Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 175 of 332
Found at i:57694396 original size:25 final size:25
Alignment explanation
Indices: 57694359--57694427 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
57694349 CATCTTGACC
**
57694359 CACAGCTCATGTGAGCATTTA-CAAT
1 CACAGCTTGTGTGAGCATTTATC-AT
*
57694384 CACAGCTTGTGTGAGCATTTATCGT
1 CACAGCTTGTGTGAGCATTTATCAT
*
57694409 CACAGCTTGTGTGAACATT
1 CACAGCTTGTGTGAGCATT
57694428 GTTCCCGCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (25 bp):
CACAGCTTGTGTGAGCATTTATCAT
Found at i:57694489 original size:13 final size:13
Alignment explanation
Indices: 57694471--57694515 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
57694461 TCATTGGGTG
57694471 GAAATGGATATAT
1 GAAATGGATATAT
* * *
57694484 GAAATGGTTCTAC
1 GAAATGGATATAT
*
57694497 AAAATGGATATAT
1 GAAATGGATATAT
57694510 GAAATG
1 GAAATG
57694516 AACATTTAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (13 bp):
GAAATGGATATAT
Found at i:57694554 original size:26 final size:26
Alignment explanation
Indices: 57694497--57694546 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
57694487 ATGGTTCTAC
*
57694497 AAAATGGATATATGAAATGAACATTT
1 AAAATGGATATATGAAATGAAAATTT
57694523 AAAATGGATACT-TGAAAT-AAAATT
1 AAAATGGATA-TATGAAATGAAAATT
57694547 GTGAAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 16 0.73
27 1 0.05
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.30
Consensus pattern (26 bp):
AAAATGGATATATGAAATGAAAATTT
Found at i:57696817 original size:29 final size:29
Alignment explanation
Indices: 57696753--57696820 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
57696743 GTGTGGCTAA
57696753 CCCA-TGTGCCCTAGGATTGGCCACACAC
1 CCCAGTGTGCCCTAGGATTGGCCACACAC
* * *
57696781 CCCCGTGTGCCCTAGGATTGGCCACATAT
1 CCCAGTGTGCCCTAGGATTGGCCACACAC
*
57696810 GCCAGTGTGCC
1 CCCAGTGTGCC
57696821 AAGGCCGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.18, C:0.37, G:0.25, T:0.21
Consensus pattern (29 bp):
CCCAGTGTGCCCTAGGATTGGCCACACAC
Found at i:57703712 original size:48 final size:48
Alignment explanation
Indices: 57703655--57703786 Score: 219
Period size: 48 Copynumber: 2.8 Consensus size: 48
57703645 GTGTGAATTA
* * * *
57703655 TACCTTGATTTGGCTTCGGGCCAAGGTATAGGTATTTCGGGGATGAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGGGGATAAGT
*
57703703 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGGATAAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGGGGATAAGT
57703751 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACT
57703787 ATCGATTGAG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (48 bp):
TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGGGGATAAGT
Found at i:57708728 original size:40 final size:40
Alignment explanation
Indices: 57708684--57708865 Score: 278
Period size: 40 Copynumber: 4.5 Consensus size: 40
57708674 ACTCGCTCAC
*
57708684 ATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAA
* *
57708724 ATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAA
*
57708764 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAA
* *
57708804 ATGCCTTCGGGGCTTAGCCCGGA-ATTAGTCACT-AGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAA
57708844 ATGCCTTCGGGACTTAGCCCGG
1 ATGCCTTCGGGACTTAGCCCGG
57708866 TTATCATCCG
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAA
Found at i:57716769 original size:40 final size:40
Alignment explanation
Indices: 57716699--57716914 Score: 303
Period size: 40 Copynumber: 5.4 Consensus size: 40
57716689 AAACCAAGTA
* *
57716699 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
57716738 CCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57716778 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57716818 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
57716858 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATC
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
57716898 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
57716915 AGTTATCATC
Statistics
Matches: 159, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 145 0.91
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57731625 original size:46 final size:46
Alignment explanation
Indices: 57731521--57731651 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
57731511 CCACATTATA
*
57731521 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACG
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACG
* * * * *
57731569 AGTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCTTGAGATG
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACG
*
57731615 TA-AGCCAGTGTAAGACATGTCTGGTACATGCATCGGC
1 -AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
57731652 TACAAGAGGT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
46 45 0.62
47 14 0.19
48 13 0.18
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (46 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACG
Found at i:57735841 original size:30 final size:30
Alignment explanation
Indices: 57735783--57735842 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
57735773 TTCCCGAGCC
* *
57735783 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
* *
57735813 TAGGGGCAAAAATGTAATTTTACCAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
57735843 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATACAAAAGTT
Found at i:57744058 original size:27 final size:27
Alignment explanation
Indices: 57744027--57744177 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 27
57744017 TAAATTGTAC
57744027 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
57744054 TGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57744081 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57744109 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57744136 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57744163 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57744178 GACTCAATAT
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 85 0.79
28 23 0.21
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57744114 original size:55 final size:55
Alignment explanation
Indices: 57744026--57744177 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
57744016 TTAAATTGTA
* *
57744026 CAGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * **
57744080 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
57744135 TAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG
57744178 GACTCAATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 38 0.44
55 48 0.56
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (55 bp):
CAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:57744168 original size:82 final size:82
Alignment explanation
Indices: 57744027--57744177 Score: 212
Period size: 82 Copynumber: 1.8 Consensus size: 82
57744017 TAAATTGTAC
* * * *
57744027 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
57744092 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
* * ** * *
57744109 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 AGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
57744174 TGCG
66 TGCG
57744178 GACTCAATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 59 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:57750759 original size:39 final size:40
Alignment explanation
Indices: 57750636--57750765 Score: 147
Period size: 39 Copynumber: 3.3 Consensus size: 40
57750626 GACAAGGTTG
* ** * *
57750636 GATCTCATTATATTAT-CTGAGAATCAACAATAGAGGCTA
1 GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
* * *
57750675 GATCTCATTATATTACCCCGAGAATTTGCAACAAAAGCTA
1 GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
* * *
57750715 AATCTCATTATATT-TCCCGAGAATCTGGAATAAATGCTA
1 GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
57750754 GATCTCATTATA
1 GATCTCATTATA
57750766 ATCTATAATA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 46 0.61
40 29 0.39
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (40 bp):
GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
Found at i:57750778 original size:10 final size:10
Alignment explanation
Indices: 57750763--57750790 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
57750753 AGATCTCATT
57750763 ATAATCTATA
1 ATAATCTATA
57750773 ATAATCTATA
1 ATAATCTATA
57750783 ATAATCTA
1 ATAATCTA
57750791 CGTACAAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAATCTATA
Found at i:57752548 original size:20 final size:20
Alignment explanation
Indices: 57752523--57752560 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57752513 GATGCATGGT
*
57752523 TTGTTGGTCGGTTTTGTTGA
1 TTGTTGATCGGTTTTGTTGA
*
57752543 TTGTTGATTGGTTTTGTT
1 TTGTTGATCGGTTTTGTT
57752561 AATGTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.03, G:0.32, T:0.61
Consensus pattern (20 bp):
TTGTTGATCGGTTTTGTTGA
Found at i:57758943 original size:39 final size:40
Alignment explanation
Indices: 57758887--57759106 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
57758877 TTGAATGATG
* * * *
57758887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
57758926 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57758965 TCCGGACTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57759003 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57759043 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57759083 -CCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57759107 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
