Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 134 of 325
Found at i:43014010 original size:19 final size:20
Alignment explanation
Indices: 43013974--43014011 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43013964 CGATTCAAAG
*
43013974 AAAATAAATTATTAAAAATT
1 AAAAAAAATTATTAAAAATT
43013994 AAAAAAAATTA-TAAAAAT
1 AAAAAAAATTATTAAAAAT
43014012 CGGTTCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAAATTATTAAAAATT
Found at i:43014698 original size:17 final size:16
Alignment explanation
Indices: 43014673--43014721 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
43014663 TATCATTGAA
*
43014673 TTTTGAAATTTTGAAAT
1 TTTTAAAATTTT-AAAT
**
43014690 TTTTAAAATTATTTTAT
1 TTTTAAAATT-TTAAAT
43014707 TTTTAAAATTTTAAA
1 TTTTAAAATTTTAAA
43014722 GAGTTTTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 3 0.12
17 21 0.81
18 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
TTTTAAAATTTTAAAT
Found at i:43018731 original size:26 final size:26
Alignment explanation
Indices: 43018702--43018861 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
43018692 TGGTACAAAT
43018702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
43018728 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43018754 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
43018780 TGATAATGGATTTGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43018806 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
43018832 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43018858 TGAT
1 TGAT
43018862 GGGCATTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:43018764 original size:52 final size:52
Alignment explanation
Indices: 43018702--43018861 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
43018692 TGGTACAAAT
43018702 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
43018754 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTTGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
43018806 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
43018858 TGAT
1 TGAT
43018862 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:43020317 original size:27 final size:28
Alignment explanation
Indices: 43020287--43020339 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
43020277 GAAATATGCA
43020287 TGAAAAACC-TTAAAA-TAGATAAATTAC
1 TGAAAAACCTTTAAAAGTAGA-AAATTAC
*
43020314 TGAAATACCTTTAAAAGTAGAAAATT
1 TGAAAAACCTTTAAAAGTAGAAAATT
43020340 TACAGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (28 bp):
TGAAAAACCTTTAAAAGTAGAAAATTAC
Found at i:43022946 original size:26 final size:27
Alignment explanation
Indices: 43022916--43022967 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
43022906 AAAGTTGAAG
* * *
43022916 GCCAAAGTAATAAAAATAAA-ATTAGA
1 GCCAAAATAACAAAAAAAAACATTAGA
43022942 GCCAAAATAACAAAAAAAAACATTAG
1 GCCAAAATAACAAAAAAAAACATTAG
43022968 GGGCTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.15
Consensus pattern (27 bp):
GCCAAAATAACAAAAAAAAACATTAGA
Found at i:43032439 original size:41 final size:42
Alignment explanation
Indices: 43032323--43032459 Score: 197
Period size: 42 Copynumber: 3.3 Consensus size: 42
43032313 CGAAACTATA
*
43032323 TGTAAGACCATATCTAGGATATGACATCATTATGAGACTTT-G
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGA-TTTCG
* * * *
43032365 TGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGATTTCG
*
43032407 TGTAAGACCATATCT-GGATATGACATCAATATGAGACTTCG
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGATTTCG
43032448 TGTAAGACCATA
1 TGTAAGACCATA
43032460 GCTGGGCTAT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 38 0.45
42 47 0.55
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGACATCAATATGAGATTTCG
Found at i:43032465 original size:83 final size:85
Alignment explanation
Indices: 43032323--43032486 Score: 253
Period size: 83 Copynumber: 2.0 Consensus size: 85
43032313 CGAAACTATA
* *
43032323 TGTAAGACCATATCTAGGATATGACATCATTATGAGACTTTGTGTAAGACCATGTCTGGGATA-T
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGACTTCGTGTAAGACCATGTCTGGGATATT
*
43032387 GGCATCGATATGAGATTTCG
66 GGCATCGATACGAGATTTCG
*
43032407 TGTAAGACCATATCT-GGATATGACATCAATATGAGACTTCGTGTAAGACCATAG-CTGGGCTAT
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGACTTCGTGTAAGACCAT-GTCTGGGATAT
*
43032470 TGGCATTGATACGAGAT
65 TGGCATCGATACGAGAT
43032487 CCTATGCAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
83 42 0.58
84 31 0.42
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
