Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 143 of 221
Found at i:43796838 original size:12 final size:12
Alignment explanation
Indices: 43796821--43796883 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
43796811 AATAAAACAA
43796821 ATATATAAATGT
1 ATATATAAATGT
43796833 ATATATAAAT-T
1 ATATATAAATGT
* *
43796844 ATAAAATATATGT
1 AT-ATATAAATGT
*
43796857 ACATAT--ATGT
1 ATATATAAATGT
43796867 AT-TATAAAATGT
1 ATATAT-AAATGT
43796879 ATATA
1 ATATA
43796884 AGTATACGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
9 3 0.08
10 5 0.12
11 3 0.08
12 25 0.62
13 4 0.10
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (12 bp):
ATATATAAATGT
Found at i:43796889 original size:26 final size:26
Alignment explanation
Indices: 43796841--43796894 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
43796831 GTATATATAA
* *
43796841 ATTATAAAATATATGTACATATATGT
1 ATTATAAAATATATATACATATACGT
*
43796867 ATTATAAAATGTATATA-AGTATACGT
1 ATTATAAAATATATATACA-TATACGT
43796893 AT
1 AT
43796895 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (26 bp):
ATTATAAAATATATATACATATACGT
Found at i:43799044 original size:44 final size:44
Alignment explanation
Indices: 43798948--43799101 Score: 118
Period size: 44 Copynumber: 3.5 Consensus size: 44
43798938 AATTCACTCC
* * * **
43798948 ACTATAACTTCAGGGAGATATGA-TTAATACCTTCAGTCTGCTCC-
1 ACTACAACTTCAGGGAGATAAGACTTGATA-CTTCAACCTGC-CCT
* *
43798992 ATTGCAACTTCAGGGAGATAAGACTTGCATA-TTCAACCTGCCCT
1 ACTACAACTTCAGGGAGATAAGACTTG-ATACTTCAACCTGCCCT
** * *
43799036 ACTACAACTTCAAGGG-GATAAGGTTTGTTACTTCAACCTGCTCT
1 ACTACAACTTC-AGGGAGATAAGACTTGATACTTCAACCTGCCCT
* * *
43799080 ACTGCAACTTTAGAGAGATAAG
1 ACTACAACTTCAGGGAGATAAG
43799102 GTTTGTGGCT
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
43 7 0.08
44 72 0.82
45 6 0.07
46 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATAAGACTTGATACTTCAACCTGCCCT
Found at i:43799102 original size:44 final size:44
Alignment explanation
Indices: 43798985--43799159 Score: 147
Period size: 44 Copynumber: 4.0 Consensus size: 44
43798975 TACCTTCAGT
* * * ** *
43798985 CTGCTCCATTGCAACTTCAGGGAGATAAGACTTGCATA-TTCAAC
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGTTTG-TTACTTCAAC
* * *
43799029 CTGCCCTACTACAACTTCA-AGGGGATAAGGTTTGTTACTTCAAC
1 CTGCTCTACTGCAACTTCAGA-GAGATAAGGTTTGTTACTTCAAC
* ** * *
43799073 CTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGTGGCTTTAAT
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTTACTTCAAC
* * * *
43799117 ATGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCA
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTTA-CTTCA
43799160 GTCTCGATCT
Statistics
Matches: 102, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
43 2 0.02
44 95 0.93
45 5 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
CTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTTACTTCAAC
Found at i:43799317 original size:100 final size:99
Alignment explanation
Indices: 43799194--43799547 Score: 465
Period size: 100 Copynumber: 3.5 Consensus size: 99
43799184 CCAAGAAAAC
* * * * * *
43799194 AAGATTCACTATTGTAGATTCAATATTTTTAACTGTAATGTCAGGGAAGCAAGATTCGCTATTGT
1 AAGATTCACTGTTGTGGCTTCAATATTTTAAACTGCAATGTCAGGGAAGCAAGATTCG-TGTTGT
43799259 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
65 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * *
43799294 AAGATTCGCCGTTGTGGCTTCAATATTTTAAACTGCAATGTAAGGGAAGCAAGATTCATTGTTGT
1 AAGATTCACTGTTGTGGCTTCAATATTTTAAACTGCAATGTCAGGGAAGCAAGATTC-GTGTTGT
* *
43799359 AGCTTCAATCTGTTCCACTGAACCGTCAGGGAAGT
65 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * * * * *
43799394 AAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTTGTCGTTGT
1 AAGATTCACTGTTGTGGCTTCAATATTTTAAACTGCAATGTCAGGGAAGCAAGATTCGT-GTTGT
* * *
43799459 AGCTTCAATCTATTCCACTGCACCACCAGGAAAGT
65 AGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
* * *
43799494 AAGATTCACTGTTGTGGCTTCAATATTTTAAACTGCAATGCCGGGGAAGTAAGA
1 AAGATTCACTGTTGTGGCTTCAATATTTTAAACTGCAATGTCAGGGAAGCAAGA
43799548 CTTTATTACC
Statistics
Matches: 219, Mismatches: 33, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
99 1 0.00
100 218 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (99 bp):
AAGATTCACTGTTGTGGCTTCAATATTTTAAACTGCAATGTCAGGGAAGCAAGATTCGTGTTGTA
GCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
Found at i:43799544 original size:50 final size:50
Alignment explanation
Indices: 43799194--43799547 Score: 280
Period size: 50 Copynumber: 7.1 Consensus size: 50
43799184 CCAAGAAAAC
* * * * * *
43799194 AAGATTCACTATTGTAGATTCAATATTTTTAACTGTAATGTCAGGGAAGC
1 AAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGT
* * * * ** *
43799244 AAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
1 AAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGT
* * * * * * *
43799294 AAGATTCGCCGTTGTGGCTTCAATATTTTAAACTGCAATGTAAGGGAAGC
1 AAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGT
* * * *
43799344 AAGATTCATTGTTGTAGCTTCAATCTGTTCCACTG-AACCGTCAGGGAAGT
1 AAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAA-TGTCAGGGAAGT
* * * * * *
43799394 AAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGC
1 AAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGT
** * * **** *
43799444 AAGATT-TGTCGTTGTAGCTTCAATCTATTCCACTGCACCACCAGGAAAGT
1 AAGATTCACT-GTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGT
* * * * *
43799494 AAGATTCACTGTTGTGGCTTCAATATTTTAAACTGCAATGCCGGGGAAGT
1 AAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGT
43799544 AAGA
1 AAGA
43799548 CTTTATTACC
Statistics
Matches: 230, Mismatches: 70, Indels: 8
0.75 0.23 0.03
Matches are distributed among these distances:
49 3 0.01
50 224 0.97
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (50 bp):
AAGATTCACTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGT
Found at i:43799653 original size:24 final size:24
Alignment explanation
Indices: 43799621--43799677 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
43799611 CAGCTTGCCC
* * *
43799621 CCACTGTAATCTTCAAGGTCCGAT
1 CCACTGTAATATTCAAAGTCCAAT
*
43799645 CCACTGTAATATTCAAAGTTCAAT
1 CCACTGTAATATTCAAAGTCCAAT
43799669 CCACTGTAA
1 CCACTGTAA
43799678 CCTCTGGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (24 bp):
CCACTGTAATATTCAAAGTCCAAT
Found at i:43805676 original size:26 final size:25
Alignment explanation
Indices: 43805611--43805704 Score: 75
Period size: 26 Copynumber: 3.6 Consensus size: 25
43805601 AAAAAATATA
*
43805611 TATATATGTATATATAAATTATAAAAT
1 TATATAAGTATATAT--ATTATAAAAT
* *
43805638 ATATGTACA-TATATGTATTATAAAAT
1 -TATATA-AGTATATATATTATAAAAT
*
43805664 GTATATAAGTATACGTATATTTTAAAAT
1 -TATATAAGTATA--TATATTATAAAAT
43805692 TATA-AAGTATATA
1 TATATAAGTATATA
43805705 CAAAAAAAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
26 26 0.47
27 4 0.07
28 22 0.40
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (25 bp):
TATATAAGTATATATATTATAAAAT
Found at i:43806809 original size:19 final size:19
Alignment explanation
Indices: 43806765--43806811 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
43806755 TTTCTTCAAA
43806765 TTTTCAATTTTTTATTGAT
1 TTTTCAATTTTTTATTGAT
** *
43806784 TCATCAATATTTTT-TTTAT
1 TTTTCAAT-TTTTTATTGAT
43806803 TTTTCAATT
1 TTTTCAATT
43806812 GGTTTCATCC
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTCAATTTTTTATTGAT
Found at i:43818740 original size:12 final size:12
Alignment explanation
Indices: 43818706--43818818 Score: 55
Period size: 12 Copynumber: 9.8 Consensus size: 12
43818696 ATTCTAAAAA
*
43818706 TAATA-TTATTT
1 TAATATTTAATT
43818717 TAATAGTTTAATAT
1 TAATA-TTTAAT-T
43818731 TAA-ATTTAATT
1 TAATATTTAATT
43818742 TAATATTT-ATCT
1 TAATATTTAAT-T
*
43818754 TAATA-GT-ATT
1 TAATATTTAATT
43818764 T--TATTT-ATT
1 TAATATTTAATT
* **
43818773 TAATATTAAAGG
1 TAATATTTAATT
* *
43818785 GATTATCTTAATAT
1 TAATAT-TTAAT-T
43818799 TAA-ATTTAATT
1 TAATATTTAATT
43818810 TAATATTTA
1 TAATATTTA
43818819 TCTATTTTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
8 2 0.03
9 5 0.06
10 2 0.03
11 22 0.29
12 31 0.40
13 10 0.13
14 5 0.06
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:43818867 original size:68 final size:67
Alignment explanation
Indices: 43818724--43818853 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 67
43818714 TTTTAATAGT
** *
43818724 TTAATATTAAATTTAATTTAATATTTATCTTAATAGTATTTTATTTATTTAATATTAAAGGGATT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAGTATTTTATAAATTTAATATTAAAGGCA-T
43818789 ATC
65 ATC
** *
43818792 TTAATATTAAATTTAATTTAATATTTATCTATTTTATTATTTTAATAAAATTTAATATTAAA
1 TTAATATTAAATTTAATTTAATATTTATCT-TAATAGTATTTT-AT-AAATTTAATATTAAA
43818854 TTCAATCTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
68 30 0.56
69 9 0.17
70 2 0.04
71 13 0.24
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (67 bp):
TTAATATTAAATTTAATTTAATATTTATCTTAATAGTATTTTATAAATTTAATATTAAAGGCATA
TC
Found at i:43818884 original size:51 final size:49
Alignment explanation
Indices: 43818792--43818902 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 49
43818782 AGGGATTATC
* * * * *
43818792 TTAATATTAAATTTAATTTAATATTTATCTATTTTATTATTTTAATAAAAT
1 TTAATATTAAATTCAATCTAATATTTATCTATATAAATA-TTTAAT-AAAT
* *
43818843 TTAATATTAAATTCAATCTAATATTTATCT-TGATAAATATTTGATTAAT
1 TTAATATTAAATTCAATCTAATATTTATCTAT-ATAAATATTTAATAAAT
43818892 TTAATATTAAA
1 TTAATATTAAA
43818903 ACGATTAGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 14 0.27
50 6 0.12
51 32 0.62
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (49 bp):
TTAATATTAAATTCAATCTAATATTTATCTATATAAATATTTAATAAAT
Found at i:43823143 original size:412 final size:409
Alignment explanation
Indices: 43822252--43823399 Score: 1066
Period size: 413 Copynumber: 2.8 Consensus size: 409
43822242 TTTCAACCGC
* *
43822252 AACAACTCTTGATAAACCTC-GAGTGATGGAAAATGACACTTG-ATCGCAAAAATCTATATTGTA
1 AACAACTCTTGTTAAACC-CAGAGTGATGGCAAATGACACTTGAATCGCAAAAATCTATATTGTA
* * *
43822315 TTCCATTTTTTACATCATATTTAACAACCTTGATAAGTTTTGTGAATCATG-TTTTCAGGATCTT
65 TTCCTTTTTTTACATCATATTTAACAACCCTGATAAGTTTTGTGAATCATGCCTTT-AGGATCTT
* ** * * * * *
43822379 GGAGCAATAACATTTTGTAATTTGACTAAGGAATGTTTTGTTCATGCCACTTACAACAATCTAAC
