Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 433 of 770
Found at i:133609231 original size:40 final size:40
Alignment explanation
Indices: 133609172--133609356 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
133609162 CGGATGATAA
* * *
133609172 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
133609212 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
133609252 CAGGGATAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
133609292 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
133609332 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
133609357 AGCAAGTAGT
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 132 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:133609371 original size:80 final size:79
Alignment explanation
Indices: 133609168--133609388 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 79
133609158 TATTCGGATG
* * *
133609168 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
133609232 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * * * *
133609248 ATATCAGGGATAAGTCCCGAAGGCGTTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
*
133609313 TTTGTGTGAGTTACT
65 TTTGTGCGAGTTACT
* * * *
133609328 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTC-AGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
133609389 ATGCTTGGGT
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 15 0.12
80 104 0.86
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:133612418 original size:46 final size:46
Alignment explanation
Indices: 133612351--133612525 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
133612341 AACCCGCCCC
* *
133612351 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
* * * *
133612397 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCATCCA
* * **
133612443 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
133612490 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
133612526 CTCAACCATC
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.64
47 34 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
Found at i:133612463 original size:93 final size:93
Alignment explanation
Indices: 133612356--133612526 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
133612346 GCCCCTAAGT
***
133612356 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
133612421 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
133612449 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
133612514 CGAGTTCGGATGC
66 CGAGTTCGGATGC
133612527 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:133617981 original size:46 final size:43
Alignment explanation
Indices: 133617839--133617973 Score: 123
Period size: 46 Copynumber: 3.0 Consensus size: 43
133617829 ACCGCCCCTA
133617839 AGTGAACTCGGACTCAACTCAACGAGTT-GGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
133617885 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
133617931 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
133617974 CCTAGTGACA
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 54 0.73
47 5 0.07
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:133623827 original size:40 final size:40
Alignment explanation
Indices: 133623665--133623845 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
133623655 TATTCGGATG
* * *
133623665 ATATCCGGGCTAAGTCCAGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
133623705 ATATTCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * **
133623745 ATATCTGGGCTAAGTCTCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
133623785 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
133623825 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
133623846 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 13 0.11
40 106 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:133628638 original size:46 final size:46
Alignment explanation
Indices: 133628571--133628696 Score: 234
Period size: 46 Copynumber: 2.7 Consensus size: 46
133628561 AACCCGCCCC
* *
133628571 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
133628617 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
133628663 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
133628697 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:133629150 original size:30 final size:30
Alignment explanation
Indices: 133629116--133629175 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
133629106 ATTTAATACG
133629116 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
133629146 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
133629176 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:133634360 original size:37 final size:37
Alignment explanation
Indices: 133634307--133634382 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
133634297 AGTTTAATGT
*
133634307 GTTGGATTTATGACACAAATGAGTTGATGGCCTAGTG
1 GTTGGATTTATCACACAAATGAGTTGATGGCCTAGTG
133634344 GTTGGATTTATCACACAAATGAGTTGATGGCCTAGTG
1 GTTGGATTTATCACACAAATGAGTTGATGGCCTAGTG
133634381 GT
1 GT
133634383 GGTGGCGTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (37 bp):
GTTGGATTTATCACACAAATGAGTTGATGGCCTAGTG
Found at i:133635284 original size:2 final size:2
Alignment explanation
Indices: 133635277--133635302 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
133635267 GCTTCGCCAC
133635277 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
133635303 CTGTTCTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:133635338 original size:26 final size:26
Alignment explanation
Indices: 133635299--133635357 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
133635289 ATATATATAT
*
133635299 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
133635325 ATATCTGTAT-TGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
133635351 ATATCTG
1 ATATCTG
133635358 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:133638606 original size:29 final size:29
Alignment explanation
Indices: 133638573--133638673 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
133638563 TAGTGAATCC
133638573 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
133638602 CGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* **
133638631 CGCACACTTAGTGCTATATCTAATCA-CT
1 CGCACACTTAGTGCTATATATTTTCAGCT
133638659 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
133638674 GTACAATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 17 0.25
29 50 0.75
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:133638669 original size:57 final size:58
Alignment explanation
Indices: 133638573--133638682 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 58
133638563 TAGTGAATCC
** *
133638573 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTCAGCT
1 CGCACACTTAGTGCTATATATAATCAGCTCGCACACTTAGTGCTATACAATTTCAGCT
* *
133638631 CGCACACTTAGTGCTATATCTAATCA-CTCGCACACTTAGTGCTGTACAATTT
1 CGCACACTTAGTGCTATATATAATCAGCTCGCACACTTAGTGCTATACAATTT
133638683 TAAACCGCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATATAATCAGCTCGCACACTTAGTGCTATACAATTTCAGCT
Found at i:133638700 original size:58 final size:57
Alignment explanation
Indices: 133638572--133638702 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 57
133638562 ATAGTGAATC
** * * *
133638572 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTCAG
1 CCGCACACTTAGTGCTATATATAATCAGCTCGCACACTTAGTGCTATACAATTTAAA
* *
133638629 CTCGCACACTTAGTGCTATATCTAATCA-CTCGCACACTTAGTGCTGTACAATTTTAAA
1 C-CGCACACTTAGTGCTATATATAATCAGCTCGCACACTTAGTGCTATACAA-TTTAAA
133638687 CCGCACACTTTAGTGC
1 CCGCACAC-TTAGTGC
133638703 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 29 0.45
58 35 0.55
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATATAATCAGCTCGCACACTTAGTGCTATACAATTTAAA
Found at i:133658120 original size:40 final size:40
Alignment explanation
Indices: 133657998--133658182 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
133657988 TCGAATGATG
*
133657998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* *
133658038 TCCAGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
133658077 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
* * *
133658117 TCCGGGA-TAAGTCCCAAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
* * *
133658158 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
133658183 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 34 0.27
40 86 0.68
41 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:133658176 original size:80 final size:80
Alignment explanation