TGTAAGACCATATCTAGGATATGACATCAATATGAGACTTCGTGTAAGACCATGTCTGGGATATT
GGCATCGATACGAGATTTCG
Found at i:43032498 original size:84 final size:83
Alignment explanation
Indices: 43032321--43032504 Score: 246
Period size: 84 Copynumber: 2.2 Consensus size: 83
43032311 ACCGAAACTA
* *
43032321 TATGTAAGACCATATCTAGGATATGACATCATTATGAGACTTTGTGTAAGACCATGTCTGGGATA
1 TATGTAAGACCATATCTAGGATATGACATCAATATGAGACTTCGTGTAAGACCATGTCTGGGATA
* *
43032386 TGGCATCGATATGAGATT
66 TGGCATCGATACGAGATC
* *
43032404 TCGTGTAAGACCATATCT-GGATATGACATCAATATGAGACTTCGTGTAAGACCATAG-CTGGGC
1 T-ATGTAAGACCATATCTAGGATATGACATCAATATGAGACTTCGTGTAAGACCAT-GTCTGGGA
*
43032467 TATTGGCATTGATACGAGATCC
64 TA-TGGCATCGATACGAGAT-C
*
43032489 TATGCAAGACCATATC
1 TATGTAAGACCATATC
43032505 CGGGATATCC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
83 43 0.49
84 44 0.50
85 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (83 bp):
TATGTAAGACCATATCTAGGATATGACATCAATATGAGACTTCGTGTAAGACCATGTCTGGGATA
TGGCATCGATACGAGATC
Found at i:43042320 original size:28 final size:29
Alignment explanation
Indices: 43042287--43042386 Score: 148
Period size: 29 Copynumber: 3.5 Consensus size: 29
43042277 TATAGTAAGT
* * *
43042287 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43042315 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43042344 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
43042373 CCGCACACTTAGTG
1 CCGCACACTTAGTG
43042387 TCAATTTCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:43050188 original size:28 final size:29
Alignment explanation
Indices: 43050155--43050255 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
43050145 TATAGTAAGT
* * *
43050155 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43050183 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43050212 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
43050241 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
43050256 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:43055362 original size:6 final size:6
Alignment explanation
Indices: 43055353--43055417 Score: 114
Period size: 6 Copynumber: 11.0 Consensus size: 6
43055343 AGGTGAAATT
43055353 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
43055401 AAT-AA AATAAA ATTAAA
1 AATAAA AATAAA AATAAA
43055418 CATCATCATC
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
5 5 0.09
6 52 0.91
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:43064761 original size:29 final size:29
Alignment explanation
Indices: 43064726--43064795 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
43064716 AACTTTGGTA
43064726 TAATGGCATGTATAGGTTAATTTGGCCAT
1 TAATGGCATGTATAGGTTAATTTGGCCAT
*
43064755 TGATGGCATGTATAGGTTAATTTGGCCAT
1 TAATGGCATGTATAGGTTAATTTGGCCAT
43064784 TAATGGCATGTA
1 TAATGGCATGTA
43064796 AATGTTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (29 bp):
TAATGGCATGTATAGGTTAATTTGGCCAT
Found at i:43065336 original size:52 final size:52
Alignment explanation
Indices: 43065280--43065389 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
43065270 CTTGGTTGTT
* **
43065280 TGACCCTTATACCTACACATGGCCTATCACACGGGCGTGTAACTTGGCTATG
1 TGACCCCTATACCTACACACAGCCTATCACACGGGCGTGTAACTTGGCTATG
* * *
43065332 TGACCCCTGTACCTACACACAGCCTATCACACGGGCGTGTGACTTGGCTGTG
1 TGACCCCTATACCTACACACAGCCTATCACACGGGCGTGTAACTTGGCTATG
43065384 TGACCC
1 TGACCC
43065390 AAGTCAGAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.25
Consensus pattern (52 bp):
TGACCCCTATACCTACACACAGCCTATCACACGGGCGTGTAACTTGGCTATG
Found at i:43070397 original size:12 final size:13
Alignment explanation
Indices: 43070382--43070410 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
43070372 TAGAAATGAC
43070382 TAAATAAAT-AAA
1 TAAATAAATAAAA
43070394 TAAATAAATAAAA
1 TAAATAAATAAAA
43070407 TAAA
1 TAAA
43070411 GGGAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:43075133 original size:30 final size:30
Alignment explanation
Indices: 43075097--43075153 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43075087 ATGGCCATGA
**
43075097 CACACGGGTGTGTGG-TCTACCCGTGTGTCT
1 CACACGGGCATGTGGATC-ACCCGTGTGTCT
43075127 CACACGGGCATGTGGATCACCCGTGTG
1 CACACGGGCATGTGGATCACCCGTGTG
43075154 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.14, C:0.28, G:0.33, T:0.25
Consensus pattern (30 bp):
CACACGGGCATGTGGATCACCCGTGTGTCT
Found at i:43080275 original size:15 final size:17
Alignment explanation
Indices: 43080245--43080276 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
