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 110 of 770
Found at i:31518917 original size:37 final size:37
Alignment explanation
Indices: 31518862--31519038 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
31518852 GGAAATATAT
*
31518862 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
31518899 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
31518936 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
31518973 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
31519010 TCCGGGTAAGACCCGATAAGTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
31519039 GGACTATTCG
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:31528251 original size:26 final size:26
Alignment explanation
Indices: 31528222--31528277 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
31528212 TGATACAAAT
31528222 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31528248 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31528274 TGAT
1 TGAT
31528278 GGGAATTTCA
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:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31531841 original size:24 final size:24
Alignment explanation
Indices: 31531809--31531905 Score: 185
Period size: 24 Copynumber: 4.0 Consensus size: 24
31531799 GGGTAGAAAG
31531809 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
31531833 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
31531857 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
31531881 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
31531905 T
1 T
31531906 CATAATAAGC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (24 bp):
TTTACTATGGCACTGTGTGTGCGA
Found at i:31531918 original size:48 final size:48
Alignment explanation
Indices: 31531818--31531926 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
31531808 GTTTACTATG
* * * *
31531818 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATG
1 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATA
31531866 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-A
1 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATA
*
31531914 GCACTATGTGTGC
1 GCACTGTGTGTGC
31531927 CACATTCAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (48 bp):
GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATA
Found at i:31538770 original size:43 final size:43
Alignment explanation
Indices: 31538682--31538838 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
31538672 TGTGATTATA
* *
31538682 TGTAAGACCATGTCTGGGACGTTGGCATTATATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTATAATGAGATTACG
* * *
31538725 TGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-CGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATT-ATAATGAGATTACG
* * * * * *
31538768 TGTAAGACCCTATCTGGGACAGTGGCATCTAT-ATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCAT-TATAATGAGATTACG
* * *
31538811 TGTAATACCATATCTGGGATA-TGGCATT
1 TGTAAGACCATGTCTGGGACATTGGCATT
31538839 GTATGAGCTT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 82 0.86
44 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTATAATGAGATTACG
Found at i:31538786 original size:86 final size:85
Alignment explanation
Indices: 31538682--31538840 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
31538672 TGTGATTATA
* * * *
31538682 TGTAAGACCATGTCTGGGAC-GTTGGCAT-TATATTGAGATTACGTGTAAGACCATGTCTGGGAC
1 TGTAAGACCATATCTGGGACAG-TGGCATCTATA-TGAGATAACATGTAAGACCATATCTGGGAC
31538745 ATTGGCATTGTTAATCGATTTCG
64 A-TGGCATTGTTAATCGATTTCG
* * * *
31538768 TGTAAGACCCTATCTGGGACAGTGGCATCTATATGTGATAACATGTAATACCATATCTGGGATAT
1 TGTAAGACCATATCTGGGACAGTGGCATCTATATGAGATAACATGTAAGACCATATCTGGGACAT
31538833 GGCATTGT
66 GGCATTGT
31538841 ATGAGCTTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 9 0.14
86 49 0.78
87 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (85 bp):
TGTAAGACCATATCTGGGACAGTGGCATCTATATGAGATAACATGTAAGACCATATCTGGGACAT
GGCATTGTTAATCGATTTCG
Found at i:31542669 original size:29 final size:29
Alignment explanation
Indices: 31542636--31542767 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
31542626 GTGACGAGAT
31542636 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
31542665 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
31542694 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
31542723 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
31542752 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31542768 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:31550615 original size:29 final size:29
Alignment explanation
Indices: 31550582--31550713 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
31550572 GTGACGAGAT
31550582 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
31550611 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
31550640 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
31550669 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
31550698 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31550714 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:31564093 original size:40 final size:40
Alignment explanation
Indices: 31564009--31564193 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
31563999 TCGAATGATG
* *
31564009 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
31564048 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
31564089 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31564128 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
31564167 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31564194 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:31564145 original size:79 final size:81
Alignment explanation
Indices: 31564009--31564191 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
31563999 TCGAATGATG
* *
31564009 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
31564073 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
31564088 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
31564150 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
31564168 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31564192 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:31564215 original size:79 final size:78
Alignment explanation
Indices: 31564010--31564226 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
31564000 CGAATGATGT
* *
31564010 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
31564073 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
31564090 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
31564153 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
31564169 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
31564227 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:31572256 original size:79 final size:81
Alignment explanation
Indices: 31572120--31572302 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
31572110 TCGAATGATG
* *
31572120 TCCGGGCTAAGCCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGCCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
31572184 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
31572199 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGCCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
31572261 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
31572279 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGCCCCGAAGGCATT
31572303 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGCCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:31572318 original size:40 final size:40
Alignment explanation
Indices: 31572121--31572304 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
31572111 CGAATGATGT
* * * *
31572121 CCGGGCTAAGCCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
31572161 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
31572201 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31572239 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31572280 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31572305 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31572326 original size:79 final size:77
Alignment explanation
Indices: 31572154--31572337 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 77
31572144 GTGCTAAGTG
* *
31572154 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
31572219 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* *
31572233 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
31572297 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
31572312 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
31572338 TACGTGATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 58 0.64
80 29 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:31575176 original size:71 final size:71
Alignment explanation
Indices: 31575090--31575253 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31575080 CGATTTGTCT
31575090 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31575155 CTTTCA
66 CTTTCA
31575161 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31575226 CTTTCA
66 CTTTCA
31575232 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31575254 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31575291 original size:71 final size:70
Alignment explanation
Indices: 31575090--31575287 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
31575080 CGATTTGTCT
* * * *
31575090 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31575155 CTTTCA
65 CTTTCA
* * * *
31575161 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31575226 CTTTCA
65 CTTTCA
* *
31575232 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
31575288 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31582755 original size:71 final size:71
Alignment explanation
Indices: 31582671--31582834 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31582661 CGATTTGTCT
31582671 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31582736 CTTTCA
66 CTTTCA
31582742 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31582807 CTTTCA
66 CTTTCA
31582813 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31582835 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31582872 original size:71 final size:70
Alignment explanation
