Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 218 of 295
Found at i:75187206 original size:40 final size:40
Alignment explanation
Indices: 75187102--75187370 Score: 382
Period size: 40 Copynumber: 6.8 Consensus size: 40
75187092 GAGAATTGAG
*
75187102 AGTGATATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
75187141 AGTGATGTAT-CGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
75187180 AGTGATATATCCGGGCTATGTCCCGAAGAGTATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
75187220 AGTGATGTATTCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
75187260 AGTGATGTATTCGAACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
75187300 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
75187340 GGTGTTATATCCGGGCTAGGT-CCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
75187371 ATCATGCTGG
Statistics
Matches: 210, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
38 1 0.00
39 55 0.26
40 154 0.73
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:75187587 original size:25 final size:25
Alignment explanation
Indices: 75187546--75187597 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
75187536 TGTGTAATAA
75187546 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
75187571 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
75187596 TG
1 TG
75187598 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:75191449 original size:47 final size:47
Alignment explanation
Indices: 75191395--75191541 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
75191385 TTAGGATTTT
** * *
75191395 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
75191442 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
75191489 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
75191536 ATGTGA
1 ATGTGA
75191542 AATATGTATG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:75191497 original size:25 final size:25
Alignment explanation
Indices: 75191424--75191497 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
75191414 GTATATATGA
*
75191424 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
75191449 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
75191471 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
75191496 GA
1 GA
75191498 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:75191670 original size:98 final size:96
Alignment explanation
Indices: 75191512--75191695 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
75191502 GAACATGCAT
*
75191512 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
75191577 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
75191608 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAAATGTATATGTGGTAAAGC
*
75191672 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
75191696 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 52 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:75191711 original size:50 final size:48
Alignment explanation
Indices: 75191511--75191695 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
75191501 TGAACATGCA
*
75191511 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
75191559 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
75191607 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
75191657 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
75191696 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:75193123 original size:47 final size:47
Alignment explanation
Indices: 75193054--75193143 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
75193044 ACTATCCATG
*
75193054 GTCTAATTACAACATAAGGACCTTTCATTTAATAAGTCATGGCAATT
1 GTCTAATTACAACATAAGGACCTTTCATTTAACAAGTCATGGCAATT
75193101 GTCTAATTACAACATAAGGACCTTTCATTTAACAAGTCATGGC
1 GTCTAATTACAACATAAGGACCTTTCATTTAACAAGTCATGGC
75193144 GATTAAGCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (47 bp):
GTCTAATTACAACATAAGGACCTTTCATTTAACAAGTCATGGCAATT
Found at i:75196679 original size:48 final size:50
Alignment explanation
Indices: 75196502--75196682 Score: 201
Period size: 50 Copynumber: 3.7 Consensus size: 50
75196492 AGGGATATAT
* * * *
75196502 GAGAGCTAGTATAAGACCATGTCTGGGACATGGCAT-TGACAC-CGATAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-C-CTCGATAGAC
* *
75196552 AAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATAGAC
* * *
75196602 GAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAG-TTTGAT-GA-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGATAGAC
* *
75196650 GTGAGCCAGTGTAAGACCATGTCCGGGACATGG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGG
75196683 TGTTGGCACC
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
48 30 0.26
49 2 0.02
50 79 0.69
51 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (50 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATAGAC
Found at i:75203015 original size:50 final size:48
Alignment explanation
Indices: 75202936--75203119 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 48
75202926 TGCTAGGGAT
75202936 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG
* *
75202984 AGGTATGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCACCG
1 A--TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG
* * * ** * *
75203034 ATAATAAGAGCTAGTGTAAGACCATTTTTGGGACATGGCATCAACTTTG
1 AT-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG
* * *
75203083 ATGTGTGAGCTAGTGTAAGACCATGTCCGGGACATGG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGG
75203120 TGTTGGCACC
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
48 31 0.26
49 40 0.34
50 46 0.39
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (48 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG
Found at i:75209916 original size:43 final size:43
Alignment explanation
Indices: 75209846--75209959 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
75209836 TCACACATCG
* * **
75209846 ATGCCACTATCCCAGACA-GGATCTTACACGAAATCT-TTTAACA
1 ATGCCAATGTCCCAGACATGG-TCTTACACGAAATCTCAAT-ACA
* *
75209889 ATTCCAATGTCCCAGACATGGTCTTACACGTAATCTCAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATACA
75209932 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
75209960 TGTAATCACA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 59 0.95
44 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATACA
Found at i:75214027 original size:42 final size:42
Alignment explanation
Indices: 75213975--75214091 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
75213965 GGACTACCGA
* *
75213975 GATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT-AT
1 GATTTCGTATAAGACCATATC-GGGATATGGCATCGATATGAT
* * * *
75214017 GATTTCGTATAAGACCATGTCAGGACATGGAATCGATATGAT
1 GATTTCGTATAAGACCATATCGGGATATGGCATCGATATGAT
* *
75214059 -ATTTCATGTAAGACCATATCCGGGATATGGCAT
1 GATTTCGTATAAGACCATAT-CGGGATATGGCAT
75214092 TGACACGGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 30 0.49
42 31 0.51
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
GATTTCGTATAAGACCATATCGGGATATGGCATCGATATGAT
Found at i:75221079 original size:30 final size:30
Alignment explanation
Indices: 75221045--75221355 Score: 247
Period size: 30 Copynumber: 10.4 Consensus size: 30
75221035 TCACTGGCCA
75221045 ATGAAAAGGGATAGCTTCGACTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * * *
75221075 ATGAAAATGAATAGCTTCAACTATTGAATA
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * *
75221105 ATGAAAAGGGATAACTTCAACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * *
75221135 ATGAAAATGGAT-GGTAACGACCATC-AATT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* * * *
75221164 ATGAAAAGGGAT-GGTGACGACCATCAAATT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* * *
75221194 ATGAAAATGGATAGCTTCGGCTATTGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * *
75221224 ATGAAAAGGGATATCTTCGGCTACCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * *
75221254 ATGAAAAGGGAT-GGTGACGAAC-ATCGGATT
1 ATGAAAAGGGATAGCT-TCG-ACTATCGAATT
** ** *
75221284 ATGAAAATAGATAGCTTCGAAAATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* *
75221314 ATGAAAAGGGATATCTTC-AGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATT
75221344 ATGAAAAGGGAT
1 ATGAAAAGGGAT
75221356 GGTGACAACC
Statistics
Matches: 225, Mismatches: 48, Indels: 16
0.78 0.17 0.06
Matches are distributed among these distances:
29 31 0.14
30 189 0.84
31 5 0.02
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATT
Found at i:75221175 original size:29 final size:30
Alignment explanation
Indices: 75221127--75221205 Score: 133
Period size: 29 Copynumber: 2.7 Consensus size: 30
75221117 AACTTCAACT
75221127 ATCAAATTATGAAAATGGATGGTAACGACC
1 ATCAAATTATGAAAATGGATGGTAACGACC
* *
75221157 ATC-AATTATGAAAAGGGATGGTGACGACC
1 ATCAAATTATGAAAATGGATGGTAACGACC
75221186 ATCAAATTATGAAAATGGAT
1 ATCAAATTATGAAAATGGAT
75221206 AGCTTCGGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 27 0.60
30 18 0.40
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (30 bp):
ATCAAATTATGAAAATGGATGGTAACGACC
Found at i:75221272 original size:90 final size:90
Alignment explanation
Indices: 75221160--75221368 Score: 301
Period size: 90 Copynumber: 2.3 Consensus size: 90
75221150 AACGACCATC
* *** **