43080235 AGATTTCTGA
43080245 ATCTTGAGAGTTTCTTT
1 ATCTTGAGAGTTTCTTT
43080262 ATCTTG-GA-TTTCTTT
1 ATCTTGAGAGTTTCTTT
43080277 GTCTCAGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (17 bp):
ATCTTGAGAGTTTCTTT
Found at i:43082792 original size:79 final size:81
Alignment explanation
Indices: 43082656--43082838 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
43082646 TCGAATGATG
* *
43082656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
43082720 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
43082735 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43082797 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
43082815 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43082839 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:43082854 original size:40 final size:40
Alignment explanation
Indices: 43082657--43082840 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
43082647 CGAATGATGT
* * * *
43082657 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
43082697 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
43082737 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43082775 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43082816 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43082841 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43082862 original size:79 final size:79
Alignment explanation
Indices: 43082709--43082863 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
43082699 GGACTAAGAT
* **
43082709 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
43082774 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
43082788 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
43082851 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
43082864 ATTCGAAGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:43090821 original size:40 final size:40
Alignment explanation
Indices: 43090731--43090955 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
43090721 TCGAATGATG
* * * *
43090731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
43090771 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43090811 TCCGGGCTAAG-ACCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43090850 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43090890 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43090931 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43090956 AACAAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43090973 original size:80 final size:79
Alignment explanation
Indices: 43090823--43090978 Score: 190
Period size: 80 Copynumber: 2.0 Consensus size: 79
43090813 CGGGCTAAGA
* ** *
43090823 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACAAGTTACTA
43090888 AATCCGGGTTAAGTC
66 AATCC-GGTTAAGTC
* * * *
43090903 CCGAAGGTATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACAAG-TAGC
1 CCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTCGAACAAGTTA-C
*
43090966 TATATCCGGTTAA
64 TAAATCCGGTTAA
43090979 ATTCGAAGGT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
79 8 0.12
80 55 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACAAGTTACTA
AATCCGGTTAAGTC
Found at i:43098650 original size:21 final size:22
Alignment explanation
Indices: 43098626--43098678 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
43098616 AGTTAGTAAT
*
43098626 AAAGAAATG-GAAAAAAAAGAG
1 AAAGAAATGAGAAAAAAAAGAA
*
43098647 AAAGAAATGATGAAAACAAAGAA
1 AAAGAAATGA-GAAAAAAAAGAA
*
43098670 AAAAAAATG
1 AAAGAAATG
43098679 TGTCCATCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 9 0.33
23 18 0.67
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.08
Consensus pattern (22 bp):
AAAGAAATGAGAAAAAAAAGAA
Found at i:43100064 original size:40 final size:40
Alignment explanation
Indices: 43099918--43100100 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
43099908 TCGAATGATG
* * * *
43099918 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
43099958 TCC--ACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43099996 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43100035 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43100076 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43100101 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 22 0.18
39 43 0.35
40 56 0.46
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43100122 original size:79 final size:79
Alignment explanation