Indices: 31582671--31582868 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
31582661 CGATTTGTCT
* * * *
31582671 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31582736 CTTTCA
65 CTTTCA
* * * *
31582742 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31582807 CTTTCA
65 CTTTCA
* *
31582813 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
31582869 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31608249 original size:40 final size:40
Alignment explanation
Indices: 31608189--31608410 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 40
31608179 GATGATAACT
* * * *
31608189 GGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTAATTCC
1 GGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTAATACC
* *
31608229 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATAACT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT-ACC
31608269 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATA-CC
* * *
31608309 GGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTA-TTATACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATACC
* * * * *
31608348 GGGCTAAGTCTCGAAGGCATTTGTGCAAGTTAC-CATAACT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT-ACC
31608388 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
31608411 AGCTAGTGGC
Statistics
Matches: 159, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 37 0.23
40 119 0.75
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATACC
Found at i:31608316 original size:80 final size:79
Alignment explanation
Indices: 31608183--31608408 Score: 269
Period size: 80 Copynumber: 2.8 Consensus size: 79
31608173 TGTTCGGATG
* * *
31608183 ATAACTGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACTGGGCTAAGTCCCGAAG-GCATTTGTGCAAGT-ACTATA-TCCGGGCTAAGTCCCGAAGG
31608246 CATTCGTGCGAGCTACT
63 CATTCGTGCGAGCTACT
* *
31608263 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCG
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCCGGGCTAAGTCCCGAAGGCA
* * *
31608328 TTTGTGCGAGTTATT
65 TTCGTGCGAGCTACT
* * * * *
31608343 AT-ACCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACCATAACTGGGCTAAGTCCCGAAGGCA
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCCGGGCTAAGTCCCGAAGGCA
31608407 TT
65 TT
31608409 TGAGCTAGTG
Statistics
Matches: 128, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 56 0.44
80 68 0.53
81 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATCCGGGCTAAGTCCCGAAGGCAT
TCGTGCGAGCTACT
Found at i:31608392 original size:79 final size:80
Alignment explanation
Indices: 31608227--31608410 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 80
31608217 GTGGCTAATT
* *
31608227 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* * *
31608292 TGCGAGCTACTATAT
66 TGCAAGCTACCATAA
* * * *
31608307 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTAT-ACCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
31608371 TGCAAGTTACCATAA
66 TGCAAGCTACCATAA
*
31608386 CTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31608411 AGCTAGTGGC
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.63
80 34 0.37
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCAAGCTACCATAA
Found at i:31608432 original size:79 final size:77
Alignment explanation
Indices: 31608227--31608433 Score: 234
Period size: 79 Copynumber: 2.6 Consensus size: 77
31608217 GTGGCTAATT
* *
31608227 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAT-AC-CGGCTAAGTCCCGAAGGCATTTG
* * *
31608292 TGCGAGCTACTATAT
63 TGCAAGCTACCATAA
* * *
31608307 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATACCGGGCTAAGTCTCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATACC-GGCTAAGTCCCGAAGGCATTTGT
*
31608372 GCAAGTTACCATAA
64 GCAAGCTACCATAA
* * * *
31608386 CTGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-CCGGCTAA
31608434 ACTCCGAAGG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 71 0.66
80 36 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATACCGGCTAAGTCCCGAAGGCATTTGTGC
AAGCTACCATAA
Found at i:31612672 original size:46 final size:46
Alignment explanation
Indices: 31612618--31612880 Score: 152
Period size: 46 Copynumber: 5.6 Consensus size: 46
31612608 TTGTGAGCTA
31612618 GTGTAAGA-CATGTCTGGGACATGCATCGGCCATATTGTGAGAGCCT
1 GTGTAAGACCATGTCTGGGACATGCATCGGCC-TATTGTGAGAGCCT
* **
31612664 GTGTAAGACCATGTCTGGGACATTGCAAT-GG-C-ATTGAGACGAATACT
1 GTGTAAGACCATGTCTGGGACA-TGC-ATCGGCCTATTGTGA-G-AGCCT
* * * * * *
31612711 AGTGTAAGA-CATGTTTGGGACATGCATCAGCCTCGAGATGT-A-TGTCA
1 -GTGTAAGACCATGTCTGGGACATGCATCGGCCT--A-TTGTGAGAGCCT
* * * * * *
31612758 GTGTAAGA-AATGTCTGGGACATGCATCGG-CTACT-AGATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGCATCGGCCTATTGTGA-GAGCCT
* *
31612802 GTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGCT-AAAGCCT
1 GTGTAAGACCATGTCTGGGACAT-GCATCGGC-C-TAT-TG-TGAGAGCCT
31612852 GTGTAAGACCATGTCTGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACAT-GCATC
31612881 CGCATCTTAC
Statistics
Matches: 170, Mismatches: 24, Indels: 42
0.72 0.10 0.18
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
44 13 0.08
45 23 0.14
46 46 0.27
47 31 0.18
48 14 0.08
49 3 0.02
50 34 0.20
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GTGTAAGACCATGTCTGGGACATGCATCGGCCTATTGTGAGAGCCT
Found at i:31612857 original size:94 final size:93
Alignment explanation
Indices: 31612615--31612880 Score: 267
Period size: 94 Copynumber: 2.8 Consensus size: 93
31612605 CTATTGTGAG
* *
31612615 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCATAT-TGTGAGAGCCTGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATATGT-AAAGCCTGTGTAAGACCATGTC
*
31612679 TGGGACATTGCAAT-GGCATTGAGACGAATA
65 TGGGACA-TGC-ATCGGCACTGAGACGAATA
* * * * * * * *
31612709 CTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGT-ATGTCAGTGTAAGA-AATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCC-AGATATGTAAAGCCTGTGTAAGACCATGTC
* **
31612772 TGGGACATGCATCGGCTACT-AGATGTGT-
65 TGGGACATGCATCGGC-ACTGAGACGAATA
31612800 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGCTAAAGCCTGTGTAAGACCAT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CAGATATG-TAAAGCCTGTGTAAGACCAT
31612864 GTCTGGGACATGGCATC
62 GTCTGGGACAT-GCATC
31612881 CGCATCTTAC
Statistics
Matches: 139, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
90 9 0.06
91 16 0.12
92 23 0.17
93 16 0.12
94 53 0.38
95 14 0.10
96 8 0.06
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATATGTAAAGCCTGTGTAAGACCATGTCT
GGGACATGCATCGGCACTGAGACGAATA
Found at i:31620310 original size:46 final size:45
Alignment explanation
Indices: 31620169--31620382 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 45
31620159 ATGAGTTAGC
* * *
31620169 GTAAGACATGTCTGGGACATGCATCGGCC-ACATTGTGA-GGGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTAC---GAGACGTGTCAGT
* * * *
31620215 GCAAGACCATGTCTGGGACATGGAATCGG--TATTGAGACGAGTGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTA-CGAGACGTGT-C-AGT
*
31620263 GTAAGACATGTCTAGGACATGCATCGGCCT-CGAGACGTAAGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGT--GTCAGT
*
31620309 GTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGTGTCAGT
*
31620353 ATAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGA-CATGTCTGGGACAT-GCATCGGC
31620383 ACAGATATGC
Statistics
Matches: 139, Mismatches: 14, Indels: 29
0.76 0.08 0.16
Matches are distributed among these distances:
44 11 0.08
45 19 0.14
46 62 0.45
47 30 0.22
48 17 0.12
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTACGAGACGTGTCAGT
Found at i:31621512 original size:21 final size:22
Alignment explanation
Indices: 31621473--31621513 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
31621463 TAAAATTGAT
31621473 CACACGGGCGTGTTGCCCCTTC
1 CACACGGGCGTGTTGCCCCTTC
31621495 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
31621514 GTGTCAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTTC
Found at i:31623621 original size:64 final size:64
Alignment explanation
Indices: 31623548--31623758 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
31623538 CTGGGCCAGA
*
31623548 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
31623612 GCCCATTTCAAAATAC-ATGCAATATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
31623674 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
31623685 GCCCTTTTCAGATTATAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
31623749 GCCCATTTCA
1 GCCCATTTCA
31623759 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 15 0.15
74 9 0.09
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:31623760 original size:137 final size:137
Alignment explanation
Indices: 31623514--31623800 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
31623504 TATTGGGCCT
**
31623514 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
31623579 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAATATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
31623644 CATATGC
131 CATATGA
*
31623651 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
31623716 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
31623781 CATATGA
131 CATATGA
31623788 AAGCCCATTTGGG
1 AAGCCCATTTGGG
31623801 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGA
Found at i:31625622 original size:26 final size:26
Alignment explanation
Indices: 31625586--31625721 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
31625576 CATGAAATTC
*
31625586 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
31625612 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
31625638 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
31625664 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
31625690 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
31625716 TTATCA
1 TTATCA
31625722 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:31628496 original size:37 final size:37
Alignment explanation
Indices: 31628446--31628538 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
31628436 CAAAACATGC
*
31628446 CAAATGCTAATAAGAGTTAATAC-AACCGATAACACGA
1 CAAATGCTAATAAGAGCTAAT-CTAACCGATAACACGA
* * *
31628483 CAAATGCTTATAAGAGCTAATCTAACCGATACCACGC
1 CAAATGCTAATAAGAGCTAATCTAACCGATAACACGA
* *
31628520 CAAATGCTCATAATAGCTA
1 CAAATGCTAATAAGAGCTA
