Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 91 of 250
Found at i:29481469 original size:27 final size:27
Alignment explanation
Indices: 29481439--29481676 Score: 144
Period size: 27 Copynumber: 8.9 Consensus size: 27
29481429 GGAAAATCAA
* * *
29481439 TCATTTTACCTTACAGGGGTGTTATAG
1 TCATTTTACCCTACAGGGGTATTACAG
*
29481466 TCATTTTACCCTACAGGCGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
**
29481493 TCATTTTACCCTACAAAGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
* * ***
29481520 TCATTTTACCTTATAGGGGTATTTTGG
1 TCATTTTACCCTACAGGGGTATTACAG
* * * *
29481547 TCATTTTACCCTATATGTGTATTTC-G
1 TCATTTTACCCTACAGGGGTATTACAG
* ** *
29481573 ATCATTTTAACCTATGGGGGTATTTC-G
1 -TCATTTTACCCTACAGGGGTATTACAG
* * *
29481600 ATCATTTTGCCCTA-TGAGGGTATTTC-G
1 -TCATTTTACCCTACAG-GGGTATTACAG
* * * *
29481627 ATTATTTTACCCTA-TGGGGTATTTCGG
1 -TCATTTTACCCTACAGGGGTATTACAG
* **
29481654 TCATTTTACACTATGGGGGTATT
1 TCATTTTACCCTACAGGGGTATT
29481677 TCGGTCACCA
Statistics
Matches: 177, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.12
27 155 0.88
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACAG
Found at i:29481595 original size:81 final size:81
Alignment explanation
Indices: 29481438--29481676 Score: 218
Period size: 81 Copynumber: 3.0 Consensus size: 81
29481428 GGGAAAATCA
* * * * * * *
29481438 ATCATTTTACCTTACAGGGGTGTTATAGTCATTTTACCCTACAGGCGTATTAC-AGTCATTTTAC
1 ATCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAGGCGTATTTCGA-TCATTTTAA
****
29481502 CCTACAAAGGTATTAC-
65 CCTATGGGGGTATTACG
* *
29481518 AGTCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATATGTGTATTTCGATCATTTTAA
1 A-TCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAGGCGTATTTCGATCATTTTAA
*
29481583 CCTATGGGGGTATTTCG
65 CCTATGGGGGTATTACG
* * * * * * *
29481600 ATCATTTTGCCCTAT-GAGGGTATTTCGATTATTTTACCCTAT-GGGGTATTTCGGTCATTTT-A
1 ATCATTTTACCTTATAG-GGGTATTTTGGTCATTTTACCCTATAGGCGTATTTCGATCATTTTAA
29481662 CACTATGGGGGTATT
65 C-CTATGGGGGTATT
29481677 TCGGTCACCA
Statistics
Matches: 132, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
79 2 0.02
80 31 0.23
81 97 0.73
82 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (81 bp):
ATCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATAGGCGTATTTCGATCATTTTAAC
CTATGGGGGTATTACG
Found at i:29481674 original size:53 final size:54
Alignment explanation
Indices: 29481466--29481679 Score: 227
Period size: 54 Copynumber: 4.0 Consensus size: 54
29481456 GGTGTTATAG
* * * * ** * *
29481466 TCATTTTACCCTACAGGCGTATTACAGTCATTTTACCCTACAAAGGTATTAC-A
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGA
* * *
29481519 GTCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTAT-ATGTGTATTTCGA
1 -TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGA-GGGTATTTCGA
* * * *
29481574 TCATTTTAACCTATGGGGGTATTTCGATCATTTTGCCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGA
* * *
29481628 TTATTTTACCCTAT-GGGGTATTTCGGTCATTTTACACTATGGGGGTATTTCG
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCG
29481680 GTCACCATTT
Statistics
Matches: 134, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
53 35 0.26
54 97 0.72
55 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGA
Found at i:29481680 original size:27 final size:27
Alignment explanation
Indices: 29481465--29481683 Score: 206
Period size: 27 Copynumber: 8.1 Consensus size: 27
29481455 GGGTGTTATA
** * * *
29481465 GTCATTTTACCCTACAGGCGTATTACA
1 GTCATTTTACCCTATGGGGGTATTTCG
**** * *
29481492 GTCATTTTACCCTACAAAGGTATTACA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
29481519 GTCATTTTACCTTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
29481546 GTCATTTTACCCTATATGTGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
29481573 ATCATTTTAACCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
29481600 ATCATTTTGCCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
29481627 ATTATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
29481653 GTCATTTTACACTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
29481680 GTCA
1 GTCA
29481684 CCATTTCGGC
Statistics
Matches: 163, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.13
27 141 0.87
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:29482589 original size:27 final size:27
Alignment explanation
Indices: 29482548--29482915 Score: 477
Period size: 27 Copynumber: 13.7 Consensus size: 27
29482538 CCTAAATTAA
* * ** *
29482548 TAAAATGGCTATTTTGCTATTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
29482575 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* **
29482602 TAAATTGACTGTTTTGCCCTTATGTCG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
29482629 TAAAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
29482656 TAAAATAACTGTTTTGCCATTGTGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
29482683 TAAAATGACTATTTTTCCTTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
29482710 TAAATTGACTGTTTTGCCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
29482737 T-AAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
29482763 TAAAATGACTGTTTTGCCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
29482790 TAAAATGGCTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
29482817 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
**
29482844 TAAAATGGTTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
29482871 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
29482898 TAAAATGATTGTTTTGCC
1 TAAAATGACTGTTTTGCC
29482916 TTTTTATTGT
Statistics
Matches: 296, Mismatches: 44, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
26 23 0.08
27 273 0.92
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:29483329 original size:18 final size:18
Alignment explanation
Indices: 29483270--29483329 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
29483260 TATTGTTCAA
*
29483270 ACTGTTACTGCACGGATT
1 ACTGTTACTGCACTGATT
* *
29483288 ACTATTACTGCATTGATT
1 ACTGTTACTGCACTGATT
*
29483306 ATTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
29483324 ACTGTT
1 ACTGTT
29483330 GCATGGTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:29492776 original size:79 final size:80
Alignment explanation
Indices: 29492644--29493017 Score: 537
Period size: 79 Copynumber: 4.7 Consensus size: 80
29492634 TGGATGATAA
* * * *
29492644 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
29492708 GTGCGAGTTA-TATAT
65 GTGCGAGTTACTATAT
* *
29492723 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
29492788 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
29492803 -CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-TATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
29492866 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
29492881 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT-CGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
29492945 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * * * * * * *
29492960 CCAGGCTATGTCCCAAAGGCATTCGAGCAAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
29493018 TACTTGGCTT
Statistics
Matches: 272, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
78 46 0.17
79 215 0.79
80 11 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATAT
Found at i:29492998 original size:40 final size:40
Alignment explanation
Indices: 29492644--29493017 Score: 537
Period size: 39 Copynumber: 9.5 Consensus size: 40
29492634 TGGATGATAA
* * * *
29492644 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TAT
29492684 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-TATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
29492723 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* *
29492763 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
29492803 -CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-TATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
29492841 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* *
29492881 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
29492921 -CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* * * * * *
29492960 CCAGGCTATGTCCCAAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
* *
29493000 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29493018 TACTTGGCTT
Statistics
Matches: 306, Mismatches: 22, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
38 6 0.02
39 152 0.50
40 148 0.48
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:29493017 original size:118 final size:118
Alignment explanation
Indices: 29492644--29492982 Score: 581
Period size: 118 Copynumber: 2.9 Consensus size: 118
29492634 TGGATGATAA
* * * *
29492644 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT-CGGGCTAAGTCCCGAAGGCATTG
29492708 GTGCGAGTTATATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
64 GTGCGAGTTATATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
29492763 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCATTGGT
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCATTGGT
29492828 GCGAGTTATATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
66 GCGAGTTATATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
29492881 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCATTGGT
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCATTGGT
* * *
29492946 GCGAGTTACTATATCCAGGCTATGTCCCAAAGGCATT
66 GCGAGTTA-TATATCCGGGCTAAGTCCCGAAGGCATT
29492983 CGAGCAAGTA
Statistics
Matches: 211, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
118 152 0.72
119 59 0.28
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (118 bp):
CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTATATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:29500320 original size:47 final size:47
Alignment explanation
Indices: 29500266--29500434 Score: 248
Period size: 47 Copynumber: 3.6 Consensus size: 47
29500256 TTAGGATTTT
** * * **
29500266 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29500313 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
29500360 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29500407 ATGTGATGAATGTGAACAAGCATATATG