75221160 AATTATGAAAAGGGATGGTGACGACCATCAAATTATGAAAATGGATAGCTTCGGCTATTGAATTA
1 AATTATGAAAAGGGATGGTGACGACCATCAAATTATGAAAATAGATAGCTTCGAAAATCAAATTA
* *
75221225 TGAAAAGGGATATCTTCGGCTACCG
66 TGAAAAGGGATATCTTCAGCTACCA
* **
75221250 AATTATGAAAAGGGATGGTGACGAACATCGGATTATGAAAATAGATAGCTTCGAAAATCAAATTA
1 AATTATGAAAAGGGATGGTGACGACCATCAAATTATGAAAATAGATAGCTTCGAAAATCAAATTA
*
75221315 TGAAAAGGGATATCTTCAGCTATCA
66 TGAAAAGGGATATCTTCAGCTACCA
*
75221340 AATTATGAAAAGGGATGGTGACAACCATC
1 AATTATGAAAAGGGATGGTGACGACCATC
75221369 GTGATTTTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 105 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (90 bp):
AATTATGAAAAGGGATGGTGACGACCATCAAATTATGAAAATAGATAGCTTCGAAAATCAAATTA
TGAAAAGGGATATCTTCAGCTACCA
Found at i:75222838 original size:46 final size:46
Alignment explanation
Indices: 75222782--75222953 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
75222772 ATTCCGTAGT
*
75222782 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCCCAAGGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCACAAGGA
* * * * *
75222828 TGATGCATGTCCCTGATATGTCTTACACTAG--TACTCGTCTCAA-TA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTA--CGTCACAAGGA
* * * * * *
75222873 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATATGGC
1 -CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACGTCACAAGGA
*
75222922 CAATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
75222954 CCACAATAAC
Statistics
Matches: 99, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 51 0.52
47 26 0.26
48 18 0.18
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCACAAGGA
Found at i:75235739 original size:26 final size:25
Alignment explanation
Indices: 75235710--75235819 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 25
75235700 TGGTACAAAT
75235710 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTC-A
75235736 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
75235762 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
* *
75235788 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAAT-GTTCA
75235814 TGATAA
1 TGATAA
75235820 GAATTTCATG
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
26 76 0.96
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:75237472 original size:27 final size:27
Alignment explanation
Indices: 75237431--75237543 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
75237421 GAGGAAGCGT
*
75237431 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
75237458 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
75237485 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
75237513 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
75237539 TCTGG
1 TCTGG
75237544 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:75237536 original size:54 final size:54
Alignment explanation
Indices: 75237429--75237543 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
75237419 TGGAGGAAGC
*
75237429 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
75237483 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
75237537 GTTCTGG
1 GTTCTGG
75237544 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:75241514 original size:20 final size:21
Alignment explanation
Indices: 75241491--75241539 Score: 55
Period size: 25 Copynumber: 2.2 Consensus size: 21
75241481 TTTATGGTAC
75241491 AAAT-TGATAATAGGTTAGGT
1 AAATATGATAATAGGTTAGGT
75241511 AAATGTTCATGATAATAGGTTAGGT
1 AAA---T-ATGATAATAGGTTAGGT
75241536 AAAT
1 AAAT
75241540 GTTCCATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
20 3 0.12
22 1 0.04
23 1 0.04
25 19 0.79
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (21 bp):
AAATATGATAATAGGTTAGGT
Found at i:75241557 original size:26 final size:26
Alignment explanation
Indices: 75241495--75241603 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
75241485 TGGTACAAAT
75241495 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
75241520 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
75241546 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
75241572 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
75241598 TGATAA
1 TGATAA
75241604 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:75243106 original size:26 final size:28
Alignment explanation
Indices: 75243040--75243115 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 28
75243030 GAAAGTAGCT
* *
75243040 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTATGTATGCA
* *
75243068 AAATTACTGTTATACCCCTA-G-GTGCA
1 AAATTACTATTATACCCCTATGTATGCA
* *
75243094 AAATTACCATTATACCCGTATG
1 AAATTACTATTATACCCCTATG
75243116 GTTAATTTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 20 0.50
27 2 0.05
28 18 0.45
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (28 bp):
AAATTACTATTATACCCCTATGTATGCA
Found at i:75243259 original size:27 final size:27
Alignment explanation
Indices: 75243218--75243330 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
75243208 GAGGAAGCGT
* *
75243218 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGACTCTGCCACAAATATCTGA
* *
75243245 TCTGGTGACTCTGCCACATATATCTGT
1 TCTGGTGACTCTGCCACAAATATCTGA
* * * *
75243272 TATGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGACTCTGCCACAAATATCTG-A
* * *
75243300 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGACTCTGCCACAAATATCTGA
75243326 TCTGG
1 TCTGG
75243331 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.73
28 14 0.20
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGACTCTGCCACAAATATCTGA
Found at i:75243323 original size:54 final size:54
Alignment explanation
Indices: 75243220--75243326 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
75243210 GGAAGCGTTC
75243220 TGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTTA
1 TGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTTA
* * * *
75243274 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
75243327 CTGGCAGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 29 0.60
55 19 0.40
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTTA
Found at i:75244652 original size:51 final size:53
Alignment explanation
Indices: 75244593--75244734 Score: 198
Period size: 54 Copynumber: 2.7 Consensus size: 53
75244583 AAAAAAAAAA
*
75244593 TTTGGGTGCTGGGCACTTATTGGCCGGCACTAGAGTAAAA-AAATTT-ATTTT
1 TTTGGGTGCTGGGCACTTATTGGCCGGCACTAGAGTAAAACAAATTTAAATTT
** * *
75244644 TTTGGGTGCTGGGCACTTATTGGCTTGCACCAGAGCAAAAACAAATTTAAATTT
1 TTTGGGTGCTGGGCACTTATTGGCCGGCACTAGAG-TAAAACAAATTTAAATTT
* *
75244698 TTTGGGTGCTGGGCACATATTTGCCGGCACTAGAGTA
1 TTTGGGTGCTGGGCACTTATTGGCCGGCACTAGAGTA
75244735 CTTTTTTGTG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 32 0.42
52 4 0.05
53 7 0.09
54 34 0.44
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (53 bp):
TTTGGGTGCTGGGCACTTATTGGCCGGCACTAGAGTAAAACAAATTTAAATTT
Found at i:75248457 original size:21 final size:21
Alignment explanation
Indices: 75248408--75248457 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
75248398 TTGCCTAAAA
*
75248408 TATAAATTGGATTAAATTGAG
1 TATAAATTGCATTAAATTGAG
*
75248429 TATGAATTGCATTAAATTGATG
1 TATAAATTGCATTAAATTGA-G
75248451 T-TAAATT
1 TATAAATT
75248458 TACTCGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (21 bp):
TATAAATTGCATTAAATTGAG
Found at i:75252908 original size:22 final size:22
Alignment explanation
Indices: 75252880--75252922 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
75252870 TATTAGGGTC
75252880 ATTTAAATTTTTT-TCATATTTT
1 ATTTAAATTTTTTGTCA-ATTTT
75252902 ATTTAAATTTTTTGTCAATTT
1 ATTTAAATTTTTTGTCAATTT
75252923 AAATATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTTAAATTTTTTGTCAATTTT
Found at i:75253180 original size:18 final size:16
Alignment explanation
Indices: 75253153--75253190 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 16
75253143 ATTCATTCCA
75253153 ATTTCATTTCCATTGTC
1 ATTTCATTTCCATT-TC
75253170 ATTTCCATTTCCATTTC
1 ATTT-CATTTCCATTTC
75253187 ATTT
1 ATTT
75253191 AAATTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.18, C:0.24, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTCATTTCCATTTC
Found at i:75253184 original size:12 final size:11
Alignment explanation
Indices: 75253144--75253190 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
75253134 TTTTTTTCAA
75253144 TTCA-TTCCAAT
1 TTCATTTCC-AT
75253155 TTCATTTCCAT
1 TTCATTTCCAT
75253166 TGTCATTTCCAT
1 T-TCATTTCCAT
75253178 TTCCATTT-CAT
1 TT-CATTTCCAT
75253189 TT
1 TT
75253191 AAATTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 13 0.39
12 20 0.61
ACGTcount: A:0.19, C:0.26, G:0.02, T:0.53
Consensus pattern (11 bp):
TTCATTTCCAT
Found at i:75253213 original size:21 final size:21
Alignment explanation
Indices: 75253183--75253232 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
75253173 TCCATTTCCA
*
75253183 TTTCATTTAAA-TTATTTTTT
1 TTTCATTTAAATTTAATTTTT
75253203 TTTCAATTTAAATTTAATTTTT
1 TTTC-ATTTAAATTTAATTTTT
*
75253225 TCTCATTT
1 TTTCATTT
75253233 CATATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 11 0.42
22 11 0.42
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTCATTTAAATTTAATTTTT
Found at i:75253233 original size:27 final size:26