129 GAAGC-A-AATGTTTTGTAAGTTGACTAGGGAATGTTTTGTTCATGCCACTTAAAAGAATCTAAT
* ** ** * *
43822444 TAATGTATATATGTCATGTTTTGATTCAT-TGTAATTCATTCCAAGATTTTAAAATAATCCAAAA
192 TAATGTATCTATGTCACATTTTGATT-ATCT-TAATTTGTTCCAAGCTTTAAAAATAAT-C-AAA
* * * * * * * * **
43822508 AATTCTTTTTGAGTACT-ACTAGCAAAGAGTATATGTAATTTTAATTGATGAGGTTTATTTCAAC
253 AATTATTTTTGACTAATGTC-AACTAAGAGTATATATAATTTTAATTGATGAGGTTTGTTTTGAC
* * *
43822572 CCACCGATGTTGTACCAGCAAGGCCTATGGAAGGAATATTTCGAGTTATAGTTCAATGCATTCAA
317 CCACCAATGATGTACCAGCAAGGCCTATGGAAGGAATATTTCGAGTTATAGTTCAACGCATTCAA
** *
43822637 AATTTTTTATATTTTTCATATCAACAGA
382 AATTTGCTATATTTTTCATATCAACACA
* * * * * **
43822665 AACAACTCCTGTTAAA-CCACGTGTGATGGCAAATGATACTTGAATTGTAAAAATCTATCGTGTA
1 AACAACTCTTGTTAAACCCA-GAGTGATGGCAAATGACACTTGAATCGCAAAAATCTATATTGTA
* * * *
43822729 TTCCTTTTTTTACATCAT-TTTAAAAATCGTGATAAGTTTTGTGAATCATGCCTTTGGGATCTTG
65 TTCCTTTTTTTACATCATATTTAACAACCCTGATAAGTTTTGTGAATCATGCCTTTAGGATCTTG
*
43822793 AAGCAACCATGTTTTGTAAGTTGACTAGGGAATGTTTTGTTCGTGCCACTTAAAAGAATCTAATT
130 AAGCAA--ATGTTTTGTAAGTTGACTAGGGAATGTTTTGTTCATGCCACTTAAAAGAATCTAATT
* * * *
43822858 AATCTATCTATGTCACAATTTGATTAATCTTGATTTGTTCTAAGCTTTAAAAATAAGTCAAAAAT
193 AATGTATCTATGTCACATTTTGATT-ATCTTAATTTGTTCCAAGCTTTAAAAATAA-TCAAAAAT
* * *
43822923 TATTTTTGACTAATGTCAACTAAGAGTATATATAATTCTAATTGATGAGGGTTGTTTTGATCCAC
256 TATTTTTGACTAATGTCAACTAAGAGTATATATAATTTTAATTGATGAGGTTTGTTTTGACCCAC
* ** * * * * * *
43822988 TAATGATGTACTGGTCAA-G-CTCATGGGATGTATGTTT-GAAGTTATAGTTCAACGTATTCCTA
321 CAATGATGTACCAG-CAAGGCCT-ATGGAAGGAATATTTCG-AGTTATAGTTCAACGCATT-CAA
* * *
43823050 AA-TTGCTATATTTTTCCTTTCCACCACA
382 AATTTGCTATATTTTTCATAT-CAACACA
* * * * * *
43823078 AAC-ACTCTTGTTAAACCCAGGGTGATAGCAAATGACACTTGAACCCCAAATATCTTTATTGTAT
1 AACAACTCTTGTTAAACCCAGAGTGATGGCAAATGACACTTGAATCGCAAAAATCTATATTGTAT
* * ** * ** * *
43823142 TCCTCTTTTTACATTATATTTAACAACCCCAAAAAAATTTGTGAATCGTGCCTTTAGGATCGTGA
66 TCCTTTTTTTACATCATATTTAACAACCCTGATAAGTTTTGTGAATCATGCCTTTAGGATCTTGA
* * * * ** * *
43823207 AGCAATTGCATTT-TATAGTATGACTAGGAAATGTTTTATTCATGTAACTTAAAAGAATATATTT
131 AGCAAATG-TTTTGTA-AGT-TGACTAGGGAATGTTTTGTTCATGCCACTTAAAAGAATCTAATT
* ** * * *
43823271 AATGTATCTAAGTCATGTTTTTAATTACCTTAATTTGTTCCAAGCTTTAAAAATTATTCAAAAAT
193 AATGTATCTATGTCA-CATTTTGATTATCTTAATTTGTTCCAAGCTTTAAAAA-TAATCAAAAAT
* * *
43823336 TATTTTCGAAC-AATGT-TATTGAAGAGTATATATAATTTTAATTGATGAGGTTTGTTTTGACCC
256 TATTTTTG-ACTAATGTCAACT-AAGAGTATATATAATTTTAATTGATGAGGTTTGTTTTGACCC
43823399 A
319 A
43823400 TCAAATCGTG
Statistics
Matches: 595, Mismatches: 117, Indels: 46
0.78 0.15 0.06
Matches are distributed among these distances:
411 9 0.02
412 178 0.30
413 359 0.60
414 49 0.08
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (409 bp):
AACAACTCTTGTTAAACCCAGAGTGATGGCAAATGACACTTGAATCGCAAAAATCTATATTGTAT
TCCTTTTTTTACATCATATTTAACAACCCTGATAAGTTTTGTGAATCATGCCTTTAGGATCTTGA
AGCAAATGTTTTGTAAGTTGACTAGGGAATGTTTTGTTCATGCCACTTAAAAGAATCTAATTAAT
GTATCTATGTCACATTTTGATTATCTTAATTTGTTCCAAGCTTTAAAAATAATCAAAAATTATTT
TTGACTAATGTCAACTAAGAGTATATATAATTTTAATTGATGAGGTTTGTTTTGACCCACCAATG
ATGTACCAGCAAGGCCTATGGAAGGAATATTTCGAGTTATAGTTCAACGCATTCAAAATTTGCTA
TATTTTTCATATCAACACA
Found at i:43829066 original size:19 final size:19
Alignment explanation
Indices: 43829042--43829085 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
43829032 TAAAAGCAAC
43829042 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
43829061 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
43829080 ACAACA
1 ACAACA
43829086 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:43831967 original size:96 final size:90
Alignment explanation
Indices: 43831712--43832109 Score: 620
Period size: 91 Copynumber: 4.4 Consensus size: 90
43831702 ATTAAAAATT
* * * *
43831712 AATTAATATAATAGTACAACAGCATAAATTAAAC-AAAAAAAGTATGTTAAGCTGCATTTTAAAC
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
43831776 TTTAAAGTTAGTTAATTGAAGCCTA
66 TTTAAAGTTAGTTAATTGAAGCCTA
* *
43831801 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTCTGTTAAGCTATC-GTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTA-CAGTTTAAA
43831865 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CTTTAAAGTTAGTTAATTGAAGCCTA
43831891 AATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGT
1 AATTAATATAATAGTACAA-T-----AGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGT
43831956 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
60 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
* * *
43831987 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAAGTCTATTAAACCACAGTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAAC-AAAAAAAAGTATGTTAAACTACAGTTTAAA
43832052 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CTTTAAAGTTAGTTAATTGAAGCCTA
*
43832078 AATTAATATAATAGTACAACAGCATAAATTAA
1 AATTAATATAATAGTACAATAGCATAAATTAA
43832110 TTAATTGAAG
Statistics
Matches: 289, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
89 33 0.11
90 83 0.29
91 86 0.30
95 2 0.01
96 85 0.29
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (90 bp):
AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
TTTAAAGTTAGTTAATTGAAGCCTA
Found at i:43831986 original size:186 final size:186
Alignment explanation
Indices: 43831707--43832096 Score: 664
Period size: 186 Copynumber: 2.1 Consensus size: 186
43831697 ATTAAATTAA
* * *
43831707 AAATTAAT-TAATA-TA-ATAGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAGCTGCAT
1 AAATTAATATAATAGTACA-AGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAG
43831769 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
* * *
43831834 C-AAAAAAAAGTCTGTTAAGCTATC-GTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
130 CAAAAAAAAAGTCTATTAAACCA-CAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
43831890 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
1 AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAAC-AAAAAAAGTATGTTAAACTACAG
43831955 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAA
43832020 CAAAAAAAAAGTCTATTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
130 CAAAAAAAAAGTCTATTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
43832077 AAATTAATATAATAGTACAA
1 AAATTAATATAATAGTACAA
43832097 CAGCATAAAT
Statistics
Matches: 195, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
183 8 0.04
184 5 0.03
185 24 0.12
186 88 0.45
187 70 0.36
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (186 bp):
AAATTAATATAATAGTACAAGTACAACAGCATAAATTAAACAAAAAAAGTATGTTAAACTACAGT
TTAAACTTTAAAGTTAGTTAATTGAAGCCTAAATTAATATAATAGTACAATAGCATAAATTAAAC
AAAAAAAAAGTCTATTAAACCACAGTTTAAACTTTAAAGTTAGTTAATTGAAGCCT
Found at i:43832321 original size:19 final size:20
Alignment explanation
Indices: 43832299--43832344 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
43832289 TTTAATTTTT
43832299 ATTTA-TAATTTTATTCATC
1 ATTTAGTAATTTTATTCATC
*
43832318 ATTTAATGTTATTTTATTCATC
1 ATTT-A-GTAATTTTATTCATC
43832340 ATTTA
1 ATTTA
43832345 ATGTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 1 0.04
22 17 0.74
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTAGTAATTTTATTCATC
Found at i:43832334 original size:22 final size:22
Alignment explanation
Indices: 43832306--43832356 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
43832296 TTTATTTATA
43832306 ATTTTATTCATCATTTAATGTT
1 ATTTTATTCATCATTTAATGTT
43832328 ATTTTATTCATCATTTAATGTT
1 ATTTTATTCATCATTTAATGTT
43832350 ATTTTAT
1 ATTTTAT
43832357 CGAATTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (22 bp):
ATTTTATTCATCATTTAATGTT
Found at i:43832444 original size:17 final size:17
Alignment explanation
Indices: 43832422--43832473 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
43832412 TTTTCTCTAT
*
43832422 TAATATTACGTTATTAC
1 TAATATTACATTATTAC
*
43832439 TAATATTATATTATTAC
1 TAATATTACATTATTAC
43832456 TAATATTACATTATTAC
1 TAATATTACATTATTAC
43832473 T
1 T
43832474 TTGGGAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (17 bp):
TAATATTACATTATTAC
Found at i:43832887 original size:19 final size:19
Alignment explanation
Indices: 43832863--43832924 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
43832853 GGAGAAGGAA
43832863 AATAGAGCAAAAATCATTC
1 AATAGAGCAAAAATCATTC
* * *
43832882 AATAGAGCGAAACA-GATGC
1 AATAGAGC-AAAAATCATTC
*
43832901 AAATAGAGCTAAAATCATTC
1 -AATAGAGCAAAAATCATTC
43832921 AATA
1 AATA
43832925 ATTCAAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (19 bp):
AATAGAGCAAAAATCATTC
Found at i:43833283 original size:16 final size:16
Alignment explanation
Indices: 43833262--43833329 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
43833252 TTTGGTTCGC
*
43833262 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
43833278 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
43833294 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
43833310 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
43833326 TGTA
1 TGTA
43833330 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:43833366 original size:45 final size:44
Alignment explanation
Indices: 43833310--43833400 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
43833300 GGATTAGAGG
* *
43833310 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
43833355 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
43833399 TG
1 TG
43833401 GAATAGAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:43833582 original size:16 final size:16
Alignment explanation
Indices: 43833545--43833586 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43833535 TTAATCATAT
*
43833545 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
43833561 TT-AAATATATTATAA
1 TTAAAATATATTATAA
43833576 TTAAAATATAT
1 TTAAAATATAT
43833587 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:43833593 original size:14 final size:15
Alignment explanation
Indices: 43833554--43833595 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43833544 TTTAAACATA
*
43833554 ATTATTATTAAATAT
1 ATTATAATTAAATAT
43833569 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
43833583 A-TATAATTTAATA
1 ATTATAATTAAATA
43833596 AAATTCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:43833646 original size:61 final size:61
Alignment explanation
Indices: 43833574--43833767 Score: 193
