Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 176 of 345
Found at i:59970726 original size:27 final size:27
Alignment explanation
Indices: 59970696--59970764 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
59970686 TCTTACAGGA
59970696 GTATTTCAGTAATTTTAAAAATCGAGG
1 GTATTTCAGTAATTTTAAAAATCGAGG
* * **
59970723 GTATTTCAATAATTTTACAGTTCGAGG
1 GTATTTCAGTAATTTTAAAAATCGAGG
*
59970750 GTATTTCAGTCATTT
1 GTATTTCAGTAATTT
59970765 CACAAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTAAAAATCGAGG
Found at i:59970791 original size:27 final size:27
Alignment explanation
Indices: 59970778--59970872 Score: 172
Period size: 27 Copynumber: 3.5 Consensus size: 27
59970768 AAATTAAGGA
59970778 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
* *
59970805 TATTTTGATAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
59970832 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACTAGGGG
59970859 TATTTTGGTAATTT
1 TATTTTGGTAATTT
59970873 GGTAAATTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACTAGGGG
Found at i:59981013 original size:30 final size:30
Alignment explanation
Indices: 59980979--59981039 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59980969 TCCTTAACTC
59980979 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
59981009 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
59981039 A
1 A
59981040 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:59986025 original size:30 final size:30
Alignment explanation
Indices: 59985967--59986027 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59985957 TTCCTAAGCC
*
59985967 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
* * * *
59985997 TAGGGGCAAAATTGTAAGTTTACCAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
59986027 T
1 T
59986028 GAGTTAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATACAAAAGTT
Found at i:59986814 original size:67 final size:68
Alignment explanation
Indices: 59986736--59986882 Score: 151
Period size: 67 Copynumber: 2.2 Consensus size: 68
59986726 CATCATGTGT
* * * *
59986736 ACAAGAAAGCTACAAGACATTATGATGTAGCTAGGTCGCATG-GTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
59986798 TGTAG
64 TGTAG
* ** * *
59986803 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
59986866 GTAG
65 GTAG
59986870 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
59986883 GAGATAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
63 18 0.28
64 9 0.14
65 3 0.05
66 2 0.03
67 33 0.51
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:59986838 original size:63 final size:64
Alignment explanation
Indices: 59986760--59986941 Score: 192
Period size: 63 Copynumber: 2.8 Consensus size: 64
59986750 AGACATTATG
* * * *
59986760 ATGTAGCTAGGTCGCATG-GTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
59986823 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGCGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59986888 AA
63 AA
* * *
59986890 AT-TGGCTAGGTCACATGCGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGCGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAG
59986942 TCGAACTATA
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 36 0.37
64 7 0.07
66 22 0.22
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59989128 original size:30 final size:30
Alignment explanation
Indices: 59989094--59989154 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59989084 TCCTTAACTC
59989094 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
59989124 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
59989154 A
1 A
59989155 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:59990043 original size:50 final size:50
Alignment explanation
Indices: 59989985--59990261 Score: 446
Period size: 50 Copynumber: 5.5 Consensus size: 50
59989975 TCATGGAAAC
* * *
59989985 AAGTGATAAGTGATAGCTTCGGCTATACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
59990035 AACTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
59990085 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
59990135 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAATTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * *
59990185 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * *
59990235 TAAGTGAAAAGTGGTAGCCTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
59990262 CTGATCAGTG
Statistics
Matches: 214, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
50 191 0.89
51 23 0.11
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
Found at i:59990275 original size:31 final size:31
Alignment explanation
Indices: 59990232--59990353 Score: 199
Period size: 31 Copynumber: 3.9 Consensus size: 31
59990222 CAAGGATAAA
* *
59990232 TGATAAGTGAAAAGTGGTAGCCTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
59990263 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* *
59990294 TGATCAGTGAAAAATGGTAGCTTTGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
59990325 TGATCAGTGAATAGTGGTAGCTTCGGCTA
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTA
59990354 AAAGTGACAA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 84 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:60001469 original size:92 final size:92
Alignment explanation
Indices: 60001312--60001498 Score: 347
Period size: 92 Copynumber: 2.0 Consensus size: 92
60001302 ACCAACCATT
* *
60001312 ATCCTCATCTTCCACAACTACTCTGTATAGCCAAATTGGAAGAAGGATATTGCCTTGAAAACCAA
1 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
*
60001377 CTATGGAGATTCCTCTGAACCTTCTCC
66 CCATGGAGATTCCTCTGAACCTTCTCC
60001404 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
1 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
60001469 CCATGGAGATTCCTCTGAACCTTCTCC
66 CCATGGAGATTCCTCTGAACCTTCTCC
60001496 ATC
1 ATC
60001499 TTCAAAGCTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (92 bp):
ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
CCATGGAGATTCCTCTGAACCTTCTCC
Found at i:60001970 original size:24 final size:23
Alignment explanation
Indices: 60001942--60001995 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
60001932 AGATAAATCT
60001942 TAGAATAAATTATTTGAGATATTC
1 TAGAATAAATTATTT-AGATATTC
** *
60001966 TAGAATATTTTATTTTGATATTC
1 TAGAATAAATTATTTAGATATTC
60001989 TAGAATA
1 TAGAATA
60001996 TTTTATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (23 bp):
TAGAATAAATTATTTAGATATTC
Found at i:60001989 original size:23 final size:23
Alignment explanation
Indices: 60001959--60002004 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
60001949 AATTATTTGA
60001959 GATATTCTAGAATATTTTATTTT
1 GATATTCTAGAATATTTTATTTT
60001982 GATATTCTAGAATATTTTATTTT
1 GATATTCTAGAATATTTTATTTT
60002005 ATCTTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
GATATTCTAGAATATTTTATTTT
Found at i:60002055 original size:41 final size:42
Alignment explanation
Indices: 60001994--60002082 Score: 126
Period size: 41 Copynumber: 2.1 Consensus size: 42
60001984 TATTCTAGAA
* * *
60001994 TATTTTATTTTATCTTTTAGTAGTTGATTATAATAAGGGAAT
1 TATTTTATCTTATCTTTTAGTAGTTGATTAGAATAAGGAAAT
* *
60002036 TATTTT-TCTTATCTTTTAGTAGTTTATTAGAATAATGAAAT
1 TATTTTATCTTATCTTTTAGTAGTTGATTAGAATAAGGAAAT
60002077 TATTTT
1 TATTTT
60002083 CCCAATTAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 36 0.86
42 6 0.14
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.55
Consensus pattern (42 bp):
TATTTTATCTTATCTTTTAGTAGTTGATTAGAATAAGGAAAT
Found at i:60007153 original size:30 final size:30
Alignment explanation
Indices: 60007119--60007178 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60007109 ATTTAATACG
*
60007119 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTACCCCTA
* *
60007149 AACTTTTACATAATTACACTTTTACCCCTA
1 AACTTTGACAAAATTACACTTTTACCCCTA
60007179 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTACCCCTA
Found at i:60014050 original size:46 final size:45
Alignment explanation
Indices: 60013983--60014152 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
60013973 AACCCGCCCC
* *
60013983 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
* * * *
60014029 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA
* * *
60014075 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
60014121 TAAGTGAACTCGGACTCAACTCAACGA-TTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
60014153 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 1 0.01
45 9 0.09
46 87 0.84
47 4 0.04
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCA
Found at i:60014100 original size:92 final size:91
Alignment explanation
Indices: 60013988--60014156 Score: 293
Period size: 92 Copynumber: 1.8 Consensus size: 91
60013978 GCCCCTAAGT
* *
60013988 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60014053 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGA-TTCGGATGCCTAGTTACATTCAC
* *
60014080 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60014145 CGATTCGGATGC
66 CGATTCGGATGC
60014157 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 9 0.12
92 64 0.88
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGATTCGGATGCCTAGTTACATTCAC
Found at i:60015918 original size:19 final size:19
Alignment explanation
Indices: 60015894--60015934 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
60015884 TATTTTAAAG
60015894 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
60015913 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
60015932 TTA
1 TTA
60015935 GAATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:60016003 original size:41 final size:41
Alignment explanation
Indices: 60015971--60016052 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
60015961 ATATTTTATT
60015971 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
*
60016012 TTATCTTTTAGTAGTTTATTAGAATAAG-GAAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGAG-AATTATTTTCC
60016053 CAATTAGGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
Found at i:60018161 original size:12 final size:12
Alignment explanation
Indices: 60018126--60018167 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