1 ATGTGATGAATGTGAACATGCATATATG
29500435 GCCAATGTGA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:29500433 original size:141 final size:140
Alignment explanation
Indices: 29500266--29500864 Score: 814
Period size: 141 Copynumber: 4.3 Consensus size: 140
29500256 TTAGGATTTT
** * * *
29500266 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAACA
* *
29500331 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGG
65 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
*
29500396 TCGAATGGCCA
130 CCGAATGGCCA
*
29500407 ATGTGATGAATGTGAACAAGC--ATA--T-AT--GG-C------CAATGTGATGAATGTGAACAT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAACAT
29500458 GCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGC
66 GCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGC
29500523 CGAATGGCCA
131 CGAATGGCCA
*
29500533 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCTAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC-AATGTGATGAATGTGAACA
* * * *
29500598 TGCATATGTGTGGTAAGGCCGAATGGCCGATGTGATGAATGTGAACATGCATATGTGTGATAAGG
65 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
29500663 CCGAATGGCCA
130 CCGAATGGCCA
* * *
29500674 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATAGCCAATGTGATGAATGAGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT-GGCAATGTGATGAATGTGAACA
* *
29500739 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGAGAACATGTATATATGTGATAAGG
65 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
**
29500804 CAAAATGGCCA
130 CCGAATGGCCA
* * * * *
29500815 ATGTGACGAATGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATG
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGC-AATG
29500865 CGAAATGTGT
Statistics
Matches: 408, Mismatches: 32, Indels: 36
0.86 0.07 0.08
Matches are distributed among these distances:
126 112 0.27
128 2 0.00
130 1 0.00
131 2 0.00
133 3 0.01
134 3 0.01
136 2 0.00
139 3 0.01
140 3 0.01
141 272 0.67
142 5 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAACAT
GCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGC
CGAATGGCCA
Found at i:29500436 original size:32 final size:32
Alignment explanation
Indices: 29500400--29500466 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
29500390 ATAAGGTCGA
29500400 ATGGCCAATGTGATGAATGTGAACAAGCATAT
1 ATGGCCAATGTGATGAATGTGAACAAGCATAT
*
29500432 ATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGGCCAATGTGATGAATGTGAACAAGCATAT
29500464 ATG
1 ATG
29500467 TGATAAGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (32 bp):
ATGGCCAATGTGATGAATGTGAACAAGCATAT
Found at i:29500489 original size:47 final size:47
Alignment explanation
Indices: 29500432--29500864 Score: 679
Period size: 47 Copynumber: 9.2 Consensus size: 47
29500422 ACAAGCATAT
29500432 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
29500479 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
*
29500526 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* * *
29500573 ATGGCTAATGTGATGAATGTGAACATGCATATGTGTGGTAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* *
29500620 ATGGCCGATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
*
29500667 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* *
29500714 ATAGCCAATGTGATGAATGAGAACATGCATATATGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* * **
29500761 ATGGCCAATGTGATGAATGAGAACATGTATATATGTGATAAGGCAAA
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
* * * * *
29500808 ATGGCCAATGTGACGAATGTGGAA-GTGTATATATGTGGTAAAGCCGA
1 ATGGCCAATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGA
*
29500855 ATGGCTAATG
1 ATGGCCAATG
29500865 CGAAATGTGT
Statistics
Matches: 363, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 360 0.99
48 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
Found at i:29500492 original size:22 final size:22
Alignment explanation
Indices: 29500464--29500539 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
29500454 ACATGCATAT
29500464 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
29500486 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
29500510 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
29500533 ATGTGAT
1 ATGTGAT
29500540 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:29500586 original size:22 final size:22
Alignment explanation
Indices: 29500464--29500586 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
29500454 ACATGCATAT
*
29500464 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCTA
* *
29500486 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-TA
*
29500510 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCTA
* *
29500533 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-TA
*
29500557 TGTGTGATAAGGCCGAATGGCTA
1 -ATGTGATAAGGCCGAATGGCTA
29500580 ATGTGAT
1 ATGTGAT
29500587 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 13, Indels: 28
0.64 0.11 0.24
Matches are distributed among these distances:
22 22 0.30
23 19 0.26
24 18 0.24
25 15 0.20
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCTA
Found at i:29500727 original size:22 final size:22
Alignment explanation
Indices: 29500700--29500774 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
29500690 CATGCATATG
29500700 TGTGATAAGGCCGAATAGCCAA
1 TGTGATAAGGCCGAATAGCCAA
* * * *
29500722 TGTGATGAATG-AGAACATGCATATA
1 TGTGAT-AAGGCCGAATA-GC-CA-A
*
29500747 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATAGCCAA
29500769 TGTGAT
1 TGTGAT
29500775 GAATGAGAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 17 0.44
23 6 0.15
24 6 0.15
25 10 0.26
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (22 bp):
TGTGATAAGGCCGAATAGCCAA
Found at i:29500895 original size:46 final size:46
Alignment explanation
Indices: 29500838--29500956 Score: 202
Period size: 46 Copynumber: 2.6 Consensus size: 46
29500828 GGAAGTGTAT
*
29500838 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
29500884 GTATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
29500930 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
29500957 TGAGAGATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:29504684 original size:46 final size:46
Alignment explanation
Indices: 29504632--29504859 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
29504622 AGTGTGCTCT
29504632 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
29504678 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
29504724 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
29504770 GTGACATGAAAAGAATGAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
29504816 ATGACA-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
29504860 TCACGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:29505165 original size:23 final size:25
Alignment explanation
Indices: 29505120--29505166 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
29505110 AATAAATATA
*
29505120 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
29505145 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
29505167 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:29505533 original size:22 final size:22
Alignment explanation
Indices: 29505505--29505548 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
29505495 TCTGGTAGCG
*
29505505 GATACGGGTTAGGGGTGTTACA
1 GATACGGGATAGGGGTGTTACA
29505527 GATACGGGATAGGGGTGTTACA
1 GATACGGGATAGGGGTGTTACA
29505549 AAGCCTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.41, T:0.25
Consensus pattern (22 bp):
GATACGGGATAGGGGTGTTACA
Found at i:29512534 original size:8 final size:8
Alignment explanation
Indices: 29512521--29512549 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
29512511 TTGAATGAAA
29512521 TGAATGGT
1 TGAATGGT
29512529 TGAATGGT
1 TGAATGGT
29512537 TGAATGGT
1 TGAATGGT
29512545 TGAAT
1 TGAAT
29512550 TTGTATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TGAATGGT
Found at i:29527825 original size:13 final size:13
Alignment explanation
Indices: 29527807--29527831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29527797 ACAAACGATA
29527807 AAATTTTCACACG
1 AAATTTTCACACG
29527820 AAATTTTCACAC
1 AAATTTTCACAC
29527832 ATATCACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:29535168 original size:40 final size:40
Alignment explanation
Indices: 29535124--29535262 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
29535114 GGATATAGCT
* *
29535124 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGGACATAACCCGGATT-TAGTA
*
29535164 ACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACATAACCCGGATTTAGTA
* * * * * * *
29535204 ACTCGCACCAATGCCTCCGGG-CTTAGCCCAGAATTAGTA
1 ACTCGTACAAATGCCTTCGGGACATAACCCGGATTTAGTA
* *
29535243 TCTCGCACAAATGCCTTCGG
1 ACTCGTACAAATGCCTTCGG
29535263 ATCTTAGTCC
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 32 0.37
40 52 0.60
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACATAACCCGGATTTAGTA
Found at i:29535248 original size:39 final size:40
Alignment explanation
Indices: 29535159--29535258 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 40
29535149 AGCCCGGTTA
* * * *
29535159 TAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTCCGGGACTTAACCCAGAAT
* *
29535199 TAGTAACTCGCACCAATGCCTCCGGG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTCCGGGACTTAACCCAGAAT
*
29535238 TAGTATCTCGCACAAATGCCT
1 TAGTAACTCGCACAAATGCCT
29535259 TCGGATCTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.56
40 23 0.44
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTCCGGGACTTAACCCAGAAT
Found at i:29540461 original size:39 final size:40
Alignment explanation
Indices: 29540364--29540463 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 40
29540354 AGCTCGGTTA
* *
29540364 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTCCGGGACTTAACCCGGAAT
* * * *
29540404 TAGTAACTTGCACCAATGCCTCCGGG-CTTAGCCTGGAAT
1 TAGTAACTCGCACAAATGCCTCCGGGACTTAACCCGGAAT
* *
29540443 TAGTATCTCGGACAAATGCCT
1 TAGTAACTCGCACAAATGCCT
29540464 TCGAATCTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 27 0.54
40 23 0.46
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTCCGGGACTTAACCCGGAAT
Found at i:29540522 original size:40 final size:41
Alignment explanation
Indices: 29540336--29540523 Score: 165
Period size: 40 Copynumber: 4.7 Consensus size: 41
29540326 GCTACTCGTT
* * *
29540336 CAAATGCCTTCGGGACATAGCTCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
29540376 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * * * *
29540416 CCAATGCCTCCGGG-CTTAGCCTGGA-ATTAGTATC-TCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * * * *
29540455 CAAATGCCTTC-GAATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
29540496 CAAA-GCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
29540524 CATTCGAATA
Statistics
Matches: 116, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
38 2 0.02
39 26 0.22
40 77 0.66
41 11 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:29555652 original size:16 final size:15
Alignment explanation
Indices: 29555633--29555670 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
29555623 GCAAATCCCA
29555633 AAAAGTCTAAATGTCG
1 AAAAG-CTAAATGTCG
29555649 AAAAGCTGAAATGTCG
1 AAAAGCT-AAATGTCG
29555665 AAAAGC
1 AAAAGC
29555671 CGAAATGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (15 bp):
AAAAGCTAAATGTCG
Found at i:29555675 original size:16 final size:16
Alignment explanation
Indices: 29555641--29555683 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
29555631 CAAAAAGTCT
*
29555641 AAATGTCGAAAAGCTG
1 AAATGTCGAAAAGCCG
29555657 AAATGTCGAAAAGCCG
1 AAATGTCGAAAAGCCG
*
29555673 AAATGCCGAAA
1 AAATGTCGAAA
29555684 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (16 bp):
AAATGTCGAAAAGCCG
Found at i:29555993 original size:35 final size:29
Alignment explanation
Indices: 29555898--29556038 Score: 171
Period size: 28 Copynumber: 5.0 Consensus size: 29
29555888 CATGAATGTA
*
29555898 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
29555926 AATTTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
29555955 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
29555984 AATTTGA-ATGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
29556012 AAAGAGA-TTGGGCCTAGTGGGCTATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
29556039 ATATAGGTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 56 0.58
29 41 0.42
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:29555996 original size:57 final size:58
Alignment explanation
Indices: 29555898--29556033 Score: 197
Period size: 57 Copynumber: 2.4 Consensus size: 58
29555888 CATGAATGTA
* * *
29555898 AATGTGATTTGGGCCTAGT-GGCCATATGAATTTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
*
29555955 AATGTGATTTGGGCCTAATGGGCCACATAAATTTGA-ATGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
* *
29556012 AAAGAGA-TTGGGCCTAGTGGGC
1 AATGTGATTTGGGCCTAGTGGGC
29556034 TATATATATA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
56 14 0.20
57 43 0.61
58 14 0.20
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.29
Consensus pattern (58 bp):
AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
Found at i:29560844 original size:42 final size:42
Alignment explanation
Indices: 29560797--29561000 Score: 264
Period size: 42 Copynumber: 4.8 Consensus size: 42
29560787 TATCGTACCA
* * * ** *
29560797 ATGCCATATCCCAGATATAGTCTTACATGTAATCTTGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*** *
29560839 ATGCCAATAAGTCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
29560882 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
29560924 ATGCCATATCCTAGATATGGTCTTACATGAAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
29560966 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCT
29561001 TAGTAACCCT
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 109 0.77
43 32 0.23
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:29566422 original size:10 final size:10
Alignment explanation
Indices: 29566407--29566436 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
29566397 CGTGTGATAG
*
29566407 GATCTCCGAC
1 GATCTCCAAC
29566417 GATCTCCAAC
1 GATCTCCAAC
29566427 GATCTCCAAC
1 GATCTCCAAC
29566437 CCAAGCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.40, G:0.13, T:0.20
Consensus pattern (10 bp):
GATCTCCAAC
Found at i:29567347 original size:42 final size:42
Alignment explanation
Indices: 29567234--29567391 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 42
29567224 GTACCAATGA
* * * **
29567234 CATATCCCAGATATGGTCTTGCATGTAATCTTGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* * * * *
29567276 TAATAGCCCAGCTATGGTCGTACATGAAATCTCATATCGATGC
1 -CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
*
29567319 CATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
** * *
29567361 CATATCTTAGATATGGTATTACACGTAATCT
1 CATATCCCAGATATGGTCTTACACGAAATCT
29567392 TAGTAACCCT
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 62 0.65
43 34 0.35
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:29569398 original size:42 final size:42
Alignment explanation
Indices: 29569339--29569422 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
29569329 TTGTAGGTTC
* *
29569339 GTGGCTAGGGAGATCGCAGCACGTTCTAGTACCAGGTGTGTA
1 GTGGCTAGAGAGATCGCAACACGTTCTAGTACCAGGTGTGTA
*
29569381 GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
1 GTGGCTAGAGAGATCGCAACACGTTCTAGTACCAGGTGTGTA
29569423 CATACGCTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (42 bp):
GTGGCTAGAGAGATCGCAACACGTTCTAGTACCAGGTGTGTA
Found at i:29569736 original size:29 final size:29
Alignment explanation
Indices: 29569694--29569775 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 29
29569684 ATGATTATGG
29569694 ATGTGATTTGGGCCTAATGGGCCATACGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
29569723 ATGTGATTTGGGCC-AATGGACCATATGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
29569751 ATGAGA-TTGGGCCTAGTGGGCCATA
1 ATGTGATTTGGGCCTAATGGGCCATA
29569776 TACATGTATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 7 0.15
28 26 0.55
29 14 0.30
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATACGA
Found at i:29577164 original size:16 final size:16
Alignment explanation
Indices: 29577140--29577178 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
29577130 TCGGCAAATC
*
29577140 CTGATATGCCGAAAAG
1 CTGAAATGCCGAAAAG
29577156 CTGAAATGCCGAAAAG
1 CTGAAATGCCGAAAAG
*
29577172 CTAAAAT
1 CTGAAAT
29577179 TTTGGCTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (16 bp):
CTGAAATGCCGAAAAG
Found at i:29577440 original size:28 final size:29
Alignment explanation
Indices: 29577382--29577463 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 29
29577372 ATGACTATTT
* *
29577382 ATGTGATTTGGGCCTAATGGGCTACACGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
**
29577411 ATGTGATTTGGGCC-AATGGGCCATGTGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
29577439 ATGAGA-TTGGGCCTAGTGGGCCATA
1 ATGTGATTTGGGCCTAATGGGCCATA
29577464 TACATGTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 7 0.16
28 24 0.53
29 14 0.31
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATACGA
Found at i:29581153 original size:39 final size:39
Alignment explanation
Indices: 29581089--29581251 Score: 283
Period size: 39 Copynumber: 4.2 Consensus size: 39
29581079 CGAAGTTTGA
* *
29581089 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
*
29581128 ATATAATTTTCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
29581167 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
29581206 ATATAA-TTCCTGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTTCC-GCATATAGCCTACGGACCTTAAGTCCGG
29581245 ATATAAT
1 ATATAAT
29581252 CATCATATAT
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
38 4 0.03
39 114 0.97
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (39 bp):
ATATAATTTCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:29587611 original size:22 final size:22
Alignment explanation
Indices: 29587573--29587617 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29587563 TCGAGAATCG
*
29587573 ACTAAATCATAGCTCTGATACC
1 ACTAAATCATAACTCTGATACC
*
29587595 ACTAAAT-ATAACATCTGTTACC
1 ACTAAATCATAAC-TCTGATACC
29587617 A
1 A
29587618 GTATTCAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (22 bp):
ACTAAATCATAACTCTGATACC
Found at i:29590925 original size:40 final size:40
Alignment explanation
Indices: 29590848--29590988 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
29590838 ACCTAAGTAT
*
29590848 CTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
29590887 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
29590927 CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
29590967 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
29590989 CATCCGAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 12 0.13
40 79 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:29592926 original size:43 final size:42
Alignment explanation
Indices: 29592867--29592985 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
29592857 CGTACAAATT
* * *
29592867 CCATATCCCAGATATGGTCTTACATGTAATCTTGTATCGATG
1 CCATAGCCCAGATATGGTCTTACACGTAATCTTATATCGATG
* * * *
29592909 CCAATAGCCCAGCTATGGTCTTATACGAAATCTCATATCGATG
1 CC-ATAGCCCAGATATGGTCTTACACGTAATCTTATATCGATG
* * *
29592952 CCATATCCCAGATACGGTCGTACACGTAATCTTA
1 CCATAGCCCAGATATGGTCTTACACGTAATCTTA
29592986 GTAACCCTAA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
CCATAGCCCAGATATGGTCTTACACGTAATCTTATATCGATG
Found at i:29595570 original size:16 final size:16
Alignment explanation
Indices: 29595549--29595580 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29595539 TGAGTACTTA
*
29595549 GTATTCTGTTGAATAT
1 GTATTCTATTGAATAT
29595565 GTATTCTATTGAATAT
1 GTATTCTATTGAATAT
29595581 TCACGTTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (16 bp):
GTATTCTATTGAATAT
Found at i:29597638 original size:38 final size:38
Alignment explanation
Indices: 29597578--29597738 Score: 117
Period size: 38 Copynumber: 4.0 Consensus size: 38
29597568 TTTCAAATTA
* * *
29597578 ACATGTATAACTGTGGCT-TATCCTCTTAGCACCACATT
1 ACATGTTTAACCGTGG-TATATCCACTTAGCACCACATT
* *