Indices: 133657998--133658182 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 80
133657988 TCGAATGATG
*
133657998 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACTAAATCCAGACTAAGATCCAAAGGCATT
*
133658062 GTGCGAGTTACTAAA
66 GTGCGAGCTACTAAA
* *
133658077 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGA-TAAG-TCCCAAAGGC
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTTACTAAATCC-AGACTAAGAT-CCAAAGGC
133658138 ATTTGTGCGAGCTACTATAA
63 A-TTGTGCGAGCTACTA-AA
* *
133658158 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
133658183 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 1 0.01
79 45 0.49
80 44 0.48
81 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACTAAATCCAGACTAAGATCCAAAGGCATT
GTGCGAGCTACTAAA
Found at i:133666163 original size:39 final size:39
Alignment explanation
Indices: 133666001--133666183 Score: 189
Period size: 39 Copynumber: 4.6 Consensus size: 39
133665991 TCGAATGATG
*
133666001 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACT-AA
1 TCCGGG-TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
133666040 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
133666079 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
133666119 TCCGGGTAAGTCCCAAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
133666159 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGG-TAAGTCCCGAAGGCATTTG
133666184 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
38 8 0.06
39 79 0.62
40 41 0.32
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:133666183 original size:79 final size:78
Alignment explanation
Indices: 133666001--133666183 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 78
133665991 TCGAATGATG
* *
133666001 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAATCCGGACTAAGATCCGAAGGCATTGT
1 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTTACTAATCCGGACTAAGATCCAAAGGCATTGT
*
133666066 GCGAGTTACTAAA
66 GCGAGCTACTAAA
* * *
133666079 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-GTAAG-TCCCAAAGGCA
1 TCCGGGCTAAG-TCCCGAAGG-ATTTGTGCTAAGTTACT-AATCCGGACTAAGAT-CCAAAGGCA
133666140 TTTGTGCGAGCTACTATAA
62 -TTGTGCGAGCTACTA-AA
*
133666159 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGG-ATTTG
133666184 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
77 1 0.01
78 37 0.42
79 49 0.55
80 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTTACTAATCCGGACTAAGATCCAAAGGCATTGT
GCGAGCTACTAAA
Found at i:133670719 original size:67 final size:67
Alignment explanation
Indices: 133670591--133670740 Score: 239
Period size: 67 Copynumber: 2.2 Consensus size: 67
133670581 CACCACAGAA
* *
133670591 ATTGCAGCGAGGCTGCCAGATATTGTGATGAAGTCACCAGATACAGATATTATGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTATGGCGAGGCCACC
133670656 AG
66 AG
* * *
133670658 ATTGCAACGAGCCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TATGGCGAGGCCAC
133670722 CAG
65 CAG
133670725 ATTGCAGCGAGGCTGC
1 ATTGCAGCGAGGCTGC
133670741 AAGAACGCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
66 8 0.11
67 67 0.89
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTATGGCGAGGCCACC
AG
Found at i:133670722 original size:27 final size:26
Alignment explanation
Indices: 133670674--133670725 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
133670664 ACGAGCCTGC
*
133670674 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
133670700 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
133670726 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:133688457 original size:40 final size:40
Alignment explanation
Indices: 133688398--133688566 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
133688388 CGGGACTTTA
* * *
133688398 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
133688438 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
133688478 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
133688518 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
133688558 CCCGGATAT
1 CCCGGATAT
133688567 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:133696410 original size:37 final size:38
Alignment explanation
Indices: 133696354--133696478 Score: 144
Period size: 37 Copynumber: 3.2 Consensus size: 38
133696344 CGGGACTTTC
* *
133696354 CCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCGGATAT-ACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
133696393 CCGGATTTA-AACTTGCACGAATGCCTTCGGGTCTTAG
1 CCGGATATACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * *
133696430 CCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-CAACTTGCACAAATGCCTTCGGGTCTT-AG
133696470 CCGGATATA
1 CCGGATATA
133696479 ATTCAGCATA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
37 33 0.45
38 1 0.01
39 29 0.40
40 10 0.14
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (38 bp):
CCGGATATACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:133701113 original size:49 final size:47
Alignment explanation
Indices: 133700996--133701355 Score: 475
Period size: 49 Copynumber: 7.7 Consensus size: 47
133700986 GATTTTACGC
* *
133700996 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
133701043 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
133701090 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
133701139 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
133701188 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
133701237 GATGAATGTGAAGGTGTATATATGTGATAAGG-----TGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * * *
133701279 GATGAATGTGAAGGTGTATATATGTGAT-GGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
133701325 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
133701356 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 14, Indels: 20
0.89 0.04 0.06
Matches are distributed among these distances:
41 2 0.01
42 35 0.12
43 2 0.01
46 34 0.12
47 73 0.25
48 7 0.02
49 136 0.47
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:133703348 original size:42 final size:41
Alignment explanation
Indices: 133703284--133703495 Score: 214
Period size: 40 Copynumber: 5.2 Consensus size: 41
133703274 CTCGACGATG
* * *
133703284 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
133703326 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
133703366 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
133703406 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** * * *
133703446 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
*
133703488 ATTCGGGC
1 ATCCGGGC
133703496 CTTCGAGCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 103 0.70
41 1 0.01
42 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:133703526 original size:43 final size:43
Alignment explanation
Indices: 133703478--133703655 Score: 311
Period size: 43 Copynumber: 4.1 Consensus size: 43
133703468 CAGTCATGCT
133703478 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
133703521 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
133703564 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
* * * **
133703607 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
133703650 GGTGAT
1 GGTGAT
133703656 TCGAGCAAGG
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 130 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
Found at i:133707514 original size:49 final size:47
Alignment explanation
Indices: 133707397--133707761 Score: 484
Period size: 49 Copynumber: 7.7 Consensus size: 47
133707387 GATTTTACGC
* *
133707397 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
133707444 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
133707491 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
133707540 GATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
* *
133707589 GATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
133707638 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * * * *
133707685 GATGAATGTGAAGGTCTATATATGTGAT-GGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
133707731 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
133707762 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
46 39 0.13
47 110 0.38
48 9 0.03
49 135 0.46
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:133715268 original size:47 final size:47
Alignment explanation
Indices: 133715217--133715321 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
133715207 TAGTATTAAT
*
133715217 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
133715264 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
133715311 AATGTGATAAG
1 TATGTGATAAG