Period size: 61 Copynumber: 3.2 Consensus size: 61
43833564 AATATATTAT
*
43833574 AATTAAAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
1 AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
* * * ** * * * *
43833635 AATCATAATATATGATACT-ATAAAATATAATT-TAA-C-ATAATTATTAT-TAAATATA-TTA
1 AATTATAATATATAAT-TTAATAAAAT-TCTTTATAATCAAT-ATTCTTATATGAATTTACTCA
* * *
43833693 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 -AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
43833755 AATTATAATATAT
1 AATTATAATATAT
43833768 GATACTATAA
Statistics
Matches: 100, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
58 5 0.05
59 31 0.31
60 15 0.15
61 43 0.43
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
Found at i:43833693 original size:120 final size:120
Alignment explanation
Indices: 43833543--43833800 Score: 471
Period size: 120 Copynumber: 2.1 Consensus size: 120
43833533 ATTTAATCAT
*
43833543 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTTATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
43833608 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
43833664 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
43833729 TTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
43833784 ATTTAACATAATTATTA
1 ATTTAACATAATTATTA
43833801 GACAACTGCC
Statistics
Matches: 133, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 129 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:43833704 original size:16 final size:16
Alignment explanation
Indices: 43833660--43833706 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
43833650 TACTATAAAA
*
43833660 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
43833676 TATTATT-AAATATAT
1 TATAATTAAAATATAT
43833691 TATAATTAAAATATAT
1 TATAATTAAAATATAT
43833707 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:43840068 original size:24 final size:24
Alignment explanation
Indices: 43840041--43840086 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
43840031 CATAATTAAT
* *
43840041 TAAATTACATTATATTTTTTATAC
1 TAAATTACATAATATTTATTATAC
*
43840065 TAAATTATATAATATTTATTAT
1 TAAATTACATAATATTTATTAT
43840087 TAATTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TAAATTACATAATATTTATTATAC
Found at i:43842833 original size:44 final size:44
Alignment explanation
Indices: 43842770--43842862 Score: 186
Period size: 44 Copynumber: 2.1 Consensus size: 44
43842760 CCAGACCCAC
43842770 CAGAAGTTATATTACCATTTGCTTCAGAACTGGAAAGAAAATGA
1 CAGAAGTTATATTACCATTTGCTTCAGAACTGGAAAGAAAATGA
43842814 CAGAAGTTATATTACCATTTGCTTCAGAACTGGAAAGAAAATGA
1 CAGAAGTTATATTACCATTTGCTTCAGAACTGGAAAGAAAATGA
43842858 CAGAA
1 CAGAA
43842863 TTAACTGGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (44 bp):
CAGAAGTTATATTACCATTTGCTTCAGAACTGGAAAGAAAATGA
Found at i:43864988 original size:89 final size:89
Alignment explanation
Indices: 43864827--43865265 Score: 495
Period size: 89 Copynumber: 4.9 Consensus size: 89
43864817 CAAGTCTTAT
* * * * * * * * * *
43864827 CTCCCTGAAG-TTGCAGCAGAGTAGACTAAAAACAACAGACCTTATCTTCCTATATTGGCAACGA
1 CTCCCTG-AGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
43864891 AGTAGATCGAAGACACCAGCCTGAC
65 AGTAGATCGAAGACACCAGCCTGAC
** *
43864916 CTCATTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTTTCTTCCTGTATTGGCAGCGAA
1 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
** * *
43864981 GTAGATCGAAGACATTAGTCTAAC
66 GTAGATCGAAGACACCAGCCTGAC
* * ** *
43865005 CTTCCTAAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTACCGGTAGCGAA
1 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
* *
43865070 ATAGATCAAAGACACCAGCCTGAC
66 GTAGATCGAAGACACCAGCCTGAC
* * *
43865094 CTCCCTGAGTTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAA
1 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
*
43865159 GCAGATCGAAGACACCAGCCTCG-C
66 GTAGATCGAAGACACCAGCCT-GAC
* * * * * * * * *
43865183 CTCCCTGAGTTTGCAGCGGAGCAGACCGGATATTGTAGATTTTGTCTTCTTGTACTGGCAGTGAA
1 CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
**
43865248 GTAGATTAAAGACACCAG
66 GTAGATCGAAGACACCAG
43865266 TCCTATCTCT
Statistics
Matches: 292, Mismatches: 56, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
88 2 0.01
89 289 0.99
90 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (89 bp):
CTCCCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
GTAGATCGAAGACACCAGCCTGAC
Found at i:43865036 original size:44 final size:44
Alignment explanation
Indices: 43864923--43865046 Score: 110
Period size: 44 Copynumber: 2.8 Consensus size: 44
43864913 GACCTCATTG
* ***
43864923 AGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTTTCTTCCT
1 AGTTTGCAGCGGAGCAGACTGAAGACAGCAGATCTAACCTTCCT
* * **
43864967 -GTATTGGCAGCGAAGTAGA-TCGAAGACATTAG-TCTAACCTTCCT
1 AGT-TT-GCAGCGGAGCAGACT-GAAGACAGCAGATCTAACCTTCCT
*
43865011 AAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCT
1 -AGTTTGCAGCGGAGCAGACTGAAGACAGCAGATCT
43865047 TGTCTTCCTG
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
43 2 0.03
44 31 0.52
45 25 0.42
46 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
AGTTTGCAGCGGAGCAGACTGAAGACAGCAGATCTAACCTTCCT
Found at i:43865207 original size:44 final size:43
Alignment explanation
Indices: 43865072--43865207 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 43
43865062 GTAGCGAAAT
* *
43865072 AGATCAAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTGGAGC
1 AGATCGAAGACACCAGCCTG-CCTCCCTGAGTTTGCAGCGGAGC
* * * * * * * * *
43865116 AGATTGAAGATAGCAAATCTTGTCTTCCTGTA-TTGGCAGCGAAGC
1 AGATCGAAGACA-C-CAGCCTGCCTCCCTG-AGTTTGCAGCGGAGC
43865161 AGATCGAAGACACCAGCCTCGCCTCCCTGAGTTTGCAGCGGAGC
1 AGATCGAAGACACCAGCCT-GCCTCCCTGAGTTTGCAGCGGAGC
43865205 AGA
1 AGA
43865208 CCGGATATTG
Statistics
Matches: 67, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
43 4 0.06
44 31 0.46
45 27 0.40
46 5 0.07
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (43 bp):
AGATCGAAGACACCAGCCTGCCTCCCTGAGTTTGCAGCGGAGC
Found at i:43865348 original size:50 final size:50
Alignment explanation
Indices: 43865286--43865478 Score: 192
Period size: 50 Copynumber: 3.9 Consensus size: 50
43865276 TTAGCATTAT
* *
43865286 AGTGGAATAGATTGAAGCTACAATGGCGAATC-TGACTTCCCTGGTGGTGC
1 AGTGGAATAGATTGAAGCTACAACGGCGAATCTTG-CTTCCCTGGCGGTGC
* * * * **
43865336 AGTGGAACAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGC
1 AGTGGAATAGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGGCGGTGC
* * * * * * * * *
43865386 AAT-TAAAATGATTGAAGCCATAACGGTGAATCTTACTTTCCTAGCGGTGC
1 AGTGGAATA-GATTGAAGCTACAACGGCGAATCTTGCTTCCCTGGCGGTGC
*
43865436 AGTGGAATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTG
1 AGTGGAATAGATTGAAGCTACAACGGCGAATCTTGCTTCCCTG
43865479 ACATTGCAGT
Statistics
Matches: 112, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 3 0.03
50 104 0.93
51 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (50 bp):
AGTGGAATAGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGGCGGTGC
Found at i:43865468 original size:100 final size:100
Alignment explanation
Indices: 43865295--43865491 Score: 277
Period size: 100 Copynumber: 2.0 Consensus size: 100
43865285 TAGTGGAATA
* * * * *
43865295 GATTGAAGCTACAATGGCGAATCTGACTTCCCTGGTGGTGCAGTGGAACAGATTGAAGCTACAAT
1 GATTGAAGCCACAACGGCGAATCTGACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
43865360 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAAT
66 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAAT
* * * * *
43865395 GATTGAAGCCATAACGGTGAATCTTACTTTCCTAGCGGTGCAGTGGAATAGATTGAAGCTACAAC
1 GATTGAAGCCACAACGGCGAATCTGACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * *
43865460 GGTGAATCTTGCTTCCCTGACATTGCAGTTAA
66 GGCGAATCTTGCTTCCCCGACATTGCAATTAA
43865492 TTAGACTGAA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (100 bp):
GATTGAAGCCACAACGGCGAATCTGACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
GGCGAATCTTGCTTCCCCGACATTGCAATTAAAAT
Found at i:43865502 original size:50 final size:49
Alignment explanation
Indices: 43865291--43865502 Score: 167
Period size: 50 Copynumber: 4.2 Consensus size: 49
43865281 ATTATAGTGG
* * **** *
43865291 AATAGATTGAAGCTACAATGGCGAATC-TGACTTCCCTGGTGGTGCAGTGG
1 AATAGATTGAAGCTACAACGGTGAATCTTG-CTTCCCTGACATTGCAGT-T
* * * * *
43865341 AACAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATT
1 AATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAGTT
* * * * * ** *
43865390 AAAATGATTGAAGCCATAACGGTGAATCTTACTTTCCT-AGCGGTGCAGTGG
1 AATA-GATTGAAGCTACAACGGTGAATCTTGCTTCCCTGA-CATTGCAGT-T
43865441 AATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAGTT
1 AATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAGTT
*
43865490 AATTAGACTGAAG
1 AA-TAGATTGAAG
43865503 ATAGCAAATC
Statistics
Matches: 127, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
49 6 0.05
50 115 0.91
51 6 0.05
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (49 bp):
AATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAGTT
Found at i:43865662 original size:45 final size:44
Alignment explanation
Indices: 43865612--43865722 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
43865602 GTCTTATCCT
* * * *
43865612 CCTGAAGTTGAAGTGGGGCAGACTGAAGATAGCGAGTATTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTGAAGAT-GCGAATACTATCTC
* * * * *
43865657 CCTGAAGTTGCAGAGGAGCAGATTGAAGCTGCTAATCCTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTGAAGATGCGAATACTATCTC
43865701 CCTGAAGTTGCAGTGGAGCAGA
1 CCTGAAGTTGCAGTGGAGCAGA
43865723 TTAAAACGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 31 0.55
45 25 0.45
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
CCTGAAGTTGCAGTGGAGCAGACTGAAGATGCGAATACTATCTC
Found at i:43865750 original size:44 final size:44
Alignment explanation
Indices: 43865651--43865758 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
43865641 TAGCGAGTAT
* * * * *
43865651 TATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAGCTGCTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGATAATCA
43865695 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-GATGAATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGAT-AATCA
*
43865739 TATAC-CTCTGAAGTTGCAGT
1 TAT-CTCCCTGAAGTTGCAGT