60018116 GAACCTTAGG
60018126 AATAGATTGAGA
1 AATAGATTGAGA
* *
60018138 TATGAAATTGAGA
1 AAT-AGATTGAGA
60018151 AATAGATTGAGA
1 AATAGATTGAGA
60018163 AATAG
1 AATAG
60018168 CTACATCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (12 bp):
AATAGATTGAGA
Found at i:60031522 original size:42 final size:43
Alignment explanation
Indices: 60031476--60031647 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
60031466 ACATAGGATT
*
60031476 TCGATATGTG-TTATCGTGTAAGA-CATGTCTGGGACATTGGCA
1 TCGATATGTGATT-TCATGTAAGACCATGTCTGGGACATTGGCA
* * * * **
60031518 TCGATTTGAGATTTACATGGAAGATCATGTCTGGGACATCAGCA
1 TCGATATGTGATTT-CATGTAAGACCATGTCTGGGACATTGGCA
* * ** * *
60031562 TCG-TATTTGATTTCGTAAAAGACCCTGTCTGGGACAGTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* * * **
60031604 TCGATATTTGATTACATGTAAGACCAAGTCTGGGATGTTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
60031647 T
1 T
60031648 TGTACGAGAT
Statistics
Matches: 100, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
42 33 0.33
43 47 0.47
44 20 0.20
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
Found at i:60033867 original size:21 final size:21
Alignment explanation
Indices: 60033841--60033884 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
60033831 GTACCAAATA
60033841 CCATACCATTTCACACCAATT
1 CCATACCATTTCACACCAATT
**
60033862 CCATACCATTTCGTACCAATT
1 CCATACCATTTCACACCAATT
60033883 CC
1 CC
60033885 CAAATACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCACACCAATT
Found at i:60042838 original size:48 final size:48
Alignment explanation
Indices: 60042780--60043690 Score: 1615
Period size: 48 Copynumber: 18.9 Consensus size: 48
60042770 ATTTACACAC
*
60042780 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60042828 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60042876 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60042924 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
60042972 ATCTTATACATATTTCACACTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
60043020 ATCTCATTCATATTTCGCACTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60043068 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60043116 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60043164 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60043212 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60043260 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
60043308 ATCTCATTCATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60043356 ATCTCATAGATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
60043404 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60043452 ATCTCATACATATTTCACATTAGCCATTCGGCTTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCA------TTCGGCTTTACCACATATACAT
*
60043506 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60043554 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60043602 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
60043650 ATCTCATACATATTTCACATTAGCCATTCGGCTTTATCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
60043691 CACATATATA
Statistics
Matches: 833, Mismatches: 24, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
48 786 0.94
54 47 0.06
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:60047055 original size:40 final size:40
Alignment explanation
Indices: 60047000--60047316 Score: 535
Period size: 40 Copynumber: 7.9 Consensus size: 40
60046990 ATGCACATCG
* * *
60047000 CCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
60047040 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
60047080 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
60047120 CCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
60047160 CCAGCACGGATGCTCTTCGGGACTTAGCCCAGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
60047200 TCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
60047240 TCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
60047280 CCAGCACAAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
60047317 TAACTCTCAA
Statistics
Matches: 262, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 262 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:60048627 original size:37 final size:37
Alignment explanation
Indices: 60048574--60048676 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
60048564 CGAATAGTCC
*
60048574 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
60048611 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
60048648 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
60048677 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:60048875 original size:48 final size:48
Alignment explanation
Indices: 60048817--60049662 Score: 1516
Period size: 48 Copynumber: 17.9 Consensus size: 48
60048807 ATATACACAC
*
60048817 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
60048865 ATCTCATACATATTTCACACTAGCCAGTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60048913 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60048961 ATCTCATTCATATTTCACACTAGCCATT-GGCTTTACCAC--ATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049006 ATCTCAT-CATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049053 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60049101 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60049149 ATCTCATACATATTTCACACTAGCCATTCGGCTTCACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049197 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049245 ATCTCAT-CATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049292 ATCTCAT-CATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60049339 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049387 ATCTCAT--ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049433 ATCTCATACATATTT--CACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60049479 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049527 ATCTCATACATATTTCACACTAGCCATTC-GCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049574 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
60049622 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
60049663 CACTATATAT
Statistics
Matches: 774, Mismatches: 14, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
44 20 0.03
45 24 0.03
46 92 0.12
47 165 0.21
48 473 0.61
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:60049142 original size:188 final size:191
Alignment explanation
Indices: 60048817--60049662 Score: 1505
Period size: 188 Copynumber: 4.5 Consensus size: 191
60048807 ATATACACAC
*
60048817 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
60048882 CACTAGCCAGTCGACTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
*
60048947 TACCACATATACATATCTCATTCATATTTCACACTAGCCATT-GGCTTTACCAC-ATACAT
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACAATACAT
60049006 ATCTCAT-CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
60049070 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
*
60049135 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTCACCACATATACAT
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA-ATACAT
60049197 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-CATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
60049261 CACTAGCCATTCGGCTTTACCACATATACATATCTCA-TCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
*
60049325 TACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA-ATACAT
60049387 ATCTCAT--ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT--
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
60049448 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
60049513 TACCACATATACATATCTCATACATATTTCACACTAGCCATTC-GCTTTACCACATATACAT
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA-ATACAT
*
60049574 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
60049639 CATTAGCCATTCGGCTTTACCACA
66 CACTAGCCATTCGGCTTTACCACA
60049663 CACTATATAT
Statistics
Matches: 635, Mismatches: 12, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
187 62 0.10
188 274 0.43
189 76 0.12
190 94 0.15
191 82 0.13
192 47 0.07
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (191 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACAATACAT
Found at i:60049400 original size:236 final size:238
Alignment explanation
Indices: 60048817--60049662 Score: 1510
Period size: 236 Copynumber: 3.6 Consensus size: 238
60048807 ATATACACAC
*
60048817 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
60048882 CACTAGCCAGTCGACTTTACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCA-TCATATTTCACACTAGCCATTCGGCTT
*
60048947 TACCACATATACATATCTCATTCATATTTCACACTAGCCATT-GGCTTTACCAC--ATACATATC
130 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
60049009 TCATCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
195 TCATCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60049053 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
60049118 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCAT-CATATTTCACACTAGCCATTCGGCTT
*
60049183 CACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
130 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
60049248 TCATCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
195 TCATCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
60049292 ATCTCAT-CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
60049356 CACTAGCCATTCGGCTTTACCACATATACATATCTCAT-ATATTTCACACTAGCCATTCGGCTTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATCATATTTCACACTAGCCATTCGGCTTT
60049420 ACCACATATACATATCTCATACATATTT--CACTAGCCATTCGGCTTTACCACATATACATATCT
131 ACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
*
60049483 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
196 CAT-CATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
60049527 ATCTCATACATATTTCACACTAGCCATTC-GCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
60049591 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCAT-CATATTTCACACTAGCCATTCGGCTT
60049656 TACCACA
130 TACCACA
60049663 CACTATATAT
Statistics