133715322 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:133717827 original size:30 final size:30
Alignment explanation
Indices: 133717770--133717828 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
133717760 ATGCCTTAAA
* *
133717770 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
*
133717800 AATATTTACAAAAAGA-TCAACCAAATTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTT
133717829 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:133723736 original size:19 final size:19
Alignment explanation
Indices: 133723714--133723750 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
133723704 TAAAAACTAG
*
133723714 AAAACAAAGTAAAATAAAT
1 AAAACAAAATAAAATAAAT
*
133723733 AAAATAAAATAAAATAAA
1 AAAACAAAATAAAATAAA
133723751 GTTCTAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAACAAAATAAAATAAAT
Found at i:133725539 original size:93 final size:93
Alignment explanation
Indices: 133725426--133725598 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
133725416 CGCCCATAAG
* *
133725426 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
133725491 ACGAGTTCGGATGCTTAGTTACATCTCA
66 ACGAGTTCGGATGCTTAGTTACATCTCA
*
133725519 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
133725584 ACGAGTTCGGATGCT
66 ACGAGTTCGGATGCT
133725599 CAACCATCCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCTTAGTTACATCTCA
Found at i:133725594 original size:46 final size:46
Alignment explanation
Indices: 133725419--133725594 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
133725409 TGTAACCCGC
* * *
133725419 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
133725465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA--C--A-TTCGCAT
*
133725515 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
133725558 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
133725595 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:133728073 original size:22 final size:22
Alignment explanation
Indices: 133728046--133728088 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
133728036 GAAAATAATA
*
133728046 AAAATTAATC-AAAATTTATTAT
1 AAAATT-ATCTAAAATTCATTAT
133728068 AAAATTATCTAAAATTCATTA
1 AAAATTATCTAAAATTCATTA
133728089 GGTTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTATCTAAAATTCATTAT
Found at i:133735061 original size:24 final size:23
Alignment explanation
Indices: 133735012--133735061 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
133735002 TTTCCAAGAT
** *
133735012 TTTGTTTTTACTTTTCATTTGCA
1 TTTGTTTTTACTTTTCAAATGAA
*
133735035 TTTGTTTTTCATTTTTCAAATGAA
1 TTTGTTTTT-ACTTTTCAAATGAA
133735059 TTT
1 TTT
133735062 TTCATGCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (23 bp):
TTTGTTTTTACTTTTCAAATGAA
Found at i:133738173 original size:20 final size:20
Alignment explanation
Indices: 133738148--133738186 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
133738138 TAAGTTAAAA
133738148 AATGAGCTA-GAATTGAGCTC
1 AATGAGCTACGAA-TGAGCTC
133738168 AATGAGCTACGAATGAGCT
1 AATGAGCTACGAATGAGCT
133738187 AAATTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (20 bp):
AATGAGCTACGAATGAGCTC
Found at i:133738175 original size:9 final size:11
Alignment explanation
Indices: 133738148--133738187 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
133738138 TAAGTTAAAA
133738148 AATGAGCTA-G
1 AATGAGCTACG
133738158 AATTGAGCT-C-
1 AA-TGAGCTACG
133738168 AATGAGCTACG
1 AATGAGCTACG
133738179 AATGAGCTA
1 AATGAGCTA
133738188 AATTAACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 6 0.23
10 5 0.19
11 15 0.58
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (11 bp):
AATGAGCTACG
Found at i:133740075 original size:38 final size:38
Alignment explanation
Indices: 133740016--133740195 Score: 279
Period size: 38 Copynumber: 4.7 Consensus size: 38
133740006 ATTTGCATTA
* *
133740016 CACCGGCGCAAAGCCTGCTAGGGACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * **
133740054 CATCGGCACAAAGCCTACTAGGCACATAGCTTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
133740092 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * *
133740130 CACCGGAACAAAGCCTGCTAAGCACATAACCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
133740168 CACCGGCACAAAGCCTGCTAGGCACATA
1 CACCGGCACAAAGCCTGCTAGGCACATA
133740196 CCTTGAATAG
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 127 1.00
ACGTcount: A:0.33, C:0.32, G:0.21, T:0.14
Consensus pattern (38 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
Found at i:133744251 original size:27 final size:28
Alignment explanation
Indices: 133744221--133744290 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
133744211 ATAATAAGTC
*
133744221 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
133744248 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
133744276 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
133744291 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:133752168 original size:27 final size:28
Alignment explanation
Indices: 133752138--133752207 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
133752128 ATAATAAGTC
*
133752138 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
133752165 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
133752193 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
133752208 GTACAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:133755617 original size:24 final size:24
Alignment explanation
Indices: 133755257--133755615 Score: 618
Period size: 24 Copynumber: 15.1 Consensus size: 24
133755247 GCAAAGACCA
133755257 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
133755281 TATGG-ACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
133755304 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
133755328 TATGG--CTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
133755350 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
133755374 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
133755398 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
133755422 TAT-GCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
133755445 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
133755469 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
133755493 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
133755517 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
133755541 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
133755565 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
133755589 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
133755613 TAT
1 TAT
133755616 AGTCACATTC
Statistics
Matches: 323, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
22 21 0.07
23 45 0.14
24 257 0.80
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:133758814 original size:26 final size:26
Alignment explanation
Indices: 133758785--133758834 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
133758775 AATTAATGCT
133758785 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
133758811 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
133758835 TTCTTTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:133760931 original size:26 final size:26
Alignment explanation
Indices: 133760902--133760951 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
133760892 AATTAATGCT
133760902 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
133760928 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
133760952 TTCTTTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:133763425 original size:40 final size:39
Alignment explanation
Indices: 133763380--133763509 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 39
133763370 CGGAACATAA
133763380 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * * *
133763420 CCGGATAGAATGTC-TCGCACGAATGCCTTCAGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
133763460 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
133763500 CCGGATATAA
1 CCGGATATAA
133763510 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:133763524 original size:40 final size:40
Alignment explanation
Indices: 133763396--133763547 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
133763386 ATAACCATGT
* * *
133763396 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* * ** * *
133763436 GCACGAA-TGCCTTCAGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
133763476 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
133763516 GCATAATTGTCTTCAGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTC-GGGTCTTAGCCCGGATAT