29597616 ACATGTTTAACCGTGGTATATCCACTTAGCCCCACGTTAATGA
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCAC----AT-T
* * *
29597659 ATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 A-C-ATGT-T-TAACCGTGGTATATCCACTTAGCACCACATT
* ** *
29597701 ACATGTGTAATAGTGGTATATCCATTTAGCACCACATT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
29597739 TTTTCATTCT
Statistics
Matches: 96, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
37 1 0.01
38 55 0.57
40 3 0.03
41 1 0.01
42 3 0.03
43 2 0.02
44 1 0.01
45 3 0.03
46 1 0.01
47 26 0.27
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (38 bp):
ACATGTTTAACCGTGGTATATCCACTTAGCACCACATT
Found at i:29598209 original size:29 final size:29
Alignment explanation
Indices: 29598150--29598203 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
29598140 TTACCATTCT
29598150 AGTCCATAATCTTGTATTTTCCTGATTTA
1 AGTCCATAATCTTGTATTTTCCTGATTTA
29598179 AGTCCA-AATCTTG-A-TTTCCTTGATT
1 AGTCCATAATCTTGTATTTTCC-TGATT
29598204 ATTAAGCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 5 0.21
27 6 0.25
28 7 0.29
29 6 0.25
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (29 bp):
AGTCCATAATCTTGTATTTTCCTGATTTA
Found at i:29600006 original size:15 final size:15
Alignment explanation
Indices: 29599983--29600024 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
29599973 GAAGCCTAGA
29599983 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
29599998 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
29600013 ATAAGGAAATCC
1 ATAAGGAAATCC
29600025 CATTTACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:29603262 original size:46 final size:47
Alignment explanation
Indices: 29603230--29603321 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
29603220 TCCACTTTTC
* *
29603230 AAATTAACATGTATAACCGTGGCATATCCACTTAGCACCACGTTAAT
1 AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTAAT
* * *
29603277 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
1 AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTA
29603322 CATGTTTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (47 bp):
AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTAAT
Found at i:29612543 original size:93 final size:93
Alignment explanation
Indices: 29612430--29612601 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
29612420 GCCCAGAAGT
29612430 GAACTCAGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29612494 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
29612523 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29612588 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
29612602 CAAATATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:29612597 original size:46 final size:45
Alignment explanation
Indices: 29612426--29612596 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 45
29612416 ACCCGCCCAG
*
29612426 AAGTGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCATCCAT
* *
29612472 AAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTTACAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--TCCAT
*** *
29612518 CTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCAT
*
29612565 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGG
29612597 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 62 0.58
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCAT
Found at i:29612616 original size:46 final size:44
Alignment explanation
Indices: 29612427--29612616 Score: 122
Period size: 46 Copynumber: 4.1 Consensus size: 44
29612417 CCCGCCCAGA
* * * *
29612427 AGTGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCAAATCC-T
* *
29612472 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
29612522 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
29612565 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
29612612 AGTGA
1 AGTGA
29612617 CATGTCACTT
Statistics
Matches: 115, Mismatches: 12, Indels: 34
0.71 0.07 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 7 0.06
45 2 0.02
46 61 0.53
47 28 0.24
48 4 0.03
49 3 0.03
50 4 0.03
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:29617052 original size:44 final size:44
Alignment explanation
Indices: 29617003--29617138 Score: 272
Period size: 44 Copynumber: 3.1 Consensus size: 44
29616993 TTATTAATTA
29617003 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
29617047 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
29617091 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
29617135 TAAC
1 TAAC
29617139 ATTCCACTAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 92 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (44 bp):
TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
Found at i:29623189 original size:29 final size:29
Alignment explanation
Indices: 29623156--29623213 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
29623146 AGTTTTTGGT
29623156 TATGCTTTTCGGATTAACAAATGCACCTA
1 TATGCTTTTCGGATTAACAAATGCACCTA
*
29623185 TATGCTTTTTGGATTAACAAATGCACCTA
1 TATGCTTTTCGGATTAACAAATGCACCTA
29623214 CTATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (29 bp):
TATGCTTTTCGGATTAACAAATGCACCTA
Found at i:29623226 original size:29 final size:28
Alignment explanation
Indices: 29623160--29623228 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
29623150 TTTGGTTATG
*
29623160 CTTTTCGGATTAACAAATGCACCTATAT
1 CTTTTTGGATTAACAAATGCACCTATAT
29623188 GCTTTTTGGATTAACAAATGCACCTACTAT
1 -CTTTTTGGATTAACAAATGCACCTA-TAT
29623218 -TTTTATGGATT
1 CTTTT-TGGATT
29623229 TGATTAATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.11
29 30 0.81
30 3 0.08
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (28 bp):
CTTTTTGGATTAACAAATGCACCTATAT
Found at i:29628519 original size:46 final size:45
Alignment explanation
Indices: 29628447--29628620 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
29628437 TGTAACCCGC
*
29628447 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-ACAT
*
29628493 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTACAT
* * * * *
29628543 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTACAT
29628585 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
29628621 ATGCCCAAAT
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 3 0.03
45 28 0.25
46 34 0.31
47 28 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTACAT
Found at i:29628613 original size:92 final size:93
Alignment explanation
Indices: 29628455--29628625 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
29628445 GCCCATAAGT
* * *
29628455 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
29628520 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
29628548 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
29628612 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
29628626 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 43 0.59
93 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29631049 original size:30 final size:30
Alignment explanation
Indices: 29631005--29631093 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
29630995 CAAAGATAAC
29631005 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
29631034 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
29631064 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
29631094 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:29631053 original size:15 final size:15
Alignment explanation
Indices: 29631005--29631084 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
29630995 CAAAGATAAC
*
29631005 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
29631019 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
29631034 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
29631049 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
29631064 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
29631079 AAGAAA
1 AAGAAA
29631085 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:29631093 original size:15 final size:15
Alignment explanation
Indices: 29631016--29631093 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
29631006 AGAAAACCGA
29631016 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
29631031 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
29631045 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
29631060 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29631076 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29631091 ATA
1 ATA
29631094 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29637617 original size:19 final size:19
Alignment explanation
Indices: 29637595--29637631 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29637585 CATTATACAA
29637595 TTTAAATGATTTTAAAAAT
1 TTTAAATGATTTTAAAAAT
**
29637614 TTTAAATTTTTTTAAAAA
1 TTTAAATGATTTTAAAAA
29637632 GTATGAAATT
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAATGATTTTAAAAAT
Found at i:29637640 original size:20 final size:19
Alignment explanation
Indices: 29637604--29637643 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29637594 ATTTAAATGA
* *
29637604 TTTTAAAAATTTTAAATTT
1 TTTTAAAAATATGAAATTT
29637623 TTTTAAAAAGTATGAAATTT
1 TTTTAAAAA-TATGAAATTT
29637643 T
1 T
29637644 AAATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATATGAAATTT
Found at i:29638736 original size:7 final size:7
Alignment explanation
Indices: 29638696--29638735 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
29638686 TTTTCCATTT
29638696 TCAATCC
1 TCAATCC
29638703 TCAATCC
1 TCAATCC
29638710 TCAATCC
1 TCAATCC
29638717 TCAATCC
1 TCAATCC
* *
29638724 TTAATTC
1 TCAATCC
29638731 TCAAT
1 TCAAT
29638736 TTTCAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (7 bp):
TCAATCC
Found at i:29638741 original size:21 final size:21
Alignment explanation
Indices: 29638692--29638742 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
29638682 CCAATTTTCC
29638692 ATTTTCAATCCTCAATCCTCA
1 ATTTTCAATCCTCAATCCTCA
** * *
29638713 ATCCTCAATCCTTAATTCTCA
1 ATTTTCAATCCTCAATCCTCA
29638734 ATTTTCAAT
1 ATTTTCAAT
29638743 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTTCAATCCTCAATCCTCA
Found at i:29638743 original size:14 final size:14
Alignment explanation
Indices: 29638695--29638742 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
29638685 ATTTTCCATT
29638695 TTCAATCCTCAATC
1 TTCAATCCTCAATC
*
29638709 CTCAATCCTCAATCC
1 TTCAATCCTCAAT-C
* *
29638724 TT-AATTCTCAATT
1 TTCAATCCTCAATC
29638737 TTCAAT
1 TTCAAT
29638743 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (14 bp):
TTCAATCCTCAATC
Found at i:29638803 original size:20 final size:20
Alignment explanation
Indices: 29638765--29638803 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29638755 CAGTTTTTGA
*
29638765 ATTTTATTCTCTTTGATTTT
1 ATTTTATTCTCTTTCATTTT
29638785 ATTTTATTC-CTTATCATTT
1 ATTTTATTCTCTT-TCATTT
29638804 GTAAAATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTATTCTCTTTCATTTT
Found at i:29642464 original size:48 final size:48
Alignment explanation
Indices: 29642392--29642485 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
29642382 TTTTTTGGCT
*
29642392 TAAAAACGCCTAAGTCAGCCTAACTTC-CACCAAT-AATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAAC-TCGCAACAATAAAT-GATTCAACCG
*
29642440 TAAAAACGCCTAAGTCAGCTTAACTCGCAACAATAAATGATTCAAC
1 TAAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAATGATTCAAC
29642486 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 37 0.88
49 3 0.07
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTCGCAACAATAAATGATTCAACCG
Found at i:29644988 original size:48 final size:48
Alignment explanation
Indices: 29644906--29644999 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
29644896 TTTCTTGGCT
*
29644906 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAAT-AATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAT-GATTCAACCG
29644954 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAATGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAATGATTCAAC
29645000 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
47 4 0.10
48 35 0.83
49 3 0.07
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAATGATTCAACCG
Found at i:29647621 original size:28 final size:28
Alignment explanation
Indices: 29647555--29647652 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
29647545 ATATTAAGTC
*
29647555 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
29647582 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
29647610 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
29647639 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29647653 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:29676038 original size:47 final size:47
Alignment explanation
Indices: 29675964--29676117 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
29675954 TCCTTCGGGA
*
29675964 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
29676011 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29676058 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29676105 CTTATCACATATA
1 CTTATCACATATA
29676118 CATATCTTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29677986 original size:13 final size:13
Alignment explanation
Indices: 29677968--29677992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29677958 TACTAAATTT
29677968 TCATGGATTCAAA
1 TCATGGATTCAAA
29677981 TCATGGATTCAA
1 TCATGGATTCAA
29677993 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:29683129 original size:68 final size:69
Alignment explanation
Indices: 29682982--29683137 Score: 151
Period size: 68 Copynumber: 2.2 Consensus size: 69
29682972 AGCCGATTTT
* * * * *
29682982 TCTCGTAGTTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTACATA
*
29683047 TATC
66 TATA
* *
29683051 TCTCATGTAGCTCTCTTGTCTACATGG-GATACATC-C-T-GTATCACACATGTGACCTAGCTAC
1 TCTC--GTAGCTCTCTTGTCTACATGGTG-TACATCACTTGGAATCACACATGCGACCTAGCTAC
29683112 TATATAGTA
63 -ATATA-TA
29683121 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
29683138 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 32 0.44
69 9 0.12
70 7 0.10
71 24 0.33
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (69 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTACATA
TATA
Found at i:29690016 original size:13 final size:13
Alignment explanation
Indices: 29689998--29690037 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
29689988 GCTCGGCAGG
29689998 GACACGCCTGTGT
1 GACACGCCTGTGT
*
29690011 GACACGCCCGTGT
1 GACACGCCTGTGT
*
29690024 GACACGCTTGTGT
1 GACACGCCTGTGT
29690037 G
1 G
29690038 CGATTACTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:29701283 original size:20 final size:20
Alignment explanation
Indices: 29701220--29701284 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
29701210 TCGCGCATAT
*
29701220 GTACCTTTCTTTGTACTTCG
1 GTACCTTTGTTTGTACTTCG
* * * * *
29701240 GTACCCTTGATAGAACATAC-
1 GTACCTTTGTTTGTAC-TTCG
29701260 GTACCTTTGTTTGTACTTCG
1 GTACCTTTGTTTGTACTTCG
29701280 GTACC
1 GTACC
29701285 CCTGATTGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (20 bp):
GTACCTTTGTTTGTACTTCG
Found at i:29701351 original size:80 final size:80
Alignment explanation
Indices: 29701223--29701384 Score: 216
Period size: 80 Copynumber: 2.0 Consensus size: 80
29701213 CGCATATGTA
* * * ** *
29701223 CCTTTCTTTGTACTTCGGTACCCTTGATAGAACATACGTACCTTTGTTTGTACTTCGGTACCCCT
1 CCTTTCTTTGTACTTCGATACCCCTCATAGAACATACGTACCCCTGTTTGTACTTCAGTACCCCT
**
29701288 GATTGCATGTACGTG
66 GATTGCACATACGTG
* * * *
29701303 CCTTTGTTTGTACTTCGATACCCCTCATTGAACATATGTGCCCCTGTTTGTACTTCAGTACCCCT
1 CCTTTCTTTGTACTTCGATACCCCTCATAGAACATACGTACCCCTGTTTGTACTTCAGTACCCCT
29701368 GATTGCACATACGTG
66 GATTGCACATACGTG
29701383 CC
1 CC
29701385 CCTGTTTATA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (80 bp):
CCTTTCTTTGTACTTCGATACCCCTCATAGAACATACGTACCCCTGTTTGTACTTCAGTACCCCT
GATTGCACATACGTG
Found at i:29701384 original size:40 final size:40
Alignment explanation
Indices: 29701229--29701391 Score: 191
Period size: 40 Copynumber: 4.1 Consensus size: 40
29701219 TGTACCTTTC
* * * **
29701229 TTTGTACTTCGGTACCCTTGATAGAACATACGTACCTTTG
1 TTTGTACTTCGGTACCCCTGATTGAACATACGTGCCCCTG
* ** **
29701269 TTTGTACTTCGGTACCCCTGATTGCATGTACGTGCCTTTG
1 TTTGTACTTCGGTACCCCTGATTGAACATACGTGCCCCTG
* * *
29701309 TTTGTACTTCGATACCCCTCATTGAACATATGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGATTGAACATACGTGCCCCTG
* *
29701349 TTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGATTGAACATACGTGCCCCTG
29701389 TTT
1 TTT
29701392 ATACCCTGGT
Statistics
Matches: 104, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTGATTGAACATACGTGCCCCTG
Found at i:29701386 original size:20 final size:20
Alignment explanation
Indices: 29701323--29701388 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
29701313 TACTTCGATA
* *
29701323 CCCCTCATTGAACATATGTG
1 CCCCTGATTGAACATACGTG
* * * *
29701343 CCCCTGTTTGTAC-TTCAGTA
1 CCCCTGATTGAACATAC-GTG
*
29701363 CCCCTGATTGCACATACGTG
1 CCCCTGATTGAACATACGTG
29701383 CCCCTG
1 CCCCTG
29701389 TTTATACCCT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.91
21 2 0.06
ACGTcount: A:0.18, C:0.35, G:0.17, T:0.30
Consensus pattern (20 bp):
CCCCTGATTGAACATACGTG
Found at i:29716444 original size:104 final size:104
Alignment explanation
Indices: 29716264--29716487 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
29716254 TGTATATAAA
** * *
29716264 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
29716329 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
29716368 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
29716432 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
29716472 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
29716488 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:29716539 original size:71 final size:72
Alignment explanation
Indices: 29716406--29716557 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
29716396 TCATTGGTGG
* *
29716406 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29716471 GAGGGGT
66 GAGGGGT
***
29716478 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29716542 GAGGGGT
66 GAGGGGT
29716549 TGCTAAGTG
1 TGCTAAGTG
29716558 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:29723996 original size:104 final size:104
Alignment explanation
Indices: 29723816--29724039 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
29723806 TGTATATAAA
** * *
29723816 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
29723881 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
29723920 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
29723984 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
29724024 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
29724040 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:29724091 original size:71 final size:72
Alignment explanation
Indices: 29723958--29724109 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
29723948 TCATTGGTGG
* *
29723958 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29724023 GAGGGGT
66 GAGGGGT
***
29724030 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29724094 GAGGGGT
66 GAGGGGT
29724101 TGCTAAGTG
1 TGCTAAGTG
29724110 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:29730098 original size:40 final size:40
Alignment explanation
Indices: 29730038--29730221 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
29730028 AATTATTGTA
* *
29730038 TGATCGCACATACCTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
29730078 TAATTGCACATACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
29730118 TGATTGCATATACGTGCCTCTGTTTGTACTAT-GATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACT-TCGGTACCCC
* ** *
29730158 TGATTACACATACGTGCCCCTGTTTGTACTTCAATA-CTC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
29730197 TGAATGCACTTTCGTGCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTT
29730222 ATACCTCAGT
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
39 24 0.19
40 99 0.80
41 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:29730179 original size:20 final size:20
Alignment explanation
Indices: 29730038--29730179 Score: 65
Period size: 20 Copynumber: 7.1 Consensus size: 20
29730028 AATTATTGTA
* *