31628539 TACATCCGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
36 1 0.02
37 48 0.98
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.22
Consensus pattern (37 bp):
CAAATGCTAATAAGAGCTAATCTAACCGATAACACGA
Found at i:31629504 original size:2 final size:2
Alignment explanation
Indices: 31629497--31629540 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
31629487 ATTAATCATC
31629497 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
31629539 TA
1 TA
31629541 CTTAAGGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31632147 original size:14 final size:15
Alignment explanation
Indices: 31632130--31632158 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31632120 GCACGAAAAT
31632130 TTCACACAT-ATAAA
1 TTCACACATAATAAA
31632144 TTCACACATAATAAA
1 TTCACACATAATAAA
31632159 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:31640923 original size:25 final size:25
Alignment explanation
Indices: 31640868--31640923 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
31640858 ATTTGTAATA
*
31640868 ATAATATATACACAATATGGTATTT
1 ATAATATATACACAATATGGTATAT
* * *
31640893 AAAATATATATATATATAT-GTATAT
1 ATAATATATACACA-ATATGGTATAT
31640918 ATAATA
1 ATAATA
31640924 GTATTTAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (25 bp):
ATAATATATACACAATATGGTATAT
Found at i:31641523 original size:15 final size:16
Alignment explanation
Indices: 31641490--31641525 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
31641480 TTTCTTCTTT
*
31641490 TTTTTTTGGGGTTAGG
1 TTTTTTTGGGGTTAAG
31641506 TTTTTTTGGGG-TAAG
1 TTTTTTTGGGGTTAAG
31641521 TTTTT
1 TTTTT
31641526 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.61
Consensus pattern (16 bp):
TTTTTTTGGGGTTAAG
Found at i:31641540 original size:16 final size:16
Alignment explanation
Indices: 31641521--31641555 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
31641511 TTGGGGTAAG
31641521 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
31641537 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
31641553 TTT
1 TTT
31641556 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:31642308 original size:88 final size:83
Alignment explanation
Indices: 31642201--31642778 Score: 279
Period size: 88 Copynumber: 7.0 Consensus size: 83
31642191 AACAGACATT
** * *
31642201 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
31642266 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
31642289 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
31642353 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
31642372 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
31642433 ATGAGTTGAATTTTTTTG-AAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
31642455 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
31642520 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * * *
31642543 AAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
31642608 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * * * *
31642626 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTAAAGCTCAACTCACCTCTCGCCATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
31642687 TTGATTTTTTTG--AAA--G
65 TTGA-TTTTTTGAAAAACTG
* * * * * * * *
31642703 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGACAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
31642764 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
31642779 CAGAAATTGA
Statistics
Matches: 380, Mismatches: 75, Indels: 80
0.71 0.14 0.15
Matches are distributed among these distances:
76 7 0.02
77 47 0.12
78 2 0.01
79 64 0.17
80 2 0.01
81 11 0.03
82 38 0.10
83 14 0.04
84 41 0.11
85 9 0.02
86 6 0.02
87 19 0.05
88 114 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:31642405 original size:30 final size:30
Alignment explanation
Indices: 31642369--31642430 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
31642359 TTTTGAAAAA
31642369 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
31642399 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
31642429 CA
1 CA
31642431 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:31642750 original size:77 final size:74
Alignment explanation
Indices: 31642580--31642919 Score: 362
Period size: 72 Copynumber: 4.5 Consensus size: 74
31642570 ATGTAACCCG
* * * *
31642580 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCT
* *
31642645 CAGTGTGTGATCTA
63 CAGCGTGTCA-C-A
* * * *
31642659 AAGCTCAACTCACCTCTCGCCATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
**
31642724 GCGCATGAGACA
65 GCG--TGTCACA
* * *
31642736 AGGGTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
***
31642800 CGTGTCTTG
66 CGTGTCACA
* ** * *
31642809 AGGTTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* *
31642872 CGTGTCCCG
66 CGTGTCACA
31642881 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
31642920 TTTTGAAAGG
Statistics
Matches: 223, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
72 64 0.29
73 30 0.13
74 4 0.02
75 21 0.09
76 10 0.04
77 41 0.18
78 4 0.02
79 49 0.22
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGTCACA
Found at i:31643069 original size:74 final size:74
Alignment explanation
Indices: 31642946--31643106 Score: 220
Period size: 74 Copynumber: 2.1 Consensus size: 74
31642936 TTGAAAAATG
*
31642946 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TT
31643011 TTTTGACAACA
64 TTTTGACAACA
* *
31643022 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
31643085 TTTGA-AAGGCA
65 TTTGACAA--CA
*
31643096 AAAATTGAAAA
1 GAAATTGAAAA
31643107 ACAGAAATTG
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
72 2 0.03
73 8 0.10
74 45 0.58
75 1 0.01
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (74 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTGACAACA
Found at i:31643161 original size:164 final size:164
Alignment explanation
Indices: 31642775--31643432 Score: 900
Period size: 164 Copynumber: 4.0 Consensus size: 164
31642765 TGATTTTTTG
* * * ** *
31642775 AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGTTCAACTCATTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
31642838 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
31642902 ATATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTGA
131 ATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
** *
31642940 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACAGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
31643005 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
31643070 AATATGAGTTGA-TTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTGAAAGGCAAAAATTGA
* * *
31643104 AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACAGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
31643169 TGATTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
31643234 ATATGAGTTGATTTTTTTTGAAAGACAAAAATTGA
131 ATATGAGTTGA-TTTTTTTGAAAGGCAAAAATTGA
* * *
31643269 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACAGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *** * * * * *
31643334 TGAAATTAAAACATA-A-AAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTAGT
66 TGATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
31643397 AATATGAGTTGATTTTTTTGACAA--CAAAAATTGA
130 AATATGAGTTGATTTTTTTGA-AAGGCAAAAATTGA
31643431 AA
1 AA
31643433 TTACCTCAGC
Statistics
Matches: 451, Mismatches: 34, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
162 12 0.03
163 81 0.18
164 138 0.31
165 120 0.27
166 1 0.00
167 30 0.07
169 69 0.15
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (164 bp):
AAAACAGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAAGGCAAAAATTGA
Found at i:31643233 original size:404 final size:389
Alignment explanation
Indices: 31642412--31643249 Score: 909
Period size: 404 Copynumber: 2.1 Consensus size: 389
31642402 AAATTAAAAA
*
31642412 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAACAGAAATTGAAAATAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGAA---TTTTG----AAAAACAGAAATTGAAAATACC
* * *
31642477 TCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTT
59 TCAG-ACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT
** **
31642542 GAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGA
123 GAAAAATAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGA
* * * * *
31642607 GTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTAAAGCTCAACTCAC
188 GTTGACTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAGCGTGT-ACCTAAAGCTCAACTCAC
* *
31642672 CTCTCGCCATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGACAA
251 CTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGACAA
* * *
31642737 GGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACG
316 GGCTCAACTCACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACG
*
31642802 TGTCTTGAG
381 TGTCCTGAG
* ** *
31642811 GTTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAG-CG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATACCTCAGACG
* * *
31642874 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGGCAGAAATTG
66 TGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAA-ACAGAAATTG
* * * * * *
31642939 AAAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAG
124 AAAAATAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAG
* * * *
31643004 TTGACTTTTTTG-ACAACAGAAATTG-AAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTC
189 TTGACTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTAAAGCTCAACTCACCTC
31643066 TCGCAATATGAGTTGA-TTTTTTGAAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTC-G-
254 TCGCAATATGAGTTGATTTTTTTGAAA-G-----A-T-------AGAAATTGAAAATACCTCAGC
* * * * * * *
31643128 GCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTTACAACAGAAATTGA
305 GCATGAGA-C-AAGGCTCAACTCACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTGA
* *
31643193 AATTACCTCAGCGTGTCCTGAG
368 AAATACCTCAACGTGTCCTGAG
*
31643215 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
31643250 TTTGAAAGAC
Statistics
Matches: 367, Mismatches: 49, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
389 37 0.10
390 10 0.03
391 56 0.15
393 15 0.04
395 19 0.05
396 80 0.22
397 1 0.00
399 28 0.08
402 6 0.02
403 2 0.01
404 113 0.31
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (389 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATACCTCAGACG
TGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAATA
GAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAGTTGACTT
TTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTACCTAAAGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCGCATGAGACAAGGCTCAACTC
ACCACTCGCAATACAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAG
Found at i:31643242 original size:73 final size:74
Alignment explanation
Indices: 31643106--31643251 Score: 231
Period size: 73 Copynumber: 2.0 Consensus size: 74
31643096 AAAATTGAAA
* *
31643106 AACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTG
31643171 ATTTTTTTAC
65 ATTTTTTTAC
* * *
31643181 AACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGA
31643245 TTTTTTT
66 TTTTTTT
31643252 TGAAAGACAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 40 0.61
75 26 0.39
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (74 bp):
AACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGA
TTTTTTTAC
Found at i:31643251 original size:75 final size:74
Alignment explanation
Indices: 31643104--31643271 Score: 221
Period size: 75 Copynumber: 2.2 Consensus size: 74
31643094 CAAAAATTGA
* *
31643104 AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGT
*
31643169 TGATTTTTTT
65 TGATTTTTTG
* * * *
31643179 ACAACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTT
31643243 GATTTTTTTTG
66 GA--TTTTTTG
*
31643254 AAAGACAAAAATTGAAAA
1 AAA-ACAGAAATTGAAAA
31643272 ACGGAAATTG
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
73 33 0.41
75 35 0.44
76 12 0.15
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTT
GATTTTTTG
Found at i:31643393 original size:72 final size:72
Alignment explanation
Indices: 31643276--31643716 Score: 285
Period size: 72 Copynumber: 6.1 Consensus size: 72
31643266 TGAAAAACGG
* * * * *
31643276 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGAAATT
1 AAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT
*
31643341 AAAACATAA
64 AAAACACAA
* * * ** *
31643350 AAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATTA
**
31643415 TGACAACAA
65 AAAC-ACAA
* * * * **
31643424 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-A
* *
31643489 AAA-AGTAG
65 AAACA-CAA
*** * * * *** * ** * * * *
31643497 AAATT-AAAA-GGTTCAACCTACCTCTCGCAATATGAGTTGA-TTCTTG-AACA--ACG-T-AAA
1 AAATTGAAAATACCTCAGCGTGCC-C-CG-AGGCTCAACTCACCTCTCGCAATATGA-GTTGAAA
* *
31643554 TTGAAA-ACAG
62 TTAAAACACAA
* *
31643564 AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
31643629 AACACAA
66 AACACAA
* * **
31643636 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-A
31643701 AAA-ACAA
65 AAACACAA
31643708 AAATT-AAAA
1 AAATTGAAAA
31643717 GGCTTAACTC
Statistics
Matches: 273, Mismatches: 76, Indels: 39
0.70 0.20 0.10
Matches are distributed among these distances:
66 5 0.02
67 12 0.04
68 12 0.04
69 10 0.04
70 4 0.01
71 19 0.07
72 110 0.40
73 22 0.08
74 79 0.29
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (72 bp):
AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
AACACAA
Found at i:31643429 original size:74 final size:74
Alignment explanation
Indices: 31643348--31643486 Score: 217
Period size: 74 Copynumber: 1.9 Consensus size: 74
31643338 ATTAAAACAT
*
31643348 AAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCT-AGTAATATGAGTTGATTT
1 AAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCA-CAATATGAGTTGATTT
31643412 TTTTGACAAC
65 TTTTGACAAC
* * * *
31643422 AAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
31643487 GAAAAAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 58 0.98
75 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (74 bp):
AAAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
TTTGACAAC
Found at i:31643859 original size:71 final size:71
Alignment explanation
Indices: 31643716--31643979 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
31643706 AAAAATTAAA
* * * * * *
31643716 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGTGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
31643779 GCCCCG
66 GCCCCG
* *
31643785 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
31643850 GTCTTG
66 GCCCCG
* * *
31643856 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
31643919 TGCCCCG
65 TGCCCCG
*
31643926 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
31643980 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 57 0.34
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:31643937 original size:70 final size:69
Alignment explanation
Indices: 31643716--31643979 Score: 330
Period size: 71 Copynumber: 3.7 Consensus size: 69
31643706 AAAAATTAAA
* ** * * * *
31643716 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGTGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
31643781 CCCG
66 CCCG
* * *
31643785 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
31643850 GTCTTG
64 GCCCCG
* *
31643856 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
31643921 CCCCG
65 CCCCG
*
31643926 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
31643980 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 59 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:31643962 original size:263 final size:257
Alignment explanation
Indices: 31643554--31644146 Score: 1024
Period size: 257 Copynumber: 2.3 Consensus size: 257
31643544 ACAACGTAAA
* * * * * *
31643554 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
*
31643619 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGTA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
31643684 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
*
31643749 TTAAAACATAAACTAAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
31643814 TGATT
253 TGATT
31643819 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
31643884 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
31643949 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
31644014 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
31644076 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
31644141 TTGATT
66 TTGATT
31644147 TTCCTTGAAA
Statistics
Matches: 318, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 129 0.41
258 1 0.00
263 126 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:31648090 original size:87 final size:87
Alignment explanation
Indices: 31647944--31648118 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
31647934 TAGATAAGTA
31647944 CTCGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCGATCTACT
1 CTCGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCGATCTACT
31648009 CTCGAATTTCGCTCTTCTTGAT
66 CTCGAATTTCGCTCTTCTTGAT
31648031 CTCGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCGATCTACT
1 CTCGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCGATCTACT
31648096 CTCGAATTTCGCTCTTCTTGAT
66 CTCGAATTTCGCTCTTCTTGAT
31648118 C
1 C
31648119 CTGAATTTGT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (87 bp):
CTCGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCGATCTACT
CTCGAATTTCGCTCTTCTTGAT
Found at i:31649544 original size:12 final size:12
Alignment explanation
Indices: 31649524--31649559 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
31649514 TGGGATATGC
*
31649524 AATGTATGAATG
1 AATGCATGAATG
31649536 AATGCATGAATG
1 AATGCATGAATG
31649548 AATGCATGAATG
1 AATGCATGAATG
31649560 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:31651547 original size:25 final size:25
Alignment explanation
Indices: 31651492--31651547 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
31651482 ATTTGTAATA
*
31651492 ATAATATATACACAATATGGTATTT
1 ATAATATATACACAATATGGTATAT
* * *
31651517 AAAATATATATATATATAT-GTATAT
1 ATAATATATACACA-ATATGGTATAT
31651542 ATAATA
1 ATAATA
31651548 GTATTTAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (25 bp):
ATAATATATACACAATATGGTATAT
Found at i:31652134 original size:17 final size:17
Alignment explanation
Indices: 31652114--31652203 Score: 63
Period size: 16 Copynumber: 5.8 Consensus size: 17
31652104 TTTTTTCTTC
31652114 TTTTTTTTTTGGGTTAG
1 TTTTTTTTTTGGGTTAG
* *
31652131 -TTTTTTTTGGGGTAAG
1 TTTTTTTTTTGGGTTAG
*
31652147 TTTTTCTTTTT--CTT--
1 TTTTT-TTTTTGGGTTAG
*
31652161 TTTTTTTTCT---TT-G
1 TTTTTTTTTTGGGTTAG
31652174 TTTTTTTTTTGGGTTAG
1 TTTTTTTTTTGGGTTAG
*
31652191 GTTTTTTTTTGGG
1 TTTTTTTTTTGGG
31652204 GGCTTAATGG
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
12 2 0.03
13 13 0.22
14 5 0.09
16 17 0.29
17 17 0.29
18 4 0.07
ACGTcount: A:0.04, C:0.03, G:0.20, T:0.72
Consensus pattern (17 bp):
TTTTTTTTTTGGGTTAG
Found at i:31652167 original size:11 final size:11
Alignment explanation
Indices: 31652147--31652180 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
31652137 TTGGGGTAAG
31652147 TTTTTCTTTTTC
1 TTTTT-TTTTTC
31652159 TTTTTTTTTTC
1 TTTTTTTTTTC
31652170 TTTGTTTTTTT
1 TTT-TTTTTTT
31652181 TTTGGGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:31654544 original size:2 final size:2
Alignment explanation
Indices: 31654537--31654573 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
31654527 ATTCAATGTA
31654537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31654574 GAATGTATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31654728 original size:13 final size:13
Alignment explanation
Indices: 31654706--31654748 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
31654696 AAATTAATAA
*
31654706 AATAGTTTAAAAT
1 AATAGGTTAAAAT
* *
31654719 AGTATGTTAAAAT
1 AATAGGTTAAAAT
*
31654732 AATAGGTTAAAAA
1 AATAGGTTAAAAT
31654745 AATA
1 AATA
31654749 AATGAATCCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (13 bp):
AATAGGTTAAAAT
Found at i:31657726 original size:20 final size:20
Alignment explanation
Indices: 31657701--31657740 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
31657691 TAAACACTTA
31657701 TGGATAGATTTGGTTTGTTG
1 TGGATAGATTTGGTTTGTTG
31657721 TGGATAGATTTGGTTTGTTG
1 TGGATAGATTTGGTTTGTTG
31657741 ATGAATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (20 bp):
TGGATAGATTTGGTTTGTTG
Found at i:31661902 original size:10 final size:9
Alignment explanation
Indices: 31661870--31661904 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
31661860 GAGGAGTATG
