638339 TATAAAAAGG
12638349 AAAAATTATAAAAATATATT
1 AAAAATTATAAAAAT-TATT
* * *
12638369 AAAATTTATTTAAAATAATAT
1 AAAAATTA-TAAAAATTAT-T
*
12638390 AAAAATGTA-AAAACTTA-T
1 AAAAAT-TATAAAAATTATT
**
12638408 AAAAATTGCAAACAA-TATT
1 AAAAATTATAAA-AATTATT
*
12638427 AAAAA-TA-GAAAATTATT
1 AAAAATTATAAAAATTATT
*
12638444 AAAAATTATATAAAATTATG
1 AAAAATTATA-AAAATTATT
12638464 AAAAA
1 AAAAA
12638469 GAATCAGCAT
Statistics
Matches: 77, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
16 2 0.03
17 12 0.16
18 15 0.19
19 7 0.09
20 27 0.35
21 12 0.16
22 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAATTATT
Found at i:12638716 original size:22 final size:21
Alignment explanation
Indices: 12638672--12638731 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
12638662 TTATATTTTC
* * *
12638672 ATAATTTTTAAATATTTTTTA
1 ATAATTTTTAAAAATTCTATA
12638693 ATAATTTTTATAAAATTCTATA
1 ATAATTTTTA-AAAATTCTATA
12638715 ATAATTTTTGAAAAATT
1 ATAATTTTT-AAAAATT
12638732 ATAAAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.29
22 23 0.68
23 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATTTTTAAAAATTCTATA
Found at i:12638765 original size:9 final size:9
Alignment explanation
Indices: 12638751--12638838 Score: 61
Period size: 9 Copynumber: 9.4 Consensus size: 9
12638741 TAGGTGTAAT
12638751 TTTTTAAAA
1 TTTTTAAAA
12638760 TTTTTAAAA
1 TTTTTAAAA
* *
12638769 ATTCTAAAA
1 TTTTTAAAA
12638778 -TTTTAATAA
1 TTTTTAA-AA
* *
12638787 TTTTCTATTAT
1 TTTT-TA-AAA
*
12638798 TTTTTAATA
1 TTTTTAAAA
12638807 TTTTTATAAA
1 TTTTTA-AAA
* *
12638817 TTTGTAAAT
1 TTTTTAAAA
*
12638826 TTTTTATAA
1 TTTTTAAAA
12638835 TTTT
1 TTTT
12638839 ATAACTTTCA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
8 5 0.08
9 36 0.60
10 12 0.20
11 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:12638928 original size:19 final size:19
Alignment explanation
Indices: 12638885--12638930 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
12638875 AAGTTCTAAT
*
12638885 TCTTTTATAATTTTAGAAT
1 TCTTTTATAATTTTAGAAA
*
12638904 TCTTTTATAATTTCTATAAA
1 TCTTTTATAATTT-TAGAAA
12638924 T-TTTTAT
1 TCTTTTAT
12638931 GCTTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (19 bp):
TCTTTTATAATTTTAGAAA
Found at i:12639811 original size:37 final size:37
Alignment explanation
Indices: 12639770--12639865 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
12639760 AGAGGGTTGT
* *
12639770 ATCTTAAGGTTTAGGTA-AAAGCCATGAGGGAGTTACA
1 ATCTTAAGGTTTAGGTAGAAA-CCATAAAGGAGTTACA
* * *
12639807 ATCTTAAGGTTTGGGTAGAAACCTTAAAGGAGTTGCA
1 ATCTTAAGGTTTAGGTAGAAACCATAAAGGAGTTACA
**
12639844 ATCTTAAAACTTTAGGTAGAAA
1 ATCTT-AAGGTTTAGGTAGAAA
12639866 TCTTAAAGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 33 0.67
38 16 0.33
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (37 bp):
ATCTTAAGGTTTAGGTAGAAACCATAAAGGAGTTACA
Found at i:12639871 original size:38 final size:37
Alignment explanation
Indices: 12639798--12639873 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
12639788 AAGCCATGAG
** *
12639798 GGAGTTACAATCTTAAGGTTTGGGTAGAAACCTTAAA
1 GGAGTTACAATCTTAAACTTTAGGTAGAAACCTTAAA
* *
12639835 GGAGTTGCAATCTTAAAACTTTAGGTAGAAATCTTAAA
1 GGAGTTACAATCTT-AAACTTTAGGTAGAAACCTTAAA
12639873 G
1 G
12639874 TAGATTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 13 0.39
38 20 0.61
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (37 bp):
GGAGTTACAATCTTAAACTTTAGGTAGAAACCTTAAA
Found at i:12641350 original size:17 final size:17
Alignment explanation
Indices: 12641330--12641364 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12641320 ATTTCGAAAC
12641330 TAAAAGATGAAAATAAT
1 TAAAAGATGAAAATAAT
12641347 TAAAAGATGAAAATAAT
1 TAAAAGATGAAAATAAT
12641364 T
1 T
12641365 CACTCTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (17 bp):
TAAAAGATGAAAATAAT
Found at i:12642322 original size:19 final size:19
Alignment explanation
Indices: 12642275--12642333 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
12642265 AAAATGATAA
12642275 AATCAAGTTAAA-ATAGTTTC
1 AATCAAGTTAAACAT--TTTC
**
12642295 AATTGAGTTAAACATTTTC
1 AATCAAGTTAAACATTTTC
12642314 AATCAAGTTGAAACTATTTT
1 AATCAAGTT-AAAC-ATTTT
12642334 AAAAAAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 11 0.34
20 14 0.44
21 7 0.22
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
AATCAAGTTAAACATTTTC
Found at i:12644596 original size:22 final size:22
Alignment explanation
Indices: 12644568--12644613 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12644558 TTCTTTGATT
12644568 CAATGCTAGAATAGTTTATGCA
1 CAATGCTAGAATAGTTTATGCA
12644590 CAATGCTAGAATAGTTTATGCA
1 CAATGCTAGAATAGTTTATGCA
12644612 CA
1 CA
12644614 TACCTATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (22 bp):
CAATGCTAGAATAGTTTATGCA
Found at i:12655797 original size:94 final size:91
Alignment explanation
Indices: 12655636--12655898 Score: 235
Period size: 94 Copynumber: 2.8 Consensus size: 91
12655626 GTGATTGTGT
** * ** * ** *
12655636 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATTTAAGCCAGTGTAGGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATA-GAAAGCTAGTGTAAAACCTGT
12655701 CTAGAACAT-GCATCAACATTGAGTCG-GGA
65 CTAG-ACATGGCATCAAC-TT--GTCGTGGA
* *
12655730 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGGTAGACAAGCTAATGTAAAACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGA-AAGCTAGTGTAAAACCTGT
* * * *
12655795 CTAGGCATGGCGTCAGCTTGTCGTGTA