Matches: 592, Mismatches: 10, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
234 38 0.06
235 119 0.20
236 238 0.40
237 42 0.07
238 95 0.16
239 60 0.10
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (238 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATCATATTTCACACTAGCCATTCGGCTTT
ACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
CATCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:60053663 original size:38 final size:38
Alignment explanation
Indices: 60053619--60053756 Score: 165
Period size: 38 Copynumber: 3.6 Consensus size: 38
60053609 CTAAGATCCA
*
60053619 AAGGCATTTGTGCGAGATACTAATTCAGGCTAAGCCCG
1 AAGGCATTTGTGCGAGTTACTAATTCAGGCTAAGCCCG
* * * *
60053657 AAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACT-AATTCAGGCTAAG-CCCG
* *
60053697 AAGGCATTTGTGCGAGTTACT-A-TAAGGGCTAAGTCCG
1 AAGGCATTTGTGCGAGTTACTAATTCA-GGCTAAGCCCG
60053734 -AGGCATTTGTGCGAGTTACTAAT
1 AAGGCATTTGTGCGAGTTACTAAT
60053757 AACCGGGCTA
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
36 20 0.24
37 4 0.05
38 26 0.31
39 10 0.12
40 24 0.29
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (38 bp):
AAGGCATTTGTGCGAGTTACTAATTCAGGCTAAGCCCG
Found at i:60053710 original size:40 final size:40
Alignment explanation
Indices: 60053565--60053782 Score: 199
Period size: 40 Copynumber: 5.7 Consensus size: 40
60053555 TTGAATGATG
* * * *
60053565 TCCGGGCTAAGT-CCGAA-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60053603 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
60053642 TTCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60053681 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
60053722 ---GGGCTAAGT-CCG-AGGCATTTGTGCGAGTTACTAATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
60053758 ACCGGGCTATGTCCC-AAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60053783 AACGAGTAGC
Statistics
Matches: 148, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
35 1 0.01
36 22 0.15
37 3 0.02
38 39 0.26
39 32 0.22
40 42 0.28
41 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60053777 original size:76 final size:78
Alignment explanation
Indices: 60053619--60053782 Score: 219
Period size: 76 Copynumber: 2.1 Consensus size: 78
60053609 CTAAGATCCA
* *
60053619 AAGGCATTTGTGCGAGATACTAATTCAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 AAGGCATTTGTGCGAGATACTAATTAAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAACC
*
60053684 GGGTTAAGTCCCG
66 GGGCTAAGTCCCG
* * *
60053697 AAGGCATTTGTGCGAGTTACT-A-TAAGGGCTAAGTCCG-AGGCATTTGTGCGAGTTACTAATAA
1 AAGGCATTTGTGCGAGATACTAATTAA-GGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA-AA
*
60053759 CCGGGCTATGTCCC-
64 CCGGGCTAAGTCCCG
60053773 AAGGCATTTG
1 AAGGCATTTG
60053783 AACGAGTAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
76 33 0.43
77 24 0.31
78 20 0.26
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (78 bp):
AAGGCATTTGTGCGAGATACTAATTAAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAACC
GGGCTAAGTCCCG
Found at i:60059914 original size:27 final size:27
Alignment explanation
Indices: 60059875--60060079 Score: 229
Period size: 27 Copynumber: 7.7 Consensus size: 27
60059865 CCCTAATTGA
*
60059875 TAAAATGATTGTTTTGCCTTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
60059902 TAAAATGACTGTTTTGTCC-TTATGTGG
1 TAAAATGACTGTTTTG-CCTTTATGTGG
* * *
60059929 TAAAATGGCTATTTTGCCTCTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* * *
60059956 TAAAATGACTATTTTACCCTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* **
60059983 TAAAATGATTGTTTTTTCTTTATGTGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
* *
60060010 TAAAATGACTATTTTGTCC-TTATATGG
1 TAAAATGACTGTTTTG-CCTTTATGTGG
* * *
60060037 TAGAATGACTG-TTTGCCCTTA-ATGG
1 TAAAATGACTGTTTTGCCTTTATGTGG
60060062 TAAAATGACTGTTTTGCC
1 TAAAATGACTGTTTTGCC
60060080 CCTATGTGAG
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.11
26 15 0.10
27 118 0.78
28 3 0.02
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.44
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCTTTATGTGG
Found at i:60060010 original size:81 final size:80
Alignment explanation
Indices: 60059875--60060087 Score: 268
Period size: 81 Copynumber: 2.6 Consensus size: 80
60059865 CCCTAATTGA
* * *
60059875 TAAAATGATTGTTTTGCCTTTATGTGGTAAAATGACTGTTTTGTCCTTATGTGGTAAAATGGCTA
1 TAAAATGACT-TTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTGGTAAAATGACTA
*
60059940 TTTTG-CCTCTATGTGG
65 TTTTGTCCT-TATATGG
* * * *
60059956 TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTTTCTTTATGTGGTAAAATGACTA
1 TAAAATGACT-TTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTGGTAAAATGACTA
60060021 TTTTGTCCTTATATGG
65 TTTTGTCCTTATATGG
* * * * *
60060037 TAGAATGACTGTTTGCCCTTA-ATGGTAAAATGACTGTTTTGCCCCTATGTG
1 TAAAATGACTTTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTG
60060088 AGTATATATA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 24 0.21
80 9 0.08
81 77 0.68
82 3 0.03
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (80 bp):
TAAAATGACTTTTTGCCCTTATGTGGTAAAATGACTGTTTTGTCCTTATGTGGTAAAATGACTAT
TTTGTCCTTATATGG
Found at i:60065206 original size:30 final size:30
Alignment explanation
Indices: 60065111--60065207 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
60065101 AGCTCACTCC
* *
60065111 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
60065141 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
* *
60065171 CAGCTCAACTTTAGCTCACTAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
60065201 TAGCTCA
1 TAGCTCA
60065208 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.82
31 7 0.14
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:60070374 original size:641 final size:641
Alignment explanation
Indices: 60066110--60072511 Score: 11498
Period size: 640 Copynumber: 10.0 Consensus size: 641
60066100 TTATTGTGTG
60066110 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
60066175 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
60066240 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
*
60066305 TGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTAT-ATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
60066369 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60066434 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
* *
60066499 AATAGCTTCCACATAATTTATTTAGAAACATTTTTTTGAACAAACCAAATGATACTTTCTCGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
* *
60066564 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCTGTTCGTATCATTTGGTATCAGA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
* * *
60066629 GCTTGTAAATCAAGAGGC-ACTGACATTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAT
521 GCTTGTAAATCGAGAGGCGTC-GACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAA-
60066693 TTTGAATTAAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
584 TTTGAATT-AAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
*
60066752 AACACCTAGATACCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
*
60066817 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTATGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
60066882 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
*
60066947 CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
60067012 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60067077 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
*
60067142 AATAGCTTCCGCATAATTTATTTAGAAA-TTTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
* *
60067206 ACAATCGGGTAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
*
60067271 GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCG-AATAAGGTTCGTAATTAAAAAAAT
521 GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAAT-AGGTTCGTAGTTAAAAAAAT
*
60067335 TTGAATTAAAAAAAATTCAAGTTGTAATTTCCGTTCTCTCTCTTGTAATAGTGATAT
585 TTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
*
60067392 AACACCTAGATGCCGAATTTGAATGGTCATCTATATGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
60067457 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
*
60067522 GTTTGAGATTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
* *
60067587 CGAGGTTCCTACTTTATTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCACCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
* *
60067652 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTACTTACTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60067717 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
* *
60067782 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCGAACGATACTTTCTTGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
60067847 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
* * *
60067912 GCTTGTAAATCGAGAGGCGCCGGCGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAAT
521 GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAATT
* *
60067977 TAAATT-AAAAAAATTCAAGTTGTAATTTTCGTTTTCTCTCTTGTAATAGTGATAT
586 TGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
*
60068032 AACACCTAAATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
* *
60068097 TAAGAAAATTTTTGCCAAAATTTTTATTGAATTTAATCTTGTTAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
* *
60068162 GTTTGAGACTTTGTTGACTTATCTACCTAGTAGTGGCGTCAACCCTATTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
*
60068227 CGAGGTTCCTACTTTGTTAAGTAGTGGATCGAGGTTCTATCATTTTCATTTTCG-C-------CC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
60068284 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60068349 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
*
60068414 AATATCTTCCGCATAATTTATTTAGAAACATTTTTTTTGAACAAACCAAACGATACTTTCTCGTA
391 AATAGCTTCCGCATAATTTATTTAGAAACA-TTTTTTTGAACAAACCAAACGATACTTTCTCGTA
* *
60068479 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGTGGCTCGCATCATTTGGTATCAG
455 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
*
60068544 AGCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCG-AATAAGGTTCGTAGTTAAAAAAT
520 AGCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAAT-AGGTTCGTAGTTAAAAAAA
*
60068608 TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGAAAT
584 TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
*
60068666 AACACCTAGATGCCGAATTTGAATGGTCATCTATATGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
60068731 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
60068796 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
* *
60068861 CGAGGTTCCTACTTTATTAAGTAGTGGGTTGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
*
60068926 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTACTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60068991 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
* *
60069056 AATAGCTTTCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCGAACGATACTTTCTCGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
*
60069121 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCGCGAGGCGGTTCGCATCATTTGGTATCAGA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
* * *
60069186 GCTTGTAAATCGAGAGGCGCCGGCGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAAT
521 GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAATT
* *
60069251 TAAATT-AAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTATAATAGTGATAT
586 TGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
*
60069306 AACACCTAAATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
*
60069371 TAAGAAAATTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
* * *
60069436 GTTTGAGACTTTGTTGACTTATCTACCAAGTAGTGGCGTCAACCCTATTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
* * * *
60069501 CGTGGTTCCTACTTTGTCAAGCAGTGGATCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
60069566 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60069631 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
60069696 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTTGAACAAACCAAACGATACTTTCTCGTA
391 AATAGCTTCCGCATAATTTATTTAGAAACA-TTTTTTTGAACAAACCAAACGATACTTTCTCGTA
* *
60069761 GACAATCGTGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
455 GACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAG
*
60069826 AGCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCG-AATAAGGTTCGTAGTTAAAAAAT
520 AGCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAAT-AGGTTCGTAGTTAAAAAAA
60069890 TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
584 TTTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
* * *
60069948 AACACCTAGATCCCGAATTTGAATGGTCATCTATATGCCTATAAGTATTTGTTTTCTATCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
60070013 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
60070078 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
* * *
60070143 CGAGGTTCCTACTTTATTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTAGCCTTGAAAGTC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
*
60070208 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTACTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60070273 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
* * *
60070338 AATAGCTTCCGCATAATTTATTTAGAAATATTTTTTTGAACAAACCGAACGATACTTTCTTGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
* *
60070403 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTTGCATCATTTGGTATTAGA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
* * * *
60070468 GCTTGTAAATCGAG-GGCGCCGGCGTTCGTAACAAGATTGAAATTGGTTCGTAGTTAAAAAAATT
521 GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAA-T
* * *
60070532 TTAAATTAAAAAAAGTTCAAGTTGAAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
585 TTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
*
60070589 AACACCTAAATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
*
60070654 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTGATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
* * *
60070719 GTTTGAGACTTTGTTGACTTATCTACCTAATAGTGGCGTCAACCCTATTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
* * *
60070784 CGAGGTTCCTACTTTGTTAAGTAATGGATCGAGGTTCTATCATTTTCATTTTCACCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
60070849 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60070914 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
*
60070979 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTTAACAAACCAAACGATACTTTCTCGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
*
60071044 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCACATCATTTGGTATCAGA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
* * * *
60071109 GGTTGTAAATCGAGAGGCG-CTGATGTTCGTAACAAGTTTGAAATAGGTTCGTAGTTAAAAAAAT
521 GCTTGTAAATCGAGAGGCGTC-GACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAT
* *
60071173 TTGAATTAAAAAAAATTCGAGTTGTAATTTTCGTTCTCTCTTTTGTAATAGTGATAT
585 TTGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
60071230 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
*
60071295 TAAGAAACTTTTTGCCAAAATTTTTATTCAATTT-ATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
60071359 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
*
60071424 CGAAGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
60071489 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60071554 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
*
60071619 AATAGCTTCCACATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
* * *
60071684 ATGATCGGGCAAACTCGCACACGACTCGACTCTCCCCGAGGCGGTTCGTATCATTTGGTATCAGA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
60071749 GCTTGTAAATCGAGAGGCG-CTGACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAAA
521 GCTTGTAAATCGAGAGGCGTC-GACGTTCGTAACAAGATCGAAATAGGTTCGTAGTT-AAAAAAA
60071813 TTTGAATTAAGAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
584 TTTGAATTAA-AAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
60071872 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
1 AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
*
60071937 TAAGAAACTTTTTGCCAAAATTTTTATTCAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
66 TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
60072002 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
131 GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
*
60072067 CGAGGTTCCTACTTTCTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
196 CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
60072132 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
261 TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
60072197 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
326 TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
* * *
60072262 AATAGCTTCCGCATAATTTATGTAGAAATATTTTTTTGAACAAACCGAACGATACTTTCTCGTAG
391 AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
* * *
60072327 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCTGAGGCGGTTCGCATCATTTGATATCAAA
456 ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
*
60072392 GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCAAAATAGGTTCGTAGTTAAAAAAATT
521 GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAATT
60072457 TGAATTAAAAAAAAATTCAAGTTGTAATTTTCG-T-TCTCTCTTGTAATAGTGATAT
586 TGAATT-AAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
60072512 TGTGAAGTAT
Statistics
Matches: 5526, Mismatches: 205, Indels: 60
0.95 0.04 0.01
Matches are distributed among these distances:
632 162 0.03
633 158 0.03
634 287 0.05
635 1 0.00
639 1 0.00
640 1719 0.31
641 1331 0.24
642 1221 0.22
643 645 0.12
644 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (641 bp):
AACACCTAGATGCCGAATTTGAATGGTCATCTATGTGCCTATAAGTATTTGTTTTCTTTCAATTG
TAAGAAACTTTTTGCCAAAATTTTTATTGAATTTAATCTTGTGAGAATTTTTTTCTCTAAACTTT
GTTTGAGACTTTGCTGACTTATCTACCTAGTAGTGGCGTCAACCCTGTTTCGTTCACCCATATAC
CGAGGTTCCTACTTTGTTAAGTAGTGGGTCGAGGTTCTATCATTTTCATTTTCGCCTTGAAAGCC
TATAAGCATTTGGGTCGATATTTTCTAATATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCA
TTCTTTCATTTACTTTAAACTGAACCTTAATATTCATATTTTAAACCCTTCATTTGAACCCCTTG
AATAGCTTCCGCATAATTTATTTAGAAACATTTTTTTGAACAAACCAAACGATACTTTCTCGTAG
ACGATCGGGCAAACTCGCATACGACTCGACTCTCCCCGAGGCGGTTCGCATCATTTGGTATCAGA
GCTTGTAAATCGAGAGGCGTCGACGTTCGTAACAAGATCGAAATAGGTTCGTAGTTAAAAAAATT
TGAATTAAAAAAAATTCAAGTTGTAATTTTCGTTCTCTCTCTTGTAATAGTGATAT
Found at i:60073447 original size:6 final size:5
Alignment explanation
Indices: 60073423--60073485 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 5
60073413 AAGAGAAAAC
60073423 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAG- -AAGA AAATGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAA-GA AAA-GA
60073471 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
60073486 GAGGCAAGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 20 0.39
6 26 0.51
7 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:60073565 original size:11 final size:12
Alignment explanation
Indices: 60073533--60073563 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
60073523 TTGAGAGAAC
60073533 TTGAAAAAGCCT
1 TTGAAAAAGCCT
60073545 TTGAAAAAGCCT
1 TTGAAAAAGCCT
60073557 TTGAAAA
1 TTGAAAA
60073564 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:60073574 original size:12 final size:12
Alignment explanation
Indices: 60073566--60073590 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60073556 TTTGAAAAGC
60073566 AAAAAGAAAATG
1 AAAAAGAAAATG
60073578 AAAAAGAAAATG
1 AAAAAGAAAATG
60073590 A
1 A
60073591 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:60073587 original size:18 final size:18
Alignment explanation
Indices: 60073560--60073615 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
60073550 AAAGCCTTTG
60073560 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
60073579 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
60073597 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
60073614 AA
1 AA
60073616 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:60073600 original size:30 final size:31
Alignment explanation
Indices: 60073566--60073647 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
60073556 TTTGAAAAGC
*
60073566 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
60073596 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