31661870 TGCATAAGT
1 TGCATAAGT
*
31661879 TGCATGAGT
1 TGCATAAGT
31661888 TGCATAAGTT
1 TGCATAAG-T
31661898 TGCATAA
1 TGCATAA
31661905 AGAGTTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (9 bp):
TGCATAAGT
Found at i:31662102 original size:56 final size:54
Alignment explanation
Indices: 31661978--31662124 Score: 163
Period size: 56 Copynumber: 2.7 Consensus size: 54
31661968 GGCCATGGCA
* * *
31661978 AGAAGACCATATAGTATAAGACCTAGTCTGGGACTATAGCATCATATGGGGAAG
1 AGAAAACCATATAGTGTAAGACCTAGTCTGGGACTATAGCATCATATGAGGAAG
* *
31662032 TGAAAACCATATAGTGTAAGACCTAGTCATGGTTG-CTATGGCATCATATGAGGATA-
1 AGAAAACCATATAGTGTAAGACCTAGTC-TGG--GACTATAGCATCATATGAGGA-AG
* * * *
31662088 AGAGAACCACATAGTGTAAGACCTAGTTTAGGACTAT
1 AGAAAACCATATAGTGTAAGACCTAGTCTGGGACTAT
31662125 GGTGTTATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 29 0.37
55 5 0.06
56 41 0.53
57 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (54 bp):
AGAAAACCATATAGTGTAAGACCTAGTCTGGGACTATAGCATCATATGAGGAAG
Found at i:31664667 original size:14 final size:15
Alignment explanation
Indices: 31664639--31664669 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31664629 ATGTTTAATG
31664639 TTTTATTAATAATTA
1 TTTTATTAATAATTA
31664654 TTTTATTAAT-ATTA
1 TTTTATTAATAATTA
31664668 TT
1 TT
31664670 ATCTTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATTAATAATTA
Found at i:31665554 original size:2 final size:2
Alignment explanation
Indices: 31665547--31665606 Score: 51
Period size: 2 Copynumber: 33.0 Consensus size: 2
31665537 AAACTGTTAG
* *
31665547 TA TA TA TA TA TA TA TA TA TA TA TT TC TA T- TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
31665586 TA TA T- TA TA -A TA -A AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
31665607 AGTATTACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
1 6 0.12
2 42 0.88
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31670101 original size:26 final size:26
Alignment explanation
Indices: 31670072--31670121 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
31670062 CAAACGTTAT
31670072 ATTTTTTAAAAATATATAAATTTTAG
1 ATTTTTTAAAAATATATAAATTTTAG
* *
31670098 ATTTTTTATAAATATTTAAATTTT
1 ATTTTTTAAAAATATATAAATTTT
31670122 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTTTTTAAAAATATATAAATTTTAG
Found at i:31670120 original size:19 final size:19
Alignment explanation
Indices: 31670086--31670133 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
31670076 TTTAAAAATA
*
31670086 TATAAAT-TTTAGATTTTT
1 TATAAATATTTAAATTTTT
31670104 TATAAATATTTAAATTTTT
1 TATAAATATTTAAATTTTT
31670123 TA-AAATTATTT
1 TATAAA-TATTT
31670134 TGAATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TATAAATATTTAAATTTTT
Found at i:31671498 original size:22 final size:23
Alignment explanation
Indices: 31671451--31671499 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
31671441 TTCTAAATAT
*
31671451 AATTATAATAAAGGAATCTATAA
1 AATTATAATAAAGAAATCTATAA
*
31671474 AATTAT-ATAAATGAAAT-TATTA
1 AATTATAATAAA-GAAATCTATAA
31671496 AATT
1 AATT
31671500 CCAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (23 bp):
AATTATAATAAAGAAATCTATAA
Found at i:31680709 original size:25 final size:25
Alignment explanation
Indices: 31680675--31680813 Score: 66
Period size: 25 Copynumber: 5.5 Consensus size: 25
31680665 AATGACTTCA
*
31680675 CCACTAAGGCTTTTC-GAATAATACG
1 CCACAAAGGCTTTTCAG-ATAATACG
* * * *
31680700 CCATATAGGCCTTTCAGATAATTCG
1 CCACAAAGGCTTTTCAGATAATACG
* * **
31680725 CCACAAAGGCTTTACATATAACTTTG
1 CCACAAAGGCTTTTCAGATAA-TACG
* ** * *
31680751 TCATTAAGGCTTTT-TGAATAATACA
1 CCACAAAGGCTTTTCAG-ATAATACG
* * **
31680776 TCACATAGGCTTTTCAGATAATTTG
1 CCACAAAGGCTTTTCAGATAATACG
*
31680801 CCACTAAGGCTTT
1 CCACAAAGGCTTT
31680814 ATAGGTAACT
Statistics
Matches: 80, Mismatches: 30, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
25 61 0.76
26 19 0.24
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (25 bp):
CCACAAAGGCTTTTCAGATAATACG
Found at i:31680823 original size:76 final size:76
Alignment explanation
Indices: 31680679--31680891 Score: 214
Period size: 76 Copynumber: 2.8 Consensus size: 76
31680669 ACTTCACCAC
* * *
31680679 TAAGGCTTTTCGAATAATACGCCATATAGGCCTTTCAGATAATTCGCCACAAAGGCTTTACATAT
1 TAAGGCTTTTCGAATAATACACCACATAGGCCTTTCAGATAATTCGCCACAAAGGCTTTACAGAT
31680744 AACTTTGTCAT
66 AACTTTGTCAT
* * * * * * *
31680755 TAAGGCTTTTTGAATAATACATCACATAGGCTTTTCAGATAATTTGCCACTAAGGCTTTATAGGT
1 TAAGGCTTTTCGAATAATACACCACATAGGCCTTTCAGATAATTCGCCACAAAGGCTTTACAGAT
** *
31680820 AAC-TTCACTAC
66 AACTTTGTC-AT
* * * * * * *
31680831 TAATGC-TTTCTGAATAATACACTACAAATGCCATTCAAATAATTCACCACAAAGGCTTTAC
1 TAAGGCTTTTC-GAATAATACACCACATAGGCCTTTCAGATAATTCGCCACAAAGGCTTTAC
31680892 GAATTACTCG
Statistics
Matches: 109, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
75 6 0.06
76 103 0.94
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (76 bp):
TAAGGCTTTTCGAATAATACACCACATAGGCCTTTCAGATAATTCGCCACAAAGGCTTTACAGAT
AACTTTGTCAT
Found at i:31680939 original size:75 final size:75
Alignment explanation
Indices: 31680843--31681062 Score: 203
Period size: 75 Copynumber: 2.9 Consensus size: 75
31680833 ATGCTTTCTG
* * * *
31680843 AATAATACACTACAAATGCCATTCAAATAATTCACCACAAAGGCTTTACGAATTACTCGCTACAA
1 AATAATACGCCACAAAGGCCATTCAAATAATTCACCAAAAAGGCTTTACGAATTACTCGCTACAA
31680908 AGGCTTCCCA
66 AGGCTTCCCA
* * ** ** ** * *
31680918 AATAATATGCCACAAAGGCCATTCAGATAATTTGCCGTAAAGATTTTAC-AGATTACCCACTACA
1 AATAATACGCCACAAAGGCCATTCAAATAATTCACCAAAAAGGCTTTACGA-ATTACTCGCTACA
* * *
31680982 AAAGCTTTCCG
65 AAGGCTTCCCA
* * * *
31680993 AATAATACGCCATAAAGGCC-TTTAAGATAATTCACCAAAAAGGCTTTACGGATTATTCGTCT-C
1 AATAATACGCCACAAAGGCCATTCAA-ATAATTCACCAAAAAGGCTTTACGAATTACTCG-CTAC
31681056 AAAGGCT
64 AAAGGCT
31681063 CGATTTGGCT
Statistics
Matches: 110, Mismatches: 31, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
74 4 0.04
75 104 0.95
76 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (75 bp):
AATAATACGCCACAAAGGCCATTCAAATAATTCACCAAAAAGGCTTTACGAATTACTCGCTACAA
AGGCTTCCCA
Found at i:31681022 original size:25 final size:24
Alignment explanation
Indices: 31680994--31681040 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
31680984 AGCTTTCCGA
* *
31680994 ATAATACGCCATAAAGGCCTTTAAG
1 ATAATACACCAAAAAGG-CTTTAAG
*
31681019 ATAATTCACCAAAAAGGCTTTA
1 ATAATACACCAAAAAGGCTTTA
31681041 CGGATTATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (24 bp):
ATAATACACCAAAAAGGCTTTAAG
Found at i:31693581 original size:23 final size:23
Alignment explanation
Indices: 31693551--31693599 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
31693541 AAAGCTTATA
31693551 ACACAACATTAAAACTCATGATC
1 ACACAACATTAAAACTCATGATC
31693574 ACACAACATTAAAACTCATGATC
1 ACACAACATTAAAACTCATGATC
31693597 ACA
1 ACA
31693600 GCTACATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (23 bp):
ACACAACATTAAAACTCATGATC
Found at i:31696142 original size:39 final size:39
Alignment explanation
Indices: 31696088--31696278 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
31696078 AATGTTCGAG
31696088 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
31696127 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
31696166 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
31696205 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
31696244 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31696279 GGTTACCATA
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 126 0.88
40 17 0.12
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:31708595 original size:15 final size:16
Alignment explanation
Indices: 31708566--31708595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31708556 CGACACTACC
31708566 TTAAAATCATTATCTT
1 TTAAAATCATTATCTT
31708582 TTAAAATC-TTATCT
1 TTAAAATCATTATCT
31708596 GGCTTAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATCATTATCTT
Found at i:31716940 original size:125 final size:125
Alignment explanation
Indices: 31716717--31716963 Score: 404
Period size: 125 Copynumber: 2.0 Consensus size: 125
31716707 GCGTATACTC
* * *
31716717 TACAAGGGAGTCCACCAAACCACCAAGCTCGCCTAATGTAGACTTCATTGAAAAGCGCACTTGCA
1 TACAAGGGAGTCCACCAAACCACCAAGCTCGCCTAATGTAGACTCCACTGAAAAGCACACTTGCA
*
31716782 GACTTACAATCTTAGTCACAGTTAATACGTTACCCACTCAGAACTTGCTCTAAACACTAT
66 GACTTACAATCTTAGTCACAGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACTAT
* * * *
31716842 TACAAGGGAGTCCACCAAACCATCAAGCTCGCCTAATGTAGACTCCGCTGAAAGGCACACTTGCG
1 TACAAGGGAGTCCACCAAACCACCAAGCTCGCCTAATGTAGACTCCACTGAAAAGCACACTTGCA
* *
31716907 GACTTACATTCTTAGTCATAGTTAATACCTTACCCACTCAGAACTTGCTCTAAACAC
66 GACTTACAATCTTAGTCACAGTTAATACCTTACCCACTCAGAACTTGCTCTAAACAC
31716964 GATACTTCGA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 112 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (125 bp):
TACAAGGGAGTCCACCAAACCACCAAGCTCGCCTAATGTAGACTCCACTGAAAAGCACACTTGCA
GACTTACAATCTTAGTCACAGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACTAT
Found at i:31717520 original size:37 final size:37
Alignment explanation
Indices: 31717479--31717551 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
31717469 TTATTTTGGA
* *
31717479 GAAAACCACATTTATTTTCAAATGATTCCATTTCTTT
1 GAAAACCACATTCATTTTCAAATCATTCCATTTCTTT
31717516 GAAAACCACATTCATTTTCAAATCATTCCATTTCTT
1 GAAAACCACATTCATTTTCAAATCATTCCATTTCTT
31717552 CATTTTCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (37 bp):
GAAAACCACATTCATTTTCAAATCATTCCATTTCTTT
Found at i:31736566 original size:35 final size:35
Alignment explanation
Indices: 31736520--31736589 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
31736510 TGTCGCACAG
31736520 CCGTGTGTCACTTGTTAATTTTGGTATATCAAGTC
1 CCGTGTGTCACTTGTTAATTTTGGTATATCAAGTC
31736555 CCGTGTGTCACTTGTTAATTTTGGTATATCAAGTC
1 CCGTGTGTCACTTGTTAATTTTGGTATATCAAGTC
31736590 AGTGTGTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (35 bp):
CCGTGTGTCACTTGTTAATTTTGGTATATCAAGTC
Found at i:31739315 original size:40 final size:40
Alignment explanation
Indices: 31739253--31739437 Score: 110
Period size: 40 Copynumber: 4.6 Consensus size: 40
31739243 TACACATTCA
*
31739253 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTTGCACG
1 AATGCCTTCGGGACATAACCCGGATT-CAGTAACTTGCACG
* * *
31739293 AATGCCTTCGGGAC-TCAACCCGGATTTAGTAGCTTGCTCG