65 CTAGACATGGCATCAACTTGTCGTGGA
* * * *
12655822 TC-AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGCTATATGAAAGCTAGTGTAAAACCAT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGCGATA-GAAAGCTAGTGTAAAACC-T
*
12655886 GTCTGGGACATGG
63 GTCT-AGACATGG
12655899 TTTCGGCATC
Statistics
Matches: 139, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
91 26 0.19
92 32 0.23
93 12 0.09
94 69 0.50
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGAAAGCTAGTGTAAAACCTGTC
TAGACATGGCATCAACTTGTCGTGGA
Found at i:12662737 original size:15 final size:15
Alignment explanation
Indices: 12662719--12662762 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
12662709 GAAGCCCAGA
12662719 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
12662734 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
12662749 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
12662763 TTTACAGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:12668262 original size:79 final size:79
Alignment explanation
Indices: 12668170--12668327 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 79
12668160 GGATATTAAA
*
12668170 ATTCCATGATATCCAACATTCATAAAGACATGAAATCCTATGAATCTGGTGAGGAGACATTTGGG
1 ATTCCATGATATCCAACATTCATAAAGACACGAAATCCTATGAATCTGGTGAGGAGACATTTGGG
12668235 TATACTAGGAGAAT
66 TATACTAGGAGAAT
*
12668249 ATTCCATGATATCCAACATTCATAAAGACACGAAATCCTATGAATCTGGTGAGTAGACATTTGGG
1 ATTCCATGATATCCAACATTCATAAAGACACGAAATCCTATGAATCTGGTGAGGAGACATTTGGG
*
12668314 TATACTAGTAGAAT
66 TATACTAGGAGAAT
12668328 TTACACATCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (79 bp):
ATTCCATGATATCCAACATTCATAAAGACACGAAATCCTATGAATCTGGTGAGGAGACATTTGGG
TATACTAGGAGAAT
Found at i:12683357 original size:13 final size:13
Alignment explanation
Indices: 12683339--12683368 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12683329 GGGAGGAGAC
12683339 ACGGCCGTGCGGT
1 ACGGCCGTGCGGT
*
12683352 ACGGCCTTGCGGT
1 ACGGCCGTGCGGT
12683365 ACGG
1 ACGG
12683369 GCGTATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.30, G:0.43, T:0.17
Consensus pattern (13 bp):
ACGGCCGTGCGGT
Found at i:12690460 original size:38 final size:38
Alignment explanation
Indices: 12690409--12690482 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
12690399 AAAGAATAAG
*
12690409 TATCCGTTACCGCGTATTGATGATCTGTTCGATCAATA
1 TATCCATTACCGCGTATTGATGATCTGTTCGATCAATA
* *
12690447 TATCCATTACCGCGTATTGATGATTTGTTTGATCAA
1 TATCCATTACCGCGTATTGATGATCTGTTCGATCAA
12690483 CTAAATGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (38 bp):
TATCCATTACCGCGTATTGATGATCTGTTCGATCAATA
Found at i:12694639 original size:28 final size:28
Alignment explanation
Indices: 12694574--12694724 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
12694564 GAGATTGGCG
* * * *
12694574 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
12694603 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
12694631 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
12694659 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
12694687 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
12694714 CTGAGTGTGCG
1 CTAAGTGTGCG
12694725 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:12700020 original size:94 final size:94
Alignment explanation
Indices: 12699859--12700031 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 94
12699849 ATTGTATGCT
* ** *
12699859 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACATTTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACAAGAGCCAGTGTAAGACATGTCTGGG
*
12699924 ACATGCATCGGCCTTGAGATATTTAAGCC
66 ACATGCATCAGCCTTGAGATATTTAAGCC
* * *
12699953 AGTGTAAGACATGTTTGGGACATGCATCAG-CATTAAGACAAGAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAAGACAAGAGCCAGTGTAAGACATGTCTGG
12700017 GACATGCATCAGCCT
65 GACATGCATCAGCCT
12700032 CGCGATAGAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
93 2 0.03
94 68 0.97
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACAAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCAGCCTTGAGATATTTAAGCC
Found at i:12700027 original size:46 final size:46
Alignment explanation
Indices: 12699859--12700029 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
12699849 ATTGTATGCT
* * *
12699859 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CAAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CATTAAGATAAGAGCC
* * * *
12699905 AGTGTAAGACATTTCTGGGACATGCATCGGCCTTGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGATA---AGAGCC
* * *
12699953 AGTGTAAGACATGTTTGGGACATGCATCAGCATTAAGACAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGATAAGAGCC
12699999 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
12700030 CTCGCGATAG
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.02
46 66 0.62
48 38 0.36
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGATAAGAGCC
Found at i:12700053 original size:94 final size:94
Alignment explanation
Indices: 12699856--12700062 Score: 254
Period size: 94 Copynumber: 2.2 Consensus size: 94
12699846 GTGATTGTAT
* ** *
12699856 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACATTTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACAAGAGCCAGTGTAAGACATGTCT
* * ***
12699921 GGGACATGCATCGGCCTTGAGATATTTAA
66 GGGACATGCATCAGCCTCGAGATAGACAA
* * * *
12699950 GCCAGTGTAAGACATGTTTGGGACATGCATCAG-CATTAAGACAAGAGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAAGACAAGAGCCAGTGTAAGACATGTC