29730038 TGATCGCACATACCTGCCCC
1 TGATTGCACATACGTGCCCC
* * * *
29730058 TGTTTGTAC-TTCGGTACCCC
1 TGATTGCACATAC-GTGCCCC
*
29730078 TAATTGCACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
* ** * *
29730098 TGTTTATAC-TTCGGTACCCC
1 TGATTGCACATAC-GTGCCCC
* *
29730118 TGATTGCATATACGTGCCTC
1 TGATTGCACATACGTGCCCC
* * * *
29730138 TGTTTGTAC-TATGATACCCC
1 TGATTGCACATACG-TGCCCC
*
29730158 TGATTACACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
29730178 TG
1 TG
29730180 TTTGTACTTC
Statistics
Matches: 81, Mismatches: 35, Indels: 12
0.63 0.27 0.09
Matches are distributed among these distances:
19 7 0.09
20 67 0.83
21 7 0.09
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (20 bp):
TGATTGCACATACGTGCCCC
Found at i:29732026 original size:27 final size:27
Alignment explanation
Indices: 29732007--29732163 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
29731997 ATTACCAAAG
* *
29732007 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
29732034 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
29732061 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
29732088 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
29732115 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
29732142 TACCTTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
29732164 TAAAATACTC
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:29732097 original size:81 final size:81
Alignment explanation
Indices: 29732007--29732163 Score: 260
Period size: 81 Copynumber: 1.9 Consensus size: 81
29731997 ATTACCAAAG
* *
29732007 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
* *
29732072 TATAGAATTACCATTT
66 TACAAAATTACCATTT
* *
29732088 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCTTCGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
29732153 TACAAAATTAC
66 TACAAAATTAC
29732164 TAAAATACTC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:29732181 original size:27 final size:27
Alignment explanation
Indices: 29732151--29732394 Score: 154
Period size: 27 Copynumber: 9.0 Consensus size: 27
29732141 TTACCTTCGA
* *
29732151 TTTACAAAATTACTAAAATACTCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
29732178 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
** *
29732205 TTTGTAAAATTACCAAAATACTAC-TGG
1 TTTACAAAATTACCAAAATAC-CCTTGG
*** * ***
29732232 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
29732259 TTTGTAAAATTACCAAAATACACTTGA
1 TTTACAAAATTACCAAAATACCCTTGG
*
29732286 TTTACAAAATTA-CAGAAATACCCTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
* *
29732314 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
**
29732342 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * * *
29732369 TTTGTAGATTTACCAAAACACCCTTG
1 TTTACAAAATTACCAAAATACCCTTG
29732395 TAGGATGAAA
Statistics
Matches: 174, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 143 0.82
28 8 0.05
29 20 0.11
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:29732192 original size:81 final size:81
Alignment explanation
Indices: 29731994--29732171 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 81
29731984 CTCAATTTGT
* * *
29731994 AAAATTACCAAAGTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
*
29732059 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** *
29732075 AGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
*
29732140 TTTACCTTCGATTTAC
66 TTTACCCTCGATTTAC
*
29732156 AAAATTACTAAAATAC
1 AAAATTACCAAAATAC
29732172 TCTTGGTTTA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:29732200 original size:81 final size:81
Alignment explanation
Indices: 29731994--29732298 Score: 218
Period size: 81 Copynumber: 3.8 Consensus size: 81
29731984 CTCAATTTGT
* * **** *
29731994 AAAATTACCAAAGTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGT
*
29732059 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * * ***
29732075 AGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGT
*
29732140 TTTACCTTCGATTTAC
66 TTTACCCTCGATTTAC
* * *** * ** *
29732156 AAAATTACTAAAATACTCTTGGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGA-TTTACAAAATTACCG
*** * * **
29732220 AAATACTACT-GGTTTGT
65 TTTTAC-CCTCGATTTAC
* * ** * *
29732237 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACACTTGATTTACAAAATTAC
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTAC
29732299 AGAAATACCC
Statistics
Matches: 172, Mismatches: 49, Indels: 6
0.76 0.22 0.03
Matches are distributed among these distances:
80 2 0.01
81 168 0.98
82 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:29732214 original size:54 final size:55
Alignment explanation
Indices: 29732156--29732386 Score: 197
Period size: 54 Copynumber: 4.2 Consensus size: 55
29732146 TTCGATTTAC
*
29732156 AAAATTACTAAAATACTCTTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACTCTTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
*** * *
29732210 AAAATTACCAAAATACTAC-TGGTTTGTGAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACT-CTTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* * * * * *
29732264 AAAATTACCAAAATACACTTGATTTACAAAATTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACTCTTGGTTTACAAAATTACCA-AAATACCCCTCAGTTTGT
* ** **
29732319 AAAAATTA-TAGAAATAC-CATTGGTTTACAAAATTACTGAAATA-CCCTTGGTTTGT
1 -AAAATTACCA-AAATACTC-TTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* *
29732374 AGATTTACCAAAA
1 AAAATTACCAAAA
29732387 CACCCTTGTA
Statistics
Matches: 139, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
53 6 0.04
54 81 0.58
55 19 0.14
56 33 0.24
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (55 bp):
AAAATTACCAAAATACTCTTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
Found at i:29732454 original size:27 final size:27
Alignment explanation
Indices: 29732424--29732484 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
29732414 TACCCCTAAT
29732424 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
** *
29732451 AGGTAAACTGATCGTAAAGCCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
*
29732478 GGGTAAA
1 AGGTAAA
29732485 GTGATCGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGGTAAAAAGACCGTAAAGCCCCTGTA
Found at i:29732489 original size:27 final size:27
Alignment explanation
Indices: 29732436--29732511 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
29732426 GTAAAAAGAC
29732436 CGTAAAGCCCCTGTAAGGTAAACTGAT
1 CGTAAAGCCCCTGTAAGGTAAACTGAT
* *
29732463 CGTAAAGCCCCTGTAGGGTAAAGTGAT
1 CGTAAAGCCCCTGTAAGGTAAACTGAT
* *
29732490 CGTAATA-CCCCTATATGGTAAA
1 CGTAA-AGCCCCTGTAAGGTAAA
29732512 ATGACGAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
CGTAAAGCCCCTGTAAGGTAAACTGAT
Found at i:29733401 original size:52 final size:52
Alignment explanation
Indices: 29733319--29733467 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
29733309 GAGGAAGTAC
* * *
29733319 AAAAGAGCTTATGCCCTAGTTTACCGAAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
29733371 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
29733423 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
29733468 ATTAAAGAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 10 0.11
51 24 0.26
52 58 0.63
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:29733442 original size:25 final size:26
Alignment explanation
Indices: 29733319--29733467 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
29733309 GAGGAAGTAC
* *
29733319 AAAAGAGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
29733345 AAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
29733371 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
29733397 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
29733423 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
29733448 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
29733468 ATTAAAGAGG
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 33 0.30
26 76 0.70
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:29733698 original size:42 final size:42
Alignment explanation
Indices: 29733611--29733691 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
29733601 TAGTCTCCCC
* * * *
29733611 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATAG
1 AAATAGGCTTGCATACATCCATTGGCATTTCAGGTGATATAG
29733653 AAATAGGCTTGCATACATCCATTGGCATTAT-AGGTGATA
1 AAATAGGCTTGCATACATCCATTGGCATT-TCAGGTGATA
29733692 CTGAAATGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGGCATTTCAGGTGATATAG
Found at i:29733761 original size:31 final size:31
Alignment explanation
Indices: 29733726--29733800 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
29733716 CGTTTACAGT
29733726 AAAGGCTTCGGCCCAATGATATGATTTATAA
1 AAAGGCTTCGGCCCAATGATATGATTTATAA
* * *
29733757 AAAGGCTTCGGTCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATAA
29733788 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
29733801 TAGTAACCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATAA
Found at i:29734631 original size:6 final size:6
Alignment explanation
Indices: 29734622--29734670 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
29734612 TAGCAGAAAA
*
29734622 TTATTG TTATTTT TTTATTT TTATTT TTATTT TTATTT TTA-TT TTATTT
1 TTATTT TTA-TTT -TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
29734671 CTTTTCTCGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
5 5 0.13
6 26 0.67
7 5 0.13
8 3 0.08
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:29738329 original size:13 final size:13
Alignment explanation
Indices: 29738311--29738337 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29738301 CACAAATGAT
29738311 AAAATTTTCACAC
1 AAAATTTTCACAC
29738324 AAAATTTTCACAC
1 AAAATTTTCACAC
29738337 A
1 A
29738338 TGTCAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:29741122 original size:21 final size:21
Alignment explanation
Indices: 29741084--29741124 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29741074 AAATTTAACA
*
29741084 TCAATTTAATCTATTTCATAC
1 TCAATTTAATCTAATTCATAC
29741105 TCAATTTAAT-TCAATTCATA
1 TCAATTTAATCT-AATTCATA
29741125 TATTAGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (21 bp):
TCAATTTAATCTAATTCATAC