37 18 0.11
38 24 0.15
39 59 0.37
40 60 0.37
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57759113 original size:39 final size:39
Alignment explanation
Indices: 57758887--57759113 Score: 239
Period size: 39 Copynumber: 5.8 Consensus size: 39
57758877 TTGAATGATG
* * * * *
57758887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTACGAGTTACTAAA
* *
57758926 TCCGGACTAAGATCCGAAGGCATTTGTACGAG-TACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTACGAGTTACTAAA
* *
57758965 TCCGGACTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTACGAGTTACTAAA
* *
57759003 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTACGAGTTACTAAA
* *
57759043 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTACGAGTTACTA-AA
* *
57759083 -CCGGGCTATGTCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCGAAGGCATTTGTACGAGT
57759114 AGCTATATCC
Statistics
Matches: 166, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
37 18 0.11
38 24 0.14
39 64 0.39
40 60 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:57759128 original size:117 final size:116
Alignment explanation
Indices: 57758887--57759139 Score: 273
Period size: 117 Copynumber: 2.2 Consensus size: 116
57758877 TTGAATGATG
* * *
57758887 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
* **
57758952 TACGAGTACTAATTCCGGACTAAGCCGAAGGCATTTGTGCGAGTTACTAAA
66 TACGAGTACTAATACCGGACTAAGCCGAAGGCATTTGAACGAGTTACTAAA
* * **
57759003 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-T
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* * * *
57759066 TGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAG-TAGCTATA
64 TGTACGAG-TACTAAT-ACCGGACTAAG-CCGAAGGCATTTGAACGAGTTA-CTAAA
* *
57759121 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57759140 TACGTGATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
116 31 0.27
117 60 0.52
118 24 0.21
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (116 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TACGAGTACTAATACCGGACTAAGCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:57759136 original size:39 final size:40
Alignment explanation
Indices: 57758938--57759139 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
57758928 CGGACTAAGA
* **
57758938 TCCGAAGGCATTTGTACGAG-TACTAATTCCGGACT-AA-
1 TCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAAT
* * *
57758975 GCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
1 TCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAAT
* * *
57759015 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
1 TCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAAT
* * *
57759055 CCCGAAGGCA-TTGTGCGAGTTACTATAA-CCGGGCT--AT
1 TCCGAAGGCATTTGTACGAGTTACTA-AATCCGGGTTAAAT
* *
57759092 GTCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAAT
1 -TCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAAAT
57759132 TCCGAAGG
1 TCCGAAGG
57759140 TACGTGATTT
Statistics
Matches: 141, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
37 19 0.13
38 27 0.19
39 42 0.30
40 53 0.38
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAAT
Found at i:57772380 original size:27 final size:28
Alignment explanation
Indices: 57772296--57772393 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57772286 CATGAGATTG
* * * *
57772296 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57772325 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57772353 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57772380 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57772394 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57772404 original size:27 final size:27
Alignment explanation
Indices: 57772324--57772406 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57772314 TAAATTGTAC
* *
57772324 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57772352 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57772379 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57772406 A
1 A
57772407 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57772407 original size:29 final size:27
Alignment explanation
Indices: 57772296--57772407 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
57772286 CATGAGATTG
** * *
57772296 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
57772325 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
57772353 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
57772380 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
57772408 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:57780464 original size:27 final size:28
Alignment explanation
Indices: 57780380--57780477 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57780370 CATGAGATTG
* * * *
57780380 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57780409 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57780437 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57780464 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57780478 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57780488 original size:27 final size:27
Alignment explanation
Indices: 57780408--57780490 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57780398 TAAATTGTAC
* *
57780408 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57780436 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57780463 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57780490 A
1 A
57780491 TATTTTTGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57780491 original size:29 final size:27
Alignment explanation
Indices: 57780380--57780492 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 27
57780370 CATGAGATTG
** * *
57780380 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
57780409 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
57780437 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
57780464 GCACTGAGTGTGCGGACTTAATATATATA
1 GCACTAAGTGTGC-GACTTAAT-TATATA
57780493 TTTTTGAATC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.38
29 22 0.30
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:57802903 original size:53 final size:53
Alignment explanation
Indices: 57802828--57802932 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
57802818 ATAAACTACG
* ** * * *
57802828 ATAAGGCAAGGATCCCTTGTAAGACCATGCCAAGGCATGGAAATGGTGAGTTC
1 ATAAGGCAAGGATACCACGTAAGACCATGCCAAGCCACGGAAATGGTAAGTTC
* * *
57802881 ATAAGGCAATGATACCACGTAAGACCATGTCAAGCCACGGTAATGGTAAGTT
1 ATAAGGCAAGGATACCACGTAAGACCATGCCAAGCCACGGAAATGGTAAGTT
57802933 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (53 bp):
ATAAGGCAAGGATACCACGTAAGACCATGCCAAGCCACGGAAATGGTAAGTTC
Found at i:57810319 original size:55 final size:53
Alignment explanation
Indices: 57810252--57810388 Score: 148
Period size: 53 Copynumber: 2.5 Consensus size: 53
57810242 CCATGGAAAT
* * * *
57810252 CATGTTAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAGGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATAAT-AACTAC-ATAAGGCAAGGATAC
* * * * *
57810307 CATGTAAGACCATGCCAAGGCATGGCAATAATGATTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATAATAACTACATAAGGCAAGGATAC
** *
57810360 CACATAAGACCATGTCAAGACATGACAAT
1 CATGTAAGACCATGTCAAGACATGGCAAT
57810389 TGTAAGTTTA
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 38 0.56
54 3 0.04
55 27 0.40
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATAATAACTACATAAGGCAAGGATAC
Found at i:57819026 original size:36 final size:36
Alignment explanation
Indices: 57818978--57819055 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 36
57818968 ATAATTATTA
** * *
57818978 TCACATGGCATGAATGACATACCCACATATTTACTG
1 TCACATGGCATGAACAACACACCCACATATTCACTG
* * *
57819014 TCACATGTCATGAACAACACACCCTCATATTCACTT
1 TCACATGGCATGAACAACACACCCACATATTCACTG
57819050 TCACAT
1 TCACAT
57819056 CATTCATCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.29, G:0.09, T:0.28
Consensus pattern (36 bp):
TCACATGGCATGAACAACACACCCACATATTCACTG
Found at i:57825018 original size:40 final size:40
Alignment explanation
Indices: 57824934--57825117 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
57824924 TTGAATGCTG
* * * *
57824934 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
57824973 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * **
57825014 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
57825054 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
57825094 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57825118 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 110 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:57825138 original size:39 final size:39
Alignment explanation
Indices: 57825014--57825164 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
57825004 AGTTATTAAT
* ** * * *
57825014 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-CAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
57825054 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
57825094 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
57825134 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
57825165 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:57831172 original size:37 final size:37
Alignment explanation