*
12700014 TGGGACATGCATCAGCCTCGCGATAGACAA
65 TGGGACATGCATCAGCCTCGAGATAGACAA
* *
12700044 GCTAATGTAAGACCTGTCT
1 GCTAGTGTAAGACATGTCT
12700063 AGACATGGCG
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
93 2 0.02
94 92 0.98
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACAAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCTCGAGATAGACAA
Found at i:12700062 original size:48 final size:48
Alignment explanation
Indices: 12699856--12700062 Score: 197
Period size: 46 Copynumber: 4.4 Consensus size: 48
12699846 GTGATTGTAT
* * * *
12699856 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAA
* * * * ***
12699902 GCCAGTGTAAGACATTTCTGGGACATGCATCGGCCTTGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAA
* * * ** * *
12699950 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCATTAAGACA-A-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAA
*
12699996 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAA
* *
12700044 GCTAATGTAAGACCTGTCT
1 GCTAGTGTAAGACATGTCT
12700063 AGACATGGCG
Statistics
Matches: 131, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
46 74 0.56
47 1 0.01
48 56 0.43
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAA
Found at i:12700213 original size:49 final size:49
Alignment explanation
Indices: 12700089--12700198 Score: 168
Period size: 49 Copynumber: 2.2 Consensus size: 49
12700079 TGTCGTGTGT
*
12700089 CAGTGTAAGACCTGTCTAGGACATGGCATCAACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCAACACCGATAGATGAAAGC
* * *
12700138 CAGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCAACAC-CGATAGATGAAAGC
12700187 CAGTGTAAGACC
1 CAGTGTAAGACC
12700199 ATATCTGGCC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
48 1 0.02
49 55 0.98
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCAACACCGATAGATGAAAGC
Found at i:12702391 original size:34 final size:34
Alignment explanation
Indices: 12702344--12702461 Score: 148
Period size: 34 Copynumber: 3.5 Consensus size: 34
12702334 ACATGGTTAA
* * *
12702344 CCATCTAGCACACCAGATGCTCTTATGAGCCAAT
1 CCATCCAGCACACCAAATGCTCTTATGAGCTAAT
* * * *
12702378 CCATCTAGGACACCAAATGCTCATATGAGCTAAA
1 CCATCCAGCACACCAAATGCTCTTATGAGCTAAT
*
12702412 CTATCCAGCACACCAAATGCT-TATATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCT-TATGAGCTAAT
12702446 CCATCCAGCACACCAA
1 CCATCCAGCACACCAA
12702462 GTAACACTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 72 1.00
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.21
Consensus pattern (34 bp):
CCATCCAGCACACCAAATGCTCTTATGAGCTAAT
Found at i:12709803 original size:13 final size:13
Alignment explanation
Indices: 12709785--12709810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12709775 GGTTGTTTAT
12709785 TAAACTAATTAAC
1 TAAACTAATTAAC
12709798 TAAACTAATTAAC
1 TAAACTAATTAAC
12709811 CAATTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:12716784 original size:65 final size:65
Alignment explanation
Indices: 12716680--12716836 Score: 305
Period size: 65 Copynumber: 2.4 Consensus size: 65
12716670 ATGTTTTTGT
12716680 TAGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATTTCTTCAATGAATTCACTGA
1 TAGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATTTCTTCAATGAATTCACTGA
*
12716745 TAGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATTTCTTTAATGAATTCACTGA
1 TAGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATTTCTTCAATGAATTCACTGA
12716810 TAGCTTAGTCCTCATGACTTGCCACTG
1 TAGCTTAGTCCTCATGACTTGCCACTG
12716837 CATCAACCAT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 91 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (65 bp):
TAGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATTTCTTCAATGAATTCACTGA
Found at i:12717956 original size:13 final size:13
Alignment explanation
Indices: 12717938--12717966 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12717928 GGTTGTTTCT
12717938 TAAACTAATTAAC
1 TAAACTAATTAAC
12717951 TAAACTAATTAAC
1 TAAACTAATTAAC
12717964 TAA
1 TAA
12717967 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:12719720 original size:13 final size:13
Alignment explanation
Indices: 12719704--12719736 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12719694 TTTAATTAAA
*
12719704 TTAGTTAATTAGT
1 TTAGATAATTAGT
12719717 TTAGATAATTAGT
1 TTAGATAATTAGT
12719730 TTA-ATAA
1 TTAGATAA
12719737 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:12723304 original size:26 final size:26
Alignment explanation
Indices: 12723131--12723320 Score: 201
Period size: 26 Copynumber: 7.2 Consensus size: 26
12723121 GGGACGAAAT
* *
12723131 AATGACCGAAATACCTCCATAGGGTAA
1 AATGACTGAAATACC-CCATAAGGTAA
12723158 AATGA-TCGAAATACCCCAT-AGGATAA
1 AATGACT-GAAATACCCCATAAGG-TAA
*
12723184 AATGACCGAAATACCCCAT-AGGTTAA
1 AATGACTGAAATACCCCATAAGG-TAA
* *
12723210 AATGACTGAAAAACCCCATATGGTAA
1 AATGACTGAAATACCCCATAAGGTAA
*
12723236 AATGACTGAAATACCCCCATAGGGTAA
1 AATGACTGAAATA-CCCCATAAGGTAA
12723263 AATGACT-ATAATACCCCTATAAGGTAA
1 AATGACTGA-AATACCCC-ATAAGGTAA
* *
12723290 AATGACTGTAA-ACCCCTGTAAGGTAA
1 AATGACTGAAATACCCC-ATAAGGTAA
12723316 AATGA
1 AATGA
12723321 TTATTTTTCC
Statistics
Matches: 143, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.01
26 86 0.60
27 55 0.38
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (26 bp):
AATGACTGAAATACCCCATAAGGTAA
Found at i:12723373 original size:25 final size:25
Alignment explanation