Alignment explanation
Indices: 75253177--75253290 Score: 72
Period size: 27 Copynumber: 4.8 Consensus size: 26
75253167 GTCATTTCCA
75253177 TTTC-CATTTCATTTAAA-TT-A-TT
1 TTTCTCATTTCATTTAAATTTAATTT
75253199 TTT-T--TTTCAATTTAAATTTAATTT
1 TTTCTCATTTC-ATTTAAATTTAATTT
* *
75253223 TTTCTCATTTCATAT-AATTT-A-TC
1 TTTCTCATTTCATTTAAATTTAATTT
* ** *
75253246 TATCT--TCCCATTTTAATTTAATTT
1 TTTCTCATTTCATTTAAATTTAATTT
75253270 TTTCTTCATTTCATTTAAATT
1 TTTC-TCATTTCATTTAAATT
75253291 ATCTATCTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 23
0.66 0.11 0.23
Matches are distributed among these distances:
20 4 0.06
21 12 0.18
22 10 0.15
23 7 0.10
24 10 0.15
25 7 0.10
26 3 0.04
27 14 0.21
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTCTCATTTCATTTAAATTTAATTT
Found at i:75253280 original size:48 final size:47
Alignment explanation
Indices: 75253177--75253568 Score: 380
Period size: 48 Copynumber: 8.2 Consensus size: 47
75253167 GTCATTTCCA
* * * *
75253177 TTTC-CATTTCATTTAAATTATTTTTTTTTCAATTTAAATTTAATTT
1 TTTCTCATTTCATTTAAATTATCTATCTTTCCATTTAAATTTAATTT
* * * *
75253223 TTTCTCATTTCATATAATTTATCTATCTTCCCATTTTAATTTAATTT
1 TTTCTCATTTCATTTAAATTATCTATCTTTCCATTTAAATTTAATTT
* **
75253270 TTTCTTCATTTCATTTAAATTATCTATCTTTCTATGCAAATTTAATTTT
1 TTTC-TCATTTCATTTAAATTATCTATCTTTCCATTTAAATTTAA-TTT
* * * *
75253319 TTTCTAATTTCATTTAAATTTAATTTTTTCCTCATTTCATTTAAATTTATATTT
1 TTTCTCATTTCATTTAAA-TT-A-TCTAT-CT--TTCCATTTAAATTTA-ATTT
* * ** *
75253373 TTTCTCATTTCATTTACATTATTTATCTTTCCATGCAAATTTATTTT
1 TTTCTCATTTCATTTAAATTATCTATCTTTCCATTTAAATTTAATTT
*
75253420 TATTCTCATTTCATTTAAATTATATATCTTTCC-TTGTAAATTTAAATTT
1 T-TTCTCATTTCATTTAAATTATCTATCTTTCCATT-TAAATTT-AATTT
* * * *
75253469 TTTCTCAATTCATTTATATTAT-T-TTTTTTCATTTAAATTT-ATTT
1 TTTCTCATTTCATTTAAATTATCTATCTTTCCATTTAAATTTAATTT
* * *
75253513 TTTCTTATTTCATTTAAATTATCTATCTTTCCATGTAATTTTAATTTT
1 TTTCTCATTTCATTTAAATTATCTATCTTTCCATTTAAATTTAA-TTT
75253561 TTTCTCAT
1 TTTCTCAT
75253569 ACCATTTATC
Statistics
Matches: 282, Mismatches: 46, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
44 23 0.08
45 1 0.00
46 29 0.10
47 47 0.17
48 122 0.43
49 14 0.05
50 3 0.01
51 7 0.02
52 3 0.01
53 2 0.01
54 30 0.11
55 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (47 bp):
TTTCTCATTTCATTTAAATTATCTATCTTTCCATTTAAATTTAATTT
Found at i:75253316 original size:75 final size:73
Alignment explanation
Indices: 75253237--75253464 Score: 200
Period size: 75 Copynumber: 3.0 Consensus size: 73
75253227 TCATTTCATA
* *
75253237 TAATTTATCTATCTTCCCATTTTAATTTAATTTTTTCTTCATTTCATTTAAATTATCTATCTTTC
1 TAATTTATCTATCTT-CCATTTAAATTTAATTTTTTC-TCATTTCATTTAAATTATATATCTTTC
75253302 TATGCAAATT
64 TATGCAAATT
* *
75253312 TAATTTTTTTCTAAT-TT-CATTTAAATTTAATTTTTTCCTCATTTCATTTAAATT-TATATTTT
1 TAA--TTTATCT-ATCTTCCATTTAAATTTAATTTTTT-CTCATTTCATTTAAATTATATA-TCT
*
75253374 TTCTCATTTC--ATT
61 TTCT-A-TGCAAATT
* ** *
75253387 TACA-TTATTTATCTTTCCATGCAAATTTATTTTTATTCTCATTTCATTTAAATTATATATCTTT
1 TA-ATTTATCTATC-TTCCATTTAAATTTAATTTT-TTCTCATTTCATTTAAATTATATATCTTT
*
75253451 CCT-TGTAAATT
63 -CTATGCAAATT
75253462 TAA
1 TAA
75253465 ATTTTTTCTC
Statistics
Matches: 124, Mismatches: 13, Indels: 33
0.73 0.08 0.19
Matches are distributed among these distances:
72 2 0.02
73 5 0.04
74 6 0.05
75 88 0.71
76 11 0.09
77 10 0.08
78 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.01, T:0.57
Consensus pattern (73 bp):
TAATTTATCTATCTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATATATCTTTCTA
TGCAAATT
Found at i:75253337 original size:27 final size:27
Alignment explanation
Indices: 75253307--75253440 Score: 131
Period size: 27 Copynumber: 5.2 Consensus size: 27
75253297 CTTTCTATGC
*
75253307 AAATTTAATTTTTTTCTAATTTCATTT
1 AAATTTAATTTTTTTCTCATTTCATTT
*
75253334 AAATTTAATTTTTTCCTCATTTCATTT
1 AAATTTAATTTTTTTCTCATTTCATTT
75253361 AAATTT-ATATTTTTTCTCATTTCATTT
1 AAATTTAAT-TTTTTTCTCATTTCATTT
* * * **
75253388 ACA-TT-A--TTTATCT--TTCCATGC
1 AAATTTAATTTTTTTCTCATTTCATTT
75253409 AAATTT-ATTTTTATTCTCATTTCATTT
1 AAATTTAATTTTT-TTCTCATTTCATTT
75253436 AAATT
1 AAATT
75253441 ATATATCTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
21 7 0.08
22 3 0.03
23 6 0.07
24 3 0.03
25 3 0.03
26 5 0.06
27 60 0.69
ACGTcount: A:0.28, C:0.13, G:0.01, T:0.59
Consensus pattern (27 bp):
AAATTTAATTTTTTTCTCATTTCATTT
Found at i:75253385 original size:102 final size:102
Alignment explanation
Indices: 75253254--75253440 Score: 297
Period size: 102 Copynumber: 1.8 Consensus size: 102
75253244 TCTATCTTCC
* *
75253254 CATTTTAATTTAATTTTTTCTTCATTTCATTTAAATTATCTATCTTTCTATGCAAATTTAATTTT
1 CATTTAAATTTAATTTTTTCTTCATTTCATTTAAATTATCTATCTTTCCATGCAAATTT-ATTTT
75253319 T-TTCTAATTTCATTTAAATTTAATTTTTTCCTCATTT
65 TATTCTAATTTCATTTAAATTTAATTTTTTCCTCATTT
* *
75253356 CATTTAAATTTATATTTTTTC-TCATTTCATTTACATTATTTATCTTTCCATGCAAATTTATTTT
1 CATTTAAATTTA-ATTTTTTCTTCATTTCATTTAAATTATCTATCTTTCCATGCAAATTTATTTT
*
75253420 TATTCTCATTTCATTTAAATT
65 TATTCTAATTTCATTTAAATT
75253441 ATATATCTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
101 6 0.08
102 64 0.82
103 8 0.10
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.59
Consensus pattern (102 bp):
CATTTAAATTTAATTTTTTCTTCATTTCATTTAAATTATCTATCTTTCCATGCAAATTTATTTTT
ATTCTAATTTCATTTAAATTTAATTTTTTCCTCATTT
Found at i:75253448 original size:150 final size:140
Alignment explanation
Indices: 75253184--75253568 Score: 456
Period size: 150 Copynumber: 2.7 Consensus size: 140
75253174 CCATTTCCAT
*
75253184 TTCATTTAAATTATTTTTTTTTCAATTTAAATTTA-ATTTTTTCTCATTTCATATAATTTATCTA
1 TTCATTTAAATTA-TTTTTTTTC-ATTTAAATTTATATTTTTTCTCATTTCATTTAA-TTATCTA
* * * * *
75253248 TCTTCCCATTTTAATTTAATTTTTTCTTCATTTCATTTAAATTATCTATCTTT-CTATGCAAATT
63 TCTTTCCATGTAAATTTATTTTTTTC-TCATTTCATTTAAATTATATATCTTTCCT-TGCAAATT
*
75253312 TAATTTTTTTCT-AA
126 TAAATTTTTTCTCAA
75253326 TTTCATTTAAATTTAATTTTTTCCTCATTTCATTTAAATTTATATTTTTTCTCATTTCATTTACA
1 -TTCATTTAAA-TT-A--TTTT--T--TTTCATTTAAATTTATATTTTTTCTCATTTCATTTA-A
* *
75253391 TTATTTATCTTTCCATGCAAATTTATTTTTATTCTCATTTCATTTAAATTATATATCTTTCCTTG
56 TTATCTATCTTTCCATGTAAATTTATTTTT-TTCTCATTTCATTTAAATTATATATCTTTCCTTG
*
75253456 TAAATTTAAATTTTTTCTCAA
120 CAAATTTAAATTTTTTCTCAA
* *
75253477 TTCATTTATATTATTTTTTTTCATTTAAA-TT-TATTTTTTCTTATTTCATTTAAATTATCTATC
1 TTCATTTAAATTATTTTTTTTCATTTAAATTTATATTTTTTCTCATTTCATTT-AATTATCTATC
*
75253540 TTTCCATGTAATTTTAATTTTTTTCTCAT
65 TTTCCATGTAAATTT-ATTTTTTTCTCAT
75253569 ACCATTTATC
Statistics
Matches: 213, Mismatches: 15, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
140 48 0.23
141 9 0.04
142 11 0.05
143 10 0.05
144 3 0.01
145 1 0.00
146 9 0.04
148 2 0.01
149 13 0.06
150 99 0.46
151 8 0.04
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (140 bp):
TTCATTTAAATTATTTTTTTTCATTTAAATTTATATTTTTTCTCATTTCATTTAATTATCTATCT
TTCCATGTAAATTTATTTTTTTCTCATTTCATTTAAATTATATATCTTTCCTTGCAAATTTAAAT
TTTTTCTCAA
Found at i:75253495 original size:75 final size:74
Alignment explanation
Indices: 75253267--75253498 Score: 206
Period size: 75 Copynumber: 3.1 Consensus size: 74
75253257 TTTAATTTAA
* * *
75253267 TTTTTTCTTCATTTCATTTAAATTATCTATCTTT-CTATGCAAATTTAATTTTTTTCT-AATTTC
1 TTTTTTC-TCATTTCATTTAAATTATATATCTTTCCT-TGTAAATTTAAATTTTTTCTCAA-TTC
*
75253330 ATTTAAATTTAAT
63 ATTTAAA-TTATT
* * * * * * *
75253343 TTTTTCCTCATTTCATTTAAATT-TATATTTTTTCTCATT-T-CATTTACATTATTTATC-TTTC
1 TTTTTTCTCATTTCATTTAAATTATATA-TCTTTC-C-TTGTAAATTTAAATTTTTTCTCAATT-
**
75253404 CATGCAAATTTATT
62 CATTTAAA-TTATT
*
75253418 TTTATTCTCATTTCATTTAAATTATATATCTTTCCTTGTAAATTTAAATTTTTTCTCAATTCATT
1 TTTTTTCTCATTTCATTTAAATTATATATCTTTCCTTGTAAATTTAAATTTTTTCTCAATTCATT
*
75253483 TATATTATT
66 TAAATTATT
75253492 TTTTTTC
1 TTTTTTC
75253499 ATTTAAATTT
Statistics
Matches: 121, Mismatches: 25, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
73 2 0.02
74 18 0.15
75 86 0.71
76 12 0.10
77 2 0.02
78 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.59
Consensus pattern (74 bp):
TTTTTTCTCATTTCATTTAAATTATATATCTTTCCTTGTAAATTTAAATTTTTTCTCAATTCATT
TAAATTATT
Found at i:75253528 original size:19 final size:20
Alignment explanation
Indices: 75253477--75253515 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
75253467 TTTTTCTCAA
*
75253477 TTCATTTATA-TTATTTTTT
1 TTCATTTAAATTTATTTTTT
75253496 TTCATTTAAATTTATTTTTT
1 TTCATTTAAATTTATTTTTT
75253516 CTTATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCATTTAAATTTATTTTTT
Found at i:75253606 original size:92 final size:90
Alignment explanation
Indices: 75253417--75253586 Score: 225
Period size: 92 Copynumber: 1.9 Consensus size: 90
75253407 GCAAATTTAT
* *
75253417 TTTTATTCTCATTTCATTTAAATTATATATCTTTCCTTGTAAATTTAAATTTTTTCTCAATTCAT
1 TTTT-TTCTCATTTCATTTAAATTATATATCTTTCCATGTAAATTTAAATTTTTTCTCAATCCAT
*
75253482 TTATATTATTTTTTTTCATTTAAATTTA
65 TTATATAATTTTTTTT-ATTTAAA-TTA
* * * *
75253510 TTTTTTCTTATTTCATTTAAATTATCTATCTTTCCATGTAATTTTAATTTTTTTCTC-ATACCAT
1 TTTTTTCTCATTTCATTTAAATTATATATCTTTCCATGTAAATTTAAATTTTTTCTCAAT-CCAT
*
75253574 TTATCTAATTTTT
65 TTATATAATTTTT
75253587 CATATTTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
91 2 0.03
92 62 0.91
93 4 0.06