60073626 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
60073648 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:60077458 original size:45 final size:45
Alignment explanation
Indices: 60077394--60077663 Score: 425
Period size: 45 Copynumber: 6.0 Consensus size: 45
60077384 ATTATCGTAC
*
60077394 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
60077439 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
60077484 GACACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
60077529 GACACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * *
60077574 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCTGTAA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
60077619 GATACTATTCGGG-CTTTCAAGCCTAGCAGGCTATAATGTCGGTGA
1 GACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
60077664 AAGGATATCG
Statistics
Matches: 211, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 4 0.02
45 207 0.98
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:60078878 original size:17 final size:18
Alignment explanation
Indices: 60078856--60078889 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60078846 CACATTGAAG
60078856 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
60078873 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
60078890 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:60080150 original size:28 final size:28
Alignment explanation
Indices: 60080103--60080177 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
60080093 TGGCCCATTT
*
60080103 AGGCCCAATCTCATTCATATAGCCCATC
1 AGGCCCAATCACATTCATATAGCCCATC
* * * **
60080131 AGGCCCAATCACTTTTATATGGCCTGTC
1 AGGCCCAATCACATTCATATAGCCCATC
60080159 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
60080178 ATCATGCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATAGCCCATC
Found at i:60086291 original size:24 final size:23
Alignment explanation
Indices: 60086237--60086314 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
60086227 GGATAATTAA
**
60086237 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
60086260 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
60086284 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
60086305 GAAATAGTAT
1 GAAATGGTAT
60086315 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:60086299 original size:21 final size:21
Alignment explanation
Indices: 60086273--60086339 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
60086263 TTGGTATTTG
60086273 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
60086294 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
60086315 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
60086338 GG
1 GG
60086340 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:60090606 original size:17 final size:17
Alignment explanation
Indices: 60090581--60090635 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
60090571 TCTCTTTTCA
*
60090581 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
* *
60090598 TTCTTTTTTTTATCATTT
1 TTCTTTTTTTT-TGAATT
* *
60090616 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
60090633 TTC
1 TTC
60090636 GGTCTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.75
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:60092872 original size:13 final size:13
Alignment explanation
Indices: 60092854--60092889 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
60092844 GTATGCAACT
60092854 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
60092867 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
60092880 TTTTTTTTTT
1 TTTTTTTTTT
60092890 TTACGTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:60093208 original size:24 final size:23
Alignment explanation
Indices: 60093154--60093231 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
60093144 GGATAATTAA
**
60093154 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
60093177 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
60093201 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
60093222 GAAATAGTAT
1 GAAATGGTAT
60093232 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:60093216 original size:21 final size:21
Alignment explanation
Indices: 60093190--60093256 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
60093180 TTGGTATTTG
60093190 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
60093211 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
60093232 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
60093255 GG
1 GG
60093257 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:60095168 original size:47 final size:47
Alignment explanation
Indices: 60095102--60095387 Score: 482
Period size: 47 Copynumber: 6.1 Consensus size: 47
60095092 GAAATGATAG
60095102 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60095149 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60095196 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60095243 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60095290 TAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
60095337 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60095384 TAAG
1 TAAG
60095388 TCCCGAAGGG
Statistics
Matches: 225, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 225 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:60095561 original size:37 final size:37
Alignment explanation
Indices: 60095505--60095583 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60095495 TCCGAGCTTA
* * *
60095505 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60095542 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60095579 AAGAC
1 AAGAC
60095584 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60097160 original size:40 final size:40
Alignment explanation
Indices: 60096797--60097142 Score: 568
Period size: 40 Copynumber: 8.7 Consensus size: 40
60096787 GAGAATTGAG
60096797 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
60096837 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
60096877 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
60096917 AGTGATATATCCGGGCTAAGTCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
60096957 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
60096997 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
60097037 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
60097077 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* * *
60097117 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
60097143 AGAGTAATCA
Statistics
Matches: 286, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 283 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:60100697 original size:47 final size:47
Alignment explanation
Indices: 60100538--60101149 Score: 1131
Period size: 47 Copynumber: 13.1 Consensus size: 47
60100528 GAAATGATAG
60100538 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100585 TAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATA-ATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100629 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100676 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100723 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100770 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100817 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100864 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100911 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60100958 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60101005 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60101052 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
60101099 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60101146 TAAG
1 TAAG
60101150 TCCCGAAGGG
Statistics
Matches: 552, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
44 16 0.03
45 28 0.05
46 28 0.05
47 480 0.87
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:60101324 original size:37 final size:37
Alignment explanation
Indices: 60101268--60101346 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60101258 CCGAGCTCTA
* * *
60101268 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60101305 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60101342 AAGAC
1 AAGAC
60101347 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60106719 original size:56 final size:55
Alignment explanation
Indices: 60106603--60106720 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
60106593 TGCATGCTTT
* * * *
60106603 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
60106657 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
60106713 CATTAAAT
1 CATTAAAT
60106721 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:60107369 original size:20 final size:20
Alignment explanation
Indices: 60107344--60107398 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
60107334 ACGAGTTAAA
*
60107344 TTGAGCTTGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
*
60107364 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
60107384 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
60107399 TTGAACCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:60108468 original size:88 final size:85
Alignment explanation
Indices: 60108342--60108532 Score: 233
Period size: 88 Copynumber: 2.2 Consensus size: 85
60108332 ACACCTCTTT
* * *
60108342 TTTTATTTTTTTTTTGAATTTTTATATACTTTTTTTAT-AACTACTAAAA-ATGATAATTACAAT
1 TTTT-TTTTTTTTTT-AATTTTTATATACTTTTTTTATAAACAACTAAAATAAGA-AA-AACAAT
* *
60108405 ACAATACTTGAATTTCATGAAGTAA
62 ACAATACTTAAATTTCAAGAAG-AA
* *
60108430 TTTTTTTTTATTTTTATTTTTGTATATACTTTTTTTATAAACAACTAAAATAAGAAAAACAATAT
1 TTTTTTTTT-TTTTTAATTTT-TATATACTTTTTTTATAAACAACTAAAATAAGAAAAACAATAC
60108495 AATACTTAAATTTCAAGAAGAA
64 AATACTTAAATTTCAAGAAGAA
60108517 TTTTTTTCTTTTTTTA
1 TTTTTTT-TTTTTTTA
60108533 CTCTTTTTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
87 25 0.27
88 51 0.56
89 12 0.13
90 3 0.03
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (85 bp):
TTTTTTTTTTTTTTAATTTTTATATACTTTTTTTATAAACAACTAAAATAAGAAAAACAATACAA
TACTTAAATTTCAAGAAGAA