Indices: 12723335--12723435 Score: 114
Period size: 25 Copynumber: 4.0 Consensus size: 25
12723325 TTTTCCCTTA
*
12723335 TGTGTTAAATTGACAGTTTTGCCCT
1 TGTGTTAAAATGACAGTTTTGCCCT
*
12723360 TGTGTTAAAATGAC-GATTTTTCCCTT
1 TGTGTTAAAATGACAG-TTTTGCCC-T
* *
12723386 ATATGATAAAATGACAGTTTTGCCCT
1 -TGTGTTAAAATGACAGTTTTGCCCT
**
12723412 TGTGTTAAAATGATTGTTTTGCCC
1 TGTGTTAAAATGACAGTTTTGCCC
12723436 CTATGTGACG
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
24 1 0.02
25 40 0.63
26 2 0.03
27 19 0.30
28 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (25 bp):
TGTGTTAAAATGACAGTTTTGCCCT
Found at i:12723401 original size:52 final size:52
Alignment explanation
Indices: 12723313--12723424 Score: 179
Period size: 52 Copynumber: 2.2 Consensus size: 52
12723303 CCCTGTAAGG
** * * *
12723313 TAAAATGATTATTTTTCCCTTATGTGTTAAATTGACAGTTTTGCCCTTGTGT
1 TAAAATGACGATTTTTCCCTTATATGATAAAATGACAGTTTTGCCCTTGTGT
12723365 TAAAATGACGATTTTTCCCTTATATGATAAAATGACAGTTTTGCCCTTGTGT
1 TAAAATGACGATTTTTCCCTTATATGATAAAATGACAGTTTTGCCCTTGTGT
12723417 TAAAATGA
1 TAAAATGA
12723425 TTGTTTTGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (52 bp):
TAAAATGACGATTTTTCCCTTATATGATAAAATGACAGTTTTGCCCTTGTGT
Found at i:12724980 original size:53 final size:53
Alignment explanation
Indices: 12724900--12725005 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
12724890 TTTCCAATCT
12724900 CTTAAGGCACCACATACGCATTTGGGTAGTTTTTATACCTAGTATTGTTCTAA
1 CTTAAGGCACCACATACGCATTTGGGTAGTTTTTATACCTAGTATTGTTCTAA
12724953 CTTAAGGCACCACATACGCATTTGGGTAGTTTTTATACCTAGTATTGTTCTAA
1 CTTAAGGCACCACATACGCATTTGGGTAGTTTTTATACCTAGTATTGTTCTAA
12725006 TATTGTTCTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (53 bp):
CTTAAGGCACCACATACGCATTTGGGTAGTTTTTATACCTAGTATTGTTCTAA
Found at i:12726007 original size:26 final size:25
Alignment explanation
Indices: 12725971--12726054 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 25
12725961 ATGAATTTTC
*
12725971 TCAAAACTTTATCGGGGCTAAAATCG
1 TCAAAATTTTATCGGGG-TAAAATCG
*
12725997 TCAAAATTTTATTGGGGGTAAAATCG
1 TCAAAATTTTA-TCGGGGTAAAATCG
* *
12726023 TCAAAATTTTACCGAGGGTAAAATTG
1 TCAAAATTTTATCG-GGGTAAAATCG
12726049 TCAAAA
1 TCAAAA
12726055 AATTTATTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 1 0.02
26 45 0.88
27 5 0.10
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (25 bp):
TCAAAATTTTATCGGGGTAAAATCG
Found at i:12726070 original size:26 final size:25
Alignment explanation
Indices: 12725971--12726070 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 25
12725961 ATGAATTTTC
* *
12725971 TCAAAACTTTATCGGGGCTAAAATCG
1 TCAAAATTTTATTGGGG-TAAAATCG
12725997 TCAAAATTTTATTGGGGGTAAAATCG
1 TCAAAATTTTATT-GGGGTAAAATCG
** *
12726023 TCAAAATTTTACCGAGGGTAAAATTG
1 TCAAAATTTTATTG-GGGTAAAATCG
* *
12726049 TCAAAAAATTTATTGGGTTAAA
1 TC-AAAATTTTATTGGGGTAAA
12726071 TTTGGGATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
25 1 0.02
26 48 0.77
27 13 0.21
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTATTGGGGTAAAATCG
Found at i:12736863 original size:28 final size:28
Alignment explanation
Indices: 12736831--12736886 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
12736821 ATTTAAGGAT
12736831 TAAAT-TGAGAAA-TGTGAAAATTGTATGG
1 TAAATATGAGAAATTGTG-AAA-TGTATGG
*
12736859 TAAATATGTGAAATTGTGAAATGTATGG
1 TAAATATGAGAAATTGTGAAATGTATGG
12736887 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 12 0.48
29 9 0.36
30 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (28 bp):
TAAATATGAGAAATTGTGAAATGTATGG
Found at i:12743485 original size:13 final size:13
Alignment explanation
Indices: 12743463--12743495 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12743453 AAGGGTTTGT
12743463 TTAT-TAAACTAA
1 TTATCTAAACTAA
12743475 TTATCTAAACTAA
1 TTATCTAAACTAA
*
12743488 TTAACTAA
1 TTATCTAA
12743496 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:12746416 original size:6 final size:6
Alignment explanation
Indices: 12746405--12746488 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
12746395 AAGAAAATTG
** * * *
12746405 AAAAAT AAAAAT AAAAAT CTAAAG AAAAAT AAGAAT AAGAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
12746452 -AAAAT AAAAAT AAGAAT --AAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
12746489 TAGGAGGATT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
4 3 0.05
5 9 0.14
6 53 0.82
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:12746417 original size:22 final size:23
Alignment explanation
Indices: 12746390--12746490 Score: 88
Period size: 22 Copynumber: 4.5 Consensus size: 23
12746380 TATGTCTTTC
12746390 AAAATAAGAA-AATTGAAAAATA
1 AAAATAAGAATAATTGAAAAATA
* *
12746412 AAAATAAAAATCTAA-AGAAAAATA
1 AAAATAAGAA--TAATTGAAAAATA
* *
12746436 AGAATAAGAATAA--AATAAAATA
1 AAAATAAGAATAATTGA-AAAATA
*
12746458 AAAATAAGAATAAAT-AAAAATA
1 AAAATAAGAATAATTGAAAAATA
12746480 AAAATAA-AATA
1 AAAATAAGAATA
12746491 GGAGGATTCG
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.07
22 43 0.64
23 1 0.01
24 16 0.24
25 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (23 bp):
AAAATAAGAATAATTGAAAAATA
Found at i:12746463 original size:16 final size:16
Alignment explanation
Indices: 12746430--12746490 Score: 79
Period size: 16 Copynumber: 3.7 Consensus size: 16
12746420 AATCTAAAGA
*
12746430 AAAATAAGAATAAGAAT
1 AAAATAA-AATAAAAAT
12746447 AAAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