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.61
Consensus pattern (90 bp):
TTTTTTCTCATTTCATTTAAATTATATATCTTTCCATGTAAATTTAAATTTTTTCTCAATCCATT
TATATAATTTTTTTTATTTAAATTA
Found at i:75260489 original size:61 final size:61
Alignment explanation
Indices: 75260414--75260535 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
75260404 AGTCTAGGCT
75260414 AAATCCCCCGTAGTATTAACTAATAGAGCAATGTCAGGATTAACAGTCCAGGCTAAATCCC
1 AAATCCCCCGTAGTATTAACTAATAGAGCAATGTCAGGATTAACAGTCCAGGCTAAATCCC
*
75260475 AAATCCCCCGTAGTATTAACTAATAGAGCAATGTCGGGATTAACAGTCCAGGCTAAATCCC
1 AAATCCCCCGTAGTATTAACTAATAGAGCAATGTCAGGATTAACAGTCCAGGCTAAATCCC
75260536 TTTCAATGAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (61 bp):
AAATCCCCCGTAGTATTAACTAATAGAGCAATGTCAGGATTAACAGTCCAGGCTAAATCCC
Found at i:75274142 original size:20 final size:19
Alignment explanation
Indices: 75274105--75274147 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
75274095 ATGCCTAGTT
75274105 TTAATTAAACATGTTTTAAA
1 TTAATTAAACATGTTTT-AA
*
75274125 TTAATTAAATAT-TATTTAA
1 TTAATTAAACATGT-TTTAA
75274144 TTAA
1 TTAA
75274148 GCTAATGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAATTAAACATGTTTTAA
Found at i:75274370 original size:33 final size:33
Alignment explanation
Indices: 75274333--75274396 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
75274323 ACTAAATTAC
*
75274333 TTATCCAAAATTTAATTTACTTATCTAATAATA
1 TTATCCAAAATTCAATTTACTTATCTAATAATA
75274366 TTATCCAAAATTCAATTTACTTATCTAATAA
1 TTATCCAAAATTCAATTTACTTATCTAATAA
75274397 CTTTATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (33 bp):
TTATCCAAAATTCAATTTACTTATCTAATAATA
Found at i:75276068 original size:68 final size:66
Alignment explanation
Indices: 75275996--75276162 Score: 169
Period size: 67 Copynumber: 2.5 Consensus size: 66
75275986 CATCATGTGT
* * * *
75275996 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
75276059 TGTAG
62 TGTAG
** * *
75276064 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
75276129 AG
65 AG
* * *
75276131 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTC
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTC
75276163 ACATAGGTGG
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
64 24 0.28
65 3 0.04
66 13 0.15
67 32 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:75276101 original size:64 final size:64
Alignment explanation
Indices: 75276020--75276203 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
75276010 AGACATTATG
* * *
75276020 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
75276084 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
75276149 AA
63 AA
* * * *
75276151 AT-TGGCTAGGTCACATAGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
75276204 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:75279041 original size:23 final size:22
Alignment explanation
Indices: 75278993--75279041 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
75278983 TGACATTTCT
*
75278993 TTAA-AATAAATGTTTGTAAAA
1 TTAATAATAAATGTTTGCAAAA
* *
75279014 ATAATAATAAAATGTTTGCACAA
1 TTAATAAT-AAATGTTTGCAAAA
75279037 TTAAT
1 TTAAT
75279042 TTTTCATCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 3 0.14
23 16 0.73
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
TTAATAATAAATGTTTGCAAAA
Found at i:75282571 original size:24 final size:24
Alignment explanation
Indices: 75282544--75282592 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
75282534 GAATGATCAT
75282544 GATTAAAGAATAAAATTTTGTAAC
1 GATTAAAGAATAAAATTTTGTAAC
75282568 GATTAAAGAATAAAATTTTGTAAC
1 GATTAAAGAATAAAATTTTGTAAC
75282592 G
1 G
75282593 TACTCTGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (24 bp):
GATTAAAGAATAAAATTTTGTAAC
Found at i:75283449 original size:25 final size:25
Alignment explanation
Indices: 75283421--75283470 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
75283411 CAGATACATG
*
75283421 GAGCTTATGCTTCTTACATTTCTAA
1 GAGCTTATGCGTCTTACATTTCTAA
75283446 GAGCTTATGCGTCTTACATTTCTAA
1 GAGCTTATGCGTCTTACATTTCTAA
75283471 TTAACTTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (25 bp):
GAGCTTATGCGTCTTACATTTCTAA
Found at i:75292638 original size:67 final size:67
Alignment explanation
Indices: 75292464--75292654 Score: 215
Period size: 68 Copynumber: 2.8 Consensus size: 67
75292454 ATGGGAACTG
* * ** * *
75292464 TGCCATTAACTTGTTATTCACAAG-TCTCATAAGAGTGCCATTTTTTCATGAAAATTGTTGAGAA
1 TGCCATTAACTTTTTATTCACAAGCT-TCACAAGAGTGCCATTTTTTCATGGGAATTATTAAGAA
75292528 TCA
65 TCA
* * * * * *
75292531 TACCATTTAACGTTTTATTGACAAGC-CCTGCAAGAGTGCCATTTTGTCATGGGAATTATTAAGA
1 TGCCA-TTAACTTTTTATTCACAAGCTTC-ACAAGAGTGCCATTTTTTCATGGGAATTATTAAGA
**
75292595 ATTT
64 ATCA
75292599 TGCCATTAACTTTTTATTCACAAGCTTCACAAGAGTGCCATTTTTTCATGGGAATT
1 TGCCATTAACTTTTTATTCACAAGCTTCACAAGAGTGCCATTTTTTCATGGGAATT
75292655 GTGAGGCTTG
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
67 49 0.49
68 51 0.51
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (67 bp):
TGCCATTAACTTTTTATTCACAAGCTTCACAAGAGTGCCATTTTTTCATGGGAATTATTAAGAAT
CA
Found at i:75294711 original size:9 final size:9
Alignment explanation
Indices: 75294689--75294765 Score: 82
Period size: 9 Copynumber: 8.6 Consensus size: 9
75294679 ATAAGTATAA
75294689 AATTAACCG
1 AATTAACCG
* *
75294698 GATTAATCG
1 AATTAACCG
75294707 AATTAACCG
1 AATTAACCG
*
75294716 AATTACCCG
1 AATTAACCG
* *
75294725 GATTACCCG
1 AATTAACCG
* *
75294734 AATTACCCA
1 AATTAACCG
75294743 AATTAACCG
1 AATTAACCG
*
75294752 AATTAATCG
1 AATTAACCG
75294761 AATTA
1 AATTA
75294766 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:75294719 original size:27 final size:27
Alignment explanation
Indices: 75294688--75294765 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
75294678 AATAAGTATA
75294688 AAATTAACCGGATTAATCGAATTAACC
1 AAATTAACCGGATTAATCGAATTAACC
* * ** *
75294715 GAATTACCCGGATTACCCGAATTACCC
1 AAATTAACCGGATTAATCGAATTAACC
*
75294742 AAATTAACCGAATTAATCGAATTA
1 AAATTAACCGGATTAATCGAATTA
75294766 TTTGTATAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (27 bp):
AAATTAACCGGATTAATCGAATTAACC
Found at i:75294807 original size:7 final size:6
Alignment explanation
Indices: 75294785--75294825 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
75294775 AATTATATGT
*
75294785 TTTTTA TTTTTA TTTTTA GTTTTACA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
75294826 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:75294866 original size:13 final size:13
Alignment explanation
Indices: 75294850--75294874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75294840 AATTTTTATG
75294850 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
75294863 ATTGGGTTGGGT
1 ATTGGGTTGGGT
75294875 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:75294874 original size:18 final size:18
Alignment explanation
Indices: 75294851--75294888 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
75294841 ATTTTTATGA
75294851 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
75294869 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
75294887 TT
1 TT
75294889 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:75296113 original size:5 final size:5
Alignment explanation
Indices: 75296103--75296127 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
75296093 TATTATTATT
75296103 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
75296128 TATTTTACTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:75296271 original size:5 final size:5
Alignment explanation
Indices: 75296263--75296289 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
75296253 ATACTTTAAT
75296263 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
75296290 ATATTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:75296834 original size:58 final size:58
Alignment explanation
Indices: 75296744--75296862 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
75296734 AACTTCTTAG
*
75296744 CATTACAACTCTTATACTATTTTCCTTCTCCTCCTCTCCATTTCACAAACTATATACA
1 CATTACAACTCTTATACTATTTTCCTTCTCCTCCTATCCATTTCACAAACTATATACA
* *
75296802 CATTACAACTCTTATACTATTTTCCTTCTCCTCCTATCTATTTCACAACCTATATACA
1 CATTACAACTCTTATACTATTTTCCTTCTCCTCCTATCCATTTCACAAACTATATACA
75296860 CAT
1 CAT
75296863 GTATACATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (58 bp):
CATTACAACTCTTATACTATTTTCCTTCTCCTCCTATCCATTTCACAAACTATATACA
Found at i:75310782 original size:3 final size:3
Alignment explanation
Indices: 75310756--75310797 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
75310746 ATGTAATTTG
75310756 TAA TAA -AA TATA TACA TAAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA T
75310798 TAATCAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
2 2 0.06
3 25 0.71
4 7 0.20
5 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:75316006 original size:42 final size:43
Alignment explanation
Indices: 75315905--75316059 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
75315895 TGTTTTCATG
* * * *
75315905 TAAGACCACATCTGGGACGTTAGCATC-A-ACTTATGATGTACCTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATA-TT-TGAT-TACATA
* * * *
75315949 TAAGATCACGTCTGGGACGTTGGCATCG-TATTTGATTTCGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACATA
