Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 89 of 325
Found at i:28440535 original size:80 final size:80
Alignment explanation
Indices: 28440311--28440575 Score: 367
Period size: 80 Copynumber: 3.3 Consensus size: 80
28440301 TTGAATGATG
* * * *
28440311 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
* *
28440375 TGTGCGAGATACTAAT
65 TGTGCGAGTTACTAAA
*
28440391 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
28440455 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* **
28440470 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
28440534 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* *
28440551 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28440576 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
79 65 0.39
80 100 0.60
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:28440582 original size:120 final size:118
Alignment explanation
Indices: 28440364--28440598 Score: 323
Period size: 120 Copynumber: 2.0 Consensus size: 118
28440354 GGACTAAGAT
*
28440364 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
**
28440429 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAGTC
* * *
28440483 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * *
28440548 TAA-CCGGGCTATG-TCTCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
65 -AATCCGGACTAAGATC-CGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAA
28440599 ATTCTGAAGG
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
119 45 0.44
120 56 0.54
121 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAGTC
Found at i:28449591 original size:79 final size:80
Alignment explanation
Indices: 28449492--28449674 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
28449482 AACTCGTTCA
* *
28449492 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
28449555 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
28449572 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
28449636 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
28449651 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
28449675 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:28449674 original size:40 final size:40
Alignment explanation
Indices: 28449475--28449674 Score: 237
Period size: 40 Copynumber: 5.0 Consensus size: 40
28449465 ATTTAACCGA
* ** *
28449475 ATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
28449515 TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
28449555 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
28449594 A-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 ATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
28449634 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 ATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
28449674 A
1 A
28449675 CATCATTCGA
Statistics
Matches: 137, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
Found at i:28452981 original size:27 final size:26
Alignment explanation
Indices: 28452950--28453010 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
28452940 CATACATCTC
*
28452950 ATAGGGGTATAACAGTCATTTTATCA
1 ATAGGGGCATAACAGTCATTTTATCA
***
28452976 TATAGGGGCATTTTAGTCATTTTATCA
1 -ATAGGGGCATAACAGTCATTTTATCA
28453003 ATTAGGGG
1 A-TAGGGG
28453011 GTCTAGGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (26 bp):
ATAGGGGCATAACAGTCATTTTATCA
Found at i:28456868 original size:40 final size:40
Alignment explanation
Indices: 28456797--28456890 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 40
28456787 CAACTATTTG
28456797 TGGCACTTAGTGTGCAATTCAACATAGCTTCGGCTAAATA
1 TGGCACTTAGTGTGCAATTCAACATAGCTTCGGCTAAATA
* * * * ***
28456837 TGGCACTTAGTGTGCGATTTAAGATATCTTCGGCTCTGTA
1 TGGCACTTAGTGTGCAATTCAACATAGCTTCGGCTAAATA
28456877 TGGCACTTAGTGTG
1 TGGCACTTAGTGTG
28456891 TGAGATATCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCAACATAGCTTCGGCTAAATA
Found at i:28456939 original size:28 final size:29
Alignment explanation
Indices: 28456875--28456945 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 29
28456865 TTCGGCTCTG
*
28456875 TATGGCACTTAGTGTGTGAGATATCGAGA
1 TATGGCACTTAGTGTGTGAAATATCGAGA
* * *
28456904 -GTGACACTTAGTGTGTGAAATATTGA-A
1 TATGGCACTTAGTGTGTGAAATATCGAGA
28456931 TATGGCACTT-GTGTG
1 TATGGCACTTAGTGTG
28456946 CGAGACATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.34
Consensus pattern (29 bp):
TATGGCACTTAGTGTGTGAAATATCGAGA
Found at i:28457732 original size:35 final size:35
Alignment explanation
Indices: 28457693--28457762 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
28457683 GAAAGTATGT
28457693 GCAAAATGGGTGGCAAAAAGACTTGGTAAAATGGC
1 GCAAAATGGGTGGCAAAAAGACTTGGTAAAATGGC
*
28457728 GCAAAATGGGTGGCAAAAAGGCTTGGTAAAATGGC
1 GCAAAATGGGTGGCAAAAAGACTTGGTAAAATGGC
28457763 CTATTTTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.33, T:0.17
Consensus pattern (35 bp):
GCAAAATGGGTGGCAAAAAGACTTGGTAAAATGGC
Found at i:28460534 original size:47 final size:47
Alignment explanation
Indices: 28460480--28460858 Score: 616
Period size: 47 Copynumber: 8.1 Consensus size: 47
28460470 TTAGGATTTT
** *
28460480 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28460527 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28460574 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28460621 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28460668 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28460715 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
28460762 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
28460809 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
28460856 ATG
1 ATG
28460859 CGAAATGTGT
Statistics
Matches: 313, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 310 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28460580 original size:22 final size:22
Alignment explanation
Indices: 28460509--28460580 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
28460499 GCATATATGA
28460509 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
28460531 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
28460556 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
28460578 GAT
1 GAT
28460581 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:28460674 original size:22 final size:22
Alignment explanation
Indices: 28460646--28460768 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
28460636 ACATGCATAT
28460646 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
28460668 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
28460692 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * *
28460715 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
28460739 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
28460762 ATGTGAT
1 ATGTGAT
28460769 GAATGTGAAC
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 23 0.31
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:28460888 original size:46 final size:46
Alignment explanation
Indices: 28460832--28460950 Score: 202
Period size: 46 Copynumber: 2.6 Consensus size: 46
28460822 GGAAGTGTAT
* *
28460832 ATATGTGGTAAAGTCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
28460878 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
28460924 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
28460951 TGAGAGATGT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:28463231 original size:6 final size:6
Alignment explanation
Indices: 28463213--28463272 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
28463203 AAGAAACATT
* *
28463213 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
28463262 ATCAGA ATCAG
1 ATCAGA ATCAG
28463273 GTAACAGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 2 0.04
6 39 0.87
7 3 0.07
8 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:28463280 original size:19 final size:19
Alignment explanation
Indices: 28463258--28463302 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
28463248 GTGACAGAAT
*
28463258 CAGAATCAGA-ATCAGGTAA
1 CAGAATCA-ATATCAAGTAA
28463277 CAGAATCAATATCAAGTAA
1 CAGAATCAATATCAAGTAA
28463296 CAGAATC
1 CAGAATC
28463303 TAAAATCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (19 bp):
CAGAATCAATATCAAGTAA
Found at i:28463290 original size:25 final size:25
Alignment explanation
Indices: 28463227--28463284 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
28463217 GAACTAGAAT
* *
28463227 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
28463252 CAGAATCAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
28463277 CAGAATCA
1 CAGAATCA
28463285 ATATCAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:28463493 original size:27 final size:26
Alignment explanation
Indices: 28463451--28463552 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
28463441 GCTAAGTTAT
* *
28463451 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
28463478 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
28463504 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
28463532 CAGATAATGTAGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
28463553 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.78
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:28463739 original size:22 final size:21
Alignment explanation
Indices: 28463711--28463775 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
28463701 GCAAATACGT
28463711 TTGGCACACAGCCATAATCAGG
1 TTGGCACA-AGCCATAATCAGG
* *
28463733 TTGGCACAGAGCTAT-ATGTAGG
1 TTGGCACA-AGCCATAAT-CAGG
*
28463755 TTGACACGAAGCCATAATCAG
1 TTGGCAC-AAGCCATAATCAG
28463776 AAGGATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (21 bp):
TTGGCACAAGCCATAATCAGG
Found at i:28464260 original size:27 final size:27
Alignment explanation
Indices: 28464230--28464528 Score: 365
Period size: 27 Copynumber: 11.2 Consensus size: 27
28464220 GGTATCTCGA
* * *
28464230 TAATTCCACCCTACAGAGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
28464257 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
28464284 TAATTCTATCCTACAGGGGTATTGC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
28464310 ATACTTCTACCCTACAGGGTTATTTCAG
1 -TAATTCTACCCTACAGGGGTATTTCAG
*
28464338 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
28464365 TAATTCTACCCTACAAGGGTATTCCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
28464392 TAATTCTACCCTACAGGGGTATTGC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
28464418 ATAA---TACCCTACAGGGGTATTGCGG
1 -TAATTCTACCCTACAGGGGTATTTCAG
28464443 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
28464470 TAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * * *
28464497 TATTTCTACCCTAAAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
28464524 TAATT
1 TAATT
28464529 TTGTAAATCG
Statistics
Matches: 236, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
24 22 0.09
25 1 0.00
26 2 0.01
27 210 0.89