12746463 AAGAAT-AAATAAAAAT
1 AA-AATAAAATAAAAAT
12746479 AAAAATAAAATA
1 -AAAATAAAATA
12746491 GGAGGATTCG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
16 23 0.57
17 17 0.43
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:12746468 original size:28 final size:28
Alignment explanation
Indices: 12746413--12746488 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
12746403 TGAAAAATAA
** *
12746413 AAATAAAAATCTAAAGAAAAATAAGAAT
1 AAATAAAAATAAAAATAAAAATAAGAAT
12746441 AAGA-ATAAAAT-AAAATAAAAATAAGAAT
1 AA-ATA-AAAATAAAAATAAAAATAAGAAT
12746469 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
12746489 TAGGAGGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 6 0.14
28 30 0.71
29 6 0.14
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (28 bp):
AAATAAAAATAAAAATAAAAATAAGAAT
Found at i:12748902 original size:21 final size:21
Alignment explanation
Indices: 12748878--12748919 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12748868 GGTTTGAGGA
12748878 GTTCATACTCCTCATTCCTGC
1 GTTCATACTCCTCATTCCTGC
*
12748899 GTTCATACTCCTCGTTCCTGC
1 GTTCATACTCCTCATTCCTGC
12748920 TGTCAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (21 bp):
GTTCATACTCCTCATTCCTGC
Found at i:12751410 original size:9 final size:9
Alignment explanation
Indices: 12751396--12751423 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12751386 AAATCAGAAT
12751396 ATAAAAATA
1 ATAAAAATA
12751405 ATAAAAATA
1 ATAAAAATA
12751414 ATAAAAATA
1 ATAAAAATA
12751423 A
1 A
12751424 CTAACTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAAAATA
Found at i:12751942 original size:27 final size:26
Alignment explanation
Indices: 12751895--12751945 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
12751885 CGAGGCTGCT
*
12751895 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
12751921 AGATATATGTGGCGACGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
12751946 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:12752301 original size:28 final size:28
Alignment explanation
Indices: 12752270--12752326 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
12752260 AAATGCACAC
12752270 TCTGCACTCTAATCATCCAAATACACCA
1 TCTGCACTCTAATCATCCAAATACACCA
*
12752298 TCTGCACTCTAATCATCCAAATGCACCA
1 TCTGCACTCTAATCATCCAAATACACCA
12752326 T
1 T
12752327 ATTCATTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.26
Consensus pattern (28 bp):
TCTGCACTCTAATCATCCAAATACACCA
Found at i:12754021 original size:5 final size:5
Alignment explanation
Indices: 12754011--12754035 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12754001 ATAAATAGTA
12754011 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
12754036 GCAAGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:12754340 original size:13 final size:13
Alignment explanation
Indices: 12754318--12754350 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12754308 AAGGGTTTGT
12754318 TTAT-TAAACTAA
1 TTATCTAAACTAA
12754330 TTATCTAAACTAA
1 TTATCTAAACTAA
*
12754343 TTAACTAA
1 TTATCTAA
12754351 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:12760012 original size:27 final size:26
Alignment explanation
Indices: 12759977--12760088 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
12759967 AGCATGGTTG
* *
12759977 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
12760003 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
12760031 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
12760058 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
12760085 CCAG
1 CCAG
12760089 GACTCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:12760040 original size:54 final size:54
Alignment explanation
Indices: 12759977--12760088 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
12759967 AGCATGGTTG
*
12759977 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
12760031 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
12760085 CCAG
1 CCAG
12760089 GACTCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:12765280 original size:56 final size:57
Alignment explanation
Indices: 12765152--12765305 Score: 229
Period size: 56 Copynumber: 2.7 Consensus size: 57
12765142 ATGTATATGA
* * * * * *
12765152 GGCATTGATATGTGATTCCGATATATGAGTGTGAGTAAGACCACATTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACAACAGTTTTATATGTT
12765209 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACAAC-GTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACAACAGTTTTATATGTT
* *
12765265 GGCATCGATATGTGACTCTGATATATTTGTGCGAGTAAGAC
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGAC
12765306 CTTGTCTGGG
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 50 0.56
57 39 0.44
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (57 bp):
GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACAACAGTTTTATATGTT
Found at i:12769387 original size:26 final size:26
Alignment explanation
Indices: 12769357--12769438 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
12769347 TGAAATTCCC
12769357 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
12769383 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12769409 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12769435 ATCA
1 ATCA
12769439 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12774376 original size:41 final size:41
Alignment explanation
Indices: 12774116--12774376 Score: 278
Period size: 41 Copynumber: 6.4 Consensus size: 41