Indices: 57831115--57831254 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
57831105 CGAATAGTCC
* *
57831115 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
57831152 CCACACGTAGTCATCAGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
57831189 CCACACGTAGTCAACGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
57831226 CCACACGTAGTCATCGGGTTTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
57831255 ATATATTTCC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:57831455 original size:48 final size:48
Alignment explanation
Indices: 57831395--57831965 Score: 982
Period size: 48 Copynumber: 11.9 Consensus size: 48
57831385 ATATACACAC
* * *
57831395 ATCTCCTACATATTTCACACTAGCCATTCGCCTTTA-CACCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA-CATATACAT
* *
57831443 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57831491 ATCTCATATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57831541 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57831589 ATCTCATACATATTTCACACTAGCTATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57831637 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57831685 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57831733 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57831781 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57831829 AACTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57831877 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57831925 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
57831966 CACATATATA
Statistics
Matches: 498, Mismatches: 22, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
48 451 0.91
49 2 0.00
50 45 0.09
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:57835241 original size:28 final size:28
Alignment explanation
Indices: 57835209--57835365 Score: 122
Period size: 28 Copynumber: 5.5 Consensus size: 28
57835199 CTGACTGATT
*
57835209 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
57835237 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
57835266 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
57835294 TCACACACATAGTGCCTC-AGCTACTGATC
1 TCGCACACATAGTG-CTCGA-TTAAAGAAC
* *
57835323 TGGCACACATAGTGCTC-AGTTGAAGAAC
1 TCGCACACATAGTGCTCGA-TTAAAGAAC
* *
57835351 TTGCACACACAGTGC
1 TCGCACACATAGTGC
57835366 CTCATAACTC
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 57 0.56
29 42 0.42
30 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:57835269 original size:29 final size:29
Alignment explanation
Indices: 57835236--57835337 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
57835226 GATTAAAGAA
57835236 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
57835265 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* ** **
57835293 CTCACACACATAGTGCCTCAGCTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
57835322 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
57835338 TCAGTTGAAG
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 22 0.38
29 36 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:57835271 original size:57 final size:57
Alignment explanation
Indices: 57835209--57835369 Score: 216
Period size: 57 Copynumber: 2.8 Consensus size: 57
57835199 CTGACTGATT
* * *
57835209 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * **
57835266 TCGCACACATAGTGCTCGATTGAAGAACTCACACACATAGTGCCTCAGCTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * *
57835323 TGGCACACATAGTGCTC-AGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGA-TTGAAGAACTCGCACACATAGTGCCTCA
57835370 TAACTCCAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 1 0.01
57 91 0.99
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:57835442 original size:40 final size:40
Alignment explanation
Indices: 57835397--57835765 Score: 551
Period size: 40 Copynumber: 9.2 Consensus size: 40
57835387 CCTTTGAGGT
*
57835397 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
57835437 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
57835477 TTAGCCCGGATACATCACTAGCACGAATGCTTTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
57835517 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
57835557 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
57835597 TTAGCCCGGATACATCACTAACACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * * *
57835637 TTAGCTCGGATATAACA-TCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
* * * * *
57835677 TTAGCCTGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * * *
57835717 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
57835757 TTAGCCCGG
1 TTAGCCCGG
57835766 CTATATAACT
Statistics
Matches: 310, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 309 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:57836612 original size:37 final size:37
Alignment explanation
Indices: 57836559--57836661 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
57836549 CGAATAGTCC
* *
57836559 CCACACGTAGTTATCGGGTCTCACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
57836596 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
57836633 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
57836662 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:57836862 original size:48 final size:48
Alignment explanation
Indices: 57836802--57837366 Score: 849
Period size: 48 Copynumber: 11.9 Consensus size: 48
57836792 ATATACACAC
* *
57836802 ATCTCCTACATATTTCACACTAGCCATTCGCCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
57836850 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
57836898 ATCTCATATATATATTTCACAGTCGCCGTTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
57836948 ATCTCATATATATATTTCACAGTCGCCGTTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
57836998 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
57837046 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
57837094 ATCCCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
57837142 ATCTCATACATATTTCACATTAGCCATTCGGC--T------TATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
57837182 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
57837230 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
57837278 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
57837326 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
57837367 CACATATATT
Statistics
Matches: 482, Mismatches: 25, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
40 36 0.07
42 1 0.00
46 1 0.00
48 351 0.73
50 93 0.19
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:57837276 original size:184 final size:184
Alignment explanation
Indices: 57836802--57837359 Score: 837
Period size: 184 Copynumber: 3.0 Consensus size: 184
57836792 ATATACACAC
* * *
57836802 ATCTCCTACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * * *
57836867 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAGTCGCCGTTCGGC
66 CACTAGCCATTCGGCTTTACCACATATACATATC-C-CATACATATTTCACACTAGCCATTCGGC
* * *
57836932 TTTACCACATATACATATCTCATATATATATTTCACAGTCGCCGTTCGGCTTTACCACATATACA
129 TTTACCACATATACATATCTCATA-A-ATATTTCACATTAGCCATTCGGC--T------TATACA
57836997 T
184 T
* *
57836998 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
57837063 CACTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAGCCATTCGGCTT
*
57837128 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTATACAT
131 TACCACATATACATATCTCATAAATATTTCACATTAGCCATTCGGCTTATACAT
* *
57837182 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
57837247 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAGCCATTCGGCTT
57837312 TACCACATATACATATCTCATAAATATTTCACATTAGCCATTCGGCTT
131 TACCACATATACATATCTCATAAATATTTCACATTAGCCATTCGGCTT
57837360 TACCACACAC
Statistics
Matches: 340, Mismatches: 22, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
184 177 0.52
190 1 0.00
192 20 0.06
194 47 0.14
195 1 0.00
196 94 0.28
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (184 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACATATCTCATAAATATTTCACATTAGCCATTCGGCTTATACAT
Found at i:57840907 original size:41 final size:41
Alignment explanation
Indices: 57840844--57841011 Score: 117
Period size: 42 Copynumber: 4.0 Consensus size: 41
57840834 TAGAATGCTC
* * * * *
57840844 ATACAATGCCAACGTCCCAGACA-TTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCAAGACAGGTCTTACACGAAATCAA
57840884 ATATCGATGCC-ACTGTCCAAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCAAGACA-GGTCTTACACGAAATCAA
** * *
57840927 ATACGATGCTGATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 ATACGATGCCAACGTCCAAGACA-GGTCTTACACG-AAA--TCAA
* * * * *
57840972 AT-CGATCCCAATGTCCTAGACGTGGTCTTACACAAAATCA
1 ATACGATGCCAACGTCCAAGAC-AGGTCTTACACGAAATCA
57841012 CATATCGGAA
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
40 5 0.05
41 18 0.17
42 26 0.25
43 24 0.23
44 25 0.24
45 6 0.06
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (41 bp):
ATACGATGCCAACGTCCAAGACAGGTCTTACACGAAATCAA
Found at i:57840925 original size:43 final size:42
Alignment explanation
Indices: 57840868--57841018 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
57840858 TCCCAGACAT
* *
57840868 TCTTACATGTAATCAAATATCGATGCCACTGTCCAAGACAGGG
1 TCTTACACGAAATCAAATATCGATGCCA-TGTCCAAGACAGGG
* * *
57840911 TCTTACACGAAATCAAATA-CGATGCTGATGTCCCAGACATGG
1 TCTTACACGAAATCAAATATCGATGC-CATGTCCAAGACAGGG
* * *