28 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:28464670 original size:27 final size:27
Alignment explanation
Indices: 28464564--28464907 Score: 341
Period size: 27 Copynumber: 12.7 Consensus size: 27
28464554 TTCTGTAAAT
* * **
28464564 CAAGGGCACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** ***
28464591 CGAGGGTATTTTAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** * *
28464618 CGAGGGTATTTCAATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
28464645 C-AGGGATATTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
* * *
28464672 TAGGGGTATTTT-GAATATTTTACAAAC
1 CAAGGGTATTTTGGTA-ATTTTACAAAC
*
28464699 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
28464726 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
28464753 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
28464780 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
28464807 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
28464834 TAAGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
28464861 CAAGGGTATTCTAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
28464888 CAGGGGTATTTTGTTAATTT
1 CAAGGGTATTTTGGTAATTT
28464908 GGTAAACTAA
Statistics
Matches: 267, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
26 6 0.02
27 256 0.96
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:28466801 original size:41 final size:41
Alignment explanation
Indices: 28466744--28466826 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
28466734 GAAGATCACA
* *
28466744 TTGACCATGACAATGGCGCAGTAAAGACATTTAGAAGTTTT
1 TTGACCATGACAATGGCGCAGTAAAAACATATAGAAGTTTT
28466785 TTGACCATGACAATGGCGCAGTAAAAACATATAGAAGTTTT
1 TTGACCATGACAATGGCGCAGTAAAAACATATAGAAGTTTT
28466826 T
1 T
28466827 CTCTTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (41 bp):
TTGACCATGACAATGGCGCAGTAAAAACATATAGAAGTTTT
Found at i:28484874 original size:12 final size:12
Alignment explanation
Indices: 28484859--28484897 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
28484849 CTGATTCCGT
28484859 AAATTTTTCCTG
1 AAATTTTTCCTG
28484871 AAATTTTTCC-G
1 AAATTTTTCCTG
28484882 TAAATTTTTCCTG
1 -AAATTTTTCCTG
28484895 AAA
1 AAA
28484898 CAAATTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (12 bp):
AAATTTTTCCTG
Found at i:28486109 original size:40 final size:40
Alignment explanation
Indices: 28486040--28486204 Score: 244
Period size: 40 Copynumber: 4.2 Consensus size: 40
28486030 AACCCAAGTA
* * *
28486040 CCTTTGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
28486079 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
28486119 CCTTCAGGACTTAGCCCGGATATAGTAACTCACACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
28486159 CCTTCGGGACTTAGCCC-GATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
28486198 CCTTCGG
1 CCTTCGG
28486205 ATCTTAGTCT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 38 0.34
40 75 0.66
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:28491390 original size:45 final size:45
Alignment explanation
Indices: 28491327--28491504 Score: 207
Period size: 45 Copynumber: 3.9 Consensus size: 45
28491317 AAAACGTGGA
*
28491327 CTTACTCACACA-CATATATCGGAATCACATATCGATGCCATGGT
1 CTTACTCGCACATCATATATCGGAATCACATATCGATGCCATGGT
* *
28491371 CTTACTCGCATATCATATATCGCAATCACATATCGATGCCAAACATGGT
1 CTTACTCGCACATCATATATCGGAATCACATATCGATG-C---CATGGT
* * * *
28491420 CTTACTTGCACA-CATGTATAGGAATCACACATCGATGCCATGGT
1 CTTACTCGCACATCATATATCGGAATCACATATCGATGCCATGGT
* * *
28491464 CTTACTCGCACATCACATATTGGAATTCACATGTCGATGCC
1 CTTACTCGCACATCATATATCGGAA-TCACATATCGATGCC
28491505 TCATATACAT
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
44 27 0.24
45 33 0.29
46 14 0.12
47 1 0.01
48 21 0.19
49 16 0.14
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (45 bp):
CTTACTCGCACATCATATATCGGAATCACATATCGATGCCATGGT
Found at i:28491444 original size:93 final size:94
Alignment explanation
Indices: 28491335--28491504 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 94
28491325 GACTTACTCA
* * * *
28491335 CACACATATATCGGAATCACATATCGATGCCATGGTCTTACTCGCATATCATATATCGCAA-TCA
1 CACACATATATAGGAATCACACATCGATGCCATGGTCTTACTCGCACATCACATATCGCAATTCA
28491399 CATATCGATGCCAAACATGGTCTTACTTG
66 CATATCGATGCCAAACATGGTCTTACTTG
* * *
28491428 CACACATGTATAGGAATCACACATCGATGCCATGGTCTTACTCGCACATCACATATTGGAATTCA
1 CACACATATATAGGAATCACACATCGATGCCATGGTCTTACTCGCACATCACATATCGCAATTCA
*
28491493 CATGTCGATGCC
66 CATATCGATGCC
28491505 TCATATACAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
93 54 0.79
94 14 0.21
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (94 bp):
CACACATATATAGGAATCACACATCGATGCCATGGTCTTACTCGCACATCACATATCGCAATTCA
CATATCGATGCCAAACATGGTCTTACTTG
Found at i:28491795 original size:31 final size:31
Alignment explanation
Indices: 28491757--28491852 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
28491747 CTAGAACTCA
28491757 TTCATTACTTTATCATCAAACGTAAATTCTT
1 TTCATTACTTTATCATCAAACGTAAATTCTT
* * * *
28491788 TTCATTAC-TTA--AT---GCTTAGAACTC-A
1 TTCATTACTTTATCATCAAACGTA-AATTCTT
*
28491813 TTCATTACTTTATCATCAAACGTAAATTATT
1 TTCATTACTTTATCATCAAACGTAAATTCTT
28491844 TTCATTACT
1 TTCATTACT
28491853 CAATGCCGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
25 11 0.23
26 7 0.15
28 4 0.08
30 6 0.12
31 20 0.42
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (31 bp):
TTCATTACTTTATCATCAAACGTAAATTCTT
Found at i:28491834 original size:56 final size:56
Alignment explanation
Indices: 28491748--28491858 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
28491738 CTTTCAATAC
* *
28491748 TAGAACTCATTCATTACTTTATCATCAAACGTAAATTCTTTTCATTACTTAATGCT
1 TAGAACTCATTCATTACTTTATCATCAAACGTAAATTATTTTCATTACTCAATGCT
28491804 TAGAACTCATTCATTACTTTATCATCAAACGTAAATTATTTTCATTACTCAATGC
1 TAGAACTCATTCATTACTTTATCATCAAACGTAAATTATTTTCATTACTCAATGC
28491859 CGATTCATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.41
Consensus pattern (56 bp):
TAGAACTCATTCATTACTTTATCATCAAACGTAAATTATTTTCATTACTCAATGCT
Found at i:28494377 original size:40 final size:40
Alignment explanation
Indices: 28494316--28494561 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
28494306 CGGAATTTAG
* * * *
28494316 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
28494356 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
28494396 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
28494436 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
28494476 CCGGATAAAATCACTAGCA-AAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
28494515 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
28494555 CCGGATA
1 CCGGATA
28494562 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 41 0.22
40 143 0.76
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:28498818 original size:22 final size:21
Alignment explanation
Indices: 28498790--28498834 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
28498780 TCTCTTAACC
28498790 AGAACT-CACACTTACTGAACTT
1 AGAACTCCAC-CTTA-TGAACTT
28498812 AGAACTCCACCTTATGAACTT
1 AGAACTCCACCTTATGAACTT
28498833 AG
1 AG
28498835 CATATAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 10 0.45
23 3 0.14
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (21 bp):
AGAACTCCACCTTATGAACTT
Found at i:28498831 original size:21 final size:22
Alignment explanation
Indices: 28498790--28498834 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
28498780 TCTCTTAACC
28498790 AGAACTCACACTTACTGAACTT
1 AGAACTCACACTTACTGAACTT
28498812 AGAACTC-CACCTTA-TGAACTT
1 AGAACTCACA-CTTACTGAACTT
28498833 AG
1 AG
28498835 CATATAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (22 bp):
AGAACTCACACTTACTGAACTT
Found at i:28501668 original size:21 final size:22
Alignment explanation
Indices: 28501631--28501674 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
28501621 CAGTTTATTA
28501631 GTCAAAGTCTCCCATGTTACAG
1 GTCAAAGTCTCCCATGTTACAG
28501653 GTCAAAGTCT-CCATGTTACAG
1 GTCAAAGTCTCCCATGTTACAG
28501674 G
1 G
28501675 GATCGCTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (22 bp):
GTCAAAGTCTCCCATGTTACAG
Found at i:28502814 original size:40 final size:39
Alignment explanation
Indices: 28502740--28502985 Score: 321
Period size: 40 Copynumber: 6.2 Consensus size: 39
28502730 CGAAATTTAG
* * * *
28502740 CCGGATATAACCACAAGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATA-AATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
28502780 CCGGGTATAGCAACTAGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
28502820 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
28502860 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGAT-AAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
28502900 CCGGATAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
28502939 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGAT-AAATCACTAGCACAAATGCCTTCGGGTCTTAAC
28502979 CCGGATA
1 CCGGATA
28502986 TCATTCAAAT
Statistics
Matches: 186, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 41 0.22
40 141 0.76
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (39 bp):
CCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:28502953 original size:79 final size:79
Alignment explanation
Indices: 28502736--28502985 Score: 342
Period size: 79 Copynumber: 3.2 Consensus size: 79
28502726 TCTTCGAAAT
* * * * * * *
28502736 TTAG-CCGGATATAACCACAAGCACAATTGCCTTTGGGTCTTAACCCGGGT-ATAGCAACTAGCA
1 TTAGCCCGGATA-AATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTAGCA
28502799 CAAATGCCTTCGGGTC
64 CAAATGCCTTCGGGTC
* * *
28502815 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAC
1 TTAGCCCGGATAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCAC
28502880 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
28502895 TTAACCCGGATAAATCACTAGCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACA
1 TTAGCCCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACA
*
28502960 AATGCCTTCGGGAC
66 AATGCCTTCGGGTC
28502974 TTAGCCCGGATA
1 TTAGCCCGGATA
28502986 TCATTCAAAT
Statistics
Matches: 151, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
79 76 0.50
80 72 0.48
81 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACA
AATGCCTTCGGGTC
Found at i:28515679 original size:49 final size:47
Alignment explanation
Indices: 28515620--28515762 Score: 166
Period size: 49 Copynumber: 3.0 Consensus size: 47
28515610 CGGCACTTTG
28515620 TGTGAGAGTAATACCTTGATTTGGCTACGGCCCATGGTATAGGTACTA
1 TGTGAGAGTAATACCTTGATTTGGCTACGG-CCATGGTATAGGTACTA
* * *
28515668 TGTGAGGAGTAATACCTTAATTTGACTACGGGCCATGGTATAGGTACTC
1 TGTGA-GAGTAATACCTTGATTTGGCTAC-GGCCATGGTATAGGTACTA
* *
28515717 CG-G-GA-TAAGTTACCTTGATTTGGCTACAGGCCTTGGTATAGGTACT
1 TGTGAGAGTAA--TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACT
28515763 TATCGGTTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
45 3 0.04
46 2 0.02
47 32 0.39
48 6 0.07
49 38 0.46
50 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (47 bp):