133763548 CATTCAATTT
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
39 2 0.02
40 81 0.92
41 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:133763530 original size:80 final size:80
Alignment explanation
Indices: 133763396--133763545 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
133763386 ATAACCATGT
*
133763396 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCAGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCAGGAT-TTAGC
133763460 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
133763476 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCAGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCAGGATTTAG
133763539 CCCGGAT
64 CCCGGAT
133763546 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCAGGATTTAGCC
CGGATGTAGCCACTA
Found at i:133766272 original size:26 final size:26
Alignment explanation
Indices: 133766243--133766292 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
133766233 AATTAATGCT
133766243 AATTAAACTAAAATATTGAATGTTAG
1 AATTAAACTAAAATATTGAATGTTAG
* *
133766269 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
133766293 TTCTTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTAG
Found at i:133768397 original size:39 final size:39
Alignment explanation
Indices: 133768343--133768486 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
133768333 GACTGTTCGA
*
133768343 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
133768382 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
133768421 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
133768460 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
133768487 CTTTGTGCGG
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:133768433 original size:78 final size:79
Alignment explanation
Indices: 133768344--133768525 Score: 267
Period size: 78 Copynumber: 2.3 Consensus size: 79
133768334 ACTGTTCGAG
*
133768344 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
133768408 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
133768422 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
133768487 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * * *
133768501 CCATAACCGGGCTATGTCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGC
133768526 GTTTGAATGA
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 53 0.57
79 40 0.43
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:133775364 original size:26 final size:26
Alignment explanation
Indices: 133775335--133775384 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
133775325 AATTAATGCT
133775335 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
133775361 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
133775385 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:133782246 original size:26 final size:26
Alignment explanation
Indices: 133782217--133782266 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
133782207 AATTAATGCT
133782217 AATTAAACTAAAATATTGAATGTTAG
1 AATTAAACTAAAATATTGAATGTTAG
* *
133782243 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
133782267 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTAG
Found at i:133787841 original size:26 final size:26
Alignment explanation
Indices: 133787812--133787863 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
133787802 AAAATTAATG
133787812 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
*
133787838 CTAATTAAATTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
133787864 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:133789732 original size:26 final size:26
Alignment explanation
Indices: 133789703--133789752 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
133789693 AAAATTAATT
133789703 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
133789729 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
133789753 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:133791797 original size:26 final size:26
Alignment explanation
Indices: 133791768--133791819 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
133791758 AAAATTAATG
*
133791768 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTCAAATATTGAATGTT
*
133791794 CTAATTAAATTCAAATATTGAATGTT
1 CTAATTAAACTCAAATATTGAATGTT
133791820 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (26 bp):
CTAATTAAACTCAAATATTGAATGTT
Found at i:133793896 original size:26 final size:26
Alignment explanation
Indices: 133793867--133793917 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
133793857 AAATTAATGC
133793867 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
133793893 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
133793918 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:133795116 original size:17 final size:19
Alignment explanation
Indices: 133795074--133795117 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
133795064 ATGAAATTTT
*
133795074 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
133795093 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
133795111 AA-TATTA
1 AATTATTA
133795118 CTGTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:133801350 original size:26 final size:26
Alignment explanation
Indices: 133801321--133801370 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
133801311 AATTAATGCT
133801321 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
133801347 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
133801371 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:133803470 original size:26 final size:25
Alignment explanation
Indices: 133803441--133803489 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
133803431 AATTAATGCT
133803441 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTG-ATGTTAG
*
133803467 AATTAAATTGAAATATTGATGTT
1 AATTAAACTGAAATATTGATGTT
133803490 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (25 bp):
AATTAAACTGAAATATTGATGTTAG
Found at i:133804645 original size:26 final size:26
Alignment explanation
Indices: 133804599--133804651 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
133804589 TCAAACATGC
*
133804599 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
133804625 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
133804651 A
1 A
133804652 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:133808433 original size:40 final size:40
Alignment explanation
Indices: 133808308--133808514 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
133808298 CAATTGAATG
* * ** * **
133808308 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
133808348 ATATCCGGG-TTAGACCCGAAGGCAATT-GTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
*
133808387 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
133808427 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
133808467 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
133808507 ATATCCGG
1 ATATCCGG
133808515 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 29 0.21
40 109 0.78
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:133817246 original size:29 final size:29
Alignment explanation
Indices: 133817184--133817286 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
133817174 GTGACGAGAT
* * *
133817184 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
133817213 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
133817242 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
133817271 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
133817287 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:133823983 original size:29 final size:28
Alignment explanation
Indices: 133823949--133824051 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
133823939 TACTCAATCA
*
133823949 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
133823978 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
133824007 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
133824036 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
133824052 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:133828073 original size:29 final size:29
Alignment explanation
Indices: 133828011--133828113 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
133828001 GTGACGAGAT
* * *
133828011 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
133828040 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
133828069 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
133828098 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