Found at i:29746733 original size:44 final size:44
Alignment explanation
Indices: 29746679--29746765 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
29746669 AAAATACATT
* * * *
29746679 CTCTTTTTAAGAATGTAACGTGTCTTATCGTTACATCTAAAATC
1 CTCTTCTTAAGAATGTAACGTGTATTATCGTTAAACCTAAAATC
* *
29746723 CTCTTCTTAAGAATTTAACTTGTATTATCGTTAAACCTAAAAT
1 CTCTTCTTAAGAATGTAACGTGTATTATCGTTAAACCTAAAAT
29746766 TTTAAAAGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.41
Consensus pattern (44 bp):
CTCTTCTTAAGAATGTAACGTGTATTATCGTTAAACCTAAAATC
Found at i:29747700 original size:11 final size:11
Alignment explanation
Indices: 29747684--29747710 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29747674 TCAAAAAAAG
29747684 ATAAAATAGAT
1 ATAAAATAGAT
29747695 ATAAAATAGAT
1 ATAAAATAGAT
29747706 ATAAA
1 ATAAA
29747711 TTACCAAGTT
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:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
ATAAAATAGAT
Found at i:29750519 original size:19 final size:19
Alignment explanation
Indices: 29750495--29750535 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
29750485 TTTTAATGAG
*
29750495 TAAATTTAACTAAAAAATA
1 TAAATTAAACTAAAAAATA
*
29750514 TAAATTAAATTAAAAAATA
1 TAAATTAAACTAAAAAATA
29750533 TAA
1 TAA
29750536 GTACTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATTAAACTAAAAAATA
Found at i:29753483 original size:45 final size:45
Alignment explanation
Indices: 29753434--29753534 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
29753424 TCTTTCAGTA
* * *
29753434 ATGGTCTTACTCATTTTTATCATGATGCCATAACATCTTTCAACT
1 ATGGTCTTACTCATCTTTATCATAATGCAATAACATCTTTCAACT
* * **
29753479 ATGGTTTTACTCATCTTTATCATAATGTAATATTATCTTTCAACT
1 ATGGTCTTACTCATCTTTATCATAATGCAATAACATCTTTCAACT
29753524 ATGGTCTTACT
1 ATGGTCTTACT
29753535 TATGTTAGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.46
Consensus pattern (45 bp):
ATGGTCTTACTCATCTTTATCATAATGCAATAACATCTTTCAACT
Found at i:29755694 original size:108 final size:108
Alignment explanation
Indices: 29755503--29755718 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
29755493 TTTACCAACA
29755503 AATATATACACTTTGACATACCAAAACCTATTTACATGCCACATAACCAAGACAAGAATGATTGG
1 AATATATACACTTTGACATACCAAAACCTATTTACATGCCACATAACCAAGACAAGAATGATTGG
*
29755568 AAGTCTACTAAGATAGAAGCTGAATAGTGTAAGATCAGGGGAT
66 AAGTCTACTAAGACAGAAGCTGAATAGTGTAAGATCAGGGGAT
29755611 AATATATACACTTTGACATACCAAAACCTATTTACATGCCACATAACCAAGACAAGAATGATTGG
1 AATATATACACTTTGACATACCAAAACCTATTTACATGCCACATAACCAAGACAAGAATGATTGG
29755676 AAGTCTACTAAGACAGAAGCTGAATAGTGTAAGATCAGGGGAT
66 AAGTCTACTAAGACAGAAGCTGAATAGTGTAAGATCAGGGGAT
29755719 GATCCAATAG
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.24
Consensus pattern (108 bp):
AATATATACACTTTGACATACCAAAACCTATTTACATGCCACATAACCAAGACAAGAATGATTGG
AAGTCTACTAAGACAGAAGCTGAATAGTGTAAGATCAGGGGAT
Found at i:29763810 original size:39 final size:39
Alignment explanation
Indices: 29763762--29764100 Score: 453
Period size: 39 Copynumber: 8.6 Consensus size: 39
29763752 GATGTATATT
29763762 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
1 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
* *
29763801 CGGACTTAAGGTCTGCAGGCTTTGTGCTGGAATTGTATC
1 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
* *
29763840 CGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTATATC
1 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
* **
29763879 CGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
1 CGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
* * * * *
29763919 CGGACTTAAGATCCGCAGGCTTCGTACTGGTACTATATC
1 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
*
29763958 CGAACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
1 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
* * **
29763997 TGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
1 CGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
* * * * * *
29764037 CGGACTTAAGATCCGCAGGCTTTGTACTGGTACTATATC
1 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
29764076 CGGACTTAAGGTCCGCAGGCTTCGT
1 CGGACTTAAGGTCCGCAGGCTTCGT
29764101 ATTGGTACTA
Statistics
Matches: 260, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
39 191 0.73
40 69 0.27
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (39 bp):
CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATC
Found at i:29764123 original size:157 final size:157
Alignment explanation
Indices: 29763756--29764123 Score: 504
Period size: 157 Copynumber: 2.3 Consensus size: 157
29763746 ATATTTGATG
* * * * * *
29763756 TATATTCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCTGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGC
* ** *
29763821 TTTGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTATATCCGGGCTT
66 TTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAGGCTTCATGCTGGAATTATATCCGGACTT
* *
29763886 AAAGACCCGCAGGCTTCGTGCTGGAAT
131 AAAGACCCGCAGGCTTCGTACTGGAAC
* * *
29763913 TGTATCCGGACTTAAGATCCGCAGGCTTCGTACTGGTACTATATCCGAACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGC
* * * *
29763978 TTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACT
66 TTCGTGCTGGAATTGTATCCGGACTT-AAGACCCGCAGGCTTCATGCTGGAATTATATCCGGACT
* * *
29764043 T-AAGATCCGCAGGCTTTGTACTGGTAC
130 TAAAGACCCGCAGGCTTCGTACTGGAAC
* *
29764070 TATATCCGGACTTAAGGTCCGCAGGCTTCGTATTGGTACTATATCCGGGCTTAA
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCCGGACTTAA
29764124 AGTACTGTAG
Statistics
Matches: 183, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
157 149 0.81
158 34 0.19
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (157 bp):
TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGC
TTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAGGCTTCATGCTGGAATTATATCCGGACTT
AAAGACCCGCAGGCTTCGTACTGGAAC
Found at i:29764137 original size:118 final size:118
Alignment explanation
Indices: 29763774--29764125 Score: 569
Period size: 118 Copynumber: 3.0 Consensus size: 118
29763764 GACTTAAGGT
* * * * * *
29763774 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCTGCAGGCTTTGTGCTGGAATTGTAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTTGTACTGGTACTATAT
*
29763839 CCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTATATCCGGGCTTAAAGAC
66 CCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTATATCCGGGCTTAAAGAC
*
29763892 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTCGTACTGGTACTATAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTTGTACTGGTACTATAT
* * *
29763957 CCGAACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGAC
66 CCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTATATCCGGGCTTAAAGAC
29764010 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTTGTACTGGTACTATAT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTTGTACTGGTACTATAT
** * *
29764075 CCGGACTTAAGGTCCGCAGGCTTCGTATTGGTACTATATCCGGGCTTAAAG
66 CCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTATATCCGGGCTTAAAG
29764126 TACTGTAGGC
Statistics
Matches: 215, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 215 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (118 bp):
CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTTGTACTGGTACTATAT
CCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTATATCCGGGCTTAAAGAC
Found at i:29766390 original size:48 final size:48
Alignment explanation
Indices: 29766311--29766589 Score: 335
Period size: 48 Copynumber: 5.8 Consensus size: 48
29766301 ATCGTGCTAA
*
29766311 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
29766359 ATGTTCCTGTGTAAGACCATGCCTGGTACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
29766407 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGTGTTGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * * *
29766455 ATGTGCCTGTGTAAGACCATGTTTGAGACATGGCGTAGGCAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * * * *
29766503 GTGTGCCAGTGTAAGACCATGTCTGGGACACGGTATTGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** * *
29766551 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCATCGG
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATCGG
29766590 TACTTTATTT
Statistics
Matches: 195, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
47 1 0.01
48 194 0.99
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:29769011 original size:46 final size:46
Alignment explanation
Indices: 29768954--29769124 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
29768944 ACAGCTCGTA
*
29768954 GCCGATGCATGTCCTAGACACGTCTTACACTGGCTTACTTCT-AGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGC-TACTTCTAAGAG
* * *
29769000 GCCGATGCATGTCCTAGACATGTCTTACACTAGC-ACTCGTCTCA-AT
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTACT--TCTAAGAG
* *
29769046 GCTGATGCCATGTCCTAGACATGGTCTTACACTGGCT-C-TCATAATGTG
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTACTTC-TAA-GAG
* *
29769094 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCTAGACATGTCTTACACT
29769125 AGCTCACAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 54 0.50
47 28 0.26
48 20 0.19
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGGCTACTTCTAAGAG
Found at i:29769073 original size:94 final size:92
Alignment explanation
Indices: 29768916--29769127 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 92
29768906 GTGCCGAAGC
* * * *
29768916 CATGTCCCAGACATGGTCTTACACTAACAC-AG-CTC-GTAGCCGATGCATGTCCTAGACACGTC
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAAT-GCTGATGCATGTCCTAGACACGTC
29768978 TTACACTGGCTTACTTC-T-A-GAGGCCGATG
64 TTACACTGGC-T-C-TCATAATGAGGCCGATG
* *
29769007 CATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGCTGATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCTGATG-CATGTCCTAGACA-CGTC
* *
29769072 TTACACTGGCTCTCATAATGTGGCTGATG
64 TTACACTGGCTCTCATAATGAGGCCGATG
29769101 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
29769128 TCACAATAAC
Statistics
Matches: 104, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
90 14 0.13
91 16 0.15
92 11 0.11
93 16 0.15
94 47 0.45
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCTGATGCATGTCCTAGACACGTCTT