TGTGAGAGTAATACCTTGATTTGGCTACGGCCATGGTATAGGTACTA
Found at i:28526830 original size:40 final size:40
Alignment explanation
Indices: 28526593--28526816 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
28526583 TGAATGATGT
* * * *
28526593 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
28526633 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
28526673 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
28526711 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
28526752 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
28526792 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
28526817 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:28526838 original size:119 final size:119
Alignment explanation
Indices: 28526599--28526849 Score: 296
Period size: 119 Copynumber: 2.1 Consensus size: 119
28526589 ATGTCCGGGC
*
28526599 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
28526664 TTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGT
66 TTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
* * * *
28526718 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * *
28526781 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCTCGGT
* *
28526837 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
28526850 TACGTGATTT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 80 0.71
120 30 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
TTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
Found at i:28532565 original size:10 final size:10
Alignment explanation
Indices: 28532530--28532571 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
28532520 GAACAGATGT
28532530 TTTGGTATGA
1 TTTGGTATGA
*
28532540 TTTTGGTTTAGA
1 -TTTGGTAT-GA
28532552 TTTGGTATGA
1 TTTGGTATGA
28532562 TTTGGT-TGA
1 TTTGGTATGA
28532571 T
1 T
28532572 GAGTTGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 14 0.50
12 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.55
Consensus pattern (10 bp):
TTTGGTATGA
Found at i:28534581 original size:47 final size:46
Alignment explanation
Indices: 28534513--28534781 Score: 228
Period size: 47 Copynumber: 5.8 Consensus size: 46
28534503 TTTGTGAACT
28534513 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACA-TATGAGAGCC
* * * *
28534559 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--CATATGAGAGCC
* * *
28534607 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-AC-ATATGAGAGCC
* * * *
28534653 AGTGTAAGACAATGTCTGGTACATGGCATCGACTTGAGATAT--GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC---ACATATGAGAGCC
* * * *
28534700 AGTGTAAGACCGTGTCTGGGACATGGCATCGACATGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CATATGA-GAGCC
* * *
28534747 ATTGTAAGACCGTGTCTGGGACATGGCATCAGCAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
28534782 CTTACCCATG
Statistics
Matches: 185, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 34 0.18
47 110 0.59
48 31 0.17
49 4 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGAGAGCC
Found at i:28534677 original size:94 final size:92
Alignment explanation
Indices: 28534511--28534776 Score: 322
Period size: 94 Copynumber: 2.8 Consensus size: 92
28534501 TGTTTGTGAA
* * *
28534511 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CACGA-GATGATAGCCAGTGTAAGACCATGTC
*
28534575 TGGGACATGGCATCGGCATTGAGATGA-GAG
64 TGGGACATGGCATCGAC-TTGAGAT-ATGAG
* *
28534605 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACAATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGAGATGATAGCCAGTGTAAGACCATGTCT
*
28534670 GGTACATGGCATCGACTTGAGATATGAG
65 GGGACATGGCATCGACTTGAGATATGAG
* * * * * *
28534698 CCAGTGTAAGACCGTGTCTGGGACATGGCATCGACATGAGAT-ATGAGCCATTGTAAGACCGTGT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACGAGATGAT-AGCCAGTGTAAGACCATGT
28534762 CTGGGACATGGCATC
63 CTGGGACATGGCATC
28534777 AGCACCTTAC
Statistics
Matches: 150, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
92 1 0.01
93 23 0.15
94 118 0.79
95 8 0.05
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (92 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCACGAGATGATAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGACTTGAGATATGAG
Found at i:28537578 original size:27 final size:27
Alignment explanation
Indices: 28537539--28537668 Score: 127
Period size: 27 Copynumber: 4.8 Consensus size: 27
28537529 GCGTACCTGA
*
28537539 ACCCTCATGTGATAAAATGATGATTTT
1 ACCCTCATGTGATAAAATGACGATTTT
* *
28537566 ACCCTTATATGATAAAATGACGATTTT
1 ACCCTCATGTGATAAAATGACGATTTT
** * *
28537593 GTCCTCACGTGATAAAATGATGATTTT
1 ACCCTCATGTGATAAAATGACGATTTT
** * *
28537620 TTCCTTATGTGATAAAATGACGACTTAT
1 ACCCTCATGTGATAAAATGACGA-TTTT
*
28537648 ACCCTCATAG-GGTAAAATGAC
1 ACCCTCAT-GTGATAAAATGAC
28537669 CGAAATACCC
Statistics
Matches: 83, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
27 64 0.77
28 18 0.22
29 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (27 bp):
ACCCTCATGTGATAAAATGACGATTTT
Found at i:28537681 original size:27 final size:27
Alignment explanation
Indices: 28537646--28537722 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
28537636 ATGACGACTT
*
28537646 ATACCCTCATAGGGTAAAATGACCGAA
1 ATACCCTCATAGGGTAAAATGACCAAA
*
28537673 ATACCCTCATAGGGTAGAATGACCAAA
1 ATACCCTCATAGGGTAAAATGACCAAA
*
28537700 ATACCC-CTATAAGGTAAAATGAC
1 ATACCCTC-ATAGGGTAAAATGAC
28537723 AGATTTGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
ATACCCTCATAGGGTAAAATGACCAAA
Found at i:28538085 original size:18 final size:18
Alignment explanation
Indices: 28538062--28538119 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
28538052 TCTACTTGCA
28538062 TACTGCACTGATTACTAT
1 TACTGCACTGATTACTAT
* * *
28538080 TACTGCATTGATCA-TGGT
1 TACTGCACTGATTACT-AT
**
28538098 TACTATACTGATTACTAT
1 TACTGCACTGATTACTAT
28538116 TACT
1 TACT
28538120 AAAACGAGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (18 bp):
TACTGCACTGATTACTAT
Found at i:28538153 original size:34 final size:34
Alignment explanation
Indices: 28538110--28538179 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
28538100 CTATACTGAT
28538110 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
1 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
* * * *
28538144 TACTATTACTAAAATGGGCTAAGGCCTAGACTGC
1 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
28538178 TA
1 TA
28538180 GTGTCACTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (34 bp):
TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
Found at i:28543119 original size:40 final size:40
Alignment explanation
Indices: 28543025--28543119 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
28543015 GACTATGTTC
* *
28543025 GGCACTAAGTGTGCGATTTGAAATAGCTTTGGCTATAAAT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
* * * **
28543065 AGCACTAAGAGTGCGAATTGGAATAGCTTCGGCTATATGT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
*
28543105 GGCAATAAGTGTGCG
1 GGCACTAAGTGTGCG
28543120 GTATTGAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
Found at i:28547637 original size:27 final size:27
Alignment explanation
Indices: 28547597--28547700 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
28547587 AGGAAGCGTC
*
28547597 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* * *
28547624 CTGGCGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
28547651 CTGGTGGCTCTACCACAATTATCT-ATT
1 CTGGTGGCTCTGCCACATTTATCTGA-T
* *
28547678 CTGGTGACTCTGTCACA-TTATCT
1 CTGGTGGCTCTGCCACATTTATCT
28547701 ATTTTGGCAG
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 6 0.09
27 58 0.91
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:28547681 original size:54 final size:53
Alignment explanation
Indices: 28547597--28547700 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 53
28547587 AGGAAGCGTC
* * *
28547597 CTGGTGGCTATGCCACATTTATCTGATCTGGCGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACAATTATCTGATCTGGCGACTCTGCCACAT-TATCTGTT
* * *
28547651 CTGGTGGCTCTACCACAATTATCT-ATTCTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTATACCACAATTATCTGA-TCTGGCGACTCTGCCACATTATCT
28547701 ATTTTGGCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGCGACTCTGCCACATTATCTGTT
Found at i:28551898 original size:79 final size:81
Alignment explanation
Indices: 28551784--28551966 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
28551774 TACTCGTTCA
* * *
28551784 AATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
28551847 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
28551864 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
28551927 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
28551943 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
28551967 CATCATTTGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:28551966 original size:40 final size:40
Alignment explanation
Indices: 28551763--28551966 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
28551753 CGGAATTTAA
** *
28551763 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
28551803 TCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28551843 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
28551882 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
28551922 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
28551962 CCGGA
1 CCGGA
28551967 CATCATTTGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28554168 original size:79 final size:80
Alignment explanation
Indices: 28554036--28554260 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 80
28554026 TTGAATGATG
* * *
28554036 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
28554100 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
* *
28554116 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGATTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
*
28554180 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
28554195 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
28554258 TTG
64 TTG
28554261 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
79 65 0.50
80 61 0.47
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:28554267 original size:40 final size:40
Alignment explanation
Indices: 28554036--28554260 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
28554026 TTGAATGATG
* * *
28554036 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
28554076 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28554116 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
**
28554155 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28554195 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28554236 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28554261 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 117 0.72
41 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28557249 original size:40 final size:40
Alignment explanation
Indices: 28557110--28557295 Score: 150