12774106 CGTTCTAAAA
* ** * *
12774116 AAAACGCCGGTAAAAA-CAGAGCAACAGCGGC-ATTTTAGTCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-G-CT
* * *
12774157 AAAATGCCGCT-AAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGCT
* * * *
12774197 AAAAGGACGCTAAAAACCAGAGCATTAGCGGTGC-TTTCCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGC-T
* * * *
12774238 AAAACGCCGCAAAAAACCAGAGCATTAGCGACGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGCT
* * *
12774279 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGGTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGCT
* *
12774320 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTTTCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGCT
12774361 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
12774377 TCCCCTAACC
Statistics
Matches: 183, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
40 15 0.08
41 163 0.89
42 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGCT
Found at i:12774542 original size:14 final size:14
Alignment explanation
Indices: 12774520--12774559 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
12774510 TTAATTATCA
* *
12774520 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
12774534 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
12774548 ATATGGTTTAAG
1 TTATGGTTTAAG
12774560 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:12775455 original size:10 final size:11
Alignment explanation
Indices: 12775436--12775494 Score: 57
Period size: 13 Copynumber: 5.0 Consensus size: 11
12775426 AAGATAAATG
12775436 TATATAATATAAA
1 TATAT-ATA-AAA
12775449 TATATATAAAA
1 TATATATAAAA
*
12775460 TATTATTTTAAAA
1 TA-TA-TATAAAA
12775473 TATATAT-AAA
1 TATATATAAAA
12775483 TATATATGAAAA
1 TATATAT-AAAA
12775495 GTGGTTTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 10 0.25
11 7 0.17
12 10 0.25
13 13 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATATATAAAA
Found at i:12777074 original size:18 final size:17
Alignment explanation
Indices: 12777053--12777095 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
12777043 ATCTTAATGA
12777053 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
12777071 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
12777088 TCGATGAT
1 T-GATGAT
12777096 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:12778173 original size:23 final size:23
Alignment explanation
Indices: 12778147--12778190 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
12778137 CTTGGTCCTA
12778147 TTTCTCCTGTTAATGGTATACTG
1 TTTCTCCTGTTAATGGTATACTG
*
12778170 TTTCTCCTGTTAATGTTATAC
1 TTTCTCCTGTTAATGGTATAC
12778191 CAAATTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (23 bp):
TTTCTCCTGTTAATGGTATACTG
Found at i:12781447 original size:9 final size:9
Alignment explanation
Indices: 12781424--12781476 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
12781414 ATTGATCATT
*
12781424 ACTTAAATA
1 ACTTACATA
*
12781433 AATTACATA
1 ACTTACATA
12781442 ACTTACATA
1 ACTTACATA
*
12781451 ACGTACATAACA
1 ACTTACAT---A
12781463 ACTTACATA
1 ACTTACATA
12781472 ACTTA
1 ACTTA
12781477 ACTAATACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
9 28 0.78
12 8 0.22
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (9 bp):
ACTTACATA
Found at i:12787050 original size:21 final size:21
Alignment explanation
Indices: 12787024--12787071 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
12787014 TCAACTTAGA
*
12787024 GCGGAGGCAGCATCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
12787045 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
12787066 GCGGAG
1 GCGGAG
12787072 CAGAACAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.56, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:12787433 original size:43 final size:43
Alignment explanation
Indices: 12787370--12787572 Score: 241
Period size: 43 Copynumber: 4.7 Consensus size: 43
12787360 CTGGGCAAAT
12787370 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * *
12787413 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGT-CTTGGTC-A
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTCTA
* * *
12787455 TTAGCGGCCTTTTTTTATAAAAGCGCCACTAAAAGTACAAGTCTA
1 -TAGCGG-CGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
* * * * * *
12787500 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGATCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
*
12787543 TAGCGGCG-TTTTTATAAGAGCGCCGCTAAA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAA
12787573 GGTCAACGCC
Statistics
Matches: 135, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
42 22 0.16
43 78 0.58
44 33 0.24
45 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:12787513 original size:87 final size:85
Alignment explanation
Indices: 12787368--12787572 Score: 320
Period size: 87 Copynumber: 2.4 Consensus size: 85
12787358 AACTGGGCAA
*
12787368 ATTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTAAAAAA
1 ATTAGCGGC-TTTTTTATAAAAGCGCCGCTAAAAGTACAAGTCTATAGCGGCGTTTTTTAAAAAA
* *
12787433 GCGCCGCTAAAGGTCTTGGTC
65 GCGCCGCTAAAGGTCCTGATC
*
12787454 ATTAGCGGCCTTTTTTTATAAAAGCGCCACTAAAAGTACAAGTCTATAGCGGCGTTTTTTAAAAA
1 ATTAGCGG-C-TTTTTTATAAAAGCGCCGCTAAAAGTACAAGTCTATAGCGGCGTTTTTTAAAAA
12787519 AGCGCCGCTAAAGGTCCTGATC
64 AGCGCCGCTAAAGGTCCTGATC
* * *
12787541 TTTAGCGGCGTTTTTATAAGAGCGCCGCTAAA
1 ATTAGCGGCTTTTTTATAAAAGCGCCGCTAAA