133828114 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:133839069 original size:29 final size:29
Alignment explanation
Indices: 133839007--133839109 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
133838997 GTGACGAGAT
* * *
133839007 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
133839036 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
133839065 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
133839094 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
133839110 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:133845091 original size:10 final size:10
Alignment explanation
Indices: 133845076--133845106 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
133845066 CCGCTGGAAT
133845076 TGAAGAGAAA
1 TGAAGAGAAA
133845086 TGAAGAGAAA
1 TGAAGAGAAA
133845096 TGAAGAGAAA
1 TGAAGAGAAA
133845106 T
1 T
133845107 CTAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (10 bp):
TGAAGAGAAA
Found at i:133845774 original size:46 final size:46
Alignment explanation
Indices: 133845707--133846008 Score: 424
Period size: 46 Copynumber: 6.7 Consensus size: 46
133845697 AGTGTGCTCT
133845707 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
133845753 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
133845798 C---T-TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
133845837 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCTTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
133845883 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
133845929 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATTGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
133845975 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
133846009 CATTATGGCA
Statistics
Matches: 233, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 34 0.15
39 1 0.00
41 2 0.01
42 2 0.01
43 2 0.01
45 2 0.01
46 190 0.82
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:133847512 original size:171 final size:172
Alignment explanation
Indices: 133847214--133847858 Score: 954
Period size: 171 Copynumber: 3.8 Consensus size: 172
133847204 TAATGTAGAA
** * *
133847214 ATTAAAGTATAGATAATTTTAAGTAAAAAATAAAAATTAAATGCTTAAAATTTAACTTAATAATT
1 ATTAAAGTATAGATAATTTTAAGTAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATT
* * *
133847279 AAAGTTCAAATTGAAAATTAATTAAATTTCTTAATTTTAATTAAAAAATCAATTTAAAGATTAAA
66 AAAGTTTAAATTAAAAATTAATTAAATTTCTTAATTTTAATTAAAAAATAAATTTAAAGATTAAA
*
133847344 TAAAAAAATTTTAATACATTTCAATTCAAAAGA-TAAAACCT
131 TAAAAAAATTTTAATACATTTCAATTGAAAAGATTAAAACCT
* *
133847385 ATTAAAGTAGAGATAATTTTAAGTAAAAAATAAAAATTAAACATATAAAGTTTAACTTAATAATT
1 ATTAAAGTATAGATAATTTTAAGTAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATT
* * * *
133847450 AAAGTTTAATTTAAAAATAAATTAAATTTCTTAATTTTAATGAAAAAATAAATTTTAAGATTAAA
66 AAAGTTTAAATTAAAAATTAATTAAATTTCTTAATTTTAATTAAAAAATAAATTTAAAGATTAAA
* * *
133847515 TAAAAAATTATTTAATACATTTCAATTGAAAATATTAAAACCA
131 TAAAAAAAT-TTTAATACATTTCAATTGAAAAGATTAAAACCT
* * * * *
133847558 ATTAAAGTATAGATAATTTCAATTAAAAAATAAAAATTAAATACATAAACTCTAACTTAATAATT
1 ATTAAAGTATAGATAATTTTAAGTAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATT
* * * *
133847623 AAAGTTTAAATTAAAAATTAATTGAATTACTTAATTTTAATTAAAAAATTAATTTAAAGATTCAA
66 AAAGTTTAAATTAAAAATTAATTAAATTTCTTAATTTTAATTAAAAAATAAATTTAAAGATTAAA
133847688 TAAAAATAA-TTTAATACATTTCAATTGAAAAGATTAAAACCT
131 TAAAAA-AATTTTAATACATTTCAATTGAAAAGATTAAAACCT
* * *
133847730 ATTAAAGTATAGATAA-TTTAATTAAGAAATAAAAATTAAATACATAAAGTTTAACTTAATAATT
1 ATTAAAGTATAGATAATTTTAAGTAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATT
* * **
133847794 AAAGTTTAAATTAAAATTTAATTAAATTTCTTAATTTTAATTAAAAAATCAATCAAAAGATTAAA
66 AAAGTTTAAATTAAAAATTAATTAAATTTCTTAATTTTAATTAAAAAATAAATTTAAAGATTAAA
133847859 ACCAATTAAT
Statistics
Matches: 425, Mismatches: 46, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
171 227 0.53
172 69 0.16
173 128 0.30
174 1 0.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (172 bp):
ATTAAAGTATAGATAATTTTAAGTAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATT
AAAGTTTAAATTAAAAATTAATTAAATTTCTTAATTTTAATTAAAAAATAAATTTAAAGATTAAA
TAAAAAAATTTTAATACATTTCAATTGAAAAGATTAAAACCT
Found at i:133847710 original size:24 final size:23
Alignment explanation
Indices: 133847666--133847712 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
133847656 ATTTTAATTA
*
133847666 AAAAATTAATTTAAAGATTCAAT
1 AAAAATTAATTTAAACATTCAAT
133847689 AAAAA-TAATTTAATACATTTCAAT
1 AAAAATTAATTTAA-ACA-TTCAAT
133847713 TGAAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 7 0.33
24 6 0.29
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAATTAATTTAAACATTCAAT
Found at i:133847762 original size:344 final size:344
Alignment explanation
Indices: 133847213--133847842 Score: 1030
Period size: 344 Copynumber: 1.8 Consensus size: 344
133847203 ATAATGTAGA
* * * *
133847213 AATTAAAGTATAGATAATTTTAAGTAAAAAATAAAAATTAAATGCTTAAAATTTAACTTAATAAT
1 AATTAAAGTATAGATAATTTCAAGTAAAAAATAAAAATTAAATACATAAAATCTAACTTAATAAT
* *
133847278 TAAAGTTCAAATTGAAAATTAATTAAATTTCTTAATTTTAATTAAAAAATCAATTTAAAGATTAA
66 TAAAGTTCAAATTAAAAATTAATTAAATTACTTAATTTTAATTAAAAAATCAATTTAAAGATTAA
133847343 ATAAAAAAATTTTAATACATTTCAATTCAAAAGATAAAACCTATTAAAGTAGAGATAATTTTAAG
131 ATAAAAAAATTTTAATACATTTCAATTCAAAAGATAAAACCTATTAAAGTAGAGATAATTTTAAG
* *
133847408 TAAAAAATAAAAATTAAACATATAAAGTTTAACTTAATAATTAAAGTTTAATTTAAAAATAAATT
196 TAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATTAAAGTTTAAATTAAAAATAAATT
133847473 AAATTTCTTAATTTTAATGAAAAAATAAATTTTAAGATTAAATAAAAAATTATTTAATACATTTC
261 AAATTTCTTAATTTTAATGAAAAAATAAATTTTAAGATTAAATAAAAAATTATTTAATACATTTC
133847538 AATTGAAAATATTAAAACC
326 AATTGAAAATATTAAAACC
* *
133847557 AATTAAAGTATAGATAATTTCAATTAAAAAATAAAAATTAAATACATAAACTCTAACTTAATAAT
1 AATTAAAGTATAGATAATTTCAAGTAAAAAATAAAAATTAAATACATAAAATCTAACTTAATAAT
* * * *
133847622 TAAAGTTTAAATTAAAAATTAATTGAATTACTTAATTTTAATTAAAAAATTAATTTAAAGATTCA
66 TAAAGTTCAAATTAAAAATTAATTAAATTACTTAATTTTAATTAAAAAATCAATTTAAAGATTAA
* *
133847687 ATAAAAATAA-TTTAATACATTTCAATTGAAAAGATTAAAACCTATTAAAGTATAGATAA-TTTA
131 ATAAAAA-AATTTTAATACATTTCAATTCAAAAGA-TAAAACCTATTAAAGTAGAGATAATTTTA
* * * * *
133847750 ATTAAGAAATAAAAATTAAATACATAAAGTTTAACTTAATAATTAAAGTTTAAATTAAAATTTAA
194 AGTAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATTAAAGTTTAAATTAAAAATAAA
*
133847815 TTAAATTTCTTAATTTTAATTAAAAAAT
259 TTAAATTTCTTAATTTTAATGAAAAAAT
133847843 CAATCAAAAG
Statistics
Matches: 262, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
344 237 0.90
345 25 0.10
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (344 bp):
AATTAAAGTATAGATAATTTCAAGTAAAAAATAAAAATTAAATACATAAAATCTAACTTAATAAT
TAAAGTTCAAATTAAAAATTAATTAAATTACTTAATTTTAATTAAAAAATCAATTTAAAGATTAA
ATAAAAAAATTTTAATACATTTCAATTCAAAAGATAAAACCTATTAAAGTAGAGATAATTTTAAG
TAAAAAATAAAAATTAAACACATAAAGTTTAACTTAATAATTAAAGTTTAAATTAAAAATAAATT
AAATTTCTTAATTTTAATGAAAAAATAAATTTTAAGATTAAATAAAAAATTATTTAATACATTTC
AATTGAAAATATTAAAACC
Found at i:133847814 original size:19 final size:19
Alignment explanation
Indices: 133847774--133847811 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
133847764 ATTAAATACA
*
133847774 TAAAGTTTAACTTAATAAT
1 TAAAGTTTAAATTAATAAT
133847793 TAAAGTTTAAATTAA-AAT
1 TAAAGTTTAAATTAATAAT
133847811 T
1 T
133847812 TAATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAAGTTTAAATTAATAAT
Found at i:133850887 original size:90 final size:90
Alignment explanation
Indices: 133850721--133850924 Score: 207
Period size: 90 Copynumber: 2.3 Consensus size: 90
133850711 TTATAAACAT
* * * * *
133850721 ATACAAAATTAATACAAACATTTTAGAAACTTGATATAATAAAATATAAAATTCAACCGACAAAT
1 ATACAAAAATAATAGAAACATTTTAAAAACTTGATATAAGAAAATATAAAATTCAACCAACAAAT
* * * *
133850786 AATACGAACTAAAATAT-TTTTATGG
66 AACACGAACTAAAAT-TGATTTACGA
* * * * * *
133850811 ATCCAAAAATAATAGAAACATTTTACAAAAC-TGATATACGACAATATGAATTTCAACCAATAAA
1 ATACAAAAATAATAGAAACATTTTA-AAAACTTGATATAAGAAAATATAAAATTCAACCAACAAA
* *
133850875 TAACATGGACTAAAATTGATTTACGA
65 TAACACGAACTAAAATTGATTTACGA
133850901 ATACAAAAATAATACG-AACATTTT
1 ATACAAAAATAATA-GAAACATTTT
133850925 GAATAGTAGT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
89 1 0.01
90 87 0.94
91 5 0.05
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.28
Consensus pattern (90 bp):
ATACAAAAATAATAGAAACATTTTAAAAACTTGATATAAGAAAATATAAAATTCAACCAACAAAT
AACACGAACTAAAATTGATTTACGA
Found at i:133856511 original size:6 final size:6
Alignment explanation
Indices: 133856497--133856528 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