Period size: 40 Copynumber: 4.7 Consensus size: 40
28557100 GCTACTCGTT
* * * *
28557110 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGACCGGAAT-TAGTAACTCGCA
* * *
28557150 CAATTGCCTTCGGGACTTA-ACCCGGATTTAGTAACTCGCAA
1 CAAATGCCTTCAGGACTTAGA-CCGGAATTAGTAACTCGC-A
*
28557191 CAAATGCCTTCAGG-CTTAGACCGGAATTAGTATCTCGCA
1 CAAATGCCTTCAGGACTTAGACCGGAATTAGTAACTCGCA
* * * *
28557230 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCAGGA-CTTAGACCGGAAT-TAGTAAC-TCGCA
* *
28557271 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAGACCGGA
28557296 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 14 0.11
40 80 0.65
41 27 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAGACCGGAATTAGTAACTCGCA
Found at i:28557274 original size:80 final size:80
Alignment explanation
Indices: 28557138--28557295 Score: 178
Period size: 80 Copynumber: 2.0 Consensus size: 80
28557128 AGCCCGGTTA
* * *
28557138 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAACAAATGCCTTCA
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCAACAAA-GCCTTCA
28557203 GG-CTTAGACCGGAAT
65 GGACTTAGACCGGAAT
* ** * *
28557218 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGC-ACAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCAACAAAGCCTTC
* *
28557281 GGGACTTAGCCCGGA
64 AGGACTTAGACCGGA
28557296 CATCATTCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
79 11 0.17
80 51 0.78
81 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCAACAAAGCCTTCAG
GACTTAGACCGGAAT
Found at i:28566058 original size:40 final size:40
Alignment explanation
Indices: 28565824--28566044 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
28565814 TGAATGATGT
* * * *
28565824 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
28565864 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAC--TAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
** *
28565902 TTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
28565940 TCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
28565980 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
28566020 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
28566045 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
37 22 0.14
38 19 0.12
39 25 0.16
40 86 0.54
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:28566075 original size:79 final size:79
Alignment explanation
Indices: 28565824--28566077 Score: 216
Period size: 79 Copynumber: 3.2 Consensus size: 79
28565814 TGAATGATGT
* * * * * * *
28565824 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAATCCCGAAGGCATTGGTGC-GAGTTACTA-AACCGGGCTAAG-TCCCGAAGGCATT
**
28565887 TGTGCGAGTTAC--TAA
63 TGAACGAGTTACTATAA
** * * * *
28565902 TTGGGCT-AAGCCCGAAGGCATTGGTGCGAGTTACTAAATCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAATCCCGAAGGCATTGGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGA
*
28565966 GCGAGTTACTATAA
66 ACGAGTTACTATAA
* * *
28565980 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAATCCCGAAGGCATTGGTGCGAGTTACTA-AACCGGGCTAAGTCCCGAAGGCATTTG
*
28566045 AACGAG-TAGCTATAT
65 AACGAGTTA-CTATAA
* *
28566060 CC-GGTTAAATTCCGAAGG
1 CCGGGCTAAATCCCGAAGG
28566078 TACGTGATTT
Statistics
Matches: 143, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
75 1 0.01
76 31 0.22
77 16 0.11
78 19 0.13
79 41 0.29
80 35 0.24
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAATCCCGAAGGCATTGGTGCGAGTTACTAAACCGGGCTAAGTCCCGAAGGCATTTGA
ACGAGTTACTATAA
Found at i:28571808 original size:10 final size:10
Alignment explanation
Indices: 28571773--28571814 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
28571763 GAACAGATGT
28571773 TTTGGTATGA
1 TTTGGTATGA
*
28571783 TTTTGGTTTAGA
1 -TTTGGTAT-GA
28571795 TTTGGTATGA
1 TTTGGTATGA
28571805 TTTGGT-TGA
1 TTTGGTATGA
28571814 T
1 T
28571815 GAGTTGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 14 0.50
12 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.55
Consensus pattern (10 bp):
TTTGGTATGA
Found at i:28573823 original size:47 final size:46
Alignment explanation
Indices: 28573755--28574023 Score: 219
Period size: 47 Copynumber: 5.8 Consensus size: 46
28573745 TTTGTGAACT
28573755 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACA-TATGAGAGCC
* * * * *
28573801 AGTGTAAGACCATGTTTGGGACATGGCATCGGTATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--CATATGAGAGCC
* * *
28573849 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-AC-ATATGAGAGCC
* * * *
28573895 AGTGTAAGACAATGTCTGGTACATGGCATCGACTTGAGATAT--GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC---ACATATGAGAGCC
* * * *
28573942 AGTGTAAGACCGTGTCTGGGACATGGCATCGACATGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CATATGA-GAGCC
* * *
28573989 ATTGTAAGACCGTGTCTGGGACATGGCATCAGCAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
28574024 CTTACCCACG
Statistics
Matches: 183, Mismatches: 27, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 33 0.18
47 109 0.60
48 31 0.17
49 4 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGAGAGCC
Found at i:28573919 original size:94 final size:92
Alignment explanation
Indices: 28573753--28574018 Score: 315
Period size: 94 Copynumber: 2.8 Consensus size: 92
28573743 TGTTTGTGAA
* * *
28573753 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CACGA-GATGATAGCCAGTGTAAGACCATGTC
28573817 TGGGACATGGCATCGGTA-TTGAGATGA-GAG
64 TGGGACATGGCATC-G-ACTTGAGAT-ATGAG
* *
28573847 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACAATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGAGATGATAGCCAGTGTAAGACCATGTCT
*
28573912 GGTACATGGCATCGACTTGAGATATGAG
65 GGGACATGGCATCGACTTGAGATATGAG
* * * * * *
28573940 CCAGTGTAAGACCGTGTCTGGGACATGGCATCGACATGAGAT-ATGAGCCATTGTAAGACCGTGT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACGAGATGAT-AGCCAGTGTAAGACCATGT
28574004 CTGGGACATGGCATC
63 CTGGGACATGGCATC
28574019 AGCACCTTAC
Statistics
Matches: 150, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
92 2 0.01
93 24 0.16
94 116 0.77
95 8 0.05
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (92 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCACGAGATGATAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGACTTGAGATATGAG
Found at i:28575571 original size:55 final size:56
Alignment explanation
Indices: 28575494--28575617 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 56
28575484 TAGCCTGTGT
* * ** * *
28575494 ACAACACTGACTT-TAGGGCACGGCCATGATGCACGCCTGTGTGGCCTACTCGTGG
1 ACAATACTGACTTATAGGACACGGCCATGACACACGCCCGTGTGGCCTACCCGTGG
* *
28575549 ACAATACTGACTTATA-GACACGGCTATGGCACACGCCCGTGTGGCCTACCCGTGG
1 ACAATACTGACTTATAGGACACGGCCATGACACACGCCCGTGTGGCCTACCCGTGG
28575604 ACAATACTGACTTA
1 ACAATACTGACTTA
28575618 AAAGTTTAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 58 0.97
56 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (56 bp):
ACAATACTGACTTATAGGACACGGCCATGACACACGCCCGTGTGGCCTACCCGTGG
Found at i:28576078 original size:14 final size:15
Alignment explanation
Indices: 28576054--28576083 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
28576044 GGATATCAAA
28576054 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
28576069 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
28576083 A
1 A
28576084 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:28577537 original size:44 final size:47
Alignment explanation
Indices: 28577481--28577597 Score: 152
Period size: 44 Copynumber: 2.6 Consensus size: 47
28577471 TACAAGTGCT
28577481 GATGCATGTCCCAGACATGTCTTACACTAGC-ACAAAGC-TT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTAC-AAGCATTGAGGCC
* * * * *
28577525 GATGCATGTCCCAAACACGTCTTACACTGGCTACCATCATTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTACAAGCATTGAGGCC
28577572 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
28577598 TTGGCACTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 30 0.48
45 4 0.06
46 1 0.02
47 27 0.44
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTACAAGCATTGAGGCC
Found at i:28577682 original size:94 final size:94
Alignment explanation
Indices: 28577478--28577745 Score: 256
Period size: 94 Copynumber: 2.9 Consensus size: 94
28577468 GTGTACAAGT
* ** * * * * *
28577478 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAAAGCT-TA-GCCGATG-CATGTCCCAAA
1 GCTGATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACACCAATGCCATGTCCCAGA
* * * * * * *
28577540 CA-CGTCTTACACTGGCTACCATCATTGAG
66 CATGGTCATACACTGACTATCGT-AATGTG
* * * * *
28577569 GCCGATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTACACCAATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACACCAATGCCATGTCCCAGA
*
28577634 CATGGTCATACGCTGACTATCGTAATGTG
66 CATGGTCATACACTGACTATCGTAATGTG
* * ** *
28577663 GCTGATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACACCAATGCCATGTCCCAGA
*
28577728 CATGGTCTTACACTGACT
66 CATGGTCATACACTGACT
28577746 CTCACATAAT
Statistics
Matches: 144, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
91 36 0.25
92 2 0.01
93 5 0.03
94 87 0.60
95 14 0.10
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (94 bp):
GCTGATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACACCAATGCCATGTCCCAGA
CATGGTCATACACTGACTATCGTAATGTG
Found at i:28577721 original size:47 final size:47
Alignment explanation
Indices: 28577381--28577741 Score: 179
Period size: 47 Copynumber: 7.6 Consensus size: 47
28577371 GTTAAGCTGT
* *** * * *
28577381 CGATGCCATGTCCCAGACATGGTCTTACACTGGATATCTTCATCGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCCCTCATC-TCAATGC
** * ** *
28577430 CGATGCCATGTCGTAGACATGGTCTTACACTAGCTCTTGTGTACAAGTGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCCCTCATCT-CAA-TGC
* * ** * *
28577480 TGATGCATGTCCCAGACAT-GTCTTACACTAGCACAAAGCT-TA-GC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCCCTCATCTCAATGC
* * * * *
28577524 CGATGCATGTCCCAAACA-CGTCTTACACTGGCTACCATCAT-T-GAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGC--CC-TCATCTCAATGC
* * * * **
28577571 CGATGCATGTCCCAGACAT-GTCTTACATTGGCACTCATCTCTACAC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCCCTCATCTCAATGC
* * * *
28577617 CAATGCCATGTCCCAGACATGGTCATACGCT-G-ACT-ATCGT-AATGTGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCCCTCATC-TCAA--T-GC
* * *
28577665 TGATGCATGTCCCAGACA-CGTCTTACACTAGCCCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCCCTCATCTCAATGC
28577711 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATG-CATGTCCCAGACATGGTCTTACACT
28577742 GACTCTCACA
Statistics
Matches: 240, Mismatches: 50, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
44 34 0.14
45 6 0.03
46 28 0.12
47 75 0.31
48 40 0.17
49 51 0.21
50 6 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCCCTCATCTCAATGC
Found at i:28583286 original size:46 final size:44
Alignment explanation
Indices: 28583232--28583407 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 44
28583222 ATTTGTTTGT
*