ACACTGGCTCTCATAATGAGGCCGATG
Found at i:29776935 original size:48 final size:48
Alignment explanation
Indices: 29776864--29777154 Score: 365
Period size: 48 Copynumber: 6.1 Consensus size: 48
29776854 ACCATGCTAA
29776864 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** *
29776912 ATGTGCCTGTGTAAGACCATGTCTGAGACATTACATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * **
29776960 ATGTG-CTAGTGTAAGACCACGTCTGGGACATGGGATCATCGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * **
29777008 ATGTGCTTGTATAAGACCATGTTTGGGACATGGCATCCACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
*
29777056 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGTATCGGC-AGTGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA-TGATAT
* * * * *
29777104 ATGTGCCAGTGTAAGACCATGTTTGGGAGATAGCATCGGTGAT--TAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
29777150 ATGTG
1 ATGTG
29777155 GATTCATGTA
Statistics
Matches: 208, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
46 8 0.04
47 3 0.01
48 195 0.94
49 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:29777131 original size:144 final size:144
Alignment explanation
Indices: 29776864--29777131 Score: 403
Period size: 144 Copynumber: 1.9 Consensus size: 144
29776854 ACCATGCTAA
* **
29776864 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGAC
1 ATGTGCCTGTATAAGACCATGTCTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGAC
* * *
29776929 CATGTCTGAGACATTACATCGGTGATGATATATGTGCTAGTGTAAGACCACGTCTGGGACATGGG
66 CATGTCTGAGACATGACATCGGAGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGGG
29776994 ATCATCGATGATAT
131 ATCATCGATGATAT
* *
29777008 ATGTGCTTGTATAAGACCATGTTTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGAC
1 ATGTGCCTGTATAAGACCATGTCTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGAC
* ** * *
29777073 CATGTCTGGGACATGGTATCGGCAG-TGATATATGTGCCAGTGTAAGACCATGTTTGGGA
66 CATGTCTGAGACATGACATCGG-AGATGATATATGTGCCAGTGTAAGACCACGTCTGGGA
29777132 GATAGCATCG
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
144 109 0.99
145 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (144 bp):
ATGTGCCTGTATAAGACCATGTCTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGAC
CATGTCTGAGACATGACATCGGAGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGGG
ATCATCGATGATAT
Found at i:29777165 original size:96 final size:93
Alignment explanation
Indices: 29776864--29777187 Score: 339
Period size: 96 Copynumber: 3.4 Consensus size: 93
29776854 ACCATGCTAA
*
29776864 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGAC
1 ATGTG-CTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGAC
* *
29776929 CATGTCTGAGACATTA-CATCGGTGATGATAT
65 CATGTTTGGGACA-TAGCATCGGTGAT--TAT
* * ** * *
29776960 ATGTGCTAGTGTAAGACCACGTCTGGGACATGGGATCATCGATGATATATGTGCTTGTATAAGAC
1 ATGTGCTA-TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGAC
* *
29777025 CATGTTTGGGACATGGCATCCACGATGA-TAT
65 CATGTTTGGGACATAGCAT---CGGTGATTAT
* * *
29777056 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGTATCGGC-AGTGATATATGTGCCAGTGTAAGA
1 ATGTG-CTATGTAAGACCATGTCTGGGACATGGCATCGGCGA-TGATATATGTGCCTGTGTAAGA
*
29777120 CCATGTTTGGGAGATAGCATCGGTGATTAT
64 CCATGTTTGGGACATAGCATCGGTGATTAT
* * * *
29777150 ATGTGGATTCATGTAAAACTATGTCGGGGACATGGCAT
1 ATGT-G-CT-ATGTAAGACCATGTCTGGGACATGGCAT
29777188 TGATACTTTA
Statistics
Matches: 189, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
93 5 0.03
94 7 0.04
95 6 0.03
96 164 0.87
97 2 0.01
99 5 0.03
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (93 bp):
ATGTGCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACC
ATGTTTGGGACATAGCATCGGTGATTAT
Found at i:29777180 original size:144 final size:142
Alignment explanation
Indices: 29776873--29777187 Score: 382
Period size: 144 Copynumber: 2.2 Consensus size: 142
29776863 AATGTGCCTG
**
29776873 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGA
1 TGTAAGACCATGTCTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGACCATGTCTGA
* * * *
29776938 GACATTACATCGGTGATGATATATGTGCTAGTGTAAGACCACGTCTGGGACATGGGATCATCGAT
66 GACATGACATCGGAGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACAT--GAGCATCGAT
* *
29777003 GATATATGTGCTTG
129 GATATATGTGATTA
* * *
29777017 TATAAGACCATGTTTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGACCATGTCTGA
** * * * *
29777082 GACATGGTATCGGCAG-TGATATATGTGCCAGTGTAAGACCATGTTTGGGAGAT-AGCATCGGTG
66 GACATGACATCGG-AGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGAGCATCGATG
29777145 ATTATATGTGGATTCA
130 A-TATATGT-GATT-A
* * *
29777161 TGTAAAACTATGTCGGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
29777188 TGATACTTTA
Statistics
Matches: 145, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
141 9 0.06
142 7 0.05
143 3 0.02
144 125 0.86
145 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (142 bp):
TGTAAGACCATGTCTGGGACATGGCATCCACGATGATATATGTGCCTGTGTAAGACCATGTCTGA
GACATGACATCGGAGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGAGCATCGATGA
TATATGTGATTA
Found at i:29779946 original size:21 final size:20
Alignment explanation
Indices: 29779917--29779956 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
29779907 TATGAGCTTT
29779917 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
29779938 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
29779957 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:29779964 original size:20 final size:21
Alignment explanation
Indices: 29779922--29779964 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29779912 GCTTTAATGA
*
29779922 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
29779943 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
29779963 TT
1 TT
29779965 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:29781738 original size:21 final size:20
Alignment explanation
Indices: 29781705--29781743 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
29781695 AGCACACAGC
29781705 CTGGCACACGGGCATGTGGG
1 CTGGCACACGGGCATGTGGG
*
29781725 CTGGTCACATGGGCATGTG
1 CTGG-CACACGGGCATGTG
29781744 TGTTGGCCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.23, G:0.41, T:0.21
Consensus pattern (20 bp):
CTGGCACACGGGCATGTGGG
Found at i:29782782 original size:21 final size:21
Alignment explanation
Indices: 29782758--29782799 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
29782748 ACATGAGATA
29782758 GTCTAATTTGACATATCAAAT
1 GTCTAATTTGACATATCAAAT
29782779 GTCTAATTTGACATATCAAAT
1 GTCTAATTTGACATATCAAAT
29782800 TATAGTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
GTCTAATTTGACATATCAAAT
Found at i:29795429 original size:45 final size:44
Alignment explanation
Indices: 29795365--29795485 Score: 147
Period size: 44 Copynumber: 2.7 Consensus size: 44
29795355 GAATTTAGAA
* *
29795365 ATCTGAGCTCGTTGAGTTGGTCCGGGTTCATGATATGTATGAG-GC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTTCAT--TATGGATGAGAGC
* *
29795410 ATCTGAGCTCGTTGAGTTGGTTCGAGTTCATTATGGATGCGAGC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGC
* *
29795454 AT-TCGAGCTCATTGAGTTGGTCTGAGTTCATT
1 ATCT-GAGCTCGTTGAGTTGGTCCGAGTTCATT
29795486 TTGGCGATAC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
43 9 0.13
44 29 0.43
45 29 0.43
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.36
Consensus pattern (44 bp):
ATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGC
Found at i:29796266 original size:40 final size:40
Alignment explanation
Indices: 29796211--29796291 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
29796201 TGAGACAGAG
*
29796211 TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTTGGAAAA
1 TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTGGGAAAA
*
29796251 TAAGAGTGATTTCGGGCTCCCCTGTCTTAACTTGGGAAAA
1 TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTGGGAAAA
29796291 T
1 T
29796292 CACTAAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (40 bp):
TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTGGGAAAA
Found at i:29798318 original size:93 final size:93
Alignment explanation
Indices: 29798206--29798376 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
29798196 CCCATAAGTG
* * * *
29798206 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
29798271 GAGCTT-GGATGCCTAGTTACATCTCTCA
66 GAG-TTCGGATGCCTAGTTACATCTCTCA
* * *
29798299 AACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
29798364 GAGTTCGGATGCC
66 GAGTTCGGATGCC
29798377 CAAACATCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCTCA
Found at i:29798372 original size:46 final size:46
Alignment explanation
Indices: 29798197--29798372 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
29798187 TGTAACCCGC
* * * * *
29798197 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
29798243 CCATAAGTGAACTCAGACTCAACTCAACGAGCTT-GGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGA---C-ATTTGCAT
* *
29798293 CTC-TCA---AACTCGAACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
29798336 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29798373 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
42 1 0.01
43 9 0.09
44 1 0.01
46 61 0.59
47 24 0.23
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:29802212 original size:15 final size:15
Alignment explanation
Indices: 29802192--29802275 Score: 105
Period size: 15 Copynumber: 5.6 Consensus size: 15
29802182 ATATTGTATT
*
29802192 TTGGATTTCTATATC
1 TTGGATTTCTTTATC
*
29802207 TTGGATTTCTTTACC
1 TTGGATTTCTTTATC
*
29802222 TAGGATTTCTTTATC
1 TTGGATTTCTTTATC
* *
29802237 TAGGATTTCTTTCTC
1 TTGGATTTCTTTATC
*
29802252 TTGGACTTCTTTATC
1 TTGGATTTCTTTATC
*
29802267 TTGGTTTTC
1 TTGGATTTC
29802276 ATGTCATCTC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:29805474 original size:30 final size:30
Alignment explanation
Indices: 29805438--29805498 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
29805428 TTCCCGAGCC
29805438 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
29805468 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
29805498 T
1 T
29805499 GTATTAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Done.