133856487 AGAATACACT
*
133856497 GTAAGA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
133856529 CGCAGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:133859784 original size:19 final size:20
Alignment explanation
Indices: 133859752--133859793 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
133859742 TGTTTATATA
133859752 TTTTCTTTATTTTC-CTTTGT
1 TTTTCTTTATTTTCAC-TTGT
*
133859772 TTTTTTTTA-TTTCACTTGT
1 TTTTCTTTATTTTCACTTGT
133859791 TTT
1 TTT
133859794 ATATTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTCTTTATTTTCACTTGT
Found at i:133862822 original size:40 final size:40
Alignment explanation
Indices: 133862777--133862906 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
133862767 CGGAATACAA
133862777 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
133862817 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
133862857 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
133862897 CCGGATATAA
1 CCGGATATAA
133862907 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:133870795 original size:40 final size:40
Alignment explanation
Indices: 133870750--133870917 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
133870740 CGGAATACAA
133870750 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
133870790 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
133870830 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
133870870 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
133870910 CCGGATAT
1 CCGGATAT
133870918 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:133889135 original size:21 final size:20
Alignment explanation
Indices: 133889107--133889146 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
133889097 CCGAGCCCAC
133889107 ACCAAAACCAAAAAAAAAAA
1 ACCAAAACCAAAAAAAAAAA
133889127 ACCATAAACCAAAATAAAAA
1 ACCA-AAACCAAAA-AAAAA
133889147 TAAAGGGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.75, C:0.20, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCAAAACCAAAAAAAAAAA
Found at i:133891385 original size:13 final size:14
Alignment explanation
Indices: 133891369--133891404 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
133891359 CAATCTCATA
133891369 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
133891382 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
133891395 TCTC-ATTTCA
1 TCTCAATTTCA
133891405 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:133891394 original size:18 final size:19
Alignment explanation
Indices: 133891356--133891396 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
133891346 TGGTTCATGT
133891356 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
133891375 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
133891393 TTTC
1 TTTC
133891397 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:133891588 original size:21 final size:21
Alignment explanation
Indices: 133891560--133891644 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
133891550 TGATCAGTAT
*
133891560 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * * *
133891581 ATGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
133891602 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
133891624 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
133891645 TCGGTAAAGC
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 32 0.64
22 3 0.06
23 15 0.30
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:133891610 original size:23 final size:22
Alignment explanation
Indices: 133891583--133891632 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
133891573 TGCCTAAAAT
133891583 GACACACGAGGTGCCTG-ATAC
1 GACACACGAGGTGCCTGAATAC
133891604 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG-AATAC
133891627 GACACA
1 GACACA
133891633 TAAAGTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.12
Consensus pattern (22 bp):
GACACACGAGGTGCCTGAATAC
Found at i:133892040 original size:15 final size:15
Alignment explanation
Indices: 133892015--133892072 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
133892005 TCATATATAT
133892015 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
133892031 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
133892046 AATAATTTCAATCAA
1 TATAAATTCAATCAA
133892061 TATAAATTCAAT
1 TATAAATTCAAT
133892073 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:133892057 original size:30 final size:28
Alignment explanation
Indices: 133892018--133892076 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
133892008 TATATATTAT
133892018 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
133892047 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
133892076 A
1 A
133892077 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:133892235 original size:2 final size:2
Alignment explanation
Indices: 133892228--133892257 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
133892218 ATATCTCATT
133892228 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
133892258 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:133896536 original size:59 final size:59
Alignment explanation
Indices: 133896444--133896563 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
133896434 CAAGATCATT
133896444 TTCAGCTGTAATTTTCAATTCTTCCACACTATATGTACAAAATATTAACAACAGATATG
1 TTCAGCTGTAATTTTCAATTCTTCCACACTATATGTACAAAATATTAACAACAGATATG
133896503 TTCAGCTGTAATTTTCAATTCTTCCACACTATATGTACAAAATATTAACAACAGATATG
1 TTCAGCTGTAATTTTCAATTCTTCCACACTATATGTACAAAATATTAACAACAGATATG
133896562 TT
1 TT
133896564 ACCCATTCAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (59 bp):
TTCAGCTGTAATTTTCAATTCTTCCACACTATATGTACAAAATATTAACAACAGATATG
Found at i:133898097 original size:13 final size:14
Alignment explanation
Indices: 133898081--133898116 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
133898071 CAATCTCATA
133898081 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
133898094 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
133898107 TCTC-ATTTCA
1 TCTCAATTTCA
133898117 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:133898106 original size:18 final size:19
Alignment explanation
Indices: 133898068--133898108 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
133898058 TGGTTCATGT
133898068 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
133898087 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
133898105 TTTC
1 TTTC
133898109 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:133898559 original size:26 final size:26
Alignment explanation
Indices: 133898502--133898608 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
133898492 TGATACAAAT
133898502 TGATAATGGGTTAGGTAAATG-TCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
133898527 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
133898553 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
133898579 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
133898605 TGAT
1 TGAT
133898609 GGAATTTCAT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 19 0.25
26 57 0.75
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:133900622 original size:129 final size:130
Alignment explanation
Indices: 133900392--133900643 Score: 497
Period size: 129 Copynumber: 1.9 Consensus size: 130
133900382 GAGTAGTCTC
133900392 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
133900457 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCT-AAAAGGGCTCTGGCCACTGTTA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCACTGTTA
133900521 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
133900586 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCC
133900644 CAGTACCACT
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 107 0.88
130 15 0.12
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (130 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCACTGTTA
Found at i:133905363 original size:26 final size:26
Alignment explanation
Indices: 133905334--133905441 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
133905324 TGATACAAAT
133905334 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
133905360 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
133905386 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
133905412 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
133905438 TGAT
1 TGAT
133905442 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:133907456 original size:130 final size:130
Alignment explanation
Indices: 133907223--133907475 Score: 506