28583232 GAGCTAGTGTAAGACATGTCTAGGATATGCATCGGACACATT-ATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-CATTGA-GA
* *
28583278 GAGCTAGTGTAAGACCATGTCTGGGACATGGAATCGG-CATTGAGACAA
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCATTGAG---A
* *
28583326 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCC-TTGAGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATTGAGA
*
28583369 CGTAAGCCAGTGTAAGACATGTCTAGGACATGCATCGGC
1 -G--AGCTAGTGTAAGACATGTCTAGGACATGCATCGGC
28583408 TACGAGATGA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 5 0.04
46 57 0.51
47 27 0.24
48 21 0.19
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATTGAGA
Found at i:28583345 original size:47 final size:46
Alignment explanation
Indices: 28583277--28583542 Score: 234
Period size: 47 Copynumber: 5.7 Consensus size: 46
28583267 ACACATTATG
* * *
28583277 AGAGCTAGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACA
1 AGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TTGAGATA
* *
28583325 AGAGCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCTTGAGACGT-
1 AGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGG-CTTGAGA--TA
* * *
28583372 A-AGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGCTACGAGATG
1 AGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCT-TGAGATA
* * * * *
28583417 ATAGTCAGTGTAAGACAGTGTTTGGGACATGGCATTGACTTGAGATA
1 AGAGCCAGTGTAAGACA-TGTCTGGGACATGGCATCGGCTTGAGATA
* * * * *
28583464 TGAGCCAGTGTAAGACTGTGTCTGAGATATGGCATCGACTTGAGATA
1 AGAGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCTTGAGATA
* * *
28583511 TGAGCCAGTGTAAGACTGTGTCTAGGACATGG
1 AGAGCCAGTGTAAGAC-ATGTCTGGGACATGG
28583543 AATTGGCACC
Statistics
Matches: 184, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 60 0.33
47 98 0.53
48 22 0.12
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (46 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCTTGAGATA
Found at i:28583506 original size:140 final size:140
Alignment explanation
Indices: 28583237--28583541 Score: 334
Period size: 140 Copynumber: 2.2 Consensus size: 140
28583227 TTTGTGAGCT
* *
28583237 AGTGTAAGACATGTCTAGGATATGCATCGGACACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGACACATGATGAGAGCTAGTGTAAGACCATGTCTGG
* * * * *
28583302 GACATGGAATCGGCATTGAGACAAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGA
66 GACATGGAATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTGAGACATGCATTCGACTTGA
*
28583367 GACGTAAGCC
131 GACATAAGCC
*
28583377 AGTGTAAGACATGTCTAGGACATGCATCGG-CTACGA-GATGATAG-TCAGTGTAAGA-CAGTGT
1 AGTGTAAGACATGTCTAGGACATGCATCGGAC-AC-ATGATGAGAGCT-AGTGTAAGACCA-TGT
* * * * * * *
28583438 TTGGGACATGGCATTGAC-TTGAGATATGAGCCAGTGTAAGACTGTGTCTGAGATATGGCA-TCG
62 CTGGGACATGGAATCGACATTGAGACAAGAGCCAGTGTAAGAC-ATGTCTGAGACAT-GCATTCG
* *
28583501 ACTTGAGATATGAGCC
125 ACTTGAGACATAAGCC
*
28583517 AGTGTAAGACTGTGTCTAGGACATG
1 AGTGTAAGAC-ATGTCTAGGACATG
28583542 GAATTGGCAC
Statistics
Matches: 139, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
139 25 0.18
140 97 0.70
141 17 0.12
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGACACATGATGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGAATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTGAGACATGCATTCGACTTGA
GACATAAGCC
Found at i:28583539 original size:94 final size:92
Alignment explanation
Indices: 28583278--28583547 Score: 260
Period size: 94 Copynumber: 2.9 Consensus size: 92
28583268 CACATTATGA
* * * * * * *
28583278 GAGCTAGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACAAGAGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGA-CATGTCTGAGACATGGCATCGGC-TTGAGATATGAGCCAGTGTAAGACGT
* *
28583343 GTCTGGGACAT-GCATTGGCCTTGAGACGT
64 GTCTGGGACATGGCATT-GACTTGAGACAT
* * *
28583372 AAGCCAGTGTAAGACATGTCT-AGGACAT-GCATCGGCTACGAGATGAT-AGTCAGTGTAAGACA
1 GAGCCAGTGTAAGACATGTCTGA-GACATGGCATCGGCT-TGAGAT-ATGAGCCAGTGTAAGAC-
* *
28583434 GTGTTTGGGACATGGCATTGACTTGAGATAT
62 GTGTCTGGGACATGGCATTGACTTGAGACAT
* * *
28583465 GAGCCAGTGTAAGACTGTGTCTGAGATATGGCATCGACTTGAGATATGAGCCAGTGTAAGACTGT
1 GAGCCAGTGTAAGAC-ATGTCTGAGACATGGCATCGGCTTGAGATATGAGCCAGTGTAAGAC-GT
* *
28583530 GTCTAGGACATGGAATTG
64 GTCTGGGACATGGCATTG
28583548 GCACCTTACC
Statistics
Matches: 143, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
91 1 0.01
92 23 0.16
93 49 0.34
94 61 0.43
95 9 0.06
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (92 bp):
GAGCCAGTGTAAGACATGTCTGAGACATGGCATCGGCTTGAGATATGAGCCAGTGTAAGACGTGT
CTGGGACATGGCATTGACTTGAGACAT
Found at i:28586345 original size:27 final size:27
Alignment explanation
Indices: 28586306--28586406 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
28586296 GCGTACCTGA
28586306 ACCCTCATGTGATAAAATGATGATTTT
1 ACCCTCATGTGATAAAATGATGATTTT
* * *
28586333 ACCCTTATATGATAAAATGACGATTTT
1 ACCCTCATGTGATAAAATGATGATTTT
** *
28586360 GTCCTCACGTGATAAAATGATGATTTT
1 ACCCTCATGTGATAAAATGATGATTTT
* *
28586387 TCCCTTATGTGATAAAATGA
1 ACCCTCATGTGATAAAATGA
28586407 CGACTTATAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (27 bp):
ACCCTCATGTGATAAAATGATGATTTT
Found at i:28586491 original size:27 final size:27
Alignment explanation
Indices: 28586413--28586545 Score: 115
Period size: 27 Copynumber: 4.9 Consensus size: 27
28586403 ATGACGACTT
* **
28586413 ATACTCTCATAGGGTAAAATGAGTGAA
1 ATACCCTCATAGGGTAAAATGACCGAA
*
28586440 ATACCCTATATAGGGGTAAAATGACCGAA
1 ATACCCT-CATA-GGGTAAAATGACCGAA
* *
28586469 ATACCCTCATAGGGTAGAATGACCAAA
1 ATACCCTCATAGGGTAAAATGACCGAA
* * *
28586496 ATACCC-CTATAAGGTAAAATGACTGCA
1 ATACCCTC-ATAGGGTAAAATGACCGAA
* ** *
28586523 ATATCCTGGTAAGGTAAAATGAC
1 ATACCCTCATAGGGTAAAATGAC
28586546 AGATTTGTTC
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.01
27 59 0.68
28 6 0.07
29 21 0.24
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (27 bp):
ATACCCTCATAGGGTAAAATGACCGAA
Found at i:28586498 original size:56 final size:54
Alignment explanation
Indices: 28586413--28586545 Score: 133
Period size: 54 Copynumber: 2.4 Consensus size: 54
28586403 ATGACGACTT
* ***
28586413 ATACTCTCATAGGGTAAAATGAGTGAAATA-CCCTATATAGGGGTAAAATGACCGAA
1 ATACCCTCATAGGGTAAAATGACCAAAATACCCCTATA-A--GGTAAAATGACCGAA
* * *
28586469 ATACCCTCATAGGGTAGAATGACCAAAATACCCCTATAAGGTAAAATGACTGCA
1 ATACCCTCATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCGAA
* ** *
28586523 ATATCCTGGTAAGGTAAAATGAC
1 ATACCCTCATAGGGTAAAATGAC
28586546 AGATTTGTTC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 31 0.48
56 26 0.41
57 7 0.11
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (54 bp):
ATACCCTCATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCGAA
Found at i:28586971 original size:34 final size:34
Alignment explanation
Indices: 28586932--28587001 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
28586922 CTATACTGAT
28586932 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
1 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
* * * *
28586966 TACTATTACTAAAATGGGCTAAGGCCTAGACTGC
1 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
28587000 TA
1 TA
28587002 GTGTCACTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (34 bp):
TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
Found at i:28591938 original size:40 final size:40
Alignment explanation
Indices: 28591844--28591938 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
28591834 GACTATGTTC
* *
28591844 GGCACTAAGTGTGCGATTTGAAATAGCTTTGGCTATAAAT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
* * * **
28591884 AGCACTAAGAGTGCGAATTGGAATAGCTTCGGCTATATGT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
*
28591924 GGCAATAAGTGTGCG
1 GGCACTAAGTGTGCG
28591939 GTATTGAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
Found at i:28594273 original size:55 final size:53
Alignment explanation
Indices: 28594152--28594347 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 53
28594142 ATAAGGATTT
* * * * *
28594152 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGATAA-G-TTCATAAGAC
* *
28594207 AAGGATACCATGTAAGACCATGTCAAGACATGTCATTTATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGAC
* * * * * *
28594262 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGAC
**
28594315 AAGGATACCATGTAAGACCATGTTGAGACATGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG
28594348 AAATGGTAAG
Statistics
Matches: 116, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 6 0.05
53 31 0.27
54 7 0.06
55 68 0.59
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGAC
Found at i:28597658 original size:84 final size:84
Alignment explanation
Indices: 28597517--28597680 Score: 283
Period size: 84 Copynumber: 2.0 Consensus size: 84
28597507 GGTTGATCTG
* *
28597517 ATGCTATTACCGTTTAATGAATTTGATGTGATTCTTGGTACGAATTGGTTGACTACACATGATGT
1 ATGCTATTACCATTTAATGAATTGGATGTGATTCTTGGTACGAATTGGTTGACTACACATGATGT
28597582 GATAGTGAATTGTGGTCTC
66 GATAGTGAATTGTGGTCTC
* * *
28597601 ATGCTATTGCCATTTAATGAATTGGATGTGATTCTTGGTATGGATTGGTTGACTACACATGATGT
1 ATGCTATTACCATTTAATGAATTGGATGTGATTCTTGGTACGAATTGGTTGACTACACATGATGT
28597666 GATAGTGAATTGTGG
66 GATAGTGAATTGTGG
28597681 AAAAAATTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (84 bp):
ATGCTATTACCATTTAATGAATTGGATGTGATTCTTGGTACGAATTGGTTGACTACACATGATGT
GATAGTGAATTGTGGTCTC
Found at i:28597836 original size:15 final size:15
Alignment explanation
Indices: 28597816--28597846 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28597806 CTGGAATTGA
28597816 AAGAATTGAAACCTT
1 AAGAATTGAAACCTT
*
28597831 AAGAATTGAAAGCTT
1 AAGAATTGAAACCTT
28597846 A
1 A
28597847 GTTTCAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (15 bp):
AAGAATTGAAACCTT
Found at i:28601840 original size:55 final size:54
Alignment explanation
Indices: 28601753--28602007 Score: 244
Period size: 55 Copynumber: 4.8 Consensus size: 54
28601743 ATTAGGGTTT
* *
28601753 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
28601808 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTAATATAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAA-GGC
* *
28601864 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
28601916 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * * *
28601965 AAGGATACAACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
28602008 ATCTTACTGG
Statistics
Matches: 169, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
48 2 0.01
49 35 0.21
52 9 0.05
53 35 0.21
54 16 0.09
55 66 0.39
56 6 0.04
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:28601959 original size:108 final size:110
Alignment explanation
Indices: 28601763--28601960 Score: 330
Period size: 108 Copynumber: 1.8 Consensus size: 110
28601753 AAGGATACCG
28601763 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
*
28601828 TGTCAAGACATGGCATTGATAAGTTAATATAAGGGAAAGGTCCTA
66 TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
*
28601873 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGACC
* *