Indices: 43099969--43100133 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
43099959 CCACTAAGAT
* **
43099969 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43100034 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43100048 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
43100111 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43100127 CCGAAGG
1 CCGAAGG
43100134 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43107982 original size:46 final size:45
Alignment explanation
Indices: 43107923--43108087 Score: 181
Period size: 46 Copynumber: 3.6 Consensus size: 45
43107913 TGATACGAGT
43107923 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATGTAA
*
43107969 GCTAGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATG-ATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGTA-A
* * * * *
43108015 G-TCAGTGTAAGACCATGTCTGGGACATGACTTCGACTTGAGATATGA
1 GCT-AGTGTAAGA-CATGTCTGGGACATG-CATCGGCTCGAGATGTAA
* *
43108062 GCCAGTGTAAGACTGTGTCTGGGACA
1 GCTAGTGTAAGAC-ATGTCTGGGACA
43108088 GGGCATTGGC
Statistics
Matches: 103, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
45 4 0.04
46 51 0.50
47 42 0.41
48 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGTAA
Found at i:43108057 original size:47 final size:47
Alignment explanation
Indices: 43107876--43108087 Score: 163
Period size: 47 Copynumber: 4.5 Consensus size: 47
43107866 TTTGTGTGAG
* * * *
43107876 CTAGTGTAAGACCATGTATGGGACATGGCATT-GACATTGATACG--AGT
1 CTAGTGTAAGACCATGTCTGGGACAT-GC-TTCGAC-TCGAGATGTAAGT
* *
43107923 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTAAG-
1 -CTAGTGTAAGACCATGTCTGGGACATGCTTC-GACTCGAGATGTAAGT
* *
43107970 CTAGTGTAAGA-CATGTCTGGGACATGCGTCGGCTACGAGATG-ATAGT
1 CTAGTGTAAGACCATGTCTGGGACATGCTTCGACT-CGAGATGTA-AGT
* * *
43108017 C-AGTGTAAGACCATGTCTGGGACATGACTTCGACTTGAGATATGAG-
1 CTAGTGTAAGACCATGTCTGGGACATG-CTTCGACTCGAGATGTAAGT
* **
43108063 CCAGTGTAAGACTGTGTCTGGGACA
1 CTAGTGTAAGACCATGTCTGGGACA
43108088 GGGCATTGGC
Statistics
Matches: 138, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
45 5 0.04
46 55 0.40
47 59 0.43
48 19 0.14
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
CTAGTGTAAGACCATGTCTGGGACATGCTTCGACTCGAGATGTAAGT
Found at i:43109290 original size:22 final size:21
Alignment explanation
Indices: 43109265--43109305 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
43109255 TCAAATTGAT
*
43109265 CACACGGGCATGTTGCCCCTTC
1 CACACGAGCATG-TGCCCCTTC
*
43109287 CACACGAGCGTGTGCCCCT
1 CACACGAGCATGTGCCCCT
43109306 GTGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.15, C:0.41, G:0.24, T:0.20
Consensus pattern (21 bp):
CACACGAGCATGTGCCCCTTC
Found at i:43112145 original size:49 final size:48
Alignment explanation
Indices: 43112081--43112271 Score: 202
Period size: 49 Copynumber: 3.9 Consensus size: 48
43112071 TAGCCAAAGC
*
43112081 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG-AACCAAT
* * * * *
43112130 TATCCGGTACACATAGTAGCCTCCACTTAGTACTACAAATGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG-AACC-AAT
* * * * * *
43112180 CATCTGATACACGTAGTAGCATGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGAACCAA-T
* *
43112231 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATG
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
43112272 TGACCTCACA
Statistics
Matches: 114, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
49 42 0.37
50 36 0.32
51 34 0.30
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAACCAAT
Found at i:43112262 original size:101 final size:99
Alignment explanation
Indices: 43112094--43112277 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
43112084 CTGGTACGCA
* *
43112094 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACATAGTAGCCTCCACTTA
1 TAGTAGCATGCACTTAGTACTACACATGCAACCAATTATCAGGTACACATAGTAGCCTCCACTTA
43112159 GTACTACAAATGTGACCTAACCATCTGATACACG
66 GTACTACAAATGTGACCTAACCATCTGATACACG
* * * *
43112193 TAGTAGCATGCACTTAGTACTACACACGTG-ATCGAAGTTATCAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCATGCACTTAGTACTACACA--TGCAACCAA-TTATCAGGTACACATAGTAGCCTCCAC
*
43112257 TTAGTACTACACATGTGACCT
63 TTAGTACTACAAATGTGACCT
43112278 CACAATAGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 25 0.33
100 4 0.05
101 46 0.61
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCATGCACTTAGTACTACACATGCAACCAATTATCAGGTACACATAGTAGCCTCCACTTA
GTACTACAAATGTGACCTAACCATCTGATACACG
Found at i:43117918 original size:51 final size:50