1 AATGCCTTCGGGACAT-AACCCGGATTCAGTAACTTGCACG
* * ** * *
31739333 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CATAACCCGGATTCAGTAACTTGCACG
* * * ** * *
31739373 TATGCCGTC-GGATCTTAGTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CATAACCCGGATTCAGTAACTT-GCACG
* * *
31739413 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAACCCGGAT
31739438 ATCATTCGAA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 4 0.03
40 106 0.88
41 10 0.08
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTCAGTAACTTGCACG
Found at i:31742744 original size:12 final size:12
Alignment explanation
Indices: 31742712--31742746 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
31742702 ATCAAATATG
31742712 AACTCAAATTTA
1 AACTCAAATTTA
* *
31742724 AAATAAAATTTA
1 AACTCAAATTTA
31742736 AACTCAAATTT
1 AACTCAAATTT
31742747 CGCATATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
AACTCAAATTTA
Found at i:31760796 original size:2 final size:2
Alignment explanation
Indices: 31760789--31760819 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31760779 ATCAAACTAG
31760789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31760820 GGTATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31763823 original size:32 final size:32
Alignment explanation
Indices: 31763784--31763848 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
31763774 CAAATTTGCA
31763784 ATAAATTGATATAAGCTCTTAAAATTATTTTC
1 ATAAATTGATATAAGCTCTTAAAATTATTTTC
31763816 ATAAATTGATATAAGCTCTTAAAATTATTTTC
1 ATAAATTGATATAAGCTCTTAAAATTATTTTC
31763848 A
1 A
31763849 AAGTGCTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (32 bp):
ATAAATTGATATAAGCTCTTAAAATTATTTTC
Found at i:31768907 original size:45 final size:45
Alignment explanation
Indices: 31768747--31768907 Score: 136
Period size: 47 Copynumber: 3.5 Consensus size: 45
31768737 TGTGGGCTAC
* * *
31768747 TGTAAGA-CATGTCTGGGACATACATCGG-C-CGCATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCCTCGGA-AAT-A-AG-CAG
* * *
31768793 TGTAAGACTATGTTTGGGACATGCATCGGCCTCGGGACATAAGCTAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCCTC-GGAAATAAGC-AG
**
31768840 TGTAAGA-CATGTCTGGGACATGCATCGG-CTAC-GAAATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCCT-CGGAAATAAG-CAG
31768884 TGTAAGACCATGTCTGGGACATGC
1 TGTAAGACCATGTCTGGGACATGC
31768908 CGTCGGCACG
Statistics
Matches: 97, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
44 14 0.14
45 19 0.20
46 28 0.29
47 29 0.30
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCCTCGGAAATAAGCAG
Found at i:31769032 original size:72 final size:71
Alignment explanation
Indices: 31768915--31769058 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 71
31768905 TGCCGTCGGC
31768915 ACGGATATGTGAGAGCTAATGTAAGACTATGTCTGGAACATGGCATCGGCTTCGGTGGTGATAAC
1 ACGGATATGTGAGAGCTAATGTAAGACTATGTCTGGAACATGGCATCGGCTTCGGTGGTGATAAC
31768980 CATGTGT
66 CA-GTGT
31768987 ACGGATATGTGAGAGCTAATGTAAGACTATGTCTGGAACATGGCATCGGCTTCGGTGGTGATAAC
1 ACGGATATGTGAGAGCTAATGTAAGACTATGTCTGGAACATGGCATCGGCTTCGGTGGTGATAAC
31769052 CAGTGT
66 CAGTGT
31769058 A
1 A
31769059 GGACCATGTC
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 5 0.07
72 67 0.93
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (71 bp):
ACGGATATGTGAGAGCTAATGTAAGACTATGTCTGGAACATGGCATCGGCTTCGGTGGTGATAAC
CAGTGT
Found at i:31770015 original size:13 final size:13
Alignment explanation
Indices: 31769993--31770027 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
31769983 CCGTGTGAAG
*
31769993 GACACAGGCCATT
1 GACACGGGCCATT
31770006 GACACGGGCCATT
1 GACACGGGCCATT
31770019 GACACGGGC
1 GACACGGGC
31770028 GTGTGTCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.11
Consensus pattern (13 bp):
GACACGGGCCATT
Found at i:31775208 original size:7 final size:7
Alignment explanation
Indices: 31775196--31775224 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
31775186 AGTAATTCAG
31775196 TGAACAT
1 TGAACAT
31775203 TGAACAT
1 TGAACAT
31775210 TGAACAT
1 TGAACAT
31775217 TGAACAT
1 TGAACAT
31775224 T
1 T
31775225 TACTAACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (7 bp):
TGAACAT
Found at i:31775439 original size:20 final size:19
Alignment explanation
Indices: 31775422--31775483 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
31775412 TTATAGTGAG
*
31775422 AACAGGGACACCGAAGTGTA
1 AACAGGG-CACCGAAGTGCA
*
31775442 TACAGGGGCACCGAAGTGCA
1 AACA-GGGCACCGAAGTGCA
*
31775462 AACAAGGGCACCGAAATGCA
1 AAC-AGGGCACCGAAGTGCA
31775482 AA
1 AA
31775484 TCTCATACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.40, C:0.23, G:0.29, T:0.08
Consensus pattern (19 bp):
AACAGGGCACCGAAGTGCA
Found at i:31782527 original size:48 final size:48
Alignment explanation
Indices: 31782499--31782772 Score: 345
Period size: 48 Copynumber: 5.7 Consensus size: 48
31782489 CACATGTCAA
* * * *
31782499 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGT-CTCGAT
1 GGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-G-T
* * * * *
31782548 -GTCGATGCCATATTCTAGACATGGTTTTACACTGGCTCTCATAATGT
1 GGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGT
* * *
31782595 GGTCGATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCATAATGT
1 GGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGT
** *
31782643 GGCTAATGCTATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGT
1 GGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGT
*
31782691 GGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGT
1 GGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGT
* * *
31782739 GGCGGATGCCATGTCCCAGACATGGTCTTACACT
1 GGCCGATGCCATGTTCCAAACATGGTCTTACACT
31782773 AGCACACATA
Statistics
Matches: 197, Mismatches: 26, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
47 1 0.01
48 195 0.99
49 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (48 bp):
GGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGT
Found at i:31784662 original size:40 final size:39
Alignment explanation
Indices: 31784576--31784759 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
31784566 AAATTGAATG
* * * * *
31784576 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
31784616 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
31784656 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
31784696 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
31784735 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31784760 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:31791730 original size:28 final size:28
Alignment explanation
Indices: 31791662--31791761 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 28
31791652 GACAAGATTG
* * *
31791662 GCACTAAGTGTGCG-GTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
31791691 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31791719 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
31791748 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31791762 GATTCACTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 34 0.53
30 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31794692 original size:28 final size:29
Alignment explanation
Indices: 31794625--31794696 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
31794615 ATAGTGAATC
*
31794625 CGCACACTTAGTGCTATATACATTCAGCT
1 CGCACACTTAGTGCTATATACATTCAACT
31794654 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATACATTC-AACT
31794682 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31794697 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATACATTCAACT
Found at i:31797889 original size:75 final size:75
Alignment explanation
Indices: 31797762--31797909 Score: 253
Period size: 75 Copynumber: 2.0 Consensus size: 75
31797752 GGAAAATCAA
*
31797762 GATTATTCCATTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAA
1 GATTATTCCATTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAA
31797827 AAGAATATAT
66 AAGAATATAT
* *
31797837 GATTATTCCTTTGTTAATAGAGAAGACAAATGGAAAGTTAGAAAAATG-AATTATATTCTTTCCA
1 GATTATTCCATTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAA-GAAATTATATTCTTTCCA
31797901 AAAGAATAT
65 AAAGAATAT
31797910 TAATTTCCAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
75 68 0.99
76 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (75 bp):
GATTATTCCATTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAA
AAGAATATAT
Found at i:31798163 original size:138 final size:136
Alignment explanation
Indices: 31797885--31798168 Score: 412
Period size: 138 Copynumber: 2.1 Consensus size: 136
31797875 TAGAAAAATG
* *
31797885 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATATTGACTAAAATTAATTAA
1 AATTATATCCTTTCCAAAAGAATATTAATTTCCATA-CTTTTATATATTGACCAAAATTAATTAA
*
31797950 TATAATTTTTATTTTAATAAATTCGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTC
65 TATAATTTTTATTTTAATAAATTAGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTC
31798015 ATATATT
130 ATATATT
* * *
31798022 AATTATATCCTTTCCAAAATAATATTAACTTTCACGTA-TTTTATATTTTGACCAAAATTAATTA
1 AATTATATCCTTTCCAAAAGAATATTAA-TTTC-CATACTTTTATATATTGACCAAAATTAATTA
*
31798086 ATATAATTATTT-TTATTAATAAATTTAG-TAAAATATATACAATTAATATTTTGTATGAATCAA
64 ATATAATT-TTTATT-TTAATAAA-TTAGATAAAATATATAAAATTAATATTTTGTATGAATCAA
*
31798149 ATTTATATATT
126 ATTCATATATT
*
31798160 AATTTTATC
1 AATTATATC
31798169 TATGTTCTCT
Statistics
Matches: 133, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
137 60 0.45
138 67 0.50
139 6 0.05
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (136 bp):
AATTATATCCTTTCCAAAAGAATATTAATTTCCATACTTTTATATATTGACCAAAATTAATTAAT
ATAATTTTTATTTTAATAAATTAGATAAAATATATAAAATTAATATTTTGTATGAATCAAATTCA
TATATT
Found at i:31803833 original size:43 final size:43
Alignment explanation
Indices: 31803772--31803858 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
31803762 TTGGCACATC
31803772 ACACTCTTTAACTTTTAGCTGATAATACCCAGATCTAAGATCT
1 ACACTCTTTAACTTTTAGCTGATAATACCCAGATCTAAGATCT
31803815 ACACTCTTTAACTTTTAGCTGATAATACCCAGATCTAAGATCT
1 ACACTCTTTAACTTTTAGCTGATAATACCCAGATCTAAGATCT
31803858 A
1 A
31803859 TCTTTGAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.34
Consensus pattern (43 bp):
ACACTCTTTAACTTTTAGCTGATAATACCCAGATCTAAGATCT
Found at i:31805415 original size:54 final size:55