28601935 ATGTCGAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
28601961 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.59
109 7 0.08
110 24 0.29
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
Found at i:28604583 original size:55 final size:54
Alignment explanation
Indices: 28604496--28604749 Score: 244
Period size: 55 Copynumber: 4.8 Consensus size: 54
28604486 ATTAGGGTTT
* *
28604496 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
28604551 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTAATATAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAA-GGC
* *
28604607 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
28604659 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
28604708 AAGGATA-CACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
28604750 GTACCTATTA
Statistics
Matches: 169, Mismatches: 20, Indels: 27
0.78 0.09 0.12
Matches are distributed among these distances:
47 2 0.01
48 28 0.17
49 7 0.04
52 9 0.05
53 35 0.21
54 16 0.09
55 66 0.39
56 6 0.04
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:28604702 original size:108 final size:110
Alignment explanation
Indices: 28604506--28604703 Score: 330
Period size: 108 Copynumber: 1.8 Consensus size: 110
28604496 AAGGATACCG
28604506 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
*
28604571 TGTCAAGACATGGCATTGATAAGTTAATATAAGGGAAAGGTCCTA
66 TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
*
28604616 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGACC
* *
28604678 ATGTCGAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
28604704 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.59
109 7 0.08
110 24 0.29
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
Found at i:28610410 original size:43 final size:43
Alignment explanation
Indices: 28610349--28610574 Score: 299
Period size: 43 Copynumber: 5.3 Consensus size: 43
28610339 CACATATCGG
*** * *
28610349 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCTT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
* * *
28610392 AATCACATATCGATGCCAACATCCCAAATGTGGTTTTACACGT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
* *
28610435 AATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
* * *
28610478 AATCACATATTGATGCCAACGTCCCAAACGTTGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
* ** *
28610521 AATCACATATTGATGCCATTGTCCCAAACGTAGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
28610564 AATCACATATC
1 AATCACATATC
28610575 AAAAATCCTA
Statistics
Matches: 162, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
Found at i:28618375 original size:10 final size:10
Alignment explanation
Indices: 28618360--28618403 Score: 88
Period size: 10 Copynumber: 4.4 Consensus size: 10
28618350 TGTGGGCTTA
28618360 GGCCACTTTG
1 GGCCACTTTG
28618370 GGCCACTTTG
1 GGCCACTTTG
28618380 GGCCACTTTG
1 GGCCACTTTG
28618390 GGCCACTTTG
1 GGCCACTTTG
28618400 GGCC
1 GGCC
28618404 GTGTGGGCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.09, C:0.32, G:0.32, T:0.27
Consensus pattern (10 bp):
GGCCACTTTG
Found at i:28621645 original size:6 final size:6
Alignment explanation
Indices: 28621634--28621802 Score: 143
Period size: 6 Copynumber: 27.8 Consensus size: 6
28621624 AACCAAAATG
* *
28621634 AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* * *
28621682 AGAATA AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
28621731 AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
28621779 ACGTGA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
28621803 GTGAATGCAA
Statistics
Matches: 133, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
5 9 0.07
6 113 0.85
7 8 0.06
8 3 0.02
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:28621649 original size:30 final size:29
Alignment explanation
Indices: 28621613--28621802 Score: 96
Period size: 30 Copynumber: 6.1 Consensus size: 29
28621603 AAGAAACATT
*
28621613 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGGAA-CAAAATCAGAATCAGA
** * *
28621643 ATCAGAATCAGAATCAATATTAGTAA-CAGA
1 ATCAGAATTGGAA-CAAAATCAG-AATCAGA
* *
28621673 ATCAGAATTAGAATAAGAATTAGGTGACAGAATCAGA
1 ATCAGAATTGGAA-CA-AA--A--T--CAGAATCAGA
* * *
28621710 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGGAACAAAATCAGAATCAGA
* * *
28621740 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GGAACAAAATCAGAATCAGA
*
28621770 ATCAGAATTACGTG-ACAGAATCAGAATCAGA
1 ATCAGAATT--G-GAACAAAATCAGAATCAGA
28621801 AT
1 AT
28621803 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 19, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
30 81 0.63
31 23 0.18
32 1 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 3 0.02
37 15 0.12
38 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGGAACAAAATCAGAATCAGA
Found at i:28621740 original size:85 final size:85
Alignment explanation
Indices: 28621639--28621802 Score: 292
Period size: 85 Copynumber: 1.9 Consensus size: 85
28621629 AAATGAGAAT
* *
28621639 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATTAGAATAAGAATTAGGTGACAGA
1 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATAAGAATTACGTGACAGA
28621704 ATCAGAATCAGAATCAGTAA
66 ATCAGAATCAGAATCAGTAA
* *
28621724 CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAGA
1 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATAAGAATTACGTGACAGA
28621789 ATCAGAATCAGAAT
66 ATCAGAATCAGAAT
28621803 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 75 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (85 bp):
CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATAAGAATTACGTGACAGA
ATCAGAATCAGAATCAGTAA
Found at i:28621957 original size:27 final size:26
Alignment explanation
Indices: 28621920--28621985 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
28621910 AGCATGGCTG
*
28621920 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* * *
28621946 CCAGATACAGATATTGTGGCTGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
28621973 CCAGAATCAGATA
1 CCAGAA-CAGATA
28621986 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:28622000 original size:27 final size:27
Alignment explanation
Indices: 28621944--28622001 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
28621934 GTGACAGAGT
* ** *
28621944 CACCAGATACAGATATTGTGGCTGAGC
1 CACCAGATACAGATAATGTGGCAAACC
28621971 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
28621998 CACC
1 CACC
28622002 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:28622383 original size:27 final size:26
Alignment explanation
Indices: 28622304--28622386 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
28622294 TCGATCGGTC
* * *
28622304 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
28622330 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
28622357 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
28622384 AAC
1 AAC
28622387 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:28622729 original size:81 final size:81
Alignment explanation
Indices: 28622612--28622780 Score: 259
Period size: 81 Copynumber: 2.1 Consensus size: 81
28622602 AGGGAATCTC
* * *
28622612 AGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTA
1 AGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGA-AATTCTA
28622676 CCCTACAGGGGTATTTT
65 CCCTACAGGGGTATTTT
* * * *
28622693 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTAC
1 AGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGAAATTCTAC
28622758 CCTACAGGGGTATTTT
66 CCTACAGGGGTATTTT
28622774 AGTAATT
1 AGTAATT
28622781 TCACAATCAA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 77 0.97
82 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (81 bp):
AGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGAAATTCTAC
CCTACAGGGGTATTTT
Found at i:28622780 original size:27 final size:27
Alignment explanation
Indices: 28622586--28622780 Score: 221
Period size: 27 Copynumber: 7.2 Consensus size: 27
28622576 GGGCAAAATG
* * * * *
28622586 GTAATTTTACCCCACAAGGGAATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
28622613 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
28622640 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
28622666 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
28622694 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
28622721 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
28622748 GAAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
28622775 GTAATT
1 GTAATT
28622781 TCACAATCAA
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:28622847 original size:27 final size:27
Alignment explanation
Indices: 28622785--28623409 Score: 715
Period size: 27 Copynumber: 23.2 Consensus size: 27
28622775 GTAATTTCAC
*
28622785 AATCAAGGGTAAAACGGTAATTCT-TA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
28622811 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* ** *
28622838 AA-CTGAGGGTAAACCAATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
28622865 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
28622892 AATCGAGGGTAAAACGGTAATTCTCTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
28622919 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
28622946 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
28622973 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
28623000 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
28623027 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
28623054 AA-CTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
28623081 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
28623108 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
28623135 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
28623162 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
28623189 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
28623216 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
28623243 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
28623270 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
28623297 AATCGAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
28623324 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
28623351 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
28623378 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
28623405 AATCG
1 AATCG
28623410 GGAGTACTTT
Statistics
Matches: 514, Mismatches: 72, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
26 27 0.05
27 481 0.94
28 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:28623453 original size:108 final size:108
Alignment explanation
Indices: 28622775--28623440 Score: 896
Period size: 108 Copynumber: 6.2 Consensus size: 108
28622765 GGGTATTTTA
* * *
28622775 GTAATTTCAC-AATCAAGGGTAAAACGGTAATTCT-TAAATCGAGGGTAAAAC-GATAATTTTGT
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTGT
* * *
28622837 AAACTGAGGGTAAACCAATAATTCTGTAAATCAAGGGTAAAACG