12787573 GGTCAACGCC
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
85 20 0.18
86 9 0.08
87 80 0.73
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (85 bp):
ATTAGCGGCTTTTTTATAAAAGCGCCGCTAAAAGTACAAGTCTATAGCGGCGTTTTTTAAAAAAG
CGCCGCTAAAGGTCCTGATC
Found at i:12787662 original size:33 final size:33
Alignment explanation
Indices: 12787615--12787694 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
12787605 ATAGCGACGT
*
12787615 TTTTTGCGGCGCTTGGGAAAGCGCCGCTAATAC
1 TTTTAGCGGCGCTTGGGAAAGCGCCGCTAATAC
12787648 TTTTAGCGGCGCTTGGGAAAGCGCCGCTAATAC
1 TTTTAGCGGCGCTTGGGAAAGCGCCGCTAATAC
12787681 TTTTAGCGGCGCTT
1 TTTTAGCGGCGCTT
12787695 AAAACGCCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (33 bp):
TTTTAGCGGCGCTTGGGAAAGCGCCGCTAATAC
Found at i:12787705 original size:30 final size:31
Alignment explanation
Indices: 12787615--12787707 Score: 116
Period size: 33 Copynumber: 2.9 Consensus size: 31
12787605 ATAGCGACGT
* *
12787615 TTTTTGCGGCGCTTGGGAAAGCGCCGCTAATAC
1 TTTTAGCGGCGCTT--GAAAACGCCGCTAATAC
*
12787648 TTTTAGCGGCGCTTGGGAAAGCGCCGCTAATAC
1 TTTTAGCGGCGCTT--GAAAACGCCGCTAATAC
12787681 TTTTAGCGGCGCTT-AAAACGCCGCTAA
1 TTTTAGCGGCGCTTGAAAACGCCGCTAA
12787708 AGGCAAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
30 12 0.21
33 46 0.79
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.26
Consensus pattern (31 bp):
TTTTAGCGGCGCTTGAAAACGCCGCTAATAC
Found at i:12809471 original size:8 final size:8
Alignment explanation
Indices: 12809458--12809484 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12809448 GTTAAAATAT
12809458 TTATTTTA
1 TTATTTTA
12809466 TTATTTTA
1 TTATTTTA
12809474 TTATTTTA
1 TTATTTTA
12809482 TTA
1 TTA
12809485 AAGTTTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:12810732 original size:22 final size:23
Alignment explanation
Indices: 12810642--12810750 Score: 84
Period size: 23 Copynumber: 4.7 Consensus size: 23
12810632 CCAATATATT
* *
12810642 AGCTCG-TAAGAGCTTACTGTTATC
1 AGCTCGAT-AGAGCTTACCGAT-TC
*
12810666 AGCTC-ATTAGAGCTTACCGTTTC
1 AGCTCGA-TAGAGCTTACCGATTC
*
12810689 AGCTCG-TATGAGCTT-CCTATTC
1 AGCTCGATA-GAGCTTACCGATTC
*
12810711 AACTCGATAGAGCTTACC-ATTC
1 AGCTCGATAGAGCTTACCGATTC
*
12810733 TAGCTCAATAGAGCTTAC
1 -AGCTCGATAGAGCTTAC
12810751 TGTTCATCAG
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
22 22 0.31
23 32 0.44
24 17 0.24
25 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (23 bp):
AGCTCGATAGAGCTTACCGATTC
Found at i:12818072 original size:23 final size:25
Alignment explanation
Indices: 12818040--12818089 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
12818030 ATTCTTATTT
12818040 AATTAAG-AAATATA-TACTTTAAA
1 AATTAAGAAAATATATTACTTTAAA
* *
12818063 AATTATGAAAATATATTATTTTAAA
1 AATTAAGAAAATATATTACTTTAAA
12818088 AA
1 AA
12818090 ATAAATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 7 0.30
25 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (25 bp):
AATTAAGAAAATATATTACTTTAAA
Found at i:12819109 original size:10 final size:10
Alignment explanation
Indices: 12819051--12819141 Score: 55
Period size: 10 Copynumber: 9.0 Consensus size: 10
12819041 ATATTTTTTG
12819051 TAATTTTTAA
1 TAATTTTTAA
12819061 -AATTTATTAA
1 TAATTT-TTAA
* *
12819071 TCATTATTT-G
1 TAATT-TTTAA
12819081 TAATTTTT-A
1 TAATTTTTAA
* *
12819090 TAACTCTTAA
1 TAATTTTTAA
12819100 TAATTTTTAAA
1 TAATTTTT-AA
12819111 TAATTTTCT-A
1 TAATTTT-TAA
*
12819121 TAATTATGTAA
1 TAATT-TTTAA
*
12819132 TAATTGTTAA
1 TAATTTTTAA
12819142 AGAAACTACT
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
9 14 0.23
10 25 0.40
11 21 0.34
12 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:12819136 original size:32 final size:30
Alignment explanation
Indices: 12819081--12819142 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
12819071 TCATTATTTG
* *
12819081 TAATTTTTATAACTCTTAATAATTTTTAAA
1 TAATTTTTATAACTATTAATAATTGTTAAA
*
12819111 TAATTTTCTATAATTATGTAATAATTGTTAAA
1 TAATTTT-TATAACTAT-TAATAATTGTTAAA
12819143 GAAACTACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 7 0.26
31 7 0.26
32 13 0.48
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (30 bp):
TAATTTTTATAACTATTAATAATTGTTAAA
Found at i:12820610 original size:29 final size:28
Alignment explanation
Indices: 12820579--12820634 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
12820569 TTAGTATTTT
*
12820579 AAAT-AATATATTTTTTATTATAACTTTATA
1 AAATAAATA-ATTATTT-TTATAA-TTTATA
12820609 AAATAAATAATTATTTTTATAATTTA
1 AAATAAATAATTATTTTTATAATTTA
12820635 ATTTTTTACG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 6 0.25
30 10 0.42
31 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
AAATAAATAATTATTTTTATAATTTATA
Found at i:12824929 original size:14 final size:15
Alignment explanation
Indices: 12824836--12824945 Score: 89
Period size: 15 Copynumber: 7.4 Consensus size: 15
12824826 TTAATATTCA
12824836 AACCCTATATGTGCG
1 AACCCTATATGTGCG
**
12824851 AACCCTATATGTATG
1 AACCCTATATGTGCG
* *
12824866 AACCATGTATGTGCG
1 AACCCTATATGTGCG
* *
12824881 AACCCTATAAGTGTG
1 AACCCTATATGTGCG
* * * *
12824896 -ACCTTTACATATGAG
1 AACC-CTATATGTGCG
12824911 AACCC-ATATGTGCG
1 AACCCTATATGTGCG
* *
12824925 AACCCTGTATGTGTG
1 AACCCTATATGTGCG
12824940 AACCCT
1 AACCCT
12824946 TCGTGTGAAC
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
14 14 0.20
15 54 0.76
16 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (15 bp):
AACCCTATATGTGCG