Found at i:60116206 original size:20 final size:19
Alignment explanation
Indices: 60116183--60116247 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
60116173 AAGCTCAAAC
60116183 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
60116203 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
60116223 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
60116243 GAGCT
1 GAGCT
60116248 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:60129137 original size:21 final size:21
Alignment explanation
Indices: 60129111--60129152 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60129101 TTATGCAGAG
60129111 ATAGTATTTTAGAGTTTTTGT
1 ATAGTATTTTAGAGTTTTTGT
60129132 ATAGTATTTTAGAGTTTTTGT
1 ATAGTATTTTAGAGTTTTTGT
60129153 TCTTTACAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (21 bp):
ATAGTATTTTAGAGTTTTTGT
Found at i:60135417 original size:22 final size:22
Alignment explanation
Indices: 60135392--60135443 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
60135382 TTGAGAGTGA
*
60135392 AAAAGAAATT-GAAGAAAGAAAG
1 AAAAGAAATTAGAA-AAAGAAAC
60135414 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
60135436 AAAAGAAA
1 AAAAGAAA
60135444 AAGACGTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
22 21 0.81
23 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:60138295 original size:22 final size:20
Alignment explanation
Indices: 60138263--60138311 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
60138253 GCCGAATTTA
60138263 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
60138286 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
60138306 TGAACA
1 TGAACA
60138312 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:60140297 original size:19 final size:18
Alignment explanation
Indices: 60140260--60140303 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
60140250 ATACATACAG
60140260 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
60140277 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
60140296 TACTAATT
1 TAATAATT
60140304 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:60142898 original size:29 final size:29
Alignment explanation
Indices: 60142832--60142888 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
60142822 GATTCAAAGA
*
60142832 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
60142861 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
60142889 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:60143899 original size:13 final size:14
Alignment explanation
Indices: 60143866--60143910 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60143856 TTAAAGAAGC
60143866 AACTCATCAAATTA
1 AACTCATCAAATTA
*
60143880 AATTCATCAAA-TA
1 AACTCATCAAATTA
**
60143893 AACTCATTTAATTA
1 AACTCATCAAATTA
60143907 AACT
1 AACT
60143911 AAGATGAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (14 bp):
AACTCATCAAATTA
Found at i:60147407 original size:18 final size:18
Alignment explanation
Indices: 60147386--60147435 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
60147376 AAACTCTTTT
60147386 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
60147404 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
60147422 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
60147436 TTTGTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:60147436 original size:24 final size:24
Alignment explanation
Indices: 60147361--60147438 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
60147351 CTTGTTCACA
*
60147361 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
* * * *
60147385 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTCTCTCTCTCAATCTCTTT
* *
60147409 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTCTCTCTCAATCTCTTT
60147433 TTCTTT
1 TTCTTT
60147439 GTCTTTCATT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (24 bp):
TTCTTTCTCTCTCTCAATCTCTTT
Found at i:60148388 original size:27 final size:28
Alignment explanation
Indices: 60148344--60148406 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
60148334 TTAATTGAGT
* *
60148344 TATTTTTACATGTCATTAGTTTGTCTTA
1 TATTTTTACATGTCATTAATATGTCTTA
* *
60148372 -ATTTTTACA-GCTTATTAATATGTTTTA
1 TATTTTTACATG-TCATTAATATGTCTTA
60148399 TATTTTTA
1 TATTTTTA
60148407 ATGAGTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.03
27 21 0.72
28 7 0.24
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (28 bp):
TATTTTTACATGTCATTAATATGTCTTA
Found at i:60149420 original size:22 final size:22
Alignment explanation
Indices: 60149392--60149435 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
60149382 TTTTGAACCA
60149392 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
60149414 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
60149436 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:60149765 original size:13 final size:15
Alignment explanation
Indices: 60149734--60149770 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
60149724 ATAGGTACGT
60149734 AAAAAAAAAGAGTTC
1 AAAAAAAAAGAGTTC
*
60149749 AAAAAAAAA-A-TTG
1 AAAAAAAAAGAGTTC
60149762 AAAAAAAAA
1 AAAAAAAAA
60149771 TTGCATACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (15 bp):
AAAAAAAAAGAGTTC
Found at i:60154861 original size:23 final size:24
Alignment explanation
Indices: 60154817--60154886 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 24
60154807 TTCACATTCT
*
60154817 TTCTCTCTCTCAAACTCTTTTTCA
1 TTCTCTCTCTCAAACTCATTTTCA
* * *
60154841 TTCTCT-TTTCAATCTCATTTTCT
1 TTCTCTCTCTCAAACTCATTTTCA
* * * *
60154864 TTTTCACTCTCAATCTCTTTTTC
1 TTCTCTCTCTCAAACTCATTTTC
60154887 TTTGTCTTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.56
Consensus pattern (24 bp):
TTCTCTCTCTCAAACTCATTTTCA
Found at i:60154869 original size:18 final size:18
Alignment explanation
Indices: 60154841--60154886 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
60154831 CTCTTTTTCA
*
60154841 TTCTCTTTTCAATCTCATT
1 TTCT-TTTTCAATCTCAAT
*
60154860 TTCTTTTTCACTCTCAAT
1 TTCTTTTTCAATCTCAAT
*
60154878 CTCTTTTTC
1 TTCTTTTTC
60154887 TTTGTCTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCTTTTTCAATCTCAAT
Found at i:60157845 original size:14 final size:14
Alignment explanation
Indices: 60157803--60157847 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60157793 TTAAAGAAGC
60157803 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
60157817 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
60157830 AACTCATTTAATTA
1 AACTCATTAAATTA
60157844 AACT
1 AACT
60157848 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:60160344 original size:18 final size:17
Alignment explanation
Indices: 60160320--60160365 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
60160310 AAACTCTTTT
60160320 TCATTCTCTTTTCAATC
1 TCATTCTCTTTTCAATC
*
60160337 TCATT-TCTTTTTCACTC
1 TCATTCTC-TTTTCAATC
*
60160354 TCAATCTCTTTT
1 TCATTCTCTTTT
60160366 TCTTTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.57
Consensus pattern (17 bp):
TCATTCTCTTTTCAATC
Found at i:60160348 original size:17 final size:18
Alignment explanation
Indices: 60160323--60160367 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
60160313 CTCTTTTTCA
60160323 TTCTCTTTTCAATCTC-AT
1 TTCT-TTTTCAATCTCAAT
*
60160341 TTCTTTTTCACTCTCAAT
1 TTCTTTTTCAATCTCAAT
*
60160359 CTCTTTTTC
1 TTCTTTTTC
60160368 TTTTTCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCTTTTTCAATCTCAAT
Found at i:60160373 original size:24 final size:23
Alignment explanation
Indices: 60160295--60160370 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
60160285 CTTGTTCACA
*
60160295 TTCTTTCTCTCTCTCAAACTCTTT
1 TTCTTTCTC-CTCTCAATCTCTTT
* * * *
60160319 TTCATTCTCTTTTCAATCTC-AT
1 TTCTTTCTCCTCTCAATCTCTTT
*
60160341 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTCTC-CTCTCAATCTCTTT
60160365 TTCTTT
1 TTCTTT
60160371 TTCTTTCATT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
22 8 0.20
23 17 0.43
24 15 0.38
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (23 bp):
TTCTTTCTCCTCTCAATCTCTTT
Found at i:60162204 original size:19 final size:19
Alignment explanation
Indices: 60162157--60162205 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
60162147 ACAGGAAAGA
*
60162157 AGCTAAATTGAGCTCAAAT
1 AGCTGAATTGAGCTCAAAT
* *
60162176 AGGTGAATTGAGCTCAAGT
1 AGCTGAATTGAGCTCAAAT
60162195 GAGCTG-ATTGA
1 -AGCTGAATTGA
60162206 AGTCGAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.27
Consensus pattern (19 bp):
AGCTGAATTGAGCTCAAAT
Found at i:60163210 original size:15 final size:15
Alignment explanation
Indices: 60163190--60163237 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
60163180 TCAAAGATGG
60163190 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
60163205 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
60163219 GTTTATGGATATAAA
1 GTTTATGGATATGAA
60163234 GTTT
1 GTTT
60163238 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:60163224 original size:14 final size:14
Alignment explanation
Indices: 60163184--60163227 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
60163174 AAGGATTCAA
60163184 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
60163198 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
60163213 AGATGGGTTTATGG
1 AGATGGGTTTATGG
60163227 A
1 A
60163228 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:60163253 original size:29 final size:29
Alignment explanation
Indices: 60163184--60163243 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
60163174 AAGGATTCAA
*
60163184 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
60163213 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
60163242 AG
1 AG
60163244 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:60164258 original size:14 final size:14
Alignment explanation
Indices: 60164216--60164260 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60164206 TTAAAGAAGC
60164216 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
60164230 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
60164243 AACTCATTTAATTA
1 AACTCATTAAATTA
60164257 AACT
1 AACT