43865759 AGGTCAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 2 0.04
44 53 0.95
45 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGATAATCA
Found at i:43866142 original size:6 final size:6
Alignment explanation
Indices: 43866131--43866164 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
43866121 AATAACCCAA
43866131 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
43866165 TAAGCCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:43867832 original size:26 final size:26
Alignment explanation
Indices: 43867796--43867883 Score: 158
Period size: 26 Copynumber: 3.4 Consensus size: 26
43867786 GTCCTTGAGG
* *
43867796 GCGCGCTTTGCTTACATGGACACAAA
1 GCGCGCTTTGCTTACGTGGGCACAAA
43867822 GCGCGCTTTGCTTACGTGGGCACAAA
1 GCGCGCTTTGCTTACGTGGGCACAAA
43867848 GCGCGCTTTGCTTACGTGGGCACAAA
1 GCGCGCTTTGCTTACGTGGGCACAAA
43867874 GCGCGCTTTG
1 GCGCGCTTTG
43867884 TTGCCATGTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (26 bp):
GCGCGCTTTGCTTACGTGGGCACAAA
Found at i:43869681 original size:19 final size:19
Alignment explanation
Indices: 43869657--43869704 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
43869647 ATGTCATCAC
*
43869657 ATAAAATAACTTAAAAATT
1 ATAAAAAAACTTAAAAATT
*
43869676 ATAAAAAAATTTAAAAATT
1 ATAAAAAAACTTAAAAATT
43869695 ATAAATAAAA
1 ATAAA-AAAA
43869705 AATACAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAAAAACTTAAAAATT
Found at i:43870809 original size:8 final size:8
Alignment explanation
Indices: 43870796--43870825 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
43870786 GCACCAATTG
43870796 CGGTTTCA
1 CGGTTTCA
43870804 CGGTTTCA
1 CGGTTTCA
43870812 CGGTTTCA
1 CGGTTTCA
43870820 CGGTTT
1 CGGTTT
43870826 TATGGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.23, G:0.27, T:0.40
Consensus pattern (8 bp):
CGGTTTCA
Found at i:43873713 original size:73 final size:73
Alignment explanation
Indices: 43873626--43873884 Score: 500
Period size: 73 Copynumber: 3.5 Consensus size: 73
43873616 ACAACTTGAC
43873626 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
43873691 CACTAACA
66 CACTAACA
43873699 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
43873764 CACTAACA
66 CACTAACA
*
43873772 AACTTAGTTGGAATACAACTAAGTTTCATCATTATATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
43873837 CACTAACA
66 CACTAACA
*
43873845 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
43873885 AATAATAATA
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 183 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:43873893 original size:3 final size:3
Alignment explanation
Indices: 43873885--43873928 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
43873875 ATTACATCCA
43873885 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43873929 AACATGTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43878264 original size:73 final size:73
Alignment explanation
Indices: 43878145--43878403 Score: 491
Period size: 73 Copynumber: 3.5 Consensus size: 73
43878135 ACAACTTGAC
43878145 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
43878210 CACTAACA
66 CACTAACA
*
43878218 AACTTAGTTGGAAAACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
43878283 CACTAACA
66 CACTAACA
*
43878291 AACTTAGTTGGAATACAACTAAGTTTCATCATTATATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
43878356 CACTAACA
66 CACTAACA
*
43878364 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
43878404 AATAATAATA
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 181 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:43883006 original size:20 final size:20
Alignment explanation
Indices: 43882981--43883023 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
43882971 TTATTTTCTT
*
43882981 TTTAAAATAT-TTTATTAAAA
1 TTTAAAATATATAT-TTAAAA
43883001 TTTAAAATATATATTTAAAA
1 TTTAAAATATATATTTAAAA
43883021 TTT
1 TTT
43883024 TAGAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATATATATTTAAAA
Found at i:43891881 original size:31 final size:31
Alignment explanation
Indices: 43891843--43891901 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
43891833 CATCAATCAC
43891843 AACAAACTATTGGTGAGGGGGTATTCAACAG
1 AACAAACTATTGGTGAGGGGGTATTCAACAG
43891874 AACAAACTATTGGTGAGGGGGTATTCAA
1 AACAAACTATTGGTGAGGGGGTATTCAA
43891902 TCCTCTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.24
Consensus pattern (31 bp):
AACAAACTATTGGTGAGGGGGTATTCAACAG
Found at i:43897447 original size:19 final size:20
Alignment explanation
Indices: 43897425--43897502 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 20
43897415 AAAATTACAA
43897425 AAAAAATT-TAAAATAATTT
1 AAAAAATTATAAAATAATTT
* *
43897444 AAAAAATT-CAAAATATTTAT
1 AAAAAATTATAAAATAATT-T
*
43897464 AAAAAATTCTAAAATTTATATTT
1 AAAAAATTATAAAA--TA-ATTT
43897487 ATAAAAATTATAAAAT
1 A-AAAAATTATAAAAT
43897503 TTTAACAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 16 0.33
20 9 0.19
21 4 0.08
22 1 0.02
23 4 0.08
24 14 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATTATAAAATAATTT
Found at i:43897506 original size:25 final size:25
Alignment explanation
Indices: 43897456--43897504 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
43897446 AAAATTCAAA
*
43897456 ATATTTATAAAAAATTCTAAAATTT
1 ATATTTATAAAAAATTATAAAATTT
43897481 ATATTTAT-AAAAATTATAAAATTT
1 ATATTTATAAAAAATTATAAAATTT
43897505 TAACAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTTATAAAAAATTATAAAATTT
Found at i:43902098 original size:37 final size:37
Alignment explanation
Indices: 43902037--43902115 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
43902027 TTATTATGAA
* * * *
43902037 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCAG
* *
43902074 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCAG
43902111 GTCTT
1 GTCTT
43902116 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCAG
Found at i:43902462 original size:96 final size:96
Alignment explanation
Indices: 43902234--43902872 Score: 1051
Period size: 96 Copynumber: 6.7 Consensus size: 96
43902224 CCCTTCGGGA
* * * * * * * *
43902234 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43902297 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
43902328 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43902391 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43902422 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43902487 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 --ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43902520 ATTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43902585 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43902616 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATTACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43902681 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43902712 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
43902775 ACACTTTCACATTCATCACATTGGCCATTAGGC
66 --ACTTTCACATTCATCACATCGGCCATTAGGC
43902808 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43902871 AC
66 AC
43902873 GGCCATTAGG
Statistics
Matches: 518, Mismatches: 19, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
93 1 0.00
94 144 0.28
96 279 0.54
98 94 0.18
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43902463 original size:49 final size:49
Alignment explanation
Indices: 43902234--43902872 Score: 1058
Period size: 47 Copynumber: 13.4 Consensus size: 49
43902224 CCCTTCGGGA
* * * * *
43902234 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43902281 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902328 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902375 CTTATCACATACATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902422 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902471 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902520 ATTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902569 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902616 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902665 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902712 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43902759 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902808 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43902855 CTTATCACATATATATAC
1 CTTATCACATATATATAC
43902873 GGCCATTAGG
Statistics
Matches: 561, Mismatches: 19, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
46 1 0.00
47 321 0.57
49 239 0.43
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43902877 original size:29 final size:29
Alignment explanation
Indices: 43902843--43902901 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
43902833 TTCATCACAT
43902843 CGGCCATTAGGCCTTATCACATATATATA
1 CGGCCATTAGGCCTTATCACATATATATA
43902872 CGGCCATTAGGCCTTATCACATATATATA
1 CGGCCATTAGGCCTTATCACATATATATA
43902901 C
1 C
43902902 ACTTTCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (29 bp):
CGGCCATTAGGCCTTATCACATATATATA
Found at i:43902908 original size:125 final size:126
Alignment explanation
Indices: 43902747--43902996 Score: 475
Period size: 125 Copynumber: 2.0 Consensus size: 126
43902737 TTCATCACAT
*
43902747 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
1 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43902812 TCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
66 TCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
43902872 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43902937 TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 TCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
43902997 CACTTTCTTG
Statistics
Matches: 122, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
125 68 0.56
127 54 0.44
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (126 bp):
CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
Found at i:43902913 original size:78 final size:76
Alignment explanation
Indices: 43902797--43902950 Score: 290
Period size: 78 Copynumber: 2.0 Consensus size: 76
43902787 TCATCACATT
43902797 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
43902862 CATATATATAC
66 CATATATATAC
43902873 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
43902938 CACATATATATAC