65 AAACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* *
28622881 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTCTAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
** *
28622946 AACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACG
66 AACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* * *
28622989 GTAATTTTACAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
*
28623054 AACTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACG
66 AACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* ** * * *
28623097 ATAATTTTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-TGATAATTTTG
1 GTAATTTTACAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTG
* * *
28623160 TAAACTGAGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACA
64 TAAACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
*
28623205 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
**
28623270 AACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
66 AACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
28623313 ATAATTTTACAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
* * ****
28623378 AA-TCGAGGGTAAAACGGTAATTCTATAAATCG-GGAGTACTTTG
66 AACT-GAGGGTAAAACAGTAATTCTGTAAATCGAGG-GTAAAACG
*
28623421 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAAATCGAGGG
28623441 CATTTCAGTA
Statistics
Matches: 497, Mismatches: 54, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
106 9 0.02
107 28 0.06
108 457 0.92
109 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
AACTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:28628105 original size:11 final size:11
Alignment explanation
Indices: 28628089--28628114 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
28628079 CCTATTTAGA
28628089 TATGAAAAATG
1 TATGAAAAATG
28628100 TATGAAAAATG
1 TATGAAAAATG
28628111 TATG
1 TATG
28628115 TTTGATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (11 bp):
TATGAAAAATG
Found at i:28632696 original size:31 final size:28
Alignment explanation
Indices: 28632622--28632696 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
28632612 TAAAGAGATT
* *
28632622 TTTGACAAAAATGTCAATTAGGGAGTAA
1 TTTGAGAAAAATGTAAATTAGGGAGTAA
*
28632650 TTTGAGAAAAATGTAAATTGAGGGGGTTAA
1 TTTGAGAAAAATGTAAATT-AGGGAG-TAA
28632680 TTATGA-AATAAATGTAA
1 TT-TGAGAA-AAATGTAA
28632697 GTTTTGGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 17 0.43
29 5 0.12
30 7 0.17
31 11 0.28
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.31
Consensus pattern (28 bp):
TTTGAGAAAAATGTAAATTAGGGAGTAA
Found at i:28635796 original size:101 final size:101
Alignment explanation
Indices: 28635596--28635816 Score: 300
Period size: 101 Copynumber: 2.2 Consensus size: 101
28635586 ATGTATATAA
* * * *
28635596 GGCATTGACATGTGAATTCTGATATGTGATGTGTGAGTAAGACCATGGCATCGATGTGCGATTCC
1 GGCATCGATATGTG-ATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGATTCC
* * * *
28635661 TATATATGTGCGCGAGTAAGACCATGTTTAATACATT
65 GATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
* *
28635698 GGCATCGATATGTGATTCTGATATGTGATGTGCGTGTAAGACCATGGCATCGATATGTGACTT-C
1 GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGA-TTCC
* * *
28635762 GATAGATCTGTGCGAGTAAGTCCACGTTTTATACATT
65 GATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
28635799 GGCATCGATATGTGATTC
1 GGCATCGATATGTGATTC
28635817 CATATATGTG
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
101 91 0.87
102 14 0.13
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (101 bp):
GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGATTCCG
ATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
Found at i:28643923 original size:27 final size:26
Alignment explanation
Indices: 28643876--28643926 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
28643866 CGAGGCTGCC
*
28643876 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
28643902 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
28643927 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:28644608 original size:27 final size:27
Alignment explanation
Indices: 28644578--28644738 Score: 146
Period size: 27 Copynumber: 6.0 Consensus size: 27
28644568 GAGGCAAAAT
*
28644578 GGTAATTTTACACC-ACAAGGGTATCTC
1 GGTAATTTTAC-CCTACAAGGGTATTTC
* *
28644605 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
28644632 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
28644659 AGTAATTCTATCCTATATGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* ** *
28644686 GGTAATTCTACCCTGGAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* ** *
28644713 GATAATTCAACCTTACAAGGGTATTT
1 GGTAATTTTACCCTACAAGGGTATTT
28644739 TTGTAATTCT
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
26 5 0.05
27 102 0.93
28 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:28644655 original size:54 final size:54
Alignment explanation
Indices: 28644578--28644749 Score: 184
Period size: 54 Copynumber: 3.2 Consensus size: 54
28644568 GAGGCAAAAT
* * *
28644578 GGTAATTTTACACC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTAC-CCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * * *
28644632 GGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTATATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
** * * * * *
28644686 GGTAATTCTACCCTGGAGGGGTATTTCGATAATTCAACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
*
28644740 TGTAATTCTA
1 GGTAATTCTA
28644750 TAACTTATCC
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
53 2 0.02
54 95 0.98
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
Found at i:28644689 original size:81 final size:81
Alignment explanation
Indices: 28644596--28644750 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
28644586 TACACCACAA
* * *
28644596 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCAACCCTACAAGGGTATTTCAG
28644661 TAATTCTATCCTATAT
66 TAATTCTATCCTATAT
* ** * **
28644677 GGGTATTTCGGTAATTCTACCCTGGAGGGGTATTTCGATAATTCAACCTTACAAGGGTATTTTTG
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCAACCCTACAAGGGTATTTCAG
28644742 TAATTCTAT
66 TAATTCTAT
28644751 AACTTATCCA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (81 bp):
GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCAACCCTACAAGGGTATTTCAG
TAATTCTATCCTATAT
Found at i:28652149 original size:27 final size:27
Alignment explanation
Indices: 28652119--28652291 Score: 186
Period size: 27 Copynumber: 6.4 Consensus size: 27
28652109 GGGGCAAAAT
* * *
28652119 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
28652146 GGTAATTCTACTCTAC-AGGGCTATTTT
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
28652173 GGTATTTCTATCCTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
28652200 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
28652227 GGTAATTCTACCATATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
28652254 GGTAATTCTACCTTAGAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
28652281 GATAATTCTAC
1 GGTAATTCTAC
28652292 AACTTATCCG
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 4 0.03
27 116 0.94
28 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:28652263 original size:81 final size:81
Alignment explanation
Indices: 28652119--28652291 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 81
28652109 GGGGCAAAAT
* * *
28652119 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACTCTACAGGGCTATTTTGGTATTTCTAT
1 GGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACTCTACAGGGCTATTTCGGTAATTCTA-
28652184 CC-TAAAAGGGTATTTC
65 CCTTAAAAGGGTATTTC
* * * * * *
28652200 GGTAATTCTATCCTACAGGGGTATTTCGGTAATTCTAC-CATATAGGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACTC-TACAGGGCTATTTCGGTAATTCTA
*
28652264 CCTTAGAAGGGTATTTC
65 CCTTAAAAGGGTATTTC
*
28652281 GATAATTCTAC
1 GGTAATTCTAC
28652292 AACTTATCCG
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.04
81 75 0.96
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACTCTACAGGGCTATTTCGGTAATTCTAC
CTTAAAAGGGTATTTC
Found at i:28653090 original size:26 final size:27
Alignment explanation
Indices: 28653055--28653105 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
28653045 TTTAACCAAC
* *
28653055 CAGAACACACACAAATCTTAAAAATCA
1 CAGAACACACACAAAACCTAAAAATCA
*
28653082 CAGAA-ACACAGAAAACCTAAAAAT
1 CAGAACACACACAAAACCTAAAAAT
28653106 TGGGGCGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.59, C:0.24, G:0.06, T:0.12
Consensus pattern (27 bp):
CAGAACACACACAAAACCTAAAAATCA
Found at i:28655941 original size:46 final size:45
Alignment explanation
Indices: 28655874--28656048 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
28655864 TGTAACCCGC
*
28655874 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-CTCGCAT
* *
28655920 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCCTCGCAT
* *** * * * *
28655966 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-CTCGCAT
*
28656013 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
28656049 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.65
47 34 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTCGCAT
Found at i:28656011 original size:93 final size:93
Alignment explanation
Indices: 28655882--28656053 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
28655872 GCCCATAAGT
* * * *
28655882 GAACTCGGACTCAACTCAATGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28655947 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
28655975 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
28656040 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
28656054 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:28656068 original size:46 final size:44
Alignment explanation
Indices: 28655879--28656068 Score: 118
Period size: 46 Copynumber: 4.1 Consensus size: 44
28655869 CCCGCCCATA
* * ** * **
28655879 AGTGAACTCGGACTCAACTCAATGAGCTCGGGCGCTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
28655924 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
28655974 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
28656017 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
28656064 AGTGA
1 AGTGA
28656069 TATGTCACTT
Statistics
Matches: 112, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
45 1 0.01
46 63 0.56
47 26 0.23
48 5 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:28663941 original size:45 final size:46
Alignment explanation
Indices: 28663841--28663971 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 46
28663831 AGACTTTTGT
* *
28663841 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTC-AAGGCTCG-AT-A
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAA
* * *
28663882 TCATGTCACCGGCATTATAGACTACTAGGCTCAAAGGCCCGAATAA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAA
* *
28663928 T-ATCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCTGAATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