60164261 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:60169226 original size:10 final size:10
Alignment explanation
Indices: 60169211--60169249 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
60169201 TTTGTTTGAA
60169211 ATTTTTTTTC
1 ATTTTTTTTC
*
60169221 ATTTTTTTTG
1 ATTTTTTTTC
*
60169231 TTTTTTTTTC
1 ATTTTTTTTC
60169241 ATTTTTTTT
1 ATTTTTTTT
60169250 AAAACTTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:60169237 original size:20 final size:20
Alignment explanation
Indices: 60169212--60169249 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
60169202 TTGTTTGAAA
60169212 TTTTTTTTCATTTTTTTTGT
1 TTTTTTTTCATTTTTTTTGT
60169232 TTTTTTTTCATTTTTTTT
1 TTTTTTTTCATTTTTTTT
60169250 AAAACTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (20 bp):
TTTTTTTTCATTTTTTTTGT
Found at i:60170877 original size:40 final size:40
Alignment explanation
Indices: 60170840--60171025 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
60170830 GCTACTCGTT
* *
60170840 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
60170880 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
60170920 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
60170960 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
60171001 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
60171026 CATCATTCGA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:60172220 original size:56 final size:56
Alignment explanation
Indices: 60172153--60172272 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
60172143 TATTAGTTTA
60172153 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
60172209 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
60172265 TTGCCCAT
1 TTGCCCAT
60172273 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:60172623 original size:29 final size:29
Alignment explanation
Indices: 60172569--60172624 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
60172559 GGCTGTCACA
* *
60172569 GGGTTTATGGATATGACATTTATGTAGTT
1 GGGTTTATAGATATGAAATTTATGTAGTT
*
60172598 GGGTTTATAGATAT-AAAGTTTTTGTAG
1 GGGTTTATAGATATGAAA-TTTATGTAG
60172625 GTTTGGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (29 bp):
GGGTTTATAGATATGAAATTTATGTAGTT
Found at i:60175172 original size:27 final size:27
Alignment explanation
Indices: 60175131--60175182 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
60175121 ACAAGTGAGG
60175131 AAAAAGAGAAAGAGAATGAAAAAGAGC
1 AAAAAGAGAAAGAGAATGAAAAAGAGC
** *
60175158 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAGAAAGAGAATGAAAAAGA
60175183 AATTGAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.27, T:0.08
Consensus pattern (27 bp):
AAAAAGAGAAAGAGAATGAAAAAGAGC
Found at i:60178507 original size:22 final size:22
Alignment explanation
Indices: 60178456--60178521 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
60178446 GGTATTTGGG
* *
60178456 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
60178477 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
60178499 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
60178522 TCAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:60180019 original size:14 final size:14
Alignment explanation
Indices: 60179977--60180021 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60179967 TTAAAGAAGC
60179977 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
60179991 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
60180004 AACTCATTTAATTA
1 AACTCATTAAATTA
60180018 AACT
1 AACT
60180022 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:60181526 original size:19 final size:19
Alignment explanation
Indices: 60181502--60181541 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60181492 AGCTCCCATG
60181502 TAGCTCCACACTAGCTCAT
1 TAGCTCCACACTAGCTCAT
***
60181521 TAGCTCGGGACTAGCTCAT
1 TAGCTCCACACTAGCTCAT
60181540 TA
1 TA
60181542 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (19 bp):
TAGCTCCACACTAGCTCAT
Found at i:60182815 original size:13 final size:14
Alignment explanation
Indices: 60182786--60182825 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
60182776 AACCGACCAA
*
60182786 TTTGTTCATATCCC-
1 TTTGTTCCTA-CCCT
60182800 TTTGTTCCTACCCT
1 TTTGTTCCTACCCT
60182814 TTTGTTCCTACC
1 TTTGTTCCTACC
60182826 ATTCCGTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.10, C:0.33, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTGTTCCTACCCT
Found at i:60187180 original size:23 final size:25
Alignment explanation
Indices: 60187136--60187182 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
60187126 CCGCGAACTT
*
60187136 CATTGAACATGTCTGTCAAGCTGAG
1 CATTGAACATGTCTGGCAAGCTGAG
60187161 CATTG-ACATGT-TGGCAAGCTGA
1 CATTGAACATGTCTGGCAAGCTGA
60187183 TCCAAGCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 6 0.29
25 5 0.24
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (25 bp):
CATTGAACATGTCTGGCAAGCTGAG
Found at i:60187312 original size:30 final size:30
Alignment explanation
Indices: 60187278--60187375 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 30
60187268 AGCTCACCCC
60187278 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * * * * *
60187308 TAGCTTAGT-TTCAGCTTAGGAGTTTAATCT
1 TAGCTCA-TATTCAGCTCACGAGCTAAACCT
* *
60187338 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCC-
1 TAGCTCATA-TTCAGCTCACGAGCTAAA-CCT
60187368 TAGCTCAT
1 TAGCTCAT
60187376 TTTAGTTTAA
Statistics
Matches: 48, Mismatches: 15, Indels: 9
0.67 0.21 0.12
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:60189980 original size:21 final size:21
Alignment explanation
Indices: 60189954--60190003 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
60189944 ACATTCTTGT
60189954 AAAGAAAAAACAAAGAAAAG-A
1 AAAGAAAAAACAAA-AAAAGAA
* *
60189975 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAACAAAAAAAGAA
60189996 AAAGAAAA
1 AAAGAAAA
60190004 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAACAAAAAAAGAA
Found at i:60189989 original size:6 final size:5
Alignment explanation
Indices: 60189954--60190021 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
60189944 ACATTCTTGT
* *
60189954 AAAGA AAAAA CAAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA
1 AAAGA AAAGA -AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA
60190001 AAATGA AATA-A AAAGA AAAGA
1 AAA-GA AA-AGA AAAGA AAAGA
60190022 GAGGCAAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
4 4 0.08
5 29 0.56
6 18 0.35
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:60189994 original size:15 final size:14
Alignment explanation
Indices: 60189965--60190021 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
60189955 AAGAAAAAAC
60189965 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
60189981 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
60189996 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
60190012 AAAGAAAAGA
1 AAAGAAAAGA
60190022 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:60190105 original size:12 final size:12
Alignment explanation
Indices: 60190082--60190138 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
60190072 AAAAAGCCTT
*
60190082 TGAAAAACAAAA
1 TGAAAAAGAAAA
* *
60190094 AGAAAATGAAAA
1 TGAAAAAGAAAA
* * *
60190106 TGAAAATGAGAT
1 TGAAAAAGAAAA
*
60190118 TGAAAAAGAGAA
1 TGAAAAAGAAAA
60190130 TGAAAAAGA
1 TGAAAAAGA
60190139 GTTTGAGAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (12 bp):
TGAAAAAGAAAA
Found at i:60190111 original size:18 final size:18
Alignment explanation
Indices: 60190082--60190135 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
60190072 AAAAAGCCTT
* *
60190082 TGAAAAACAAAAAGAAAA
1 TGAAAAAGAAAATGAAAA
* * *
60190100 TGAAAATGAAAATGAGAT
1 TGAAAAAGAAAATGAAAA
*
60190118 TGAAAAAGAGAATGAAAA
1 TGAAAAAGAAAATGAAAA
60190136 AGAGTTTGAG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.13
Consensus pattern (18 bp):
TGAAAAAGAAAATGAAAA
Found at i:60190122 original size:24 final size:24
Alignment explanation
Indices: 60190095--60190153 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
60190085 AAAACAAAAA
* *
60190095 GAAAATGAAAATGAAAATGAGATT
1 GAAAAAGAAAATGAAAAAGAGATT
* *
60190119 GAAAAAGAGAATGAAAAAGAGTTT
1 GAAAAAGAAAATGAAAAAGAGATT
* *
60190143 GAGAGAGAAAA
1 GAAAAAGAAAA
60190154 AGAATGTGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.15
Consensus pattern (24 bp):
GAAAAAGAAAATGAAAAAGAGATT
Found at i:60190139 original size:12 final size:12
Alignment explanation
Indices: 60190104--60190139 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
60190094 AGAAAATGAA
*
60190104 AATGAAAATGAG
1 AATGAAAAAGAG
*
60190116 ATTGAAAAAGAG
1 AATGAAAAAGAG
60190128 AATGAAAAAGAG
1 AATGAAAAAGAG
60190140 TTTGAGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.25, T:0.14
Consensus pattern (12 bp):
AATGAAAAAGAG
Found at i:60192459 original size:30 final size:30
Alignment explanation
Indices: 60192425--60192522 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 30
60192415 AGCTCACTCC
60192425 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * * * * *
60192455 TAGCTTAGT-TTCAGCTTAGGAGTTTAATCT
1 TAGCTCA-TATTCAGCTCACGAGCTAAACCT
* * * *
60192485 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCG
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
60192515 TAGCTCAT
1 TAGCTCAT
60192523 TTTAGTTTAA
Statistics
Matches: 48, Mismatches: 16, Indels: 7
0.68 0.23 0.10
Matches are distributed among these distances:
30 47 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:60194190 original size:25 final size:25
Alignment explanation
Indices: 60194162--60194257 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
60194152 AAAGCTTGAT
* *
60194162 AATTTTCTCTTAATAATTCCGGTAA
1 AATTTGCTCTTAATAATTCCGGTTA
60194187 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
60194212 AATTTGCTCTTAATATTTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* * *
60194237 AATTTGCCCTTATTATTTCCG
1 AATTTGCTCTTAATAATTCCG
60194258 AATATGTTAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCCGGTTA
Found at i:60201898 original size:50 final size:52
Alignment explanation