57840953 TCTTACACGTAAATCTCAA-ATCGATCCCAATGTCCTAGAC-GTGG
1 TCTTACACG-AAATC-AAATATCGATGCC-ATGTCCAAGACAG-GG
* *
57840997 TCTTACACAAAATCACATATCG
1 TCTTACACGAAATCAAATATCG
57841019 GAATCCTATG
Statistics
Matches: 88, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
42 28 0.32
43 33 0.38
44 27 0.31
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
TCTTACACGAAATCAAATATCGATGCCATGTCCAAGACAGGG
Found at i:57840998 original size:44 final size:41
Alignment explanation
Indices: 57840868--57841011 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 41
57840858 TCCCAGACAT
* * *
57840868 TCTTACATGTAATCAAATATCGATGCCACTGTCCAAGACAG-GG
1 TCTTACACGAAATC-AA-ATCGATGCCAATGTCCAAGAC-GTGG
** * *
57840911 TCTTACACGAAATCAAATACGATGCTGATGTCCCAGACATGG
1 TCTTACACGAAATCAAAT-CGATGCCAATGTCCAAGACGTGG
* *
57840953 TCTTACACGTAAATCTCAAATCGATCCCAATGTCCTAGACGTGG
1 TCTTACACG-AAA--TCAAATCGATGCCAATGTCCAAGACGTGG
*
57840997 TCTTACACAAAATCA
1 TCTTACACGAAATCA
57841012 CATATCGGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
41 5 0.06
42 28 0.34
43 18 0.22
44 26 0.31
45 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (41 bp):
TCTTACACGAAATCAAATCGATGCCAATGTCCAAGACGTGG
Found at i:57840999 original size:86 final size:83
Alignment explanation
Indices: 57840857--57841011 Score: 197
Period size: 86 Copynumber: 1.8 Consensus size: 83
57840847 CAATGCCAAC
* * * *
57840857 GTCCCAGACATTCTTACATGTAATCAAATATCGATGCCACTGTCCAAGACAGGGTCTTACACGAA
1 GTCCCAGACATTCTTACACGTAATCAAATATCGATCCCAATGTCCAAGACAGGGTCTTACACAAA
57840922 ATCAAATACGATGCTGAT
66 ATCAAATACGATGCTGAT
* *
57840940 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATCCCAATGTCCTAGAC-GTGGTCTTAC
1 GTCCCAGACAT--TCTTACACGT-AATC-AAATATCGATCCCAATGTCCAAGACAG-GGTCTTAC
57841003 ACAAAATCA
61 ACAAAATCA
57841012 CATATCGGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
83 11 0.18
85 10 0.16
86 38 0.62
87 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (83 bp):
GTCCCAGACATTCTTACACGTAATCAAATATCGATCCCAATGTCCAAGACAGGGTCTTACACAAA
ATCAAATACGATGCTGAT
Found at i:57845994 original size:39 final size:38
Alignment explanation
Indices: 57845940--57846017 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 38
57845930 GCAAGAAAAA
57845940 TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
1 TATTCGACTAGGCTTGGGTAACTTAGAAA-TTCATGCAT
57845979 TATTCGACTAGGCTTGGGTAACTTAGAAATTCATGCAT
1 TATTCGACTAGGCTTGGGTAACTTAGAAATTCATGCAT
57846017 T
1 T
57846018 TCATTATACG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 10 0.26
39 29 0.74
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (38 bp):
TATTCGACTAGGCTTGGGTAACTTAGAAATTCATGCAT
Found at i:57854426 original size:75 final size:75
Alignment explanation
Indices: 57854333--57854480 Score: 217
Period size: 75 Copynumber: 2.0 Consensus size: 75
57854323 TGCGAAATTT
* *
57854333 TTCCAAAGAATTCACCACAAAGGTGTTCCAGAGTATTCACCACAAAGGCTTTTCAGAGAAT-TAG
1 TTCCAAAGAATTCACCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGT-G
57854397 CCACAAAGGTG
65 CCACAAAGGTG
* * * * *
57854408 TTCCAGAGAATTCGCCACAAAGGCGTTCCTGAGTATTCTCCACAAAGGCTTTTCAAATAATGTGC
1 TTCCAAAGAATTCACCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGTGC
57854473 CACAAAGG
66 CACAAAGG
57854481 CATTTCAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 64 0.98
76 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (75 bp):
TTCCAAAGAATTCACCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGTGC
CACAAAGGTG
Found at i:57854451 original size:50 final size:50
Alignment explanation
Indices: 57854333--57854455 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 50
57854323 TGCGAAATTT
* * *
57854333 TTCCAAAGAATTCACCACAAAGGTGTTCCAGAGTATTCACCACAAAGGCT
1 TTCCAGAGAATTCACCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
* *
57854383 TTTCAGAGAATT-AGCCACAAAGGTGTTCCAGAGAATTCGCCACAAAGGCG
1 TTCCAGAGAATTCA-CCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
* * *
57854433 TTCCTGAGTATTCTCCACAAAGG
1 TTCCAGAGAATTCACCACAAAGG
57854456 CTTTTCAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 61 0.98
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
TTCCAGAGAATTCACCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
Found at i:57854456 original size:25 final size:25
Alignment explanation
Indices: 57854333--57854456 Score: 142
Period size: 25 Copynumber: 5.0 Consensus size: 25
57854323 TGCGAAATTT
* *
57854333 TTCCAAAGAATTCACCACAAAGGTG
1 TTCCAGAGAATTCACCACAAAGGCG
* *
57854358 TTCCAGAGTATTCACCACAAAGGCT
1 TTCCAGAGAATTCACCACAAAGGCG
* *
57854383 TTTCAGAGAATT-AGCCACAAAGGTG
1 TTCCAGAGAATTCA-CCACAAAGGCG
*
57854408 TTCCAGAGAATTCGCCACAAAGGCG
1 TTCCAGAGAATTCACCACAAAGGCG
* * *
57854433 TTCCTGAGTATTCTCCACAAAGGC
1 TTCCAGAGAATTCACCACAAAGGC
57854457 TTTTCAAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 1 0.01
25 82 0.99
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (25 bp):
TTCCAGAGAATTCACCACAAAGGCG
Found at i:57869715 original size:39 final size:39
Alignment explanation
Indices: 57869541--57869699 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
57869531 TGTGAATATA
* *
57869541 TATATGCGAGAATTATATCCGGACATCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
57869580 TATAAGCGAGAATTATATCCAGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
57869619 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
57869658 TATATGCGAGAATTATATCCGGACTTTAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
57869697 TAT
1 TAT
57869700 GTGCTGGACA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:57874730 original size:93 final size:93
Alignment explanation
Indices: 57874622--57874792 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
57874612 GCCCCAAAGT
* * * * *
57874622 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
57874687 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
57874715 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCTATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
57874780 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57874793 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:57874782 original size:46 final size:46
Alignment explanation
Indices: 57874618--57874786 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
57874608 ACCCGCCCCA
* * * * * *
57874618 AAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCTAT
* *
57874664 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-T-T
1 AAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCATCTAT
* *
57874712 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCTAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCTAT
*
57874757 AAGTGAACTCGAACTCAACTCAACGAGTTC
1 AAGTGAACTCGGACTCAACTCAACGAGTTC
57874787 GGATGCTCAA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 53 0.53
47 26 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCTAT
Found at i:57877208 original size:15 final size:15
Alignment explanation
Indices: 57877182--57877237 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
57877172 CAAGGAAATC
57877182 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
57877197 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
57877212 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
57877227 GAATAAAGAAA
1 GAATAAAGAAA
57877238 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:57878778 original size:12 final size:12
Alignment explanation
Indices: 57878761--57878786 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57878751 CATTCCGAAG
57878761 TATATATATACA
1 TATATATATACA
57878773 TATATATATACA
1 TATATATATACA
57878785 TA
1 TA
57878787 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:57879315 original size:27 final size:28
Alignment explanation
Indices: 57879231--57879328 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57879221 CATGAGATTG
* * * *
57879231 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57879260 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57879288 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57879315 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57879329 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57879339 original size:27 final size:27
Alignment explanation
Indices: 57879259--57879341 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57879249 TAAATTGTAC
* *
57879259 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57879287 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57879314 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57879341 A
1 A
57879342 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57883876 original size:46 final size:45
Alignment explanation
Indices: 57883782--57883868 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 45
57883772 TTACATTTCA
* *
57883782 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAG
*
57883828 TGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 TGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
57883869 CCTAGTGACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 29 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAG
Found at i:57886539 original size:60 final size:57
Alignment explanation
Indices: 57886418--57886551 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 57
57886408 TCATGTAATG
* * * * *
57886418 ATAATTATATTAAGAATATTATTAAATTATACATTATTTTATTAAATTGTATTTAATA