28663972 TAATACCAGT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 12 0.16
44 7 0.09
45 40 0.53
46 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (46 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAA
Found at i:28664012 original size:38 final size:38
Alignment explanation
Indices: 28663969--28664241 Score: 366
Period size: 38 Copynumber: 7.1 Consensus size: 38
28663959 AAAGGCCTGA
* * * *
28663969 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
28664007 ATATAATACCAGCACGAAGCCTACGGGATTTAACCTGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
28664045 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
28664083 ATATATTACCAGCACGAAGCCTGTGGGATTTAACTCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * * *
28664121 ATATAATACCAGTACAAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
*
28664161 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
28664199 ATGTATTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
28664239 ATA
1 ATA
28664242 CACATCAAAT
Statistics
Matches: 206, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
38 157 0.76
39 15 0.07
40 34 0.17
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:28664206 original size:116 final size:114
Alignment explanation
Indices: 28663969--28664241 Score: 384
Period size: 116 Copynumber: 2.4 Consensus size: 114
28663959 AAAGGCCTGA
* * * * *
28663969 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTACGGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTACGGG
* *
28664034 ATTTAACCTGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
66 ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
* * * *
28664083 ATATATTACCAGCACGAAGCCTGTGGGATTTAACTCGGATATAATACCAGTACAAAGCCTGCGGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTACGGG
*
28664148 TCTTTAAGCCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
66 -ATTTAA-CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
* *
28664199 ATGTATTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATA
28664242 CACATCAAAT
Statistics
Matches: 139, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
114 56 0.40
115 5 0.04
116 66 0.47
117 5 0.04
118 7 0.05
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (114 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTACGGG
ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:28669266 original size:33 final size:34
Alignment explanation
Indices: 28669188--28669276 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
28669178 TAACAGCCTA
* * * * *
28669188 GGCCTGAGCCCTATTCAGTAATCAATATAGTTTG
1 GGCCTTAGCCCTATACAGTAATCAATACAATCTG
* * *
28669222 GGCCTTGGCCCTATGCAGTAA-CAGTACAATCTG
1 GGCCTTAGCCCTATACAGTAATCAATACAATCTG
28669255 GGCCTTAGCCCTATACAGTAAT
1 GGCCTTAGCCCTATACAGTAAT
28669277 AGTGTACCAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 27 0.60
34 18 0.40
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (34 bp):
GGCCTTAGCCCTATACAGTAATCAATACAATCTG
Found at i:28675333 original size:79 final size:80
Alignment explanation
Indices: 28675174--28675398 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
28675164 TTGAATGATG
* * * ** *
28675174 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATTCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
28675236 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGATACTAAA
*
28675254 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
* *
28675316 TTGTGTGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * *
28675333 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
28675398 G
66 G
28675399 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 68 0.54
80 45 0.36
81 10 0.08
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:28675390 original size:119 final size:120
Alignment explanation
Indices: 28675174--28675398 Score: 289
Period size: 119 Copynumber: 1.9 Consensus size: 120
28675164 TTGAATGATG
* *
28675174 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATTCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
28675239 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
28675294 TCCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
28675356 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
28675399 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 70 0.77
120 19 0.21
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:28675405 original size:40 final size:40
Alignment explanation
Indices: 28675174--28675398 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
28675164 TTGAATGATG
* * * *
28675174 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
28675214 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
28675254 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28675294 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28675333 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28675374 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28675399 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28682782 original size:40 final size:39
Alignment explanation
Indices: 28682736--28682826 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 39
28682726 CGAAAGGTAT
* *
28682736 TTGTGCGAGTTA-TAATTCCGGAGTTT-AAGTCCCGAAGGCC
1 TTGTGCGAGTTACT-ATTCCGG-GTTTAAAGTCACGAA-GCA
*
28682776 TTGTGCGAGATACTATTCCGGGTTTAAAGTCACGAAGCA
1 TTGTGCGAGTTACTATTCCGGGTTTAAAGTCACGAAGCA
28682815 TTCGTGCGAGTT
1 TT-GTGCGAGTT
28682827 TTGTAAATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
39 8 0.18
40 35 0.80
41 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (39 bp):
TTGTGCGAGTTACTATTCCGGGTTTAAAGTCACGAAGCA
Found at i:28686005 original size:46 final size:44
Alignment explanation
Indices: 28685954--28686077 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 44
28685944 GGTTGAGCAT
*
28685954 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGGATG-GAAATGTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGGATGCG-AACG-C
*
28685999 CTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 C-CGAACTCGTTGAGTTGAGTCCGAGTTCA-CT-TGGATGCGAACGC
*
28686046 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
28686078 AGGGGCGGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.03
46 55 0.77
47 3 0.04
48 9 0.13
49 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGGATGCGAACGC
Found at i:28693444 original size:46 final size:46
Alignment explanation
Indices: 28693394--28693565 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
28693384 TGGTTGAGCA
*
28693394 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
28693440 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
28693486 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
28693532 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
28693566 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.06
44 3 0.03
45 7 0.07
46 73 0.70
47 7 0.07
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:28693548 original size:92 final size:93
Alignment explanation
Indices: 28693391--28693560 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
28693381 GGATGGTTGA
* * *
28693391 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
28693456 TGAGT-CGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
28693483 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
28693548 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
28693561 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 64 0.90
93 7 0.10
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:28693825 original size:19 final size:20
Alignment explanation
Indices: 28693790--28693827 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
28693780 ATAAGGTGGT
28693790 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
28693810 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
28693828 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:28697746 original size:15 final size:16
Alignment explanation
Indices: 28697726--28697759 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
28697716 CATGGACTTC
28697726 ATTATTA-AATTTTAA
1 ATTATTAGAATTTTAA
*
28697741 ATTATTAGTATTTTAA
1 ATTATTAGAATTTTAA
28697757 ATT
1 ATT
28697760 GGGTATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTATTAGAATTTTAA
Found at i:28702165 original size:46 final size:47
Alignment explanation
Indices: 28702059--28702180 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
28702049 TGTTTTCGAC
** * *
28702059 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
28702109 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
28702155 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
28702181 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:28707168 original size:14 final size:15
Alignment explanation
Indices: 28707149--28707177 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28707139 ATCAACAAGG
28707149 TTAAACACCC-TCTT
1 TTAAACACCCATCTT
28707163 TTAAACACCCATCTT
1 TTAAACACCCATCTT
28707178 AAAATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAACACCCATCTT
Found at i:28712785 original size:49 final size:49
Alignment explanation
Indices: 28712729--28713092 Score: 564
Period size: 49 Copynumber: 7.6 Consensus size: 49
28712719 TATTTGAATA
28712729 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
28712778 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
28712827 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
28712876 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
28712925 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
28712972 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * * *
28713019 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
28713066 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
28713093 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 138 0.47
48 1 0.00
49 156 0.53
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:28718792 original size:25 final size:26
Alignment explanation
Indices: 28718764--28718820 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
28718754 AACATGTCAT
*
28718764 GTCATAATA-TCATAGGGGTATATCA
1 GTCATAATACTCATAGGGGTATAACA
** *
28718789 GTCATTTTACCTCGTAGGGGTATAACA
1 GTCATAATA-CTCATAGGGGTATAACA
28718816 GTCAT
1 GTCAT
28718821 TTCATCAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
27 19 0.73
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (26 bp):
GTCATAATACTCATAGGGGTATAACA
Found at i:28722938 original size:20 final size:20
Alignment explanation
Indices: 28722910--28722986 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
28722900 GCTCCCCGAA
28722910 TCGAGGCCATCAATGCACTG
1 TCGAGGCCATCAATGCACTG
*
28722930 TCAAGGCCATCAATGCACTG
1 TCGAGGCCATCAATGCACTG
*
28722950 TCGAGGCCATGAATGCACTG
1 TCGAGGCCATCAATGCACTG
*
28722970 TCGAGGCTATCAATGCA
1 TCGAGGCCATCAATGCA
28722987 TTTTCTCAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (20 bp):
TCGAGGCCATCAATGCACTG
Done.