64 CACATATATATAC
43902951 ACTTTCACAT
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
76 19 0.25
78 57 0.75
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (76 bp):
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATATAC
Found at i:43902927 original size:49 final size:49
Alignment explanation
Indices: 43902872--43903003 Score: 250
Period size: 49 Copynumber: 2.7 Consensus size: 49
43902862 CATATATATA
43902872 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
43902921 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
43902970 CGGCCATTAGGCCTTATCAC--ATATATACACTTTC
1 CGGCCATTAGGCCTTATCACATATATATACACTTTC
43903004 TTGGCTGAAT
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
47 14 0.17
49 69 0.83
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
Found at i:43906733 original size:13 final size:13
Alignment explanation
Indices: 43906715--43906739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43906705 TATTTTAATA
43906715 TTATTTTGTGTGT
1 TTATTTTGTGTGT
43906728 TTATTTTGTGTG
1 TTATTTTGTGTG
43906740 CATTTGAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:43907954 original size:114 final size:114
Alignment explanation
Indices: 43907713--43907957 Score: 404
Period size: 114 Copynumber: 2.1 Consensus size: 114
43907703 TATTAAATCA
*
43907713 GTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAAT
1 GTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAAT
43907778 TAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATAT
66 TAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATAT
* * * *
43907827 GTAAATATTTATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAAT
1 GTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAAT
*
43907892 TAGTTAAGTATGAATGTTATATATATGCATAAATGAATTTCG-A-ATAT
66 TAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATAT
43907939 GTATATATGAATATGTATA
1 GTATATAT--ATATGTATA
43907958 AGATCTTGAG
Statistics
Matches: 121, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
112 11 0.09
113 1 0.01
114 109 0.90
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (114 bp):
GTATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAAT
TAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATAT
Found at i:43908055 original size:80 final size:82
Alignment explanation
Indices: 43907971--43908151 Score: 185
Period size: 86 Copynumber: 2.2 Consensus size: 82
43907961 TCTTGAGTTT
43907971 AATTAAAGGTATGGATGATATA-TTT-AT-ATA-TATAAGGTTTGAATATATA-TATGTATATAC
1 AATTAAA-GTATGGATGATATATTTTCATCATAGTATAAGGTTTGAATATATAGTATGTATAT--
*
43908031 ATGTATAAGTTTTTG-AATGG
63 ATATATAAGTTTTTGAAAT-G
* ** * *
43908051 AATTAAAAGTATGAATTCTATATTTTCATGCATATGTGTAAGGTTTGAATATATAGTTATGTGTA
1 AATT-AAAGTATGGATGATATATTTTCAT-CATA-GTATAAGGTTTGAATATATAG-TATGTATA
43908116 TATATATAAGTTTTTGAAATG
62 TATATATAAGTTTTTGAAATG
43908137 AATGTAAAGTATGGA
1 AAT-TAAAGTATGGA
43908152 CTTTACATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
80 15 0.18
81 6 0.07
82 2 0.02
84 3 0.04
86 45 0.54
87 4 0.05
88 8 0.10
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (82 bp):
AATTAAAGTATGGATGATATATTTTCATCATAGTATAAGGTTTGAATATATAGTATGTATATATA
TATAAGTTTTTGAAATG
Found at i:43908475 original size:41 final size:41
Alignment explanation
Indices: 43908425--43908571 Score: 215
Period size: 41 Copynumber: 3.6 Consensus size: 41
43908415 CGGACTTTAC
* * *
43908425 GTCTAGCAGGCTAAGTGTCAGTGATCTGAAACAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
43908466 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
**
43908507 ACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
43908548 G-CTTAGCAGGTTAAGTGCCGGTGA
1 GTC-TAGCAGGCTAAGTGCCGGTGA
43908572 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 95 0.99
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (41 bp):
GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:43912550 original size:14 final size:14
Alignment explanation
Indices: 43912531--43912581 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
43912521 TTTTAGTCAC
43912531 TTATATTTGAAATG
1 TTATATTTGAAATG
*
43912545 TTATATTTTAGTAAT-
1 TTATA-TTT-GAAATG
*
43912560 TTATGTTTGAAATG
1 TTATATTTGAAATG
43912574 TTATATTT
1 TTATATTT
43912582 TAGTCACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 4 0.13
14 15 0.50
15 7 0.23
16 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (14 bp):
TTATATTTGAAATG
Found at i:43912553 original size:29 final size:29
Alignment explanation
Indices: 43912520--43912591 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
43912510 TTCAGATTAC
43912520 ATTTTAGTCACTTATATTTGAAATGTTAT
1 ATTTTAGTCACTTATATTTGAAATGTTAT
* * *
43912549 ATTTTAGTAATTTATGTTTGAAATGTTAT
1 ATTTTAGTCACTTATATTTGAAATGTTAT
43912578 ATTTTAGTCACTTA
1 ATTTTAGTCACTTA
43912592 CGTTACAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (29 bp):
ATTTTAGTCACTTATATTTGAAATGTTAT
Found at i:43927571 original size:22 final size:22
Alignment explanation
Indices: 43927539--43927593 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
43927529 TTCAAATTCA
*
43927539 TATTTTGTTTACAAG-TCCAGTTG
1 TATTTT-TTTA-AAGATCCAATTG
* *
43927562 TGTTTTTTTAAAGATTCAATTG
1 TATTTTTTTAAAGATCCAATTG
43927584 TATTTTTTTA
1 TATTTTTTTA
43927594 TAATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.11
22 19 0.70
23 5 0.19
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTTTTTTAAAGATCCAATTG
Found at i:43930510 original size:22 final size:21
Alignment explanation
Indices: 43930472--43930518 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
43930462 TAAAAGGTAT
43930472 AAAAAATATTTAATTTTAATA
1 AAAAAATATTTAATTTTAATA
* *
43930493 AAAAAATATTTAATTTTTATT
1 AAAAAATATTTAATTTTAATA
43930514 AAAAA
1 AAAAA
43930519 TTAGAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAAATATTTAATTTTAATA
Found at i:43930546 original size:19 final size:20
Alignment explanation
Indices: 43930513--43930566 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
43930503 TAATTTTTAT
*
43930513 TAAAAATTAGAAAAAGATTA
1 TAAAAATTAGAAAAAAATTA
*
43930533 TAAAAATT-GTAAAAAATTA
1 TAAAAATTAGAAAAAAATTA
43930552 TAAAATATGTAGAAA
1 TAAAA-AT-TAGAAA
43930567 TATAGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.50
20 10 0.36
21 1 0.04
22 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (20 bp):
TAAAAATTAGAAAAAAATTA
Found at i:43930857 original size:30 final size:28
Alignment explanation
Indices: 43930821--43930891 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
43930811 TTTTTGGTGC
*
43930821 ATTTTATAATTTTTTTTATGATTTTATAT
1 ATTTTATAATTTTTTTTACGATTTT-TAT
*
43930850 AATTTTAT-ATTTCTTTTACGATTTTTAT
1 -ATTTTATAATTTTTTTTACGATTTTTAT
*
43930878 A-TATATAATTTTTT
1 ATTTTATAATTTTTT
43930892 ATATTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.11
27 7 0.19
28 3 0.08
29 15 0.42
30 7 0.19
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (28 bp):
ATTTTATAATTTTTTTTACGATTTTTAT
Found at i:43930937 original size:10 final size:9
Alignment explanation
Indices: 43930881--43930951 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
43930871 TTTTTATATA
43930881 TATAATTTT
1 TATAATTTT
43930890 T-TATATTTT
1 TATA-ATTTT
*
43930899 TATTAAAGTTT
1 TA-T-AATTTT
*
43930910 AATAATTTT
1 TATAATTTT
43930919 TATAA-TTT
1 TATAATTTT
43930927 TATAGATTTT
1 TATA-ATTTT
43930937 TAT--TTTT
1 TATAATTTT
43930944 TATAATTT
1 TATAATTT
43930952 ATTTGTCACA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
7 7 0.14
8 9 0.18
9 20 0.40
10 7 0.14
11 6 0.12
12 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TATAATTTT
Found at i:43931782 original size:16 final size:18
Alignment explanation
Indices: 43931746--43931779 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43931736 CTATAATATA
*
43931746 ATATATCATGTTGTTTTT
1 ATATATCATGTCGTTTTT
43931764 ATATATCATG-CGTTTT
1 ATATATCATGTCGTTTT
43931780 ATAACACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.56
Consensus pattern (18 bp):
ATATATCATGTCGTTTTT
Found at i:43931926 original size:23 final size:23
Alignment explanation
Indices: 43931896--43931945 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
43931886 ACAATATTAT
43931896 TAAATATAAAATAAAAAATAATA
1 TAAATATAAAATAAAAAATAATA
*** *
43931919 TAAATATATTTTTAAAAATAATA
1 TAAATATAAAATAAAAAATAATA
43931942 TAAA
1 TAAA
43931946 CAGATCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAATATAAAATAAAAAATAATA
Found at i:43932463 original size:34 final size:35
Alignment explanation
Indices: 43932419--43932485 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
43932409 CAGTAAAATA
43932419 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
43932453 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
43932486 TTTGGTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:43944935 original size:11 final size:12
Alignment explanation
Indices: 43944902--43944935 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
43944892 AGATATAAGT
*
43944902 TTGATTAAAAAC
1 TTGATGAAAAAC
43944914 TTGATGAAAAAC
1 TTGATGAAAAAC
*
43944926 TTTATGAAAA
1 TTGATGAAAA
43944936 GCTTAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (12 bp):
TTGATGAAAAAC
Found at i:43946309 original size:23 final size:23
Alignment explanation
Indices: 43946256--43946309 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
43946246 GTCTACCTGC
* *
43946256 AAAAT-AAAATAAAATAGAAGGA
1 AAAATAAAAATAAAATAAAAGAA
* * *
43946278 AGAAGAAAAATAAAATAAAATAA
1 AAAATAAAAATAAAATAAAAGAA
43946301 AAAATAAAA
1 AAAATAAAA
43946310 TGTGCAATTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (23 bp):
AAAATAAAAATAAAATAAAAGAA
Found at i:43952609 original size:13 final size:12
Alignment explanation
Indices: 43952554--43952611 Score: 75
Period size: 11 Copynumber: 4.9 Consensus size: 12
43952544 TTGTAGATTC
*
43952554 AAAAAAAA-TCA
1 AAAAAAAATTGA
*
43952565 AAAAAAAATCG-
1 AAAAAAAATTGA
43952576 AAAAAAAATTGA
1 AAAAAAAATTGA
43952588 AAAAAAAATTTGA
1 AAAAAAAA-TTGA
43952601 AAAAAAAATTG
1 AAAAAAAATTG
43952612 CATACGGTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
11 18 0.44
12 11 0.27
13 12 0.29
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:43959770 original size:4 final size:4
Alignment explanation