Found at i:12829321 original size:21 final size:20
Alignment explanation
Indices: 12829284--12829323 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12829274 GCCTAGAATG
*
12829284 TGAATTGAATTGAATTAAAC
1 TGAATTGAAATGAATTAAAC
*
12829304 TGAATATGAAATGGATTAAA
1 TGAAT-TGAAATGAATTAAA
12829324 TTGACGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (20 bp):
TGAATTGAAATGAATTAAAC
Found at i:12829660 original size:24 final size:25
Alignment explanation
Indices: 12829633--12829691 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
12829623 TAACTTGAAA
*
12829633 GAGCATCCTGTTATAAGCCCTCT-C
1 GAGCATCCTATTATAAGCCCTCTGC
* * * *
12829657 GAGCTTCCTATTATATGGCTTCTGC
1 GAGCATCCTATTATAAGCCCTCTGC
12829682 GAGCATCCTA
1 GAGCATCCTA
12829692 ATCAGTAGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (25 bp):
GAGCATCCTATTATAAGCCCTCTGC
Found at i:12842154 original size:19 final size:19
Alignment explanation
Indices: 12842119--12842179 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
12842109 GTGGATAGGC
*
12842119 CGTGTGG-TCACACACGCT
1 CGTGTGGCTCAAACACGCT
* *
12842137 CGTTTGGTTCAAACACGCT
1 CGTGTGGCTCAAACACGCT
* *
12842156 CGTGTGGCTCAGACATGCT
1 CGTGTGGCTCAAACACGCT
12842175 CGTGT
1 CGTGT
12842180 CCTCAGCTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
18 6 0.17
19 30 0.83
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (19 bp):
CGTGTGGCTCAAACACGCT
Found at i:12851541 original size:13 final size:13
Alignment explanation
Indices: 12851523--12851553 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12851513 AACATTTGAC
12851523 TTGTTCTTAATTA
1 TTGTTCTTAATTA
*
12851536 TTGTTCTTAATTC
1 TTGTTCTTAATTA
12851549 TTGTT
1 TTGTT
12851554 TTGATATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.65
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:12852639 original size:47 final size:47
Alignment explanation
Indices: 12852535--12853180 Score: 925
Period size: 47 Copynumber: 13.6 Consensus size: 47
12852525 AAGTACCAAA
* * * * * *
12852535 GCCATGTCCCAGACATGGTCTTACA-TGGATCCACTTATCATCACCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGCA--CACATATCAACGCTGAT
12852583 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
* * *
12852630 GCCATGTCCCAAACATGGTCTTACACTGGCACACAAATCAATGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACT-GCACACATATCAACGCTGAT
* * * * * *
12852678 GCAATGTCCCACACATGGTCTTACACTACACACATGTCAACACCGATT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGA-T
* * * *
12852726 GCCATGTCCCAGACATGGTCTTACATTGGCACACATATCAACACCGAT
1 GCCATGTCCCAAACATGGTCTTACACT-GCACACATATCAACGCTGAT
** *
12852774 GCCATGTCTTAGACATGGTCTTACACTGGCACACATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACT-GCACACATATCAACGCTGAT
12852822 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
12852869 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
12852916 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
12852963 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
12853010 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
* * *
12853057 GCCATGTCCCAAACATGGTCTTACACTGGCACACAAATCAATGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACT-GCACACATATCAACGCTGAT
* * * * * *
12853105 GCAATGTCCCACACATGGTCTTACACTACACACATGTCAACACCGATT
1 GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGA-T
*
12853153 GCCATGTCCCAGACATGGTCTTACACTG
1 GCCATGTCCCAAACATGGTCTTACACTG
12853181 GCTTTCATCT
Statistics
Matches: 550, Mismatches: 42, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
47 303 0.55
48 227 0.41
49 20 0.04
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.24
Consensus pattern (47 bp):
GCCATGTCCCAAACATGGTCTTACACTGCACACATATCAACGCTGAT
Found at i:12859191 original size:48 final size:45
Alignment explanation
Indices: 12859069--12859192 Score: 110
Period size: 48 Copynumber: 2.7 Consensus size: 45
12859059 GTACCAAAGT
*
12859069 CATGTCCCAGACATGGTCTTACATGGATC-C--ACATGTCGACGC
1 CATGTCCCAGACATGGTCTTACACGGATCTCATACATGTCGACGC
* * * * * * *
12859111 CATATCCCAGATATGTTCTTATACGAAGTCTCATATCAGTTTCGATGC
1 CATGTCCCAGACATGGTCTTACACGGA-TCTCATA-CA-TGTCGACGC
*
12859159 CATGTCCCAGACATGGTCTTACAGGGGATCTCAT
1 CATGTCCCAGACATGGTCTTACA-CGGATCTCAT
12859193 TAACCATGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
42 21 0.34
43 2 0.03
44 1 0.02
46 1 0.02
47 2 0.03
48 32 0.52
49 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACGGATCTCATACATGTCGACGC
Found at i:12859334 original size:48 final size:48
Alignment explanation
Indices: 12859263--12859484 Score: 268
Period size: 48 Copynumber: 4.7 Consensus size: 48
12859253 TGAATTGCTG
* * * * * *
12859263 ATGCCATGTCCCAGATATGGTCTTACACTAGTACACATATCAACGCAA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACACCA
* *
12859311 ATGCCATGTCTTAGACATGGTCTTACACT-GCACACATATCAACACCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACACCA
** *
12859358 ATG-CATGTCCTAGACATGGTCTTACACTGGCACACATATCAATGCTA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACACCA
* * * * *
12859405 ATGCCATGTCCCAAACATCGTCTTATACTGGCACACATATCAACACCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACACCA
* *
12859453 ACGCCATGTCCTAGACATGGTATTACACTGGC
1 ATGCCATGTCCTAGACATGGTCTTACACTGGC
12859485 TTTCATCTTG
Statistics
Matches: 146, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
46 24 0.16
47 34 0.23
48 88 0.60
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACACCA
Done.