1 ATAATTATATTAA-AATATGATTAAATTATACATTATTTTAATAAAATATATTTAACA
* *
57886476 ATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTAATAAAATATATTTAACA
1 ATAATTATATTAAAATATGATTAAATTA--TA-CATTATTTTAATAAAATATATTTAACA
*
57886536 ATAATTTTATTAAAAT
1 ATAATTATATTAAAAT
57886552 TTAATAACAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 14 0.22
58 12 0.19
59 2 0.03
60 36 0.56
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (57 bp):
ATAATTATATTAAAATATGATTAAATTATACATTATTTTAATAAAATATATTTAACA
Found at i:57886544 original size:26 final size:25
Alignment explanation
Indices: 57886513--57886564 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
57886503 ATTTATTATT
*
57886513 ATTTTAATAAAATATATTTAACAATA
1 ATTTTAATAAAATATA-ATAACAATA
* *
57886539 ATTTTATTAAAATTTAATAACAATA
1 ATTTTAATAAAATATAATAACAATA
57886564 A
1 A
57886565 CACTAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTTAATAAAATATAATAACAATA
Found at i:57890147 original size:21 final size:21
Alignment explanation
Indices: 57890123--57890187 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 21
57890113 ATCCAACCAT
57890123 ATAAATTCAATATCTAACATA
1 ATAAATTCAATATCTAACATA
* *
57890144 ATAAATTCAACAAGCTTAAAACATA
1 ATAAATTCAA-TATC-T--AACATA
57890169 ATAAATTCAATATCTAACA
1 ATAAATTCAATATCTAACA
57890188 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 14 0.39
22 2 0.06
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAATTCAATATCTAACATA
Found at i:57890188 original size:32 final size:32
Alignment explanation
Indices: 57890161--57890221 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
57890151 CAACAAGCTT
* *
57890161 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
57890193 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
57890222 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:57892536 original size:13 final size:13
Alignment explanation
Indices: 57892518--57892543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57892508 AAGATTATCC
57892518 TATCCTAATAATA
1 TATCCTAATAATA
57892531 TATCCTAATAATA
1 TATCCTAATAATA
57892544 AATTTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATCCTAATAATA
Found at i:57894864 original size:17 final size:17
Alignment explanation
Indices: 57894838--57894873 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
57894828 TTATTAATAG
*
57894838 AATTGTAGCAAACAACA
1 AATTGCAGCAAACAACA
57894855 AATTGCAGCAAACAACA
1 AATTGCAGCAAACAACA
57894872 AA
1 AA
57894874 CAAAGGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.14
Consensus pattern (17 bp):
AATTGCAGCAAACAACA
Found at i:57906816 original size:21 final size:21
Alignment explanation
Indices: 57906792--57906834 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
57906782 TTTGTAATGT
57906792 AAAAAATTATCAAGAAAAAGA
1 AAAAAATTATCAAGAAAAAGA
57906813 AAAAAATTATCAAGAAAAAGA
1 AAAAAATTATCAAGAAAAAGA
57906834 A
1 A
57906835 TAAACATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAAATTATCAAGAAAAAGA
Found at i:57906984 original size:3 final size:3
Alignment explanation
Indices: 57906976--57907010 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
57906966 TTTTGCCCCA
57906976 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
57907011 ATCATCTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:57909259 original size:161 final size:162
Alignment explanation
Indices: 57908992--57909332 Score: 477
Period size: 161 Copynumber: 2.1 Consensus size: 162
57908982 TCACTAGGAG
* *
57908992 ATCAAAATCTTTCTTTCTTCTCAACGATGTTTATTCTTTACCATGAGGCATCTGCATTCAATTCA
1 ATCAAAATCTTTCTTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
** * * *
57909057 AAATCAAACCAAGCGAATATTAAACCTTACAATGTTCCCTTTTAATCAGACTCTTTATTTTATAT
66 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
* **
57909122 AAAGAA-ATAAATCCAACAAATCATTGTAAAC
131 AAAGAAGATAAATCCAACAAACCACAGTAAAC
* * *
57909153 ATCAAAATCTTTATTTCTTCTCAACAATGTTTATTCTTTACCTTGAGGTATCTACATTCAATTCA
1 ATCAAAATCTTTCTTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
* * * *
57909218 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTATTCATATTCTTTATTTTCTAT
66 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
* * *
57909283 AATGAAGGATGAATCCAACAAACCACAGTAAGC
131 AAAGAA-GATAAATCCAACAAACCACAGTAAAC
*
57909316 ATCAAAACCTTTCTTTC
1 ATCAAAATCTTTCTTTC
57909333 ACGTAAATTG
Statistics
Matches: 156, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
161 121 0.78
163 35 0.22
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.36
Consensus pattern (162 bp):
ATCAAAATCTTTCTTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
AAAGAAGATAAATCCAACAAACCACAGTAAAC
Found at i:57910625 original size:18 final size:17
Alignment explanation
Indices: 57910596--57910631 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
57910586 TCAAAAATTA
57910596 TATAAAATATAAATAAT
1 TATAAAATATAAATAAT
57910613 TATAAACATATAAATAAT
1 TATAAA-ATATAAATAAT
57910631 T
1 T
57910632 CAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATATAAATAAT
Found at i:57911107 original size:15 final size:16
Alignment explanation
Indices: 57911087--57911119 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57911077 GTTTAGTGCC
57911087 TAGGG-TTTATGGGTT
1 TAGGGTTTTATGGGTT
*
57911102 TAGGGTTTTATGGTTT
1 TAGGGTTTTATGGGTT
57911118 TA
1 TA
57911120 AGATTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (16 bp):
TAGGGTTTTATGGGTT
Found at i:57911586 original size:125 final size:125
Alignment explanation
Indices: 57911364--57911596 Score: 306
Period size: 125 Copynumber: 1.9 Consensus size: 125
57911354 TTTTGTTTTT
* ** * *
57911364 TTTTTCTACAATAGTTTCTGAAAAATTAATTTTGAGAAGACGGTTCTAAAAAAATAGTGACAAAA
1 TTTTTCTACAATAGTTTCTGAAAAAATAATTTTGAGAAGACAATTCCAAAAAAATAATGACAAAA
* *
57911429 ACACTTCAAGTAGGATGCATTGTCAGCAAAAGTACTGAAAAATCTCCCATGTGGACGCTC
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAATCTCCCATGTGGACGCTC
* * * * *
57911489 TTTTTCTATAGTAGTTT-TCGAAAAAATAATTTTGAGAAGACAATTCCGAAAAGATAATGTCAAA
1 TTTTTCTACAATAGTTTCT-GAAAAAATAATTTTGAGAAGACAATTCCAAAAAAATAATGACAAA
** * *
57911553 AATGCTTCAAGCAGTATGCACTGTCAGCAAAAGTATTGAAAAAT
65 AACACTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAT
57911597 GCAGTTTGTA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
124 1 0.01
125 90 0.99
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAATAGTTTCTGAAAAAATAATTTTGAGAAGACAATTCCAAAAAAATAATGACAAAA
ACACTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAATCTCCCATGTGGACGCTC
Found at i:57911610 original size:27 final size:25
Alignment explanation
Indices: 57911586--57911647 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
57911576 TCAGCAAAAG
57911586 TATTGAAAAATGCAGTTTGTACAAATA
1 TATTGAAAAAT--AGTTTGTACAAATA
*
57911613 TATTTAAAAATAGTTTGTACAAATA
1 TATTGAAAAATAGTTTGTACAAATA
*
57911638 TATTTAAAAA
1 TATTGAAAAA
57911648 ATAAATACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 24 0.71
27 10 0.29
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (25 bp):
TATTGAAAAATAGTTTGTACAAATA
Found at i:57911633 original size:25 final size:25
Alignment explanation
Indices: 57911599--57911647 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
57911589 TGAAAAATGC
57911599 AGTTTGTACAAATATATTTAAAAAT
1 AGTTTGTACAAATATATTTAAAAAT
57911624 AGTTTGTACAAATATATTTAAAAA
1 AGTTTGTACAAATATATTTAAAAA
57911648 ATAAATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (25 bp):
AGTTTGTACAAATATATTTAAAAAT
Found at i:57923978 original size:15 final size:14
Alignment explanation
Indices: 57923952--57923991 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
57923942 ATGATAATCT
57923952 TTTATATATTATAA
1 TTTATATATTATAA
*
57923966 TTATATTTATTATAA
1 TT-TATATATTATAA
57923981 TTTATATATTA
1 TTTATATATTA
57923992 ATCTTTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATATATTATAA
Found at i:57924596 original size:13 final size:14
Alignment explanation
Indices: 57924578--57924632 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
57924568 TTAGTCTCTC
57924578 TTAATTTTTAATT-
1 TTAATTTTTAATTA
*
57924591 TTAA-TTTTATTTA
1 TTAATTTTTAATTA
57924604 TTAATTTTTCAATTAA
1 TTAATTTTT-AATT-A
*
57924620 TTGAATTATTAAT
1 TT-AATTTTTAAT
57924633 AATTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 7 0.21
13 8 0.24
14 4 0.12
15 3 0.09
16 6 0.18
17 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTAATTTTTAATTA
Found at i:57926679 original size:43 final size:41
Alignment explanation
Indices: 57926580--57926764 Score: 245
Period size: 40 Copynumber: 4.6 Consensus size: 41
57926570 GATTCAGATG
* *
57926580 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCT
*
57926620 ATATCCGGTCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GTAGTTGCT
*
57926663 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTG-CT
* *
57926703 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-AGTCGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCT
*
57926743 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
57926765 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
39 16 0.12
40 75 0.58
41 1 0.01
42 1 0.01
43 36 0.28
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCT
Found at i:57926724 original size:83 final size:83
Alignment explanation
Indices: 57926585--57926738 Score: 263
Period size: 83 Copynumber: 1.9 Consensus size: 83
57926575 AGATGATATT