Alignment explanation
Indices: 31805328--31805461 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 55
31805318 AGGGCAAATT
* *
31805328 AGTCATTTTACATTACAGGGGTA-TTACAGTCATTTTATCC-TATAGGGGTATTAC
1 AGTCATTTTACCTTATAGGGGTATTTACAGTCATTTTA-CCTTATAGGGGTATTAC
** * **
31805382 AGTCATTTTACCTTATAGGGGTATTTTGA-TCATTTTACCTTTTAGGGGTATTTT
1 AGTCATTTTACCTTATAGGGGTATTTACAGTCATTTTACCTTATAGGGGTATTAC
* * * *
31805436 GGCCATTTTACCCTATGGGGGTATTT
1 AGTCATTTTACCTTATAGGGGTATTT
31805462 CGGTCACTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.03
54 62 0.93
55 3 0.04
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (55 bp):
AGTCATTTTACCTTATAGGGGTATTTACAGTCATTTTACCTTATAGGGGTATTAC
Found at i:31805434 original size:27 final size:27
Alignment explanation
Indices: 31805330--31805461 Score: 117
Period size: 27 Copynumber: 4.9 Consensus size: 27
31805320 GGCAAATTAG
* * **
31805330 TCATTTTACATTACAGGGGTA-TTACA
1 TCATTTTACCTTATAGGGGTATTTTGA
**
31805356 GTCATTTTATCC-TATAGGGGTA-TTACA
1 -TCATTTTA-CCTTATAGGGGTATTTTGA
31805383 GTCATTTTACCTTATAGGGGTATTTTGA
1 -TCATTTTACCTTATAGGGGTATTTTGA
* *
31805411 TCATTTTACCTTTTAGGGGTATTTTGG
1 TCATTTTACCTTATAGGGGTATTTTGA
* * *
31805438 CCATTTTACCCTATGGGGGTATTT
1 TCATTTTACCTTATAGGGGTATTT
31805462 CGGTCACTAT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.02
27 86 0.93
28 4 0.04
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (27 bp):
TCATTTTACCTTATAGGGGTATTTTGA
Found at i:31809085 original size:40 final size:40
Alignment explanation
Indices: 31809003--31809187 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
31808993 TCGAATGATG
* * *
31809003 TCCGGGCTAAGTCCC-AAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
31809042 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31809082 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31809122 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31809163 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31809188 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
39 13 0.10
40 111 0.83
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31809194 original size:80 final size:79
Alignment explanation
Indices: 31809055--31809210 Score: 226
Period size: 80 Copynumber: 2.0 Consensus size: 79
31809045 GGACTAAGAT
* **
31809055 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
31809119 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
*
31809135 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
*
31809199 ATATCCGGTTAA
65 AAATCCGGTTAA
31809211 ACTCCGAAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
79 8 0.12
80 59 0.86
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:31817384 original size:80 final size:79
Alignment explanation
Indices: 31817245--31817400 Score: 235
Period size: 80 Copynumber: 2.0 Consensus size: 79
31817235 GGACTAAGAT
**
31817245 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
31817309 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
*
31817325 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
*
31817389 ATATCCGGTTAA
65 AAATCCGGTTAA
31817401 ACTCCGAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
79 8 0.11
80 60 0.86
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:31817391 original size:40 final size:40
Alignment explanation
Indices: 31817192--31817377 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
31817182 TCGAATGATG
* * *
31817192 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
31817232 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
31817272 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31817312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31817353 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31817378 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31821320 original size:31 final size:31
Alignment explanation
Indices: 31821285--31821357 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
31821275 CAATTCAGTA
*
31821285 ACCATCAATCATTCATATTCAAAATGTACTT
1 ACCATCAATCATTCACATTCAAAATGTACTT
31821316 ACCATCAATCATTCACATTCAAAATGTACTT
1 ACCATCAATCATTCACATTCAAAATGTACTT
*
31821347 A-AATCAATCAT
1 ACCATCAATCAT
31821358 ACAAAGTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 9 0.22
31 31 0.77
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (31 bp):
ACCATCAATCATTCACATTCAAAATGTACTT
Found at i:31822288 original size:27 final size:27
Alignment explanation
Indices: 31822251--31822304 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
31822241 TAAGACATAG
31822251 AAAATGAAACAGAGTAAGCTTATAGCT
1 AAAATGAAACAGAGTAAGCTTATAGCT
*
31822278 AAAATGGAACAGAGTAAGCTTATAGCT
1 AAAATGAAACAGAGTAAGCTTATAGCT
31822305 TAGTAAGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.22
Consensus pattern (27 bp):
AAAATGAAACAGAGTAAGCTTATAGCT
Found at i:31822707 original size:46 final size:46
Alignment explanation
Indices: 31822656--31822771 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
31822646 CATGAGCTGA
* *
31822656 TAAACAGTAAGCTCTATT-GAGCTGAAAATGGTCAGCT-CTACTGAGC
1 TAAACAGTAAGCTCT-TTCGAGCTG-AAATGGTAAGCTCCAACTGAGC
* *
31822702 TAAACAGTAAGCTCTTTCGAGCTGAATTGGTAAGCTCCAAGTGAGC
1 TAAACAGTAAGCTCTTTCGAGCTGAAATGGTAAGCTCCAACTGAGC
* *
31822748 TGAAACAATAAGCTCTTACGAGCT
1 T-AAACAGTAAGCTCTTTCGAGCT
31822772 ATGGTGAGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 12 0.20
46 29 0.48
47 20 0.33
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (46 bp):
TAAACAGTAAGCTCTTTCGAGCTGAAATGGTAAGCTCCAACTGAGC
Found at i:31822723 original size:22 final size:22
Alignment explanation
Indices: 31822656--31822724 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
31822646 CATGAGCTGA
31822656 TAAACAGTAAGCTCTATT-GAGC
1 TAAACAGTAAGCTCT-TTCGAGC
* *
31822678 TGAAA-ATGGTCAGCTC-TACTGAGC
1 T-AAACA--GTAAGCTCTTTC-GAGC
31822702 TAAACAGTAAGCTCTTTCGAGC
1 TAAACAGTAAGCTCTTTCGAGC
31822724 T
1 T
31822725 GAATTGGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
22 15 0.42
23 8 0.22
24 13 0.36
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (22 bp):
TAAACAGTAAGCTCTTTCGAGC
Found at i:31828480 original size:53 final size:54
Alignment explanation
Indices: 31828396--31828618 Score: 213
Period size: 53 Copynumber: 4.2 Consensus size: 54
31828386 AGGATACACG
* * * *
31828396 GGTA-CCTTTCCTTTTA-AACTTACCATTGCCATGTCTTGACATGGTCTTACGT
1 GGTATCCTTGCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* *
31828448 GGTATCCTTGCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCTTACAT
1 GGTATCCTTGCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* * ** * * *
31828501 GGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACAT
1 GGTATCCTTGCCTTATAG-AACTTACCATTGCCATGCCTTGACATGGTCTTACAT
* * * * * *
31828556 GATTTCCTTGCCTTGTAGAACTTACC-TATGCCATGCCTT-AGTATAGTCTTACTT
1 GGTATCCTTGCCTTATAGAACTTACCAT-TGCCATGCCTTGA-CATGGTCTTACAT
31828610 GGTATCCTT
1 GGTATCCTT
31828619 AAACCCAAAT
Statistics
Matches: 135, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
52 4 0.03
53 56 0.41
54 33 0.24
55 42 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (54 bp):
GGTATCCTTGCCTTATAGAACTTACCATTGCCATGCCTTGACATGGTCTTACAT
Found at i:31832875 original size:23 final size:23
Alignment explanation
Indices: 31832765--31832879 Score: 94
Period size: 23 Copynumber: 4.9 Consensus size: 23
31832755 AAGCTATTCA
31832765 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTG--AAACAGTAAGCTCTAT
*
31832790 TGAGTTGAAA-ACGATAAGCTCTAT
1 TGAGCTGAAACA-G-TAAGCTCTAT
* *
31832814 TGAGCTG-AATAGTAAGTTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
* * *
31832835 TCAAGCTGAATC-GCTAAGCTCTAG
1 T-GAGCTGAAACAG-TAAGCTCTAT
31832859 TGAGCTGAAACAGTAAGCTCT
1 TGAGCTGAAACAGTAAGCTCT
31832880 TACGAGCTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
21 2 0.03
22 14 0.19
23 31 0.43
24 19 0.26
25 6 0.08
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:31839153 original size:48 final size:46
Alignment explanation
Indices: 31839045--31839254 Score: 158
Period size: 46 Copynumber: 4.5 Consensus size: 46
31839035 TGATATGTGT
* ** * *
31839045 GCTAGTGTAAGACATGCCTGGGACATGCATTAGCCAC-AGCATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-AT-ATAA
*
31839091 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA--TAA
* * * * ** * * *
31839139 GCCAGTGTAAGACATGCCTAGGACATGTATCGGTATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-TATAA
* * *
31839185 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGCGATATAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT--AA
*
31839233 GCTAG-GTAAGACCTGTCTGGGA
1 GCTAGTGTAAGACATGTCTGGGA
31839255 TATGACGTCA
Statistics
Matches: 126, Mismatches: 30, Indels: 15
0.74 0.18 0.09
Matches are distributed among these distances:
45 2 0.02
46 66 0.52
47 17 0.13
48 40 0.32
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAA
Found at i:31839335 original size:49 final size:49
Alignment explanation
Indices: 31839278--31839406 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 49
31839268 TATGGTGTGT
*
31839278 CAGTGTAAGACCTATTTGGGACATGGCATCGACACCGA-TAGATGAGAGC
1 CAGTGTAAGACCTATTTGGGACATGGCATCGAC-CCGACTAGATGAAAGC
* * ** *
31839327 CAGTGTAAGACCTATCTGGGACATGGCATCGGCCTTACTATATGAAAGC
1 CAGTGTAAGACCTATTTGGGACATGGCATCGACCCGACTAGATGAAAGC
31839376 CAGTGTAAGACC-ATGTCTGGGACATGGCATC
1 CAGTGTAAGACCTAT-T-TGGGACATGGCATC
31839407 AGCATCTTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 4 0.06
49 52 0.74
50 14 0.20
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTATTTGGGACATGGCATCGACCCGACTAGATGAAAGC
Found at i:31847068 original size:49 final size:49
Alignment explanation
Indices: 31846966--31847094 Score: 219
Period size: 49 Copynumber: 2.7 Consensus size: 49
31846956 ATTTAAGCCT
**
31846966 GTGTAAGACATGTCTGGGACAT-GCATCGGTA--TTGAGACGAAAGCTA
1 GTGTAAGACATGTCTGGGACATGGCATCGACACCTTGAGACGAAAGCTA
31847012 GTGTAAGACATGTCTGGGACATGGCATCGACACCTTGAGACGAAAGCTA
1 GTGTAAGACATGTCTGGGACATGGCATCGACACCTTGAGACGAAAGCTA
31847061 GTGTAAGACATGTCTGGGACATGGCATCGACACC
1 GTGTAAGACATGTCTGGGACATGGCATCGACACC
31847095 GATAGATGAG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
46 22 0.28
47 7 0.09
49 49 0.63
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (49 bp):
GTGTAAGACATGTCTGGGACATGGCATCGACACCTTGAGACGAAAGCTA