75315991 TAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACATA
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACATA
75316034 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
75316060 TGTACGAACT
Statistics
Matches: 95, Mismatches: 9, Indels: 15
0.80 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 38 0.40
44 27 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACATA
Found at i:75318205 original size:34 final size:34
Alignment explanation
Indices: 75318162--75318229 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
75318152 CTTACTAAAA
75318162 TGCATATATCTCATTCAATACAATCTCGATGGTT
1 TGCATATATCTCATTCAATACAATCTCGATGGTT
75318196 TGCATATATCTCATTCAATACAATCTCGATGGTT
1 TGCATATATCTCATTCAATACAATCTCGATGGTT
75318230 ACACCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (34 bp):
TGCATATATCTCATTCAATACAATCTCGATGGTT
Found at i:75323972 original size:18 final size:18
Alignment explanation
Indices: 75323921--75323975 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
75323911 TTTAGAATTG
*
75323921 TTTTGAAATTTTTATAAT
1 TTTTGAAATTTTTATAAA
* ****
75323939 TTTTAAAAAAAATATAAA
1 TTTTGAAATTTTTATAAA
75323957 TTTTGAAATTTTTATAAA
1 TTTTGAAATTTTTATAAA
75323975 T
1 T
75323976 ATTTTGAATT
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTGAAATTTTTATAAA
Found at i:75323987 original size:18 final size:19
Alignment explanation
Indices: 75323956--75324007 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
75323946 AAAAATATAA
75323956 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTATAAATT
*
75323976 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTATAAATT
*
75323995 ATTGTG-ATTTTAT
1 ATTTTGAATTTTAT
75324008 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.50
19 8 0.29
20 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTATAAATT
Found at i:75327692 original size:11 final size:11
Alignment explanation
Indices: 75327676--75327704 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
75327666 AAGGAAGGTT
75327676 TTTGTTCATTC
1 TTTGTTCATTC
75327687 TTTGTTCATTC
1 TTTGTTCATTC
75327698 TTTGTTC
1 TTTGTTC
75327705 TTCATAGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.10, T:0.66
Consensus pattern (11 bp):
TTTGTTCATTC
Found at i:75331103 original size:30 final size:30
Alignment explanation
Indices: 75331067--75331137 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 30
75331057 CTTTATAAAA
75331067 AAATTTTAAAAATATTTTTAAAAACCCAAC
1 AAATTTTAAAAATATTTTTAAAAACCCAAC
75331097 AAATTTTTAAAAATATTTTTAAAAACCCAAC
1 AAA-TTTTAAAAATATTTTTAAAAACCCAAC
75331128 AAATTTTAAA
1 AAATTTTAAA
75331138 CAAGTTCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 10 0.25
31 30 0.75
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (30 bp):
AAATTTTAAAAATATTTTTAAAAACCCAAC
Found at i:75331886 original size:16 final size:16
Alignment explanation
Indices: 75331867--75331908 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
75331857 ATATTTTTTT
**
75331867 ATTTAAAATTTTTAAA
1 ATTTAAAATTAATAAA
*
75331883 ATTTTAAATTAATAAA
1 ATTTAAAATTAATAAA
75331899 A-TTAAAATTA
1 ATTTAAAATTA
75331909 CACTTTAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAAAATTAATAAA
Found at i:75331936 original size:31 final size:30
Alignment explanation
Indices: 75331901--75331966 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
75331891 TTAATAAAAT
*
75331901 TAAAATTACACTTTAATCTCCTTAAAAATAA
1 TAAAATTACAATTTAAT-TCCTTAAAAATAA
** * *
75331932 TAAAATTTTAATTTAATTCTTTAAAAATTA
1 TAAAATTACAATTTAATTCCTTAAAAATAA
75331962 TAAAA
1 TAAAA
75331967 ATATAAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAATTACAATTTAATTCCTTAAAAATAA
Found at i:75333019 original size:10 final size:10
Alignment explanation
Indices: 75333016--75333049 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
75333006 TTTTTGAATA
75333016 TTTTATATAT
1 TTTTATATAT
75333026 TTTTATATAT
1 TTTTATATAT
*
75333036 TTTTATGTAT
1 TTTTATATAT
75333046 TTTT
1 TTTT
75333050 TTTGTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTTATATAT
Found at i:75336589 original size:18 final size:18
Alignment explanation
Indices: 75336568--75336622 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
75336558 TCGGTTAATT
75336568 AGTAACAATCATTTATTC
1 AGTAACAATCATTTATTC
* * *
75336586 AGTATCAGTCGTTTATTC
1 AGTAACAATCATTTATTC
* *
75336604 ATTAAC-ATCAATTATTC
1 AGTAACAATCATTTATTC
75336621 AG
1 AG
75336623 CAGCAGTCAG
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (18 bp):
AGTAACAATCATTTATTC
Found at i:75336940 original size:20 final size:20
Alignment explanation
Indices: 75336894--75336944 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
75336884 GTAACAGTAG
* *
75336894 TCGACACAAATAGTGTCTCG
1 TCGACACAAAGAGTGTCTCA
* *
75336914 TCAACACAAAGAGTGTCTTA
1 TCGACACAAAGAGTGTCTCA
75336934 TCGACACAAAG
1 TCGACACAAAG
75336945 TCGGAATATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
TCGACACAAAGAGTGTCTCA
Found at i:75337835 original size:21 final size:21
Alignment explanation
Indices: 75337804--75337857 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
75337794 TAATTTTCCC
75337804 TTTTC-TTCTTTCTTTTCTCT
1 TTTTCTTTCTTTCTTTTCTCT
*
75337824 TTTTCTTTCTTTATTTTCTCT
1 TTTTCTTTCTTTCTTTTCTCT
75337845 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
75337858 CTTCGCCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCTTTCTTTCTTTTCTCT
Found at i:75341295 original size:29 final size:28
Alignment explanation
Indices: 75341253--75341312 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
75341243 GTTATTTTGA
*
75341253 TTTTGGTTTAGGGTT-TTAAATTGTATGGG
1 TTTTGGTTTAGGGTTGTCAAATT-TA-GGG
75341282 TTTTGGTTTAGGGTTGTCAAATTTAGGG
1 TTTTGGTTTAGGGTTGTCAAATTTAGGG
75341310 TTT
1 TTT
75341313 CTAATTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 17 0.59
30 6 0.21
ACGTcount: A:0.17, C:0.02, G:0.30, T:0.52
Consensus pattern (28 bp):
TTTTGGTTTAGGGTTGTCAAATTTAGGG
Found at i:75341399 original size:30 final size:29
Alignment explanation
Indices: 75341360--75341434 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
75341350 GGATTTTCAC
* ** * *
75341360 TTAGTGTTTTTGATTTTTTGGAATTTTTGT
1 TTAGGGTTTTTGATTTTTAAG-ATATTGGT
* *
75341390 TTATGGTTTTTTATTTTTAAGATATTGGT
1 TTAGGGTTTTTGATTTTTAAGATATTGGT
75341419 TTAGGGTTTTTGATTT
1 TTAGGGTTTTTGATTT
75341435 AGCTATTAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (29 bp):
TTAGGGTTTTTGATTTTTAAGATATTGGT
Found at i:75341867 original size:15 final size:16
Alignment explanation
Indices: 75341830--75341867 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
75341820 ATTTAAATAT
*
75341830 TTTGTTTGTCTACACC
1 TTTGTTTGGCTACACC
75341846 TTT-TTTGGCTACA-C
1 TTTGTTTGGCTACACC
75341860 TTTGTTTG
1 TTTGTTTG
75341868 TCTGTTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTGTTTGGCTACACC
Found at i:75344899 original size:40 final size:40
Alignment explanation
Indices: 75344844--75344923 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
75344834 GTTATATGAG
*
75344844 TTAGCACACTATGTGTGAGATATCCCGGGTATCTAACGGT
1 TTAGCACACTATGTGTGAGATATCCCAGGTATCTAACGGT
*
75344884 TTAGCACACTATGTGTGAGCTATCCCAGGTATCTAACGGT
1 TTAGCACACTATGTGTGAGATATCCCAGGTATCTAACGGT
75344924 ATTCTAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (40 bp):
TTAGCACACTATGTGTGAGATATCCCAGGTATCTAACGGT
Found at i:75347865 original size:5 final size:6
Alignment explanation
Indices: 75347838--75347864 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
75347828 TGATAATAAA
75347838 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
75347865 AAAAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:75347964 original size:22 final size:22
Alignment explanation
Indices: 75347939--75347982 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
75347929 TAGTCATATA
75347939 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
75347961 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
75347983 TATTTAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:75348018 original size:13 final size:14
Alignment explanation
Indices: 75348002--75348043 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
75347992 CTTCAATTTT
75348002 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
75348015 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
75348030 ATTTTAAATAATAT
1 ATTTT-AATAATAT
75348044 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:75348028 original size:16 final size:16
Alignment explanation
Indices: 75348006--75348042 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
75347996 AATTTTATTT
75348006 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
75348023 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
75348038 TAATA
1 TAATA
75348043 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:75349194 original size:13 final size:13
Alignment explanation
Indices: 75349176--75349212 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
75349166 GCGTGTGGGC
75349176 CCACACGAGTGGT
1 CCACACGAGTGGT
75349189 CCACACGAGTGGT
1 CCACACGAGTGGT
75349202 CCACACGAGTG
1 CCACACGAGTG