Period size: 130 Copynumber: 1.9 Consensus size: 130
133907213 GAGTAGTCTC
133907223 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
133907288 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCACTGTTA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCACTGTTA
133907353 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
133907418 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCC
133907476 CAGTACCACT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (130 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCACTGTTA
Found at i:133908383 original size:23 final size:21
Alignment explanation
Indices: 133908316--133908389 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
133908306 CCTGATCAGT
** *
133908316 ATACGACACATAAAGTGCCT-
1 ATACGACACACGAGGTGCCTG
*
133908336 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
133908357 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
133908378 AAATACGACACA
1 --ATACGACACA
133908390 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 16 0.35
21 20 0.43
23 10 0.22
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:133908397 original size:23 final size:22
Alignment explanation
Indices: 133908316--133908399 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 22
133908306 CCTGATCAGT
*
133908316 ATACGACACATAAAGTGCCT-A
1 ATACGACACACAAAGTGCCTGA
* *
133908337 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTGA
* *
133908357 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTG-A
*
133908380 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
133908400 AATCGGTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
20 16 0.30
21 20 0.38
23 17 0.32
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:133908796 original size:15 final size:15
Alignment explanation
Indices: 133908770--133908828 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
133908760 AATCATATAT
133908770 ATATATAATTCAATCA
1 ATATA-AATTCAATCA
133908786 ATATAAATTCAATCA
1 ATATAAATTCAATCA
* *
133908801 AAATAATTTCAATCA
1 ATATAAATTCAATCA
133908816 ATATAAATTCAAT
1 ATATAAATTCAAT
133908829 AAAACAGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
15 34 0.87
16 5 0.13
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATAAATTCAATCA
Found at i:133908991 original size:2 final size:2
Alignment explanation
Indices: 133908984--133909013 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
133908974 ATATCTCATT
133908984 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
133909014 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:133909847 original size:2 final size:2
Alignment explanation
Indices: 133909840--133909867 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
133909830 TTTGTTTCTT
133909840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
133909868 ATGACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:133911335 original size:3 final size:3
Alignment explanation
Indices: 133911318--133911368 Score: 59
Period size: 3 Copynumber: 16.0 Consensus size: 3
133911308 GTATACGCAT
133911318 ATA ATAA ATA TATA ATA ATA TATA ATA ATA TATA ATA ATA AT- ATA ATA
1 ATA AT-A ATA -ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA
133911366 ATA
1 ATA
133911369 TGAAAATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 2 0.05
3 29 0.67
4 12 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:133911339 original size:10 final size:10
Alignment explanation
Indices: 133911316--133911369 Score: 90
Period size: 10 Copynumber: 5.2 Consensus size: 10
133911306 ATGTATACGC
133911316 ATATAATAAAT
1 ATATAAT-AAT
133911327 ATATAATAAT
1 ATATAATAAT
133911337 ATATAATAAT
1 ATATAATAAT
133911347 ATATAATAAT
1 ATATAATAAT
133911357 AATATAATAAT
1 -ATATAATAAT
133911368 AT
1 AT
133911370 GAAAATACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
10 25 0.60
11 17 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATAATAAT
Found at i:133911987 original size:7 final size:7
Alignment explanation
Indices: 133911975--133912005 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
133911965 AAAGGTCAAT
133911975 TTTTTTA
1 TTTTTTA
133911982 TTTTTTA
1 TTTTTTA
133911989 TTTTTTA
1 TTTTTTA
133911996 TTTTTGTA
1 TTTTT-TA
133912004 TT
1 TT
133912006 ATATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:133912034 original size:26 final size:26
Alignment explanation
Indices: 133911986--133912035 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
133911976 TTTTTATTTT
* *
133911986 TTATTTTTTATTTTTGTATTATATTA
1 TTATTTTTTATATTTGTAGTATATTA
133912012 TTATTTTTATATATTT-TAGTATAT
1 TTATTTTT-TATATTTGTAGTATAT
133912036 ATATATGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (26 bp):
TTATTTTTTATATTTGTAGTATATTA
Found at i:133912473 original size:7 final size:7
Alignment explanation
Indices: 133912453--133912519 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
133912443 CGGCTGATTA
133912453 GGGTTTT
1 GGGTTTT
133912460 GGGGTTTT
1 -GGGTTTT
133912468 GGGTTTT
1 GGGTTTT
133912475 GGGTTTGT
1 GGGTTT-T
*
133912483 AAGGGGTTT
1 --GGGTTTT
*
133912492 GGGCTTCT
1 GGG-TTTT
* *
133912500 GTGTATT
1 GGGTTTT
133912507 GGGTTTT
1 GGGTTTT
133912514 GGGTTT
1 GGGTTT
133912520 GTAAGGGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
7 29 0.62
8 12 0.26
9 1 0.02
10 5 0.11
ACGTcount: A:0.04, C:0.03, G:0.43, T:0.49
Consensus pattern (7 bp):
GGGTTTT
Found at i:133912494 original size:32 final size:33
Alignment explanation
Indices: 133912452--133912539 Score: 90
Period size: 39 Copynumber: 2.5 Consensus size: 33
133912442 TCGGCTGATT
*
133912452 AGGGTTTTGGGGTT-TTGGGTTTTGGGTTTGTA
1 AGGGGTTTGGGGTTATTGGGTTTTGGGTTTGTA
133912484 AGGGGTTTGGGCTTCTGTGTATTGGGTTTTGGGTTTGTA
1 AGGGGTTTGGG-----GT-TATTGGGTTTTGGGTTTGTA
133912523 A-GGGTTTAGGGGTTATT
1 AGGGGTTT-GGGGTTATT
133912540 AAATGGGTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
32 10 0.21
33 4 0.09
34 2 0.04
37 2 0.04
38 7 0.15
39 22 0.47
ACGTcount: A:0.09, C:0.02, G:0.42, T:0.47
Consensus pattern (33 bp):
AGGGGTTTGGGGTTATTGGGTTTTGGGTTTGTA
Found at i:133913011 original size:26 final size:26
Alignment explanation
Indices: 133912949--133913057 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
133912939 TGATACAAAT
133912949 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
133912974 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
133913000 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
133913026 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
133913052 TGATAA
1 TGATAA
133913058 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:133915089 original size:137 final size:137
Alignment explanation
Indices: 133914843--133915129 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
133914833 GAGTAGTCTC
133914843 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
133914908 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
133914973 ACTGTTA
131 ACTGTTA
133914980 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
133915045 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
133915110 ACTGTTA
131 ACTGTTA
**
133915117 CCTGAATGGGCTT
1 CCCAAATGGGCTT
133915130 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:133916573 original size:24 final size:25
Alignment explanation
Indices: 133916546--133916592 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
133916536 ATCATATTAG
133916546 TTTAACAT-TTTGTATA-ATATTTCA
1 TTTAA-ATGTTTGTATATATATTTCA
*
133916570 TTTAAATGTTTTTATATATATTT
1 TTTAAATGTTTGTATATATATTT
133916593 ATACATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTAAATGTTTGTATATATATTTCA
Found at i:133916700 original size:2 final size:2
Alignment explanation
Indices: 133916695--133916741 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
133916685 TATATATATA
*
133916695 TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
133916737 TG TG T
1 TG TG T
133916742 TTTAAAATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:133916793 original size:20 final size:20
Alignment explanation
Indices: 133916768--133916810 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
133916758 TATATAGTTC
133916768 ATTCCCTAAGAACATATTTT
1 ATTCCCTAAGAACATATTTT
133916788 ATTCCCTAAGAACATATTTT
1 ATTCCCTAAGAACATATTTT
133916808 ATT
1 ATT
133916811 ATATACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (20 bp):
ATTCCCTAAGAACATATTTT
Found at i:133917105 original size:17 final size:17
Alignment explanation
Indices: 133917083--133917122 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
133917073 AAGAACCCTG
133917083 GCCACCCCATGATATTT