Found at i:31847118 original size:49 final size:49
Alignment explanation
Indices: 31846970--31847188 Score: 169
Period size: 49 Copynumber: 4.5 Consensus size: 49
31846960 AAGCCTGTGT
** * * * *
31846970 AAGACATGTCTGGGACAT-GCATCGGTA--TTGAGACGAAAGCTAGTGT
1 AAGACATGTCTGGGACATGGCATCGACACCATGAGACGAAAGCCAATGC
* * * *
31847016 AAGACATGTCTGGGACATGGCATCGACACCTTGAGACGAAAGCTAGTGT
1 AAGACATGTCTGGGACATGGCATCGACACCATGAGACGAAAGCCAATGC
* *
31847065 AAGACATGTCTGGGACATGGCATCGACACCGAT-AGATGAGAGCCAATGC
1 AAGACATGTCTGGGACATGGCATCGACACC-ATGAGACGAAAGCCAATGC
** * * * * * * *
31847114 AAGACCGGTCTGTGACATGGCATCGGC-CTCATTATATGAAAGCCAGTGT
1 AAGACATGTCTGGGACATGGCATCGACAC-CATGAGACGAAAGCCAATGC
* *
31847163 AAGGTCATGTCTAGGACATGGCATCG
1 AA-GACATGTCTGGGACATGGCATCG
31847189 GCATCTTATC
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
46 18 0.12
47 7 0.05
48 3 0.02
49 98 0.68
50 19 0.13
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (49 bp):
AAGACATGTCTGGGACATGGCATCGACACCATGAGACGAAAGCCAATGC
Found at i:31848372 original size:20 final size:21
Alignment explanation
Indices: 31848333--31848372 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31848323 GTTATAATGA
* *
31848333 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTGATGCCCTT
31848354 CCACACGGGCGT-ATGCCCT
1 CCACACGGGCGTGATGCCCT
31848373 GTTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGATGCCCTT
Found at i:31849854 original size:49 final size:50
Alignment explanation
Indices: 31849787--31849888 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
31849777 TATTATAGAG
* *
31849787 AACATATAAAAGACATT-AAACACGTTATATTCTTTCCAAAAAGAATTAT
1 AACATATAAAAGACATTAAAAAACGTTATATTCTTTCCAAAAAGAAATAT
* *
31849836 AACATATGAAAAG-TATTAAAAAATGTTATATTCTTTCCAAAAAGAAATAT
1 AACATAT-AAAAGACATTAAAAAACGTTATATTCTTTCCAAAAAGAAATAT
31849886 AAC
1 AAC
31849889 TACTATGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
49 10 0.21
50 37 0.79
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (50 bp):
AACATATAAAAGACATTAAAAAACGTTATATTCTTTCCAAAAAGAAATAT
Found at i:31854091 original size:46 final size:46
Alignment explanation
Indices: 31854034--31854208 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
31854024 TGTAACCCGC
*
31854034 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
31854080 CCATAATTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * **
31854130 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGTAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
31854173 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
31854209 ATGCTCAAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
46 61 0.57
47 26 0.24
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:31854201 original size:93 final size:93
Alignment explanation
Indices: 31854042--31854212 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
31854032 GCCCATAAGT
* * * *
31854042 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCACATCCATAATTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
31854107 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * **
31854135 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
31854200 CGAGTTCGGATGC
66 CGAGCTCGGATGC
31854213 TCAAACATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:31854228 original size:46 final size:46
Alignment explanation
Indices: 31854037--31854228 Score: 130
Period size: 46 Copynumber: 4.2 Consensus size: 46
31854027 AACCCGCCCA
* ** *
31854037 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTC--ACATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCATACAT-C
*
31854082 ATAATTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATC
1 -TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A--TACATC
* * * * *
31854131 T--CTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGT-ATCCA--
1 TAAGT-GAACTCGGACTCAACTCAACGAGCTC-G-GATGC-TCATACATC
* *
31854176 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAACATC
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCATACATC
*
31854222 TTAGTGA
1 TAAGTGA
31854229 CATGTCACTT
Statistics
Matches: 115, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
43 1 0.01
44 6 0.05
45 3 0.03
46 65 0.57
47 29 0.25
48 2 0.02
49 5 0.04
50 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCATACATC
Found at i:31856623 original size:15 final size:15
Alignment explanation
Indices: 31856594--31856665 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 15
31856584 AAGAAAACTG
*
31856594 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* *
31856609 GATAGAGAAACCCAA
1 AATAAAGAAACCCAA
* *
31856624 AATAAAGAAATCCAG
1 AATAAAGAAACCCAA
* * *
31856639 AATAAAGAGATCCAG
1 AATAAAGAAACCCAA
*
31856654 GATAAAGAAACC
1 AATAAAGAAACC
31856666 TAAGATACGA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.11
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:31859763 original size:46 final size:45
Alignment explanation
Indices: 31859593--31859762 Score: 172
Period size: 47 Copynumber: 3.8 Consensus size: 45
31859583 TGTAACCCGC
* *
31859593 CCATAAGTGAACTC--ACTCAACTCAACGAGCTCGGCGTTCGTA-
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
31859635 CCATAA-TGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
31859680 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
31859727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
31859763 ATGCTCAAAC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 7 0.07
42 9 0.09
43 20 0.19
45 3 0.03
46 29 0.28
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:31859782 original size:46 final size:45
Alignment explanation
Indices: 31859641--31859782 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
31859631 CGTACCATAA
*
31859641 TGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT--
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATC-CTAG
* *** *
31859688 CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-T-AG
31859734 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAACATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-AACATCCTAG
31859780 TGA
1 TGA
31859783 CATGTCACTT
Statistics
Matches: 77, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
42 1 0.01
43 5 0.06
46 36 0.47
47 29 0.38
48 6 0.08
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCTAG
Found at i:31861116 original size:47 final size:48
Alignment explanation
Indices: 31861065--31861192 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 48
31861055 CTGTATTAAC
31861065 TAGAACACATTAAATAAACTTAAGACATATTAAATGGT-TGAA-CTAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAAT-GTCTGAATCTAAT
* * *
31861112 TAGAACACATT-AATTAGCTTAAGACATATT-AATTTCTGAATCTAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAATGTCTGAATCTAAT
* *
31861158 TAGAACATATTAAATAGACTTAAGACATATTAAAT
1 TAGAACACATTAAATAAACTTAAGACATATTAAAT
31861193 ACTTAAACTA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
44 1 0.01
45 7 0.10
46 32 0.46
47 27 0.39
48 3 0.04
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (48 bp):
TAGAACACATTAAATAAACTTAAGACATATTAAATGTCTGAATCTAAT
Found at i:31861198 original size:18 final size:19
Alignment explanation
Indices: 31861162--31861198 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
31861152 TCTAATTAGA
31861162 ACATATTAAATAGACTTAAG
1 ACATATTAAATA-ACTTAAG
31861182 ACATATTAAAT-ACTTAA
1 ACATATTAAATAACTTAA
31861199 ACTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
ACATATTAAATAACTTAAG
Found at i:31862460 original size:30 final size:30
Alignment explanation
Indices: 31862426--31862485 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31862416 ACCCTTTGGC
* *
31862426 ACTCTTGGCAATTTTCTCATTTGCATCCTT
1 ACTCTTGGCAATTTTCTAATTCGCATCCTT
*
31862456 ACTCTTGGCGATTTTCTAATTCGCATCCTT
1 ACTCTTGGCAATTTTCTAATTCGCATCCTT
31862486 TCTTCCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.27, G:0.12, T:0.45
Consensus pattern (30 bp):
ACTCTTGGCAATTTTCTAATTCGCATCCTT
Found at i:31864572 original size:35 final size:35
Alignment explanation
Indices: 31864524--31864618 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
31864514 GGTGTCGCCC
* * * *
31864524 TGAATGACCTATATATCATTTACATGGTGTCAACT
1 TGAAGGACCTATATATCATTTACACGATCTCAACT
* * *
31864559 TGAAGGACTTATATACCATTTACACGATCTCACCT
1 TGAAGGACCTATATATCATTTACACGATCTCAACT
31864594 TGAAGGACCTATATATCATTTACAC
1 TGAAGGACCTATATATCATTTACAC
31864619 AGTGTCCCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (35 bp):
TGAAGGACCTATATATCATTTACACGATCTCAACT
Found at i:31866977 original size:79 final size:82
Alignment explanation
Indices: 31866838--31867022 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 82
31866828 TTCGAATGAT
* * *
31866838 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCAT
31866903 TTGTGCGAGTTACTA-A
66 TTGTGCGAGTTACTATA
* * * **
31866919 ATCCAGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
31866981 TTTGTGCGAGTTACTATA
65 TTTGTGCGAGTTACTATA
*
31866999 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
31867023 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 50 0.55
80 29 0.32
81 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (82 bp):
ATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCAT
TTGTGCGAGTTACTATA
Found at i:31867038 original size:40 final size:40
Alignment explanation
Indices: 31866838--31867024 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
31866828 TTCGAATGAT
* * * *
31866838 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
31866879 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* *
31866919 ATCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
31866958 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
31866999 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
31867025 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 35 0.27
40 65 0.50
41 28 0.22
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:31871867 original size:22 final size:20
Alignment explanation
Indices: 31871829--31871868 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
31871819 TTCCAATGCC
*
31871829 TATAATTATAGTGTAATATA
1 TATAATTATAGTCTAATATA
31871849 TATAACTTAGTAGTCTAATA
1 TATAA-TTA-TAGTCTAATA
31871869 ATTAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (20 bp):
TATAATTATAGTCTAATATA
Done.