Indices: 43959761--43959787 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
43959751 AAACTAAGTA
43959761 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
43959788 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:43961193 original size:23 final size:22
Alignment explanation
Indices: 43961142--43961193 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
43961132 CCTCGTCTTT
*
43961142 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
43961164 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
43961187 TTCTTTT
1 TTCTTTT
43961194 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:43965184 original size:13 final size:12
Alignment explanation
Indices: 43965156--43965287 Score: 63
Period size: 12 Copynumber: 10.6 Consensus size: 12
43965146 AGATATAAGT
*
43965156 TTGATTAAAAAC
1 TTGATGAAAAAC
43965168 TTGATGAAAACAC
1 TTGATGAAAA-AC
*
43965181 TTGATGAAATAC
1 TTGATGAAAAAC
* *
43965193 TTTATGAAAAGC
1 TTGATGAAAAAC
*
43965205 TT-A-AAAAGAAC
1 TTGATGAAA-AAC
*
43965216 TTGATGCAAAAC
1 TTGATGAAAAAC
* *
43965228 TTAATAAAAAAAAC
1 TTGAT--GAAAAAC
*
43965242 TTGGTAATTAAAAAC
1 TT-G--ATGAAAAAC
* **
43965257 TTGATTAATGAC
1 TTGATGAAAAAC
43965269 TTGATTG-AAAAC
1 TTGA-TGAAAAAC
43965281 TTGATGA
1 TTGATGA
43965288 TTAAATGAAC
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
10 3 0.03
11 7 0.08
12 48 0.53
13 14 0.16
14 8 0.09
15 8 0.09
17 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (12 bp):
TTGATGAAAAAC
Found at i:43966930 original size:10 final size:10
Alignment explanation
Indices: 43966915--43966939 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43966905 ATTAAACAAT
43966915 AATCACCAAA
1 AATCACCAAA
43966925 AATCACCAAA
1 AATCACCAAA
43966935 AATCA
1 AATCA
43966940 TATTACGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (10 bp):
AATCACCAAA
Found at i:43968879 original size:14 final size:14
Alignment explanation
Indices: 43968842--43968880 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
43968832 CTTTGTCTAT
43968842 TTTTTTTC-TTTTC
1 TTTTTTTCATTTTC
*
43968855 TTTTTGCTCATTTTC
1 TTTTT-TTCATTTTC
43968870 TTTTTTTCATT
1 TTTTTTTCATT
43968881 CGAGATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 10 0.45
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTTCATTTTC
Found at i:43975916 original size:23 final size:23
Alignment explanation
Indices: 43975890--43975969 Score: 106
Period size: 23 Copynumber: 3.3 Consensus size: 23
43975880 ATAAGTGCCA
43975890 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43975913 CACTGATATGTATGTAGCCGTAGCTAC
1 CACTG--A--TATGTAGCCGAAGCTAC
*
43975940 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43975963 CACTGAT
1 CACTGAT
43975970 CAACTGGTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
23 26 0.53
25 2 0.04
27 21 0.43
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43975926 original size:27 final size:25
Alignment explanation
Indices: 43975895--43975969 Score: 109
Period size: 27 Copynumber: 3.0 Consensus size: 25
43975885 TGCCACACTG
43975895 ATATGTAGCCGAAGCTACCACTGAT
1 ATATGTAGCCGAAGCTACCACTGAT
*
43975920 ATGTATGTAGCCGTAGCTACCACTGA-
1 A--TATGTAGCCGAAGCTACCACTGAT
43975946 A-ATGTAGCCGAAGCTACCACTGAT
1 ATATGTAGCCGAAGCTACCACTGAT
43975970 CAACTGGTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
23 21 0.47
25 1 0.02
26 1 0.02
27 22 0.49
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (25 bp):
ATATGTAGCCGAAGCTACCACTGAT
Found at i:43976128 original size:17 final size:17
Alignment explanation
Indices: 43976094--43976131 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
43976084 ATTTTCCTTC
*
43976094 CACATTCAATATTGATT
1 CACATTCAATATTAATT
43976111 CACATATCAATA-TAATT
1 CACAT-TCAATATTAATT
43976128 CACA
1 CACA
43976132 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:43984298 original size:5 final size:5
Alignment explanation
Indices: 43984288--43984312 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43984278 TTTAACAAAG
43984288 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
43984313 GTTCTAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:43987037 original size:15 final size:15
Alignment explanation
Indices: 43987017--43987046 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43987007 ATTAACCGAA
43987017 TATAATAATTATAAT
1 TATAATAATTATAAT
43987032 TATAATAATTATAAT
1 TATAATAATTATAAT
43987047 AATATTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATAATTATAAT
Found at i:43996198 original size:17 final size:17
Alignment explanation
Indices: 43996155--43996209 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
43996145 TGCTAAGATT
*
43996155 ATACTATCCGCCAGGCG
1 ATACTATCCGCCAGACG
*
43996172 ATA-TAGTCCGCTAGACG
1 ATACTA-TCCGCCAGACG
* *
43996189 ATACTATCCGTCAGGCG
1 ATACTATCCGCCAGACG
43996206 ATAC
1 ATAC
43996210 AGCTCACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (17 bp):
ATACTATCCGCCAGACG
Found at i:44008178 original size:19 final size:19
Alignment explanation
Indices: 44008156--44008202 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
44008146 TATAACTATT
44008156 TATTAAAAATTT-TAAAAAA
1 TATTAAAAATTTCT-AAAAA
*
44008175 TATT-GAAATTTCTAAAAA
1 TATTAAAAATTTCTAAAAA
44008193 TATTATAAAA
1 TATTA-AAAA
44008203 ATTATAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 15 0.65
19 5 0.22
20 3 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TATTAAAAATTTCTAAAAA
Found at i:44012115 original size:43 final size:43
Alignment explanation
Indices: 44012067--44012152 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
44012057 GGGTTGATGT
* *
44012067 TAGCTATGGATTAACACGAAGCATATAACACTATCAATAATCA
1 TAGCTACGAATTAACACGAAGCATATAACACTATCAATAATCA
44012110 TAGCTACGAATTAACACGAAGCATATAACACTATCAATAATCA
1 TAGCTACGAATTAACACGAAGCATATAACACTATCAATAATCA
44012153 ACCAATTCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.24
Consensus pattern (43 bp):
TAGCTACGAATTAACACGAAGCATATAACACTATCAATAATCA
Found at i:44013241 original size:26 final size:26
Alignment explanation
Indices: 44013201--44013254 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
44013191 TATAACCCAT
44013201 AAATTAAAATATATTAAAATATTGATA
1 AAATTAAAATATATTAAAAT-TTGATA
*
44013228 AAATTAAAAGTAT-TT-AAATTTTATA
1 AAATTAAAA-TATATTAAAATTTGATA
44013253 AA
1 AA
44013255 TGTCACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 11 0.44
28 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
AAATTAAAATATATTAAAATTTGATA
Found at i:44016865 original size:16 final size:17
Alignment explanation
Indices: 44016838--44016873 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
44016828 AGAGAGTTGA
44016838 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
44016855 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
44016871 GAG
1 GAG
44016874 GGATGAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.53, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:44019842 original size:17 final size:17
Alignment explanation
Indices: 44019820--44019855 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44019810 TGTATATGCA
* *
44019820 TATACATTTATATTTTG
1 TATACATATACATTTTG
44019837 TATACATATACATTTTG
1 TATACATATACATTTTG
44019854 TA
1 TA
44019856 ACACATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (17 bp):
TATACATATACATTTTG
Found at i:44020248 original size:20 final size:19
Alignment explanation
Indices: 44020223--44020262 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
44020213 TTTCCTCTTT
44020223 TATATGTATTCTTATATATA
1 TATATGTATTCTTA-ATATA
* *
44020243 TATATGTGTTTTTAATATA
1 TATATGTATTCTTAATATA
44020262 T
1 T
44020263 GCATATACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (19 bp):
TATATGTATTCTTAATATA
Found at i:44024182 original size:21 final size:22
Alignment explanation
Indices: 44024156--44024202 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
44024146 CTCTGCTCAA
*
44024156 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
44024177 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
44024199 ACTC
1 ACTC
44024203 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:44028220 original size:22 final size:23
Alignment explanation
Indices: 44028192--44028237 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
44028182 ATGCAATCTT
44028192 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
44028214 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
44028237 A
1 A
44028238 TTTAATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:44034451 original size:45 final size:45
Alignment explanation
Indices: 44034393--44035026 Score: 651
Period size: 45 Copynumber: 14.2 Consensus size: 45
44034383 GGAGTAGGTT
* * *
44034393 GAAGATAACAGATCTTGTCTTCCTGTA-TGGACCGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGG-CAGCGAAGTAGATC
*
44034438 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
44034483 GAACATAGCAGATCTTGTCTTCCTGTATTGGCACCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
44034528 AAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*** *** * * *
44034573 GAAGACCTCAG--CGTTGTC-TCTCTG-AGCAGCAGTGGAGTATG-TT
1 GAAGATAGCAGATC-TTGTCTTC-CTGTATTGGCAGCGAAGTA-GATC
* * * *
44034616 GAAAATAGTAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
44034661 GAAGATA-CA-AGCCTTGTCTCCCTG-AGTAGCAGTGGAGTAGATC
1 GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
44034704 AAATATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
44034749 GAAGAT-GACAGATCTTGTCTTCCTGTATTGGCAGTGATGTAGATC
1 GAAGATAG-CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
** * **
44034794 -AATGATAATAGATCTTGTCTTCCTTTACCGGCAGCGAAGTAGATC
1 GAA-GATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
44034839 AAAGATAGTAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
44034884 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
44034929 AAAGATAGCAGATCTAGGCTTTCTATATTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
44034974 GAAAACAGTAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
44035019 GAAGATAG
1 GAAGATAG
44035027 AAGTAACCAA
Statistics
Matches: 479, Mismatches: 93, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
43 42 0.09
44 43 0.09
45 389 0.81
46 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:44035185 original size:44 final size:44