1 GCCACCCCATGATATTT
*
133917100 GCCACCCCATGATGTTT
1 GCCACCCCATGATATTT
133917117 GCCACC
1 GCCACC
133917123 TCACGCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.40, G:0.15, T:0.25
Consensus pattern (17 bp):
GCCACCCCATGATATTT
Found at i:133918260 original size:50 final size:50
Alignment explanation
Indices: 133918206--133918305 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 50
133918196 GTATACTTGG
*
133918206 GTATTATATTATAT-ATATATTTTATATGTTATA-TA-TATACTTTTAATATT
1 GTATTATA-TATATCATAGATTTTA-ATGTTATATTATTATA-TTTTAATATT
* *
133918256 GTATTTTATATATCATAGATTTTAATGTTGTATTATTATATTTTAATATT
1 GTATTATATATATCATAGATTTTAATGTTATATTATTATATTTTAATATT
133918306 ATACTACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
49 12 0.27
50 28 0.64
51 4 0.09
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (50 bp):
GTATTATATATATCATAGATTTTAATGTTATATTATTATATTTTAATATT
Found at i:133918264 original size:27 final size:30
Alignment explanation
Indices: 133918234--133918296 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
133918224 ATTTTATATG
*
133918234 TTATATAT-ATA-CTTTTAATATTGTATT-
1 TTATATATCATAGATTTTAATATTGTATTA
*
133918261 TTATATATCATAGATTTTAATGTTGTATTA
1 TTATATATCATAGATTTTAATATTGTATTA
133918291 TTATAT
1 TTATAT
133918297 TTTAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 8 0.26
28 3 0.10
29 14 0.45
30 6 0.19
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (30 bp):
TTATATATCATAGATTTTAATATTGTATTA
Found at i:133918317 original size:50 final size:49
Alignment explanation
Indices: 133918215--133918318 Score: 113
Period size: 50 Copynumber: 2.1 Consensus size: 49
133918205 GGTATTATAT
* * * **
133918215 TATATATATATTTTATATGTTATATATATACTTTTAATATTGTATTTTA
1 TATATATAGATTTTATATGTTATATATATACTTTTAATATTATACTACA
*
133918264 TATATCATAGATTTTA-ATGTTGTATTATTATA-TTTTAATATTATACTACA
1 TATAT-ATAGATTTTATATGTTATA-TA-TATACTTTTAATATTATACTACA
133918314 TATAT
1 TATAT
133918319 TTCATATTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
49 12 0.26
50 30 0.65
51 4 0.09
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.56
Consensus pattern (49 bp):
TATATATAGATTTTATATGTTATATATATACTTTTAATATTATACTACA
Found at i:133918351 original size:26 final size:26
Alignment explanation
Indices: 133918303--133918390 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
133918293 ATATTTTAAT
133918303 ATTATACTACATATA-TTTCATATTAC
1 ATTATA-TACATATATTTTCATATTAC
* *
133918329 ATTATATACATATATTTTTATA-TAT
1 ATTATATACATATATTTTCATATTAC
** *
133918354 ATTATCATGTATATATTTTGATATTAC
1 ATTAT-ATACATATATTTTCATATTAC
133918381 TAGTTATATA
1 -A-TTATATA
133918391 TTACTTATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
25 15 0.30
26 26 0.52
27 2 0.04
28 3 0.06
29 4 0.08
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTATATACATATATTTTCATATTAC
Found at i:133919278 original size:26 final size:26
Alignment explanation
Indices: 133919241--133919324 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
133919231 TGATACAAAT
* *
133919241 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
133919267 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
133919293 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
133919319 TGATAA
1 TGATAA
133919325 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:133920804 original size:28 final size:26
Alignment explanation
Indices: 133920773--133920832 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
133920763 AATTGCTATA
* *
133920773 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCGTT
*
133920801 ATACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGTT
133920827 ATACCC
1 ATACCC
133920833 GTAGGGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 19 0.66
27 1 0.03
28 9 0.31
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGTT
Found at i:133921005 original size:27 final size:26
Alignment explanation
Indices: 133920937--133921050 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
133920927 TGGAGGAAGC
* *
133920937 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
133920964 GAT-TGGTGGCTCTGCCATATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
133920990 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
133921017 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
133921044 GTTCTGG
1 GTTCTGG
133921051 CATCCATGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
25 1 0.01
26 25 0.33
27 32 0.43
28 17 0.23
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:133921017 original size:53 final size:54
Alignment explanation
Indices: 133920937--133921050 Score: 151
Period size: 53 Copynumber: 2.1 Consensus size: 54
133920927 TGGAGGAAGC
* *
133920937 GTTCTGGTGGCTATGCCACAAATATCTG-AT-TGGTGGCTCTGCCATATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTGCCACAT-TATCT
* * * *
133920990 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTGCCACATTATCT
133921044 GTTCTGG
1 GTTCTGG
133921051 CATCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 25 0.47
54 14 0.26
55 14 0.26
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCTGCCACATTATCT
Found at i:133935861 original size:80 final size:80
Alignment explanation
Indices: 133935777--133935925 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
133935767 TATGGTAACC
* * * *
133935777 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
133935841 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
133935857 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
133935922 CCGG
66 CCGG
133935926 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:133935867 original size:40 final size:38
Alignment explanation
Indices: 133935818--133935925 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
133935808 ATCACGATTT
*
133935818 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
133935858 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
133935898 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
133935926 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:133943962 original size:80 final size:80
Alignment explanation
Indices: 133943878--133944026 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
133943868 TATGGTAACC
* * * *
133943878 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
133943942 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
133943958 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
133944023 CCGG
66 CCGG
133944027 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:133943968 original size:40 final size:38
Alignment explanation
Indices: 133943919--133944026 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
133943909 ATCACGATTT
*
133943919 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
133943959 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
133943999 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
133944027 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:133949730 original size:13 final size:13
Alignment explanation
Indices: 133949712--133949740 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
133949702 CTAAACTTGG
133949712 GTGACACGCCCGT
1 GTGACACGCCCGT
133949725 GTGACACGCCCGT
1 GTGACACGCCCGT
133949738 GTG
1 GTG
133949741 CGATTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.17
Consensus pattern (13 bp):
GTGACACGCCCGT
Found at i:133950540 original size:43 final size:42
Alignment explanation
Indices: 133950473--133950633 Score: 175
Period size: 42 Copynumber: 3.8 Consensus size: 42
133950463 CACATAGTAC
* *
133950473 CATACCAATGCCATATCCCAGCTATGGTCTTAC-CTGTAATCT
1 CATATCAATGCCATATCCCAGCTATGGTCTTACAC-GAAATCT
* * *
133950515 CATATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATGT
1 CATATCAATGCC-ATATCCCAGCTATGGTCTTACACGAAATCT
* *
133950558 CATATCAAT-CCATATCCCAGATATGGTCTTGCACGAAATCT
1 CATATCAATGCCATATCCCAGCTATGGTCTTACACGAAATCT
* * * *
133950599 GATAAT-GATGCCCTATCCCAGATATGGTCTTACAC
1 CAT-ATCAATGCCATATCCCAGCTATGGTCTTACAC
133950634 ATAGCCTTGG
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 30 0.30
42 37 0.37
43 33 0.33
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGCTATGGTCTTACACGAAATCT
Found at i:133956882 original size:29 final size:30
Alignment explanation
Indices: 133956849--133956907 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
133956839 CTTTAATACG
*
133956849 AACTTTGGCAAAATTACA-TTTTTCCCCTA
1 AACTTTGACAAAATTACACTTTTTCCCCTA
* *
133956878 AACTTTTACATAATTACACTTTTTCCCCTA
1 AACTTTGACAAAATTACACTTTTTCCCCTA
133956908 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTTCCCCTA
Done.