** * *
57926585 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGTCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
57926650 GCGAGTAGTTGCTATACC
66 GCGAGTAGTTGCTATACC
*
57926668 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
57926733 GCGAGT
66 GCGAGT
57926739 CGCTATATCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.26
Consensus pattern (83 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
GCGAGTAGTTGCTATACC
Found at i:57926783 original size:83 final size:82
Alignment explanation
Indices: 57926585--57926764 Score: 240
Period size: 83 Copynumber: 2.2 Consensus size: 82
57926575 AGATGATATT
* * ** * *
57926585 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGTCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
*
57926650 GCGAGTAGTTGCTATACC
66 GC-AGTAGTCGCTATACC
* *
57926668 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
*
57926733 GC-G-AGTCGCTATATC
66 GCAGTAGTCGCTATACC
57926748 C-GGCTAAATCCCGAAGG
1 CGGGCTAAATCCCGAAGG
57926765 TACTTGGGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 15 0.17
80 11 0.12
81 1 0.01
83 62 0.70
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (82 bp):
CGGGCTAAATCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTGT
GCAGTAGTCGCTATACC
Found at i:57933929 original size:40 final size:40
Alignment explanation
Indices: 57933885--57933960 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
57933875 CGGCTAAGAA
*
57933885 TGGCACTTAGTGTGCGGTTTGAAATAGCTTCGGCTAAATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
* ** *
57933925 TGGCACTTGGTGTGCGATTTGTGATAGCTTGGGCTA
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTA
57933961 TATACATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCTAAATG
Found at i:57937682 original size:14 final size:14
Alignment explanation
Indices: 57937665--57937715 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
57937655 ATGTTTTAGT
* *
57937665 GTTTAAGGTTTAGG
1 GTTTAGGGTTTAAG
*
57937679 GTTTAGGATTT-AG
1 GTTTAGGGTTTAAG
*
57937692 GATTTAGGGTTCAAG
1 G-TTTAGGGTTTAAG
57937707 GTTTAGGGT
1 GTTTAGGGT
57937716 AAAAAATTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 2 0.07
14 25 0.83
15 3 0.10
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:57939537 original size:36 final size:36
Alignment explanation
Indices: 57939490--57939562 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
57939480 ACCACTTTTA
57939490 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
1 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
57939526 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
1 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
57939562 A
1 A
57939563 TATACTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (36 bp):
AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
Found at i:57941756 original size:47 final size:47
Alignment explanation
Indices: 57941684--57942045 Score: 170
Period size: 46 Copynumber: 7.7 Consensus size: 47
57941674 GTATAATGCG
* ** *
57941684 GATGCCATGTCCCAGTCATACTCTTACACTAGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCC
* * * *
57941731 GATGCCATGTCCCAAACATGGTCTTACA-GA-CT-ATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATC-AAGCC
* * **
57941778 GACGCCATATCCCATGACATGGTCTTACACTAGCTC-TCACATATCCGTGCC
1 GATGCCATGTCCCA-GACATGGTCTTACACTAGCTCATC-C--AT-CAAGCC
* * * * *
57941829 AATGCCATGTCCCATACATGGTCTTACACT-GACACAT-C-TCGTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCCATC-AAGCC
* * * * *
57941875 GATG-TATGTCCCAAACAT-GTCTTACACTGGTTTACAT-C-TCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CT-CATCCATC-AAGCC
* * *
57941921 AATG-CATGTCCCAAACAT-GTCTTACGCTAGCTC-TCGTC-TCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATCAA-GCC
*
57941967 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAA----GCC
57942015 GATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
57942046 ACATAGATAA
Statistics
Matches: 246, Mismatches: 44, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 14 0.06
45 21 0.09
46 67 0.27
47 66 0.27
48 34 0.14
49 4 0.02
50 21 0.09
51 17 0.07
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCC
Found at i:57941930 original size:46 final size:45
Alignment explanation
Indices: 57941834--57942042 Score: 181
Period size: 46 Copynumber: 4.5 Consensus size: 45
57941824 GTGCCAATGC
* * * *
57941834 CATGTCCCATACATGGTCTTACACT-GACACATCTCGTA-GCTGATG
1 CATGTCCCAAACAT-GTCTTACACTGGTCTCATCTCG-AGGCCGATG
* * *
57941879 TATGTCCCAAACATGTCTTACACTGGTTTACATCTCGAGGCCAATG
1 CATGTCCCAAACATGTCTTACACTGGTCT-CATCTCGAGGCCGATG
* * * * *
57941925 CATGTCCCAAACATGTCTTACGCTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACT-GGTCTCATCTCGAGGCCGATG
* * *
57941971 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTGG-TCTCAT-CTCGAGGCCGATG
*
57942019 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
57942043 AGCACATAGA
Statistics
Matches: 133, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.08
45 14 0.11
46 56 0.42
47 31 0.23
48 21 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTGGTCTCATCTCGAGGCCGATG
Found at i:57944717 original size:65 final size:65
Alignment explanation
Indices: 57944642--57944791 Score: 228
Period size: 65 Copynumber: 2.3 Consensus size: 65
57944632 TGCGGACTAC
* **
57944642 CGCAGCTCTTTCTAAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGGGGACACAAA
1 CGCAGCTCTTTCTGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAA
* *
57944707 CGCAGCTCTTTCTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATGTTGCAGACACAAA
1 CGCAGCTCTTTCTGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAA
* * *
57944772 TGCATCTCTTTGTGAGTGTC
1 CGCAGCTCTTTCTGAGTGTC
57944792 TTACTATGGC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (65 bp):
CGCAGCTCTTTCTGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAA
Found at i:57951592 original size:51 final size:46
Alignment explanation
Indices: 57951526--57951658 Score: 164
Period size: 43 Copynumber: 2.8 Consensus size: 46
57951516 AACATGTATA
*
57951526 CATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGTTACATGAATCG
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG----ATG-ATCG
* *
57951577 CATCCATTATGAACTCGGACCTCTCAACGAGCTC--A-GATGCTCG
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGATGATCG
*
57951620 CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATG
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
57951659 CAACATATAT
Statistics
Matches: 74, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
43 35 0.47
44 3 0.04
45 1 0.01
46 1 0.01
48 1 0.01
49 1 0.01
51 32 0.43
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGATGATCG
Found at i:57951689 original size:42 final size:43
Alignment explanation
Indices: 57951587--57951739 Score: 146
Period size: 43 Copynumber: 3.6 Consensus size: 43
57951577 CATCCATTAT
* * ** ** * *
57951587 GAACTCGGACCTCTCAACGAGCTCAGATGCTCGCATCCATAAT
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* *
57951630 GAACTCGGACCTCTCAACAAGCTCGGATGC-AACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* * * *
57951672 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* * *
57951715 GAACTCGAACCGCTCAACGAGCTCA
1 GAACTCGGACCACTCAACAAGCTCA
57951740 AATTTCTAAA
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 31 0.34
43 59 0.66
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.20
Consensus pattern (43 bp):
GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
Found at i:57955791 original size:32 final size:32
Alignment explanation
Indices: 57955731--57955791 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
57955721 AAAGTCTAGG
*
57955731 GGTAAAATGGTCATTTTGGCAAAATATAAATT
1 GGTAAAATGGTCATTTTGCCAAAATATAAATT
*
57955763 GGTAAAATGGTCATGTTT-CCAAAGTATAA
1 GGTAAAATGGTCAT-TTTGCCAAAATATAA
57955792 TTTATGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (32 bp):
GGTAAAATGGTCATTTTGCCAAAATATAAATT
Found at i:57964407 original size:27 final size:25
Alignment explanation
Indices: 57964348--57964408 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
57964338 AGTTTTCTCC
*
57964348 TAAATTTTAATTTGTTTTAATTATT
1 TAAATTTTAATTTGTTTTAATTAGT
*
57964373 TAACTTTTCAATTTGTTTTGAATT-GT
1 TAAATTTT-AATTTGTTTT-AATTAGT
57964399 TAATATTTTA
1 TAA-ATTTTA
57964409 GACTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 7 0.23
26 15 0.50
27 8 0.27
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (25 bp):
TAAATTTTAATTTGTTTTAATTAGT
Found at i:57971796 original size:22 final size:23
Alignment explanation
Indices: 57971770--57971815 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
57971760 CAACCAAACC
57971770 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
57971792 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
57971815 A
1 A
57971816 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:57971821 original size:23 final size:23
Alignment explanation
Indices: 57971777--57971821 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
57971767 ACCAATTCAA
*
57971777 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
57971800 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
57971822 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:57980073 original size:23 final size:23
Alignment explanation
Indices: 57980026--57980079 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
57980016 GTAGTAGGGG
* ***
57980026 ACAGTGGTTTTGGTAAAATTGGA