75349213 TGTGGGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.32, G:0.30, T:0.14
Consensus pattern (13 bp):
CCACACGAGTGGT
Found at i:75354756 original size:33 final size:32
Alignment explanation
Indices: 75354739--75354966 Score: 181
Period size: 33 Copynumber: 6.9 Consensus size: 32
75354729 AAAAGTTTAT
75354739 GTACACTTTGTGTGTACACTTGAAAAGGAAAG
1 GTACACTTTGTGTGTACACTTGAAAAGGAAAG
* *
75354771 GTATACTTTGTGTATAC-CATATGAAAAGGAAAG
1 GTACACTTTGTGTGTACAC-T-TGAAAAGGAAAG
* * *
75354804 TTATACTTTGTGTATATCA-TATGAAAAGGAAAG
1 GTACACTTTGTGTGTA-CACT-TGAAAAGGAAAG
* *
75354837 GTATACTTTGTGTATACCACTTGAAAAGGAAAG
1 GTACACTTTGTGTGTA-CACTTGAAAAGGAAAG
*** ** *
75354870 GTACACTACATGTGTACACTTGAAAAGGTTAT
1 GTACACTTTGTGTGTACACTTGAAAAGGAAAG
* ** * ** *
75354902 GTGCACTTTAAGTGTACAAATTGAAAAGGGTAT
1 GTACACTTTGTGTGTAC-ACTTGAAAAGGAAAG
*
75354935 GTACACTTCGTGTGTACCACTTGAAAAAGGAA
1 GTACACTTTGTGTGTA-CACTTG-AAAAGGAA
75354967 TGTGCACCTC
Statistics
Matches: 162, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.01
32 42 0.26
33 110 0.68
34 9 0.06
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (32 bp):
GTACACTTTGTGTGTACACTTGAAAAGGAAAG
Found at i:75354841 original size:66 final size:65
Alignment explanation
Indices: 75354743--75354897 Score: 206
Period size: 66 Copynumber: 2.4 Consensus size: 65
75354733 GTTTATGTAC
*
75354743 ACTTTGTGTGTACACTTGAAAAGGAAAGGTATACTTTGTGTATACCA-TATGAAAAGGAAAGTTA
1 ACTTTGTGTATACACTTGAAAAGGAAAGGTATACTTTGTGTATACCACT-TGAAAAGGAAAGTTA
75354807 T
65 T
*
75354808 ACTTTGTGTATATCA-TATGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAAGGT
1 ACTTTGTGTATA-CACT-TGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAAGTT
*
75354872 AC
64 AT
*** *
75354874 ACTACATGTGTACACTTGAAAAGG
1 ACTTTGTGTATACACTTGAAAAGG
75354898 TTATGTGCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
65 22 0.28
66 56 0.71
67 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (65 bp):
ACTTTGTGTATACACTTGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAAGTTAT
Found at i:75354982 original size:66 final size:65
Alignment explanation
Indices: 75354870--75354996 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 65
75354860 AAAAGGAAAG
* * * *
75354870 GTACACTACATGTGTACACTTGAAAAGGTTATGTGCACTTTAAGTGTACAAATTGAAAAGGGTAT
1 GTACACTACATGTGTACACTTGAAAAGGTAATGTGCACCTCAAGTGTACAAATAGAAAAGGGTAT
* * * *
75354935 GTACACTTCGTGTGTACCACTTGAAAAAGG-AATGTGCACCTCGAGTGTACAACTAGAAAAGG
1 GTACACTACATGTGTA-CACTTG-AAAAGGTAATGTGCACCTCAAGTGTACAAATAGAAAAGG
75354997 AAAAGTCCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
65 14 0.27
66 32 0.62
67 6 0.12
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (65 bp):
GTACACTACATGTGTACACTTGAAAAGGTAATGTGCACCTCAAGTGTACAAATAGAAAAGGGTAT
Found at i:75354983 original size:33 final size:32
Alignment explanation
Indices: 75354855--75354998 Score: 112
Period size: 33 Copynumber: 4.4 Consensus size: 32
75354845 TGTGTATACC
* * *
75354855 ACTTGAAAAGGAAAGGTACACTAC-ATGTGTAC-
1 ACTTGAAAAGG-AATGTGCACTTCGA-GTGTACA
* **
75354887 ACTTGAAAAGGTTATGTGCACTTTAAGTGTACA
1 ACTTGAAAAGG-AATGTGCACTTCGAGTGTACA
* * * * *
75354920 AATTGAAAAGGGTATGTACACTTCGTGTGTACC
1 ACTTGAAAA-GGAATGTGCACTTCGAGTGTACA
*
75354953 ACTTGAAAAAGGAATGTGCACCTCGAGTGTACA
1 ACTTG-AAAAGGAATGTGCACTTCGAGTGTACA
*
75354986 ACTAGAAAAGGAA
1 ACTTGAAAAGGAA
75354999 AAGTCCATCG
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
32 32 0.36
33 51 0.57
34 6 0.07
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (32 bp):
ACTTGAAAAGGAATGTGCACTTCGAGTGTACA
Found at i:75361483 original size:13 final size:13
Alignment explanation
Indices: 75361465--75361516 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 13
75361455 CGGGCGTGTG
75361465 GGTCCACACGAGT
1 GGTCCACACGAGT
75361478 GGTCCACACGAGCGTGT
1 GGTCCACACGA----GT
75361495 GGGTCCACACGAGT
1 -GGTCCACACGAGT
75361509 GGTCCACA
1 GGTCCACA
75361517 TGAGCGTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 19 0.56
14 2 0.06
17 2 0.06
18 11 0.32
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (13 bp):
GGTCCACACGAGT
Found at i:75361493 original size:31 final size:31
Alignment explanation
Indices: 75361450--75361526 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
75361440 GTCGTATGGG
*
75361450 CCACACGGGCGTGTGGGTCCACACGAGTGGT
1 CCACACGAGCGTGTGGGTCCACACGAGTGGT
75361481 CCACACGAGCGTGTGGGTCCACACGAGTGGT
1 CCACACGAGCGTGTGGGTCCACACGAGTGGT
*
75361512 CCACATGAGCGTGTG
1 CCACACGAGCGTGTG
75361527 TGATTTTGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.17
Consensus pattern (31 bp):
CCACACGAGCGTGTGGGTCCACACGAGTGGT
Found at i:75361506 original size:18 final size:18
Alignment explanation
Indices: 75361446--75361507 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
75361436 TTGGGTCGTA
*
75361446 TGGG-CCACACGGGCGTG
1 TGGGTCCACACGAGCGTG
75361463 TGGGTCCACACGA----G
1 TGGGTCCACACGAGCGTG
75361477 T-GGTCCACACGAGCGTG
1 TGGGTCCACACGAGCGTG
75361494 TGGGTCCACACGAG
1 TGGGTCCACACGAG
75361508 TGGTCCACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.29
14 2 0.05
17 6 0.16
18 19 0.50
ACGTcount: A:0.18, C:0.29, G:0.39, T:0.15
Consensus pattern (18 bp):
TGGGTCCACACGAGCGTG
Found at i:75363316 original size:46 final size:47
Alignment explanation
Indices: 75363263--75363363 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 47
75363253 TATGATCCCT
75363263 AAAATTGCAAACT-AAAAAATCTCC-AATTTCATATAAACCCTAAAA-
1 AAAATTGCAAACTAAAAAAATC-CCTAATTTCATATAAACCCTAAAAC
*
75363308 AAATATTGCAAACTAAAAAAATCCCTAATTTCATATGAACCCTAAAAC
1 AAA-ATTGCAAACTAAAAAAATCCCTAATTTCATATAAACCCTAAAAC
75363356 AAAATTGC
1 AAAATTGC
75363364 TAAATATATG
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
45 3 0.06
46 12 0.24
47 33 0.65
48 3 0.06
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.25
Consensus pattern (47 bp):
AAAATTGCAAACTAAAAAAATCCCTAATTTCATATAAACCCTAAAAC
Found at i:75364082 original size:30 final size:31
Alignment explanation
Indices: 75364046--75364119 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
75364036 TTTTAACGGT
*
75364046 AGAGTGAC-AAAACTGAAAACTTATCTAACA
1 AGAGTGACTAAAACTGAAAACCTATCTAACA
* **
75364076 AGAGTGACTAAAATTGGCAACCTATCTAACA
1 AGAGTGACTAAAACTGAAAACCTATCTAACA
75364107 AGAGTGACTAAAA
1 AGAGTGACTAAAA
75364120 TAACAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 8 0.21
31 31 0.79
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAGTGACTAAAACTGAAAACCTATCTAACA
Found at i:75364665 original size:4 final size:4
Alignment explanation
Indices: 75364656--75364690 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
75364646 TTACAAGAGT
* *
75364656 TGTA TGTA TGTA TGTA TGTA CGTA TGTA CGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
75364691 TTATATTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.46
Consensus pattern (4 bp):
TGTA
Found at i:75367196 original size:28 final size:29
Alignment explanation
Indices: 75367148--75367209 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
75367138 AAAACACATC
75367148 ATTTTCGTATTTAATCTTTTTCTTA-TA-T
1 ATTTTCGTATTTAATCTTTTT-TTAGTATT
*
75367176 ATTTTTGTATTTAAT-TATTTTTTAGTATT
1 ATTTTCGTATTTAATCT-TTTTTTAGTATT
75367205 ATTTT
1 ATTTT
75367210 GAGAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.13
28 20 0.67
29 6 0.20
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (29 bp):
ATTTTCGTATTTAATCTTTTTTTAGTATT
Found at i:75381361 original size:29 final size:29
Alignment explanation
Indices: 75381314--75381390 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
75381304 CTAAAGTGCA
*
75381314 TTATTAGAATAGAACAACACCAAT-GTGT
1 TTATCAGAATAGAACAACACCAATAGTGT
**
75381342 TTAATCAGAATAGAACAACA-TTATAGTGT
1 TT-ATCAGAATAGAACAACACCAATAGTGT
*
75381371 TTATCAGAACAGAACAACAC
1 TTATCAGAATAGAACAACAC
75381391 TGTAGTGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 20 0.48
29 22 0.52
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (29 bp):
TTATCAGAATAGAACAACACCAATAGTGT
Found at i:75381396 original size:28 final size:28
Alignment explanation
Indices: 75381314--75381406 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
75381304 CTAAAGTGCA
* * *
75381314 TTATTAGAATAGAACAACACCA-ATGTGT
1 TTATCAGAACAGAACAACACTATA-GTGT
* *
75381342 TTAATCAGAATAGAACAACATTATAGTGT
1 TT-ATCAGAACAGAACAACACTATAGTGT
* *
75381371 TTATCAGAACAGAACAACACTGTAGTGC
1 TTATCAGAACAGAACAACACTATAGTGT
*
75381399 ATATCAGA
1 TTATCAGA
75381407 GCAAAGAGTG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 31 0.56
29 23 0.42
30 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (28 bp):
TTATCAGAACAGAACAACACTATAGTGT
Found at i:75390251 original size:6 final size:6
Alignment explanation
Indices: 75390227--75390306 Score: 101
Period size: 6 Copynumber: 13.7 Consensus size: 6
75390217 AATAAGAAAC
*
75390227 ATAAAA A-ATAA AT-AAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* * * *
75390273 ATAAAA ATAGAA ATAGAA ATAGAA ATAGAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
75390307 GATAAAACAA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
5 8 0.12
6 60 0.88
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:75392852 original size:30 final size:27
Alignment explanation