Alignment explanation
Indices: 44035126--44035236 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
44035116 ATCTAGTCTC
* *
44035126 ATCT-CCTCGAGGTTGCAGTGGAGCAGATTGAATAAGCCAATCTT
1 ATCTCCCT-GAGGTTGCAGTGGAGCAGATTGAAGAAACCAATCTT
* * *
44035170 ATCTCCCTGGGGTTGCAGTGGAACAGATTGAAGAAATCAATCTT
1 ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAAACCAATCTT
* *
44035214 ATCTCCCTGAAGTTGGAGTGGAG
1 ATCTCCCTGAGGTTGCAGTGGAG
44035237 TGGATCAGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 54 0.95
45 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (44 bp):
ATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAAACCAATCTT
Found at i:44035624 original size:44 final size:44
Alignment explanation
Indices: 44035416--44035624 Score: 122
Period size: 44 Copynumber: 4.8 Consensus size: 44
44035406 GTACAAATCA
* ** * *
44035416 TATCTCCCTGAGCAGTAGTGGAGTAGGTTTAAAATTGTAGATCC
1 TATCTCCCTGAGCAGTAGTGGAGTAGATCGAAGATTCTAGATCC
* * * ** * *
44035460 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA-ATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATCGAAGA-TTCTAGATCC
* * * *** *
44035504 TATCTTCCTGAG-A-TAGTAGGAAGCAGAGT-TAAGCCACCAG-TCC
1 TATCTCCCTGAGCAGTAGT-GG-AGTAGA-TCGAAGATTCTAGATCC
* * * *
44035547 TATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTCTAGATCC
1 TATCTCCCTGAGCAGTAGTGGAGTAGATCGAAGATTCTAGATCC
* *
44035591 TGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
1 TATCTCCCTGAGCAGTAGTGGAGTAGATCGAAGA
44035625 CGGCGAATCT
Statistics
Matches: 121, Mismatches: 35, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
42 5 0.04
43 29 0.24
44 82 0.68
45 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAGCAGTAGTGGAGTAGATCGAAGATTCTAGATCC
Found at i:44035645 original size:44 final size:44
Alignment explanation
Indices: 44035456--44035662 Score: 122
Period size: 44 Copynumber: 4.7 Consensus size: 44
44035446 AAAATTGTAG
* *
44035456 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
1 ATCCTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
* * * * *
44035500 ATCTTATCTTCCTGAG-A-TAGTAGGAAGCAGAGT-TAAGCCA-CCA
1 ATCCTATCTTCCTAAGCAGTAGT-GG-AGCAGA-TCGAAGACAGCGA
* * * * * * ** *
44035543 GTCCTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGA-TTCTA
1 ATCCTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
* * * *
44035586 GATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA
1 -ATCCTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
*
44035631 ATCTTATCTTCCTAAG--GTAGTAGGAAGCAGAT
1 ATCCTATCTTCCTAAGCAGTAGT-GG-AGCAGAT
44035663 TTAAGCCACC
Statistics
Matches: 122, Mismatches: 30, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
42 10 0.08
43 30 0.25
44 76 0.62
45 6 0.05
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
ATCCTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
Found at i:44035652 original size:131 final size:131
Alignment explanation
Indices: 44035416--44035805 Score: 627
Period size: 131 Copynumber: 3.0 Consensus size: 131
44035406 GTACAAATCA
* *
44035416 TATCTCCCTGAGCAGTAGTGGAGTAGGTTTAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* * * *
44035481 AGCAGATCGAAGACAGCGAATCTTATCTTCCTGAGATAGTAGGAAGCAGAGTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGTC
44035546 C
131 C
* * *
44035547 TATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTCTAGATCCTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
*
44035612 AGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGTC
44035677 C
131 C
* * *
44035678 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAATATTGTAGATCCTGTCTCTCTAAGCAGTAGTAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
* * *
44035743 AGCAGATCAAAGACGGCGAGTCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTA-GGAAGCAGATTTAAGCCACCA
44035806 ACCTTTTTTC
Statistics
Matches: 239, Mismatches: 19, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
131 218 0.91
132 21 0.09
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (131 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAGTC
C
Found at i:44036367 original size:22 final size:22
Alignment explanation
Indices: 44036263--44036364 Score: 147
Period size: 22 Copynumber: 4.7 Consensus size: 22
44036253 AATCTTCAAG
44036263 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
44036282 GATATGCAATCTTAGAAGATAG
1 GATATGCAATCTTAGAAGATAT
44036304 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
44036326 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
44036348 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
44036365 GATTTAATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.17
22 50 0.67
23 12 0.16
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:44037076 original size:30 final size:32
Alignment explanation
Indices: 44037003--44037078 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
44036993 AATTTTATAT
*
44037003 ACATACTTATATATATATATTTTTACATATTA
1 ACATACATATATATATATATTTTTACATATTA
* ** * *
44037035 AAATATGTATATATATAT-TTTTTATA-ATTC
1 ACATACATATATATATATATTTTTACATATTA
44037065 ACATACATATATAT
1 ACATACATATATAT
44037079 TTTTCTTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
30 14 0.39
31 7 0.19
32 15 0.42
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (32 bp):
ACATACATATATATATATATTTTTACATATTA
Found at i:44038557 original size:24 final size:23
Alignment explanation
Indices: 44038517--44038561 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
44038507 AAAATATCCT
44038517 AAAATTAAAAATAAATAAATAGA
1 AAAATTAAAAATAAATAAATAGA
* *
44038540 AAAATATAAAACTTAATAAATA
1 AAAAT-TAAAAATAAATAAATA
44038562 CAATATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATTAAAAATAAATAAATAGA
Found at i:44057961 original size:16 final size:18
Alignment explanation
Indices: 44057940--44057975 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
44057930 TCAAGCTCAA
44057940 TTAATTTT-TTTA-ATTT
1 TTAATTTTGTTTACATTT
44057956 TTAATTTTGTTTACATTT
1 TTAATTTTGTTTACATTT
44057974 TT
1 TT
44057976 TTTCGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 4 0.22
18 6 0.33
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TTAATTTTGTTTACATTT
Found at i:44058949 original size:12 final size:13
Alignment explanation
Indices: 44058917--44058953 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
44058907 ATAAATTAAC
44058917 AAATAAAACATAA
1 AAATAAAACATAA
44058930 AAAT-AAACA-AA
1 AAATAAAACATAA
44058941 AAATAAAAC-TAA
1 AAATAAAACATAA
44058953 A
1 A
44058954 TGAAATCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.27
12 12 0.55
13 4 0.18
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAAAACATAA
Found at i:44059129 original size:30 final size:30
Alignment explanation
Indices: 44059073--44059134 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
44059063 GCCATGTGCT
* *
44059073 AGACCATGTGAGCCACATGGTTGTGTGGCC
1 AGACCATGTGAGCCACATGATCGTGTGGCC
44059103 AGACCATGTGAGCCACACT-ATCGTGTGGCC
1 AGACCATGTGAGCCACA-TGATCGTGTGGCC
44059133 AG
1 AG
44059135 GTTGTGTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (30 bp):
AGACCATGTGAGCCACATGATCGTGTGGCC
Found at i:44069628 original size:24 final size:24
Alignment explanation
Indices: 44069599--44069662 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
44069589 TTTCTAGAAG
* *
44069599 ATTTAATATTTATTAGTATAATAT
1 ATTTAACATTTATTAGCATAATAT
44069623 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTTATTAGCATAATAT
* *
44069647 ATTTGACATTGATTAG
1 ATTTAACATTTATTAG
44069663 AATTAGGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAACATTTATTAGCATAATAT
Found at i:44070069 original size:33 final size:35
Alignment explanation
Indices: 44070032--44070101 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
44070022 ATTCAAAATC
**
44070032 AAAATCA-AATATTT-TTATATGTGAAATATTTCA
1 AAAATCATAATATTTATTATAAATGAAATATTTCA
* *
44070065 AAAATCATTATGTTTATTATAAATGAAATATTTCA
1 AAAATCATAATATTTATTATAAATGAAATATTTCA
44070100 AA
1 AA
44070102 TAATTATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 7 0.23
34 5 0.16
35 19 0.61
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (35 bp):
AAAATCATAATATTTATTATAAATGAAATATTTCA
Found at i:44078126 original size:27 final size:27
Alignment explanation
Indices: 44078095--44078762 Score: 748
Period size: 27 Copynumber: 25.1 Consensus size: 27
44078085 TTACACTGTT
*
44078095 ATGACCGAAATACCCCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078122 ATGACCAAAATA-ACCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
*** *
44078148 ATGAAAAAAATTCCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
44078175 ATGACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078202 ATGACCGAATTACCCTCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078229 ATGACCGAAATACCTCTATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
*
44078256 ATGATCGAAATA--CCC-----GTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078276 ATGATCGAAACACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078303 ATGATCGAATTACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
*
44078330 ATGACCGAATTA-CCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
44078356 ATGATCGAATTACCCCCATAGGGTCGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078383 ATGACCGAATTACCCCTATAGGGTA-A
1 ATGACCGAAATACCCCCATAGGGTAGA
44078409 ATGACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
44078436 ATGATCGAATTACCCCCATAGCGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * * *
44078463 ATGACCAAAATATCCCCATAGGGCATA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078490 ATGACTGAAATACCCTCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078517 ATGA-CGAAAAACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * ** *
44078543 ATGGCCGAAATATCTACATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
*
44078570 ATGATCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078597 ATGACTGAAATACCCCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAGA
* * *
44078624 ATGACTGAAATACCCTCACAGGGTA-A
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078650 AGTGATCGAAATACCCCCATAGGGTAAA
1 A-TGACCGAAATACCCCCATAGGGTAGA
* * *
44078678 ATGACCGAAATACCCCTATCGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