1 ACAGTGGTTTTGATAAAACCAGA
57980049 ACAGTGGTTTTGATAAAACCAGA
1 ACAGTGGTTTTGATAAAACCAGA
57980072 ACAGTGGT
1 ACAGTGGT
57980080 CTCGGGACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (23 bp):
ACAGTGGTTTTGATAAAACCAGA
Found at i:57980384 original size:29 final size:30
Alignment explanation
Indices: 57980351--57980410 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
57980341 GATTCATCCA
57980351 TGGAAAAT-AAAATAAA-AAAATGATGA-AAT
1 TGGAAAATGAAAA-AAATAAAA-GATGATAAT
*
57980380 TGGAAAGTGAAAAAAATAAAAGATGATAAT
1 TGGAAAATGAAAAAAATAAAAGATGATAAT
57980410 T
1 T
57980411 AATTAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.22
Consensus pattern (30 bp):
TGGAAAATGAAAAAAATAAAAGATGATAAT
Found at i:57980967 original size:26 final size:26
Alignment explanation
Indices: 57980870--57980990 Score: 92
Period size: 26 Copynumber: 4.8 Consensus size: 26
57980860 AAGCTATCCA
57980870 GAGC-TCCT-ATTACATGGCTCTTTGT
1 GAGCTTCCTGATTA-ATGGCTCTTTGT
**
57980895 GAGCATTCCTGA-T-A-GGCTCTTCAT
1 GAGC-TTCCTGATTAATGGCTCTTTGT
* ****
57980919 GAGCTTCCTAATTAAAATTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
57980945 GAGCTTCCTGATTAATGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
57980971 GAGTTTTCTG-TTACATGGCT
1 GAGCTTCCTGATTA-ATGGCT
57980991 TGAGAGAGTG
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
23 6 0.08
24 13 0.18
25 9 0.12
26 40 0.54
27 5 0.07
28 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGT
Found at i:57985592 original size:28 final size:29
Alignment explanation
Indices: 57985538--57985592 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
57985528 ACAGGGGTTT
*
57985538 TCACACGGCCAAGCACACCCCCGTGTCCC
1 TCACACGGCCAAGCACACACCCGTGTCCC
* *
57985567 TCACACGGCCATG-ACACACTCGTGTC
1 TCACACGGCCAAGCACACACCCGTGTC
57985593 GTAGCCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.22, C:0.45, G:0.18, T:0.15
Consensus pattern (29 bp):
TCACACGGCCAAGCACACACCCGTGTCCC
Found at i:57987641 original size:28 final size:27
Alignment explanation
Indices: 57987609--57987692 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
57987599 AACTTCGATC
57987609 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACT-AGTGCAGGCTACT
* * *
57987637 ACGTGTATCAG-A-TGGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAGTGCAGGCTACT
57987659 ACGTGTGTAGTACTGAGTGCAGGCTACT
1 ACGTGTGTAGTACT-AGTGCAGGCTACT
57987687 ACGTGT
1 ACGTGT
57987693 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (27 bp):
ACGTGTGTAGTACTAGTGCAGGCTACT
Found at i:57987731 original size:49 final size:50
Alignment explanation
Indices: 57987574--57987736 Score: 202
Period size: 50 Copynumber: 3.3 Consensus size: 50
57987564 TTGGTCGCAT
* * * * *
57987574 GTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAA
1 GTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACGTGTGTAGTACTAA
* ** *
57987625 GTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTGA
1 GTGCAGGCTACTACGTGTACCAGATAATTAGGTCACGTGTGTAGTACTAA
* * *
57987675 GTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTAGTACTAA
1 GTGCAGGCTACTACGTGTACCAGATAATTAGGTCACGTGTGTAGTACTAA
57987724 GTGCAGGCTACTA
1 GTGCAGGCTACTA
57987737 TGCGTACTAG
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 30 0.31
50 45 0.47
51 21 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (50 bp):
GTGCAGGCTACTACGTGTACCAGATAATTAGGTCACGTGTGTAGTACTAA
Found at i:57990853 original size:15 final size:15
Alignment explanation
Indices: 57990835--57990867 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
57990825 TGGATTCTCG
57990835 TATCATGGATTTCTT
1 TATCATGGATTTCTT
*
57990850 TATCTTGGATTTCTT
1 TATCATGGATTTCTT
57990865 TAT
1 TAT
57990868 TCTGGGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (15 bp):
TATCATGGATTTCTT
Found at i:57993124 original size:11 final size:11
Alignment explanation
Indices: 57993108--57993134 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
57993098 AAATCGAGAT
57993108 TCGGGCTTAAA
1 TCGGGCTTAAA
57993119 TCGGGCTTAAA
1 TCGGGCTTAAA
57993130 TCGGG
1 TCGGG
57993135 AAAATACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (11 bp):
TCGGGCTTAAA
Found at i:57993707 original size:50 final size:50
Alignment explanation
Indices: 57993632--57993764 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 50
57993622 ATCTATTGTG
* **
57993632 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
57993682 AGGTCACGTGTGTAGGACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
57993732 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
57993765 TGCGTACTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
49 30 0.39
50 46 0.61
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:57995608 original size:93 final size:93
Alignment explanation
Indices: 57995501--57995671 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57995491 CGCCCTAAGT
* *
57995501 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57995566 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
57995594 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57995659 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57995672 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:57995668 original size:46 final size:46
Alignment explanation
Indices: 57995496--57995668 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
57995486 TAACCCGCCC
* * *
57995496 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
57995542 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
57995590 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
57995635 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57995669 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:57999897 original size:46 final size:46
Alignment explanation
Indices: 57999745--57999916 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
57999735 GGTTGAGCAT
* *
57999745 CCGAACTCG-TGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * * *
57999790 CCGAACTCGTTGAGTTGAGTCCTGAGTTC-GTGAATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCC-GAGTTCACT-TATGGATGCGAACGC
57999835 ATCCGAAACT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCG-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
57999883 CCGAGCTCGTTGAGTTGAGTCCGAGGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGA-GTTCACTTA
57999917 GGGCGGGTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
45 14 0.14
46 43 0.42
47 38 0.37
48 7 0.07
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:58000104 original size:1 final size:1
Alignment explanation
Indices: 58000098--58000207 Score: 139
Period size: 1 Copynumber: 110.0 Consensus size: 1
58000088 ATGTTCTTAA
* * * * *
58000098 CCCCCCCTCCCCCCCCCCTCCCCCCCCCCCCGCCCCCCCCCCGCCCCCCCGCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * * *
58000163 CCCCCCCCCCCCCCCCCGCCCCCCCCCGCTCCCTCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
58000208 TACCCTCGTG
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 91 1.00
ACGTcount: A:0.00, C:0.92, G:0.05, T:0.04
Consensus pattern (1 bp):
C
Found at i:58000909 original size:17 final size:18
Alignment explanation
Indices: 58000887--58000920 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
58000877 TGATCAGTGC
58000887 AATGTTTT-GAAACTATA
1 AATGTTTTAGAAACTATA
58000904 AATGTTTTAGAAACTAT
1 AATGTTTTAGAAACTAT
58000921 GATATAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (18 bp):
AATGTTTTAGAAACTATA
Found at i:58004344 original size:15 final size:15
Alignment explanation
Indices: 58004324--58004355 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58004314 TATATCATAT
*
58004324 ATCATATTTCTAAAC
1 ATCATATTTCAAAAC
58004339 ATCATATTTCAAAAC
1 ATCATATTTCAAAAC
58004354 AT
1 AT
58004356 GCTGATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (15 bp):
ATCATATTTCAAAAC
Found at i:58005066 original size:45 final size:45
Alignment explanation
Indices: 58005002--58005171 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
58004992 AACCCGCCCC
* *
58005002 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
* *
58005047 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
* *
58005093 TTTCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
58005139 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
58005172 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 10, Indels: 19
0.78 0.07 0.14
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 38 0.36
46 48 0.46
47 6 0.06
48 6 0.06
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:58005137 original size:92 final size:92
Alignment explanation
Indices: 58005007--58005175 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
58004997 GCCCCTAAGT
*
58005007 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
58005072 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
58005099 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58005163 CGAGTTCGGATGC
65 CGAGTTCGGATGC
58005176 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 20 0.27
92 54 0.73
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:58010617 original size:49 final size:49
Alignment explanation
Indices: 58010513--58010640 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 49
58010503 GTATGTCAAA
* * *
58010513 GTCGATGCCATGTCCTAGATAGGTCTTACACTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* ** * * *
58010562 GCCGATGCTGTGTCCCAGACAGGTTTTACACTGGCTCTCATCTATCG-G