Indices: 75392818--75392879 Score: 70
Period size: 30 Copynumber: 2.2 Consensus size: 27
75392808 TTTACTTATT
*
75392818 TTATAAGAAAATAATAATGATTAAAGTATA
1 TTATAAGAAAATAAT-A-GAATAAAGTA-A
* *
75392848 TTATAATAATATAATAGAATAAAGTAA
1 TTATAAGAAAATAATAGAATAAAGTAA
75392875 TTATA
1 TTATA
75392880 TAAAACAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 9 0.31
29 1 0.03
30 13 0.45
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (27 bp):
TTATAAGAAAATAATAGAATAAAGTAA
Found at i:75401918 original size:61 final size:62
Alignment explanation
Indices: 75401785--75401919 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 62
75401775 ACTGGGCCTA
* *
75401785 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCAT
1 AGCCCTATTACA-AAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
* * * *
75401847 AGCCC-CTTACAATATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATCTAGGCCGT
1 AGCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
75401907 AGCCCTATTACAA
1 AGCCCTATTACAA
75401920 GTCGAGATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
60 32 0.51
61 24 0.38
62 7 0.11
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (62 bp):
AGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
Found at i:75401944 original size:60 final size:60
Alignment explanation
Indices: 75401799--75401947 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 60
75401789 CTATTCAGAA
* * *
75401799 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAAT
1 ATCAGAGTAT-ACTGGGCCTT-GCCCATATCAATATCAATCTAGGCCATAGCCCATTACAAT
* * *
75401860 ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTAGGCCGTAGCCCTATTACAA-
1 ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTAGGCCATAGCCC-ATTACAAT
* * *
75401920 GTC-GAGATATATTGGGTCTTGCCCATAT
1 ATCAGAG-TATACTGGGCCTTGCCCATAT
75401948 TAACACAGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
59 3 0.04
60 48 0.64
61 23 0.31
62 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTAGGCCATAGCCCATTACAAT
Found at i:75401965 original size:20 final size:20
Alignment explanation
Indices: 75401940--75401985 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
75401930 ATTGGGTCTT
75401940 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
75401960 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
75401979 GCCCATA
1 GCCCATA
75401986 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:75401994 original size:19 final size:20
Alignment explanation
Indices: 75401952--75401995 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
75401942 CCATATTAAC
** *
75401952 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
75401972 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
75401991 ACAGT
1 ACAGT
75401996 CTCATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:75404204 original size:16 final size:16
Alignment explanation
Indices: 75404183--75404216 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
75404173 TTACCTAAGT
75404183 AAAGAAACATTTATCA
1 AAAGAAACATTTATCA
75404199 AAAGAAACATTTATCA
1 AAAGAAACATTTATCA
75404215 AA
1 AA
75404217 CACGTATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAGAAACATTTATCA
Found at i:75405946 original size:61 final size:60
Alignment explanation
Indices: 75405813--75405975 Score: 170
Period size: 60 Copynumber: 2.7 Consensus size: 60
75405803 ACTGAGCCTA
* * * *
75405813 AGCCCTATTTAGAAATCAGAGT-TAGCTGGGCCTTAGCCCATTTCAATATTAATCTGGGCCAT
1 AGCCCTA-TTACAAATCAGAGTATA-CTGGGCC-TAGCCCATATCAATATCAATCTAGGCCAT
* * *
75405875 AGCCC-CTTACAATATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTAGGCCGT
1 AGCCCTATTACAA-ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTAGGCCAT
* * *
75405935 AGCCCTATTACAAGTC-GAGATATATTGGGCCTTGCCCATAT
1 AGCCCTATTACAAATCAGAG-TATACTGGGCCTAGCCCATAT
75405976 TAACACAGTT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
59 3 0.03
60 55 0.64
61 21 0.24
62 7 0.08
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
AGCCCTATTACAAATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTAGGCCAT
Found at i:75405993 original size:20 final size:20
Alignment explanation
Indices: 75405968--75406013 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
75405958 ATTGGGCCTT
75405968 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
75405988 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
75406007 GCCCATA
1 GCCCATA
75406014 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:75406022 original size:19 final size:20
Alignment explanation
Indices: 75405980--75406023 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
75405970 CCATATTAAC
** *
75405980 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
75406000 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
75406019 ACAGT
1 ACAGT
75406024 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:75412020 original size:27 final size:27
Alignment explanation
Indices: 75411989--75412138 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
75411979 TTAGTTTACC
* *
75411989 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
75412016 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
75412043 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
75412070 AAATTACAGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
75412097 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
75412124 AAATTACTGAAATAC
1 AAATTACTGAAATAC
75412139 TCCTGTAAGA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.04
27 96 0.91
28 5 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:75412137 original size:81 final size:82
Alignment explanation
Indices: 75411989--75412142 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 82
75411979 TTAGTTTACC
* *
75411989 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
75412054 ATA-TCCTCGATTTGTA
66 ATACTCCTCGATTTGTA
** * * * **
75412070 AAATTACAGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACTGA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCA
75412134 AATACTCCT
65 AATACTCCT
75412143 GTAAGATAGA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 55 0.89
82 7 0.11
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (82 bp):
AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATACTCCTCGATTTGTA
Found at i:75412156 original size:54 final size:51
Alignment explanation
Indices: 75411989--75412157 Score: 135
Period size: 54 Copynumber: 3.1 Consensus size: 51
75411979 TTAGTTTACC
* * * * *
75411989 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCG-ATTTAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACGAAA-TA-CCCTGTA-TGAT
** * *
75412042 AAAATTACCCAAATATCCTCGATTTGTAAAATTACAGAAATACCCTCAGTTTGCA-
1 -AAATTACTGAAATACCCTCGATTTGTAAAATTAC-GAAATACCCT--GTATG-AT
*
75412097 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTCCTGTAAGAT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTAC-GAAATAC-CCTGTATGAT
75412150 AGAATTAC
1 A-AATTAC
75412158 CATTTTACCC
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
52 1 0.01
53 7 0.08
54 75 0.82
55 8 0.09
56 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (51 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACGAAATACCCTGTATGAT
Found at i:75412206 original size:54 final size:54
Alignment explanation
Indices: 75412148--75412331 Score: 296
Period size: 54 Copynumber: 3.4 Consensus size: 54
75412138 CTCCTGTAAG
* * *
75412148 ATAGAATTACCATTTTACCCTCGATTTCCAAAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
* *
75412202 ATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
* *
75412256 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
*
75412310 ACAGAATTACCATTTTACCCTC
1 ATAGAATTACCATTTTACCCTC
75412332 AATGTAAAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
Found at i:75412233 original size:81 final size:81
Alignment explanation
Indices: 75412148--75412402 Score: 269
Period size: 81 Copynumber: 3.1 Consensus size: 81
75412138 CTCCTGTAAG
* * *
75412148 ATAGAATTACCATTTTACCCTCGATTTCCAAAATTA-TCGTTTTACCCTCGATTTATAGAATTAC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACT-ATTTTACCCTCGATTTACAGAATTAC
* *
75412212 TATTTTACCCTCGATTT
65 CATCTTACCCTCGATTT
* * *
75412229 ATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACC
*
75412294 GTCTTACCCTCGATTT
66 ATCTTACCCTCGATTT
* * * * *** * * *
75412310 ACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACC
*** **
75412375 AAAATACCCTCGATCA
66 ATCTTACCCTCGATTT
*
75412391 ATAAAATTACCA
1 ATAGAATTACCA
75412403 AAATACCATT
Statistics
Matches: 144, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
81 143 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACC
ATCTTACCCTCGATTT
Found at i:75412346 original size:27 final size:27
Alignment explanation
Indices: 75412150--75412331 Score: 256
Period size: 27 Copynumber: 6.7 Consensus size: 27
75412140 CCTGTAAGAT
*
75412150 AGAATTACCATTTTACCCTCGATTTCC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
75412177 AAAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
75412204 AGAATTACTATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
75412231 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
75412258 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