* *
44078705 ATGACCGAAATACTCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
** * *
44078732 ATGATTGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAGA
44078759 ATGA
1 ATGA
44078763 TTGTTATACC
Statistics
Matches: 546, Mismatches: 82, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
20 16 0.03
22 3 0.01
25 1 0.00
26 93 0.17
27 431 0.79
28 2 0.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAGA
Found at i:44078276 original size:20 final size:20
Alignment explanation
Indices: 44078251--44078290 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44078241 CCTCTATAGG
*
44078251 GTAGAATGATCGAAATACCC
1 GTAGAATGATCGAAACACCC
44078271 GTAGAATGATCGAAACACCC
1 GTAGAATGATCGAAACACCC
44078291 CCATAGGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
GTAGAATGATCGAAACACCC
Found at i:44078385 original size:80 final size:81
Alignment explanation
Indices: 44078271--44078763 Score: 573
Period size: 80 Copynumber: 6.1 Consensus size: 81
44078261 CGAAATACCC
* * *
44078271 GTAGAATGATCGAAACACCCCCATAGGGTAGAATGATCGAATTACCCCCATAGGGTAGAATGACC
1 GTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACC
*
44078336 GAATTA-CCCCATAGG
66 GAAATACCCCCATAGG
* * * *
44078351 GTAGAATGATCGAATTACCCCCATAGGGTCGAATGACCGAATTACCCCTATAGGGTA-AATGACC
1 GTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACC
44078415 GAAATACCCCCATAGG
66 GAAATACCCCCATAGG
* * * * * * *
44078431 GTAGAATGATCGAATTACCCCCATAGCGTAGAATGACCAAAATATCCCCATAGGGCATAATGACT
1 GTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACC
*
44078496 GAAATACCCTCATAGG
66 GAAATACCCCCATAGG
* * * * ** * *
44078512 GTAGAATGA-CGAAAAACCCCCATAGGGTAAAATGGCCGAAATATCTACATAGGGTAAAATGATC
1 GTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACC
44078576 GAAATACCCCCATAGG
66 GAAATACCCCCATAGG
* * * *
44078592 GTAGAATGA-CTGAAATACCCCCATAAGGTAGAATGACTGAAATACCCTCACAGGGTA-AAGTGA
1 GTAGAATGATC-GAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAA-TGA
*
44078655 TCGAAATACCCCCATAGG
64 CCGAAATACCCCCATAGG
* * * * * * * **
44078673 GTAAAATGACCGAAATACCCCTATCGGGTAAAATGACCGAAATACTCCCATAGGGTAAAATGATT
1 GTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACC
*
44078738 GAAATACCCTCATAGG
66 GAAATACCCCCATAGG
*
44078754 GTAAAATGAT
1 GTAGAATGAT
44078764 TGTTATACCC
Statistics
Matches: 358, Mismatches: 49, Indels: 11
0.86 0.12 0.03
Matches are distributed among these distances:
79 12 0.03
80 181 0.51
81 162 0.45
82 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (81 bp):
GTAGAATGATCGAAATACCCCCATAGGGTAGAATGACCGAAATACCCCCATAGGGTAGAATGACC
GAAATACCCCCATAGG
Found at i:44079201 original size:28 final size:28
Alignment explanation
Indices: 44079159--44079248 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
44079149 ATTGTACTGA
44079159 TTACTGTATTAGGCTAAGGCCCACATTG
1 TTACTGTATTAGGCTAAGGCCCACATTG
* *
44079187 TTACTGTATTGGGCTAAGGCCCACATTA
1 TTACTGTATTAGGCTAAGGCCCACATTG
*
44079215 TTACTGTATTAGGCTAAAGCCCACATTG
1 TTACTGTATTAGGCTAAGGCCCACATTG
44079243 -TACTGT
1 TTACTGT
44079249 TACTGAGTAG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 6 0.11
28 51 0.89
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (28 bp):
TTACTGTATTAGGCTAAGGCCCACATTG
Found at i:44086427 original size:16 final size:17
Alignment explanation
Indices: 44086406--44086442 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
44086396 TAATAAACTC
*
44086406 ATATTTTAAATTT-TCA
1 ATATTTCAAATTTATCA
44086422 ATATTTCAAATTTATCA
1 ATATTTCAAATTTATCA
44086439 ATAT
1 ATAT
44086443 AATTCGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTCAAATTTATCA
Found at i:44089095 original size:30 final size:30
Alignment explanation
Indices: 44089061--44089136 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
44089051 CATAATTATG
* * *
44089061 CCACAATGGCTCATATATATCAAGTTCTCA
1 CCACAAAGGCTCACATATAACAAGTTCTCA
**
44089091 CCACAAAGGCTCACATATAACAAGTTCTTG
1 CCACAAAGGCTCACATATAACAAGTTCTCA
*
44089121 CCACAAGGGCTCACAT
1 CCACAAAGGCTCACAT
44089137 GTTAGATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (30 bp):
CCACAAAGGCTCACATATAACAAGTTCTCA
Found at i:44093020 original size:3 final size:3
Alignment explanation
Indices: 44093014--44093059 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
44093004 GCTAGGTAGT
* *
44093014 AGA AGA AGA AG- AGG AGA AGA AGA AGA GGA A-A AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
44093060 GAAACCAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:44093062 original size:14 final size:14
Alignment explanation
Indices: 44093014--44093053 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
44093004 GCTAGGTAGT
44093014 AGAAGAAGAAGAGG
1 AGAAGAAGAAGAGG
44093028 AGAAGAAGAAGAGG
1 AGAAGAAGAAGAGG
*
44093042 AAAAGAAGAAGA
1 AGAAGAAGAAGA
44093054 AGAAGAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAGAGG
Found at i:44094604 original size:149 final size:149
Alignment explanation
Indices: 44094334--44094638 Score: 565
Period size: 149 Copynumber: 2.0 Consensus size: 149
44094324 AAGAAGTCAG
44094334 TTTGACTATCTAATTCCATAATCCTTGTCGTCTTACGACCACCACGTTTTTAGTATGAATCAGCT
1 TTTGACTATCTAATTCCATAATCCTTGTCGTCTTACGACCACCACGTTTTTAGTATGAATCAGCT
* * *
44094399 AAGGCATGCTTTGAAATGACTCGTTTAAGGTCGAGCATTAAATAGTATAAAGTAAGAAATTGAGG
66 AAGGCATGATTTGAAATGACTCGTTTAAGGTCGAACATTAAATAATATAAAGTAAGAAATTGAGG
44094464 TCTGATGTTGAGGACTCAC
131 TCTGATGTTGAGGACTCAC
44094483 TTTGACTATCTAATTCCATAATCCTTGTCGTCTTACGACCACCACGTTTTTAGTATGAATCAGCT
1 TTTGACTATCTAATTCCATAATCCTTGTCGTCTTACGACCACCACGTTTTTAGTATGAATCAGCT
* *
44094548 CAGGCATTATTTGAAATGACTCGTTTAAGGTCGAACATTAAATAATATAAAGTAAGAAATTGAGG
66 AAGGCATGATTTGAAATGACTCGTTTAAGGTCGAACATTAAATAATATAAAGTAAGAAATTGAGG
44094613 TCTGATGTTGAGGACTCAC
131 TCTGATGTTGAGGACTCAC
44094632 TTTGACT
1 TTTGACT
44094639 CGTTCAATCT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (149 bp):
TTTGACTATCTAATTCCATAATCCTTGTCGTCTTACGACCACCACGTTTTTAGTATGAATCAGCT
AAGGCATGATTTGAAATGACTCGTTTAAGGTCGAACATTAAATAATATAAAGTAAGAAATTGAGG
TCTGATGTTGAGGACTCAC
Found at i:44112276 original size:29 final size:25
Alignment explanation
Indices: 44112214--44112264 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
44112204 ATAGTGAGGG
*
44112214 AAAGAACAAGGGGCGGCAAACACAA
1 AAAGAACAAGGGGCAGCAAACACAA
*
44112239 AAAGAACAAGGGGCAGCAAGCACAA
1 AAAGAACAAGGGGCAGCAAACACAA
44112264 A
1 A
44112265 CTTGAAGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.53, C:0.20, G:0.27, T:0.00
Consensus pattern (25 bp):
AAAGAACAAGGGGCAGCAAACACAA
Found at i:44113843 original size:33 final size:33
Alignment explanation
Indices: 44113805--44113910 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 33
44113795 TAGCTTACTT
* * *
44113805 ATCATTGCGGCTCGCACATTACATAACTTGCAT
1 ATCATTGCGGCTCGCACATTACACAACTCGCAC
* **
44113838 GTCATTGCAGG-TTACACATTACACAACTCGCAC
1 ATCATTGC-GGCTCGCACATTACACAACTCGCAC
* * *
44113871 ACCATTGTGACTCGCACATTACACAACTCAG-AC
1 ATCATTGCGGCTCGCACATTACACAACTC-GCAC
44113904 ATCATTG
1 ATCATTG
44113911 TTATATACAT
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
32 1 0.02
33 53 0.93
34 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (33 bp):
ATCATTGCGGCTCGCACATTACACAACTCGCAC
Found at i:44116187 original size:18 final size:19
Alignment explanation
Indices: 44116166--44116202 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44116156 AATTTTGGAA
44116166 TGGAAAGAAGAG-AGAAAG
1 TGGAAAGAAGAGAAGAAAG
*
44116184 TGGAGAGAAGAGAAGAAAG
1 TGGAAAGAAGAGAAGAAAG
44116203 ATGCGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAAGAAAG
Found at i:44116628 original size:22 final size:22
Alignment explanation
Indices: 44116586--44116630 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
44116576 TTATTAATGC
*
44116586 AAATTAAATTTTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
44116608 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATA-TATAAATTA
44116630 A
1 A
44116631 TAAATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:44120438 original size:30 final size:31
Alignment explanation
Indices: 44120380--44120442 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
44120370 GCTTTTTGAA
* *
44120380 AATATTTACAAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAAGAGGCAACAAATTTTT
44120411 AATATTTAC-AAAAAGA-GCAAACAAATTTTT
1 AATATTTACAAAAAAGAGGC-AACAAATTTTT
44120441 AA
1 AA
44120443 AAATAATCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 18 0.62
31 9 0.31
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.32
Consensus pattern (31 bp):
AATATTTACAAAAAAGAGGCAACAAATTTTT
Found at i:44124725 original size:79 final size:79
Alignment explanation
Indices: 44124594--44124750 Score: 287
Period size: 79 Copynumber: 2.0 Consensus size: 79
44124584 ATACAAAAAT
* *
44124594 TGAGTTTATAAGAAAGATAACCTAAGTGCATTAGGATGTATTTACTATAGTCAGAATTGCATGAA
1 TGAGTTTAGAAGAAAGATAACCTAAGTGCATTAGGAGGTATTTACTATAGTCAGAATTGCATGAA
44124659 TATTTAGGATTTTC
66 TATTTAGGATTTTC
*
44124673 TGAGTTTAGAAGAAAGATAACCTAAGTGCATTAGGAGGTATTTATTATAGTCAGAATTGCATGAA
1 TGAGTTTAGAAGAAAGATAACCTAAGTGCATTAGGAGGTATTTACTATAGTCAGAATTGCATGAA
44124738 TATTTAGGATTTT
66 TATTTAGGATTTT
44124751 TTATAATTAG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (79 bp):
TGAGTTTAGAAGAAAGATAACCTAAGTGCATTAGGAGGTATTTACTATAGTCAGAATTGCATGAA
TATTTAGGATTTTC
Found at i:44134016 original size:40 final size:40
Alignment explanation
Indices: 44133946--44134203 Score: 258
Period size: 40 Copynumber: 6.5 Consensus size: 40
44133936 AAATCACGTA
* * * * *
44133946 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTAAAAATG
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATG
* * *
44133985 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATG
* *
44134025 CCTTCGGGACTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
44134065 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
* * *
44134105 CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
** * * * *
44134144 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATG
*
44134184 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
44134204 CATCATTCAA
Statistics
Matches: 187, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 45 0.24
40 127 0.68
41 13 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
Done.