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
*
58010610 TGTCGATGCCATGTCCCAAACAGGTCTTACA
1 -GTCGATGCCATGTCCCAGACAGGTCTTACA
58010641 TTGAGACACA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 1 0.02
49 63 0.98
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:58016994 original size:25 final size:25
Alignment explanation
Indices: 58016934--58017017 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
58016924 AGGAAGTGCA
* *
58016934 AAAAGGGCTTTTGCCCTAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
58016959 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
58016985 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
58017008 AAAAGAGGCT
1 AAAAG-GGCT
58017018 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 9 0.17
24 13 0.25
25 8 0.15
26 23 0.43
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:58017261 original size:31 final size:31
Alignment explanation
Indices: 58017226--58017288 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
58017216 GTTTACAGTG
*
58017226 AAGGCTTCGGCCTAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
* ** *
58017257 AAGGCTTTGGCCCAGTGTTATGAATTATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
58017288 A
1 A
58017289 TATAAAAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:58019974 original size:15 final size:15
Alignment explanation
Indices: 58019954--58019983 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58019944 TATGTGGTAA
*
58019954 AGCCGAATGGCTAAT
1 AGCCGAATGGATAAT
58019969 AGCCGAATGGATAAT
1 AGCCGAATGGATAAT
58019984 GTGAAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.20
Consensus pattern (15 bp):
AGCCGAATGGATAAT
Found at i:58020240 original size:37 final size:37
Alignment explanation
Indices: 58020190--58020261 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
58020180 GGAAATATAT
*
58020190 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
* *
58020227 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTT
58020262 AATCAGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
Found at i:58021604 original size:40 final size:40
Alignment explanation
Indices: 58021535--58021973 Score: 608
Period size: 40 Copynumber: 11.0 Consensus size: 40
58021525 TTGAGAGTCA
* * * * *
58021535 TATAGCCGGGCTATGCCCCAAAGACCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
58021575 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
58021615 TATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
58021655 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
58021695 TGTATCCGGGCTAAGTCCCAAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
58021735 TACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
58021775 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
58021815 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
58021855 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * *
58021895 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
58021935 TATATCAGGGTTAAGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
58021974 ATGTGTATTC
Statistics
Matches: 352, Mismatches: 47, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 352 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:58022187 original size:25 final size:25
Alignment explanation
Indices: 58022137--58022187 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
58022127 TGTGTAACAA
* *
58022137 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
58022162 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
58022187 C
1 C
58022188 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:58022215 original size:28 final size:26
Alignment explanation
Indices: 58022184--58022274 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 26
58022174 GGCACTGAGA
58022184 GTGCGAGTTCTTCAACTGAGCACTATGT
1 GTGCGAGTTCTT-AA-TGAGCACTATGT
**
58022212 GTGCGAGATTGGTAATTGAGGCACTATGT
1 GTGCGAG-TTCTTAA-TGA-GCACTATGT
* * *
58022241 GCGCGAGTTCTTTAATCAAGCGCTATGT
1 GTGCGAGTTC-TTAAT-GAGCACTATGT
58022269 GTGCGA
1 GTGCGA
58022275 AATCAGTCAG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
28 28 0.56
29 22 0.44
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (26 bp):
GTGCGAGTTCTTAATGAGCACTATGT
Found at i:58025673 original size:48 final size:48
Alignment explanation
Indices: 58025607--58025755 Score: 289
Period size: 48 Copynumber: 3.1 Consensus size: 48
58025597 GCGGAAATTG
58025607 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
58025655 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
58025703 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
58025751 ATGTA
1 ATGTA
58025756 GGCGATGTGT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 100 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:58026010 original size:37 final size:37
Alignment explanation
Indices: 58025901--58026010 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
58025891 TGGAAATATA
*
58025901 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
*
58025938 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
* *
58025975 TTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
58026011 CATCGGAGCT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
Found at i:58034447 original size:25 final size:26
Alignment explanation
Indices: 58034387--58034457 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
58034377 AGGAAGTGCA
58034387 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
58034413 AAAAGGGCTTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
58034438 AAAATGGC-TTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
58034458 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.28
25 7 0.16
26 24 0.56
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:58034470 original size:24 final size:25
Alignment explanation
Indices: 58034387--58034470 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
58034377 AGGAAGTGCA
*
58034387 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
58034412 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
* *
58034438 AAAATGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
58034461 AAAAGAGGCT
1 AAAAG-GGCT
58034471 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 8 0.15
24 13 0.25
25 7 0.13
26 24 0.46
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:58034714 original size:31 final size:31
Alignment explanation
Indices: 58034679--58034741 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
58034669 ATTTACAGTG
58034679 AAGGCTTCGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
**
58034710 AAGGCTTCGGCCCAGTGTTATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
58034741 A
1 A
58034742 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:58036081 original size:20 final size:20
Alignment explanation
Indices: 58036056--58036099 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
58036046 AGAATAGTGG
* *
58036056 TTTCAGGACCACAAATCTTA
1 TTTCAGAACCACAAATCTGA
58036076 TTTCAGAACCACAAATCTGA
1 TTTCAGAACCACAAATCTGA
58036096 TTTC
1 TTTC
58036100 GAAAGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (20 bp):
TTTCAGAACCACAAATCTGA
Found at i:58048426 original size:78 final size:79
Alignment explanation
Indices: 58048295--58048457 Score: 319
Period size: 78 Copynumber: 2.1 Consensus size: 79
58048285 TAATTTTAAA
58048295 TGTATCGCATAGTTCTAAGAAGTTGGCTAAATGAGCGTTGGGATCCTCATCCTACAAATCATCAA
1 TGTATCGCATAGTTCTAAGAAGTTGGCTAAATGAGCGTTGGGATCCTCATCCTACAAATCATCAA
58048360 ACTGAACAAATTGC
66 ACTGAACAAATTGC
58048374 TGTA-CGCATAGTTCTAAGAAGTTGGCTAAATGAGCGTTGGGATCCTCATCCTACAAATCATCAA
1 TGTATCGCATAGTTCTAAGAAGTTGGCTAAATGAGCGTTGGGATCCTCATCCTACAAATCATCAA
58048438 ACTGAACAAATTGC
66 ACTGAACAAATTGC
58048452 TGTATC
1 TGTATC
58048458 ATTTGAATAG
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
78 78 0.94
79 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (79 bp):
TGTATCGCATAGTTCTAAGAAGTTGGCTAAATGAGCGTTGGGATCCTCATCCTACAAATCATCAA
ACTGAACAAATTGC
Found at i:58050317 original size:29 final size:28
Alignment explanation
Indices: 58050198--58050319 Score: 167
Period size: 27 Copynumber: 4.4 Consensus size: 28
58050188 ATATTAAGTC
*
58050198 CGCACACTCAGTGCTATATAATT-AACT
1 CGCACACTTAGTGCTATATAATTAAACT
*
58050225 CGCACACTTAGTGCTATATAA-TCAACT
1 CGCACACTTAGTGCTATATAATTAAACT
*
58050252 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATTAAACT
* * *
58050280 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TTAAACT
58050309 CGCACACTTAG
1 CGCACACTTAG
58050320 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 45 0.53
28 23 0.27
29 16 0.19
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATTAAACT
Found at i:58054368 original size:45 final size:45
Alignment explanation
Indices: 58054313--58054435 Score: 194
Period size: 45 Copynumber: 2.7 Consensus size: 45
58054303 ATTTCACTGA
* *
58054313 CATTATAGCCTACTAGGCTCGAAA-GCCCAAATAGTATCTCACCGG
1 CATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGG
*
58054358 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGG
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
*
58054403 CATTATAACCTGCTAGGCTCAAAGGCCCGAATA
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
58054436 ATACTGTGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 3 0.04
45 70 0.96
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
Done.