Indices: 60201842--60201961 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 52
60201832 TTAATAAAGT
* *
60201842 CATGCATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGA
* * *
60201892 CATGCATTATGTAATTCCCATGTTAGTTAAAAGTTTGCATCATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTAAGTT-AAAGTTTGCATCATTAAATTAAGA
*
60201945 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
60201962 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 25 0.42
52 12 0.20
53 23 0.38
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:60204717 original size:30 final size:30
Alignment explanation
Indices: 60204683--60204779 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
60204673 TAAACTAAAA
60204683 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
60204713 TGAGCTGAGGC-TAAACTTC-TAAGCTGAAGT
1 TGAGCT-AAGCTTTAGC-TCGTGAGCTAAAGT
* *
60204743 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
60204773 TGAGCTA
1 TGAGCTA
60204780 GAAGTAAGCT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
29 4 0.08
30 38 0.76
31 8 0.16
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:60204839 original size:21 final size:20
Alignment explanation
Indices: 60204804--60204850 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
60204794 TTAGCTCAGG
* *
60204804 TAAGATGGATTGAGCTCGAC
1 TAAGCTGGATTGAGCTAGAC
60204824 TAAGCTGGATTTGAGCTAGAC
1 TAAGCTGGA-TTGAGCTAGAC
*
60204845 AAAGCT
1 TAAGCT
60204851 TGTGGAGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (20 bp):
TAAGCTGGATTGAGCTAGAC
Found at i:60207075 original size:12 final size:12
Alignment explanation
Indices: 60207058--60207113 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
60207048 CTCTCTCAAA
60207058 CTCTTTTTCATT
1 CTCTTTTTCATT
*
60207070 CTCTTTTTCAAT
1 CTCTTTTTCATT
* *
60207082 CTCATTTTCTTT
1 CTCTTTTTCATT
* *
60207094 TTCTTTTTCTTT
1 CTCTTTTTCATT
*
60207106 TTCTTTTT
1 CTCTTTTT
60207114 GTTTTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:60207085 original size:30 final size:30
Alignment explanation
Indices: 60207041--60207108 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
60207031 TTGTTCACAT
**
60207041 TCTTTTTCTCTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** * *
60207071 TCTTTTTCAATCTCATTTTCTTTTTCTTTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
60207101 TCTTTTTC
1 TCTTTTTC
60207109 TTTTTGTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.10, C:0.25, G:0.00, T:0.65
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:60207089 original size:24 final size:24
Alignment explanation
Indices: 60207053--60207102 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
60207043 TTTTTCTCTC
*
60207053 TCAAACTCTTTTTCATTCTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
* * *
60207077 TCAATCTCATTTTCTTTTTCTTTT
1 TCAAACTCATTTTCATTCTCTTTT
60207101 TC
1 TC
60207103 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (24 bp):
TCAAACTCATTTTCATTCTCTTTT
Found at i:60207097 original size:6 final size:6
Alignment explanation
Indices: 60207086--60207119 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
60207076 TTCAATCTCA
*
60207086 TTTTCT TTTTCT TTTTCT TTTTCT TTTTGT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
60207120 TAAAGGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:60207130 original size:12 final size:12
Alignment explanation
Indices: 60207115--60207146 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60207105 TTTCTTTTTG
*
60207115 TTTTTTAAAGGC
1 TTTTTCAAAGGC
60207127 TTTTTCAAAGGC
1 TTTTTCAAAGGC
60207139 TTTTTCAA
1 TTTTTCAA
60207147 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:60207204 original size:5 final size:5
Alignment explanation
Indices: 60207194--60207261 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
60207184 CTCTTGCCTC
*
60207194 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
*
60207241 TCTTT TCTTT GTTTTT TCTTT
1 TCTTT TCTTT -TCTTT TCTTT
60207262 ACAAGAATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
4 4 0.08
5 33 0.63
6 10 0.19
7 5 0.10
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:60207234 original size:15 final size:14
Alignment explanation
Indices: 60207194--60207250 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
60207184 CTCTTGCCTC
*
60207194 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
60207209 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
60207224 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
60207241 TCTTTTCTTT
1 TCTTTTCTTT
60207251 GTTTTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:60207251 original size:21 final size:21
Alignment explanation
Indices: 60207194--60207261 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
60207184 CTCTTGCCTC
* *
60207194 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
60207215 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
*
60207236 TCTTTTCTTTTCTTTGTTTTT
1 TCTTTTCTTTTCTTTGCTTTT
60207257 TCTTT
1 TCTTT
60207262 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.08
21 31 0.79
22 5 0.13
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:60210953 original size:13 final size:13
Alignment explanation
Indices: 60210935--60210967 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
60210925 AGGAAATTTG
*
60210935 AAAAAAAAAATTC
1 AAAAAAAAAAATC
60210948 AAAAAAAAAAATC
1 AAAAAAAAAAATC
60210961 AAAAAAA
1 AAAAAAA
60210968 TTTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAAATC
Found at i:60211893 original size:5 final size:5
Alignment explanation
Indices: 60211869--60211937 Score: 56
Period size: 5 Copynumber: 14.0 Consensus size: 5
60211859 ACATTCTTGT
* *
60211869 AAAGA GAAA-A AAAG- AAAGA AAAGA AAAGA AAA-A GAAGA GAAGAA AAAGA
1 AAAGA -AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA
*
60211918 AAATG- AAATA AAAGA AAAGA
1 AAA-GA AAAGA AAAGA AAAGA
60211938 GAGGCAAGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
4 10 0.19
5 35 0.66
6 8 0.15
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:60211895 original size:14 final size:14
Alignment explanation
Indices: 60211869--60211937 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
60211859 ACATTCTTGT
60211869 AAAGAGAAA-AAAAG
1 AAAGA-AAAGAAAAG
60211883 AAAGAAAAGAAAAG
1 AAAGAAAAGAAAAG
*
60211897 --A-AAAAGAAGAG
1 AAAGAAAAGAAAAG
60211908 -AAGAAAAAGAAAATG
1 AAAG-AAAAGAAAA-G
*
60211923 AAATAAAAGAAAAG
1 AAAGAAAAGAAAAG
60211937 A
1 A
60211938 GAGGCAAGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 9 0.20
12 2 0.04
13 3 0.07
14 20 0.43
15 10 0.22
16 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (14 bp):
AAAGAAAAGAAAAG
Found at i:60211902 original size:20 final size:20
Alignment explanation
Indices: 60211877--60211937 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
60211867 GTAAAGAGAA
60211877 AAAAAGAAAGAAAAGAAAAG
1 AAAAAGAAAGAAAAGAAAAG
*
60211897 AAAAAG-AAGAGAAGAAAAAG
1 AAAAAGAAAGAAAAG-AAAAG
* *
60211917 AAAATGAAATAAAAGAAAAG
1 AAAAAGAAAGAAAAGAAAAG
60211937 A
1 A
60211938 GAGGCAAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 7 0.20
20 22 0.63
21 6 0.17
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (20 bp):
AAAAAGAAAGAAAAGAAAAG
Found at i:60211947 original size:40 final size:43
Alignment explanation
Indices: 60211877--60211966 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 43
60211867 GTAAAGAGAA
*
60211877 AAAAAGAAAGAAAAGAAAAGAAAAAGAAGA-G-AAG-AAAAAG
1 AAAATGAAAGAAAAGAAAAGAAAAAGAAGAGGCAAGTAAAAAG
* * * *
60211917 AAAATGAAATAAAAGAAAAG-AGAGGCAAGAGGCAAGTAAGAAG
1 AAAATGAAAGAAAAGAAAAGAAAAAG-AAGAGGCAAGTAAAAAG
60211960 AAAATGA
1 AAAATGA
60211967 GCGAATCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 3 0.07
40 22 0.54
41 1 0.02
42 3 0.07
43 12 0.29
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.04
Consensus pattern (43 bp):
AAAATGAAAGAAAAGAAAAGAAAAAGAAGAGGCAAGTAAAAAG
Found at i:60212015 original size:11 final size:12
Alignment explanation
Indices: 60211984--60212014 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
60211974 TTGAGAGAAC
60211984 TTGAAAAAGCCT
1 TTGAAAAAGCCT
60211996 TTGAAAAAGCCT
1 TTGAAAAAGCCT
60212008 TTGAAAA
1 TTGAAAA
60212015 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:60212044 original size:10 final size:11
Alignment explanation
Indices: 60212010--60212047 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
60212000 AAAAGCCTTT
*
60212010 GAAAAGAAAAA
1 GAAATGAAAAA
60212021 GAAAATGAAAAA
1 G-AAATGAAAAA
60212033 GAAATG-AAAA
1 GAAATGAAAAA
60212043 GAAAT
1 GAAAT
60212048 TTGAGAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 9 0.36
11 6 0.24
12 10 0.40
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (11 bp):
GAAATGAAAAA
Found at i:60222674 original size:115 final size:115
Alignment explanation
Indices: 60222472--60222692 Score: 329
Period size: 115 Copynumber: 1.9 Consensus size: 115
60222462 CAATATTTGA
* * * *
60222472 AATCTTGATTTTCCCTTTCTTTTGTGTACGCATCTAAGGCCTTACTAACAAACTCCTGGATGGTC
1 AATCTTGATTTTCCCTTTCTCTCGTGTACGAATCTAAGGCCTTACTAACAAACTCCTGAATGGTC
60222537 CCATTTAGTTTGGAACGCATTTGTCGGGCCTTTGATCTCGTATCAAAGTG
66 CCATTTAGTTTGGAACGCATTTGTCGGGCCTTTGATCTCGTATCAAAGTG
* * * *
60222587 AATCTTGATTTT-CTTGTTCTCTCGTGTATGAATCTAAGGCCTTGA-TAACAAGCTCTTGAATGG
1 AATCTTGATTTTCCCT-TTCTCTCGTGTACGAATCTAAGGCCTT-ACTAACAAACTCCTGAATGG
*
60222650 TCCCATTTAGTTTGGACCGCATTTGTCGGGCCTTTGATCTCGT
64 TCCCATTTAGTTTGGAACGCATTTGTCGGGCCTTTGATCTCGT
60222693 TATTGGGCCT
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
114 2 0.02
115 92 0.97
116 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (115 bp):
AATCTTGATTTTCCCTTTCTCTCGTGTACGAATCTAAGGCCTTACTAACAAACTCCTGAATGGTC
CCATTTAGTTTGGAACGCATTTGTCGGGCCTTTGATCTCGTATCAAAGTG
Found at i:60224197 original size:11 final size:12
Alignment explanation
Indices: 60224181--60224209 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
60224171 GTGTCCGAAA
60224181 TTATTTA-GTTG
1 TTATTTAGGTTG
60224192 TTATTTAGGTTG
1 TTATTTAGGTTG
60224204 TTATTT
1 TTATTT
60224210 GCTATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (12 bp):
TTATTTAGGTTG
Done.