75412285 AGAATTACCGTCTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
75412312 AGAATTACCATTTTACCCTC
1 AGAATTACCATTTTACCCTC
75412332 AATGTAAAAA
Statistics
Matches: 136, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:75412355 original size:27 final size:26
Alignment explanation
Indices: 75412298--75412437 Score: 91
Period size: 27 Copynumber: 5.2 Consensus size: 26
75412288 ATTACCGTCT
* * ***
75412298 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGA-TTAAAAAATTACCAAAA
* *
75412325 TACCCTCAATGTAAAAAATTACTAAAA
1 TACCCTCGAT-TAAAAAATTACCAAAA
* * *
75412352 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCC-TCGATTAAAAAATTACCAAAA
*
75412379 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTAA-AAAATTACCAAAA
* * * **
75412406 TACCATTGGTTTGTAAAATTACCAAAA
1 TACC-CTCGATTAAAAAATTACCAAAA
75412433 TACCC
1 TACCC
75412438 CTGCTTTGTG
Statistics
Matches: 86, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
26 5 0.06
27 76 0.88
28 5 0.06
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.29
Consensus pattern (26 bp):
TACCCTCGATTAAAAAATTACCAAAA
Found at i:75412365 original size:54 final size:54
Alignment explanation
Indices: 75412298--75412437 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
75412288 ATTACCGTCT
* * * *** * *
75412298 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAA-AAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCAAT-CAATAAAATTACCAAAA
*
75412352 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAATAAAATTACCAAAA
* **
75412406 TACCATTGGTTTGTAAAATTACCAAAATACCC
1 TACCCTTGGTTTACAAAATTACCAAAATACCC
75412438 CTGCTTTGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.03
54 71 0.97
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.29
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAATAAAATTACCAAAA
Found at i:75412445 original size:27 final size:27
Alignment explanation
Indices: 75412339--75412464 Score: 128
Period size: 27 Copynumber: 4.7 Consensus size: 27
75412329 CTCAATGTAA
* * *
75412339 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTAT
* **
75412366 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GGTTTAT
** *
75412393 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
* *
75412420 AAAATTACCAAAATACCCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGGTTTAT
*
75412447 GAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
75412465 TTGTAGGGTA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 76 0.94
28 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTAT
Found at i:75412479 original size:27 final size:27
Alignment explanation
Indices: 75412449--75412644 Score: 302
Period size: 27 Copynumber: 7.3 Consensus size: 27
75412439 TGCTTTGTGA
*
75412449 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
75412476 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
75412503 AATTACTGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
75412530 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
75412557 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
75412584 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
75412611 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
75412638 AATTACC
1 AATTACC
75412645 ATATTGCCCC
Statistics
Matches: 155, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:75412480 original size:81 final size:81
Alignment explanation
Indices: 75412395--75412644 Score: 265
Period size: 81 Copynumber: 3.1 Consensus size: 81
75412385 CGATCAATAA
* ** **
75412395 AATTACCAAAATACCATTGGT-TTGTAAAATTACCAAAATACCCCTGCT-TTGTGAAATTACCAA
1 AATTACCGAAATACCATT-GTAGGGTAAAATTACCAAAATACCCCTG-TAGGGTGAAATTACCAA
*
75412458 AATACCCTTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
* * ** * *
75412476 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTGGAATTACCGAAA
1 AATTACCGAAATACCATTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTGAAATTACCAAAA
75412541 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * *
75412557 AATTACCGAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCCTGTAGGGT-AGAATTACCGA
1 AATTACCGAAATACCATTGTAGGGTA-AAATTACCAAAATACCCCTGTAGGGTGA-AATTACCAA
* * * *
75412620 GATACCCTTGTGGGGTAA
64 AATACCCCTGTAGGGTAG
75412638 AATTACC
1 AATTACC
75412645 ATATTGCCCC
Statistics
Matches: 146, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 3 0.02
81 141 0.97
82 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCATTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTGAAATTACCAAAA
TACCCCTGTAGGGTAG
Found at i:75412655 original size:54 final size:54
Alignment explanation
Indices: 75412418--75412644 Score: 298
Period size: 54 Copynumber: 4.2 Consensus size: 54
75412408 CCATTGGTTT
* ** *
75412418 GTAAAATTACCAAAATACCCCTGCT-TTGT-GAAATTACCAAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCCTG-TAGGGTAG-AATTACCGAAATACCCTTGTAGG
* * * *
75412472 GTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
**
75412526 GTGGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* *
75412580 GTAGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGG
1 GTA-AAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
75412634 GTAAAATTACC
1 GTAAAATTACC
75412645 ATATTGCCCC
Statistics
Matches: 153, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 4 0.03
54 146 0.95
55 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:75413071 original size:19 final size:19
Alignment explanation
Indices: 75413049--75413094 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
75413039 ATTCTGATTT
*
75413049 TGATTCTGTTACCTGATAC
1 TGATTCTGTCACCTGATAC
*
75413068 TGATTCTGTCACCTGATTC
1 TGATTCTGTCACCTGATAC
*
75413087 TAATTCTG
1 TGATTCTG
75413095 ATTCTGATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TGATTCTGTCACCTGATAC
Found at i:75413098 original size:6 final size:6
Alignment explanation
Indices: 75413039--75413114 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
75413029 TTGCATTCAC
* * * *
75413039 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG -TCACCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG AT--TCTG ATTCTG
75413089 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
75413115 AATGTTTCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 4 0.07
6 41 0.76
7 7 0.13
8 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:75413103 original size:18 final size:18
Alignment explanation
Indices: 75413080--75413114 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
75413070 ATTCTGTCAC
75413080 CTGATTCTAATTCTGATT
1 CTGATTCTAATTCTGATT
*
75413098 CTGATTCTAGTTCTGAT
1 CTGATTCTAATTCTGAT
75413115 AATGTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (18 bp):
CTGATTCTAATTCTGATT
Found at i:75422461 original size:27 final size:26
Alignment explanation
Indices: 75422426--75422537 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
75422416 AGCATGGCTG
* *
75422426 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
75422452 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
75422480 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
75422507 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
75422534 CCAG
1 CCAG
75422538 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:75422490 original size:54 final size:54
Alignment explanation
Indices: 75422426--75422537 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
75422416 AGCATGGCTG
*
75422426 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
75422480 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
75422534 CCAG
1 CCAG
75422538 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:75423984 original size:24 final size:24
Alignment explanation
Indices: 75423955--75424025 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
75423945 CTAGATTTCC
**
75423955 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
75423979 TTCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
75424003 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
75424026 CTCCTGATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.37, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:75423995 original size:48 final size:48
Alignment explanation
Indices: 75423930--75424025 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
75423920 TCACCTATTG
* * **
75423930 TTCCTTGATCAGCTCCTAGATTTCC-TCCCTTATCTGCTCCTAAATCCTA
1 TTCCTTGATCAACTCCTA-A-ATCCATCCCTTATCAACTCCTAAATCCTA
75423979 TTCCTT-ATCAACTCCTAAATCCTATCCCTTATCAACTCCTAAATCCT
1 TTCCTTGATCAACTCCTAAATCC-ATCCCTTATCAACTCCTAAATCCT
75424026 CTCCTGATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 3 0.07
47 1 0.02
48 31 0.76
49 6 0.15
ACGTcount: A:0.23, C:0.35, G:0.04, T:0.38
Consensus pattern (48 bp):
TTCCTTGATCAACTCCTAAATCCATCCCTTATCAACTCCTAAATCCTA
Found at i:75426371 original size:24 final size:24
Alignment explanation
Indices: 75426339--75426385 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
75426329 CTGTCAGGAG
**
75426339 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
75426363 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
75426386 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Done.