Alignment explanation
Indices: 43117788--43117938 Score: 196
Period size: 51 Copynumber: 3.0 Consensus size: 50
43117778 CACTTATAGC
* * * *
43117788 CAAAGCTATCTGGTACGCATAGTAGCCTGCACTTGGTACTACACATGCGA
1 CAAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
* * * * *
43117838 CCAA-TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 CAAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
*
43117887 TCAAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 -CAAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
43117938 C
1 C
43117939 CTTACAATAG
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
49 38 0.45
50 7 0.08
51 40 0.47
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (50 bp):
CAAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
Found at i:43129476 original size:39 final size:39
Alignment explanation
Indices: 43129417--43129736 Score: 514
Period size: 39 Copynumber: 8.2 Consensus size: 39
43129407 CCCGAAATTT
* *
43129417 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
* *
43129456 CATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCTGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
* *
43129495 CATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
*
43129534 TATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
* * * *
43129573 TATTTCCAGCGCAAAGCCTGCGTGACTTTAGCCCTGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
* *
43129612 CATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGAATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
*
43129651 TATTTCCAGCACAAAGCCTGCGGGTCTTTGGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
43129690 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
43129729 TATTTCCA
1 TATTTCCA
43129737 TACACATTTC
Statistics
Matches: 259, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 259 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATA
Found at i:43132564 original size:18 final size:18
Alignment explanation
Indices: 43132541--43132577 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43132531 GTCTTACATG
43132541 AAATCAAATACGATGTCA
1 AAATCAAATACGATGTCA
43132559 AAATCAAATACGATGTCA
1 AAATCAAATACGATGTCA
43132577 A
1 A
43132578 CATCCCAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (18 bp):
AAATCAAATACGATGTCA
Found at i:43140525 original size:20 final size:20
Alignment explanation
Indices: 43140487--43140532 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
43140477 TAAGCTCAGT
*
43140487 TGAGCTCAAACAAGTTGAAA
1 TGAGCTCAAACAAGCTGAAA
** *
43140507 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACAAGCTGAAA
43140527 TGAGCT
1 TGAGCT
43140533 GGACAAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTGAAA
Found at i:43143131 original size:21 final size:20
Alignment explanation
Indices: 43143098--43143136 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43143088 GGATTAAACT
*
43143098 GAAAAATTTGAAAACTTTCGA
1 GAAAAATTAGAAAA-TTTCGA
*
43143119 GAAAACTTAGAAAATTTC
1 GAAAAATTAGAAAATTTC
43143137 ATCATGAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
GAAAAATTAGAAAATTTCGA
Found at i:43151732 original size:37 final size:37
Alignment explanation
Indices: 43151647--43151784 Score: 169
Period size: 37 Copynumber: 3.8 Consensus size: 37
43151637 TCTCATATTA
43151647 ATGCCAT-GTCCCAGAC-ATGGTCTTACACGT-ATCAC-
1 ATGCCATAG-CCCAG-CTATGGTCTTACACGTCATCACG
* *
43151682 AGTGCCATAGCCCAGCTATGGTCTTACATGTCCTCACG
1 A-TGCCATAGCCCAGCTATGGTCTTACACGTCATCACG
*
43151720 ATGCCATAGCCCAGCTATGGTCTTACACG-CTATTACG
1 ATGCCATAGCCCAGCTATGGTCTTACACGTC-ATCACG
*
43151757 ATGCCATAACCCAGCTATGGTCTTACAC
1 ATGCCATAGCCCAGCTATGGTCTTACAC
43151785 ATACTCACAT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
35 2 0.02
36 25 0.27
37 63 0.69
38 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGTCATCACG
Found at i:43151740 original size:73 final size:74
Alignment explanation
Indices: 43151647--43151783 Score: 201
Period size: 74 Copynumber: 1.9 Consensus size: 74
43151637 TCTCATATTA
*
43151647 ATGCCATGTCCCAGACATGGTCTTACACG-TATCAC-AGTGCCATAGCCCAGCTATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACACGCTATCACGA-TGCCATAACCCAGCTATGGTCTTACA
43151710 TGTCCTCACG
65 TGTCCTCACG
*
43151720 ATGCCATAG-CCCAG-CTATGGTCTTACACGCTATTACGATGCCATAACCCAGCTATGGTCTTAC
1 ATGCCAT-GTCCCAGAC-ATGGTCTTACACGCTATCACGATGCCATAACCCAGCTATGGTCTTAC
43151783 A
64 A
43151784 CATACTCACA
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
72 1 0.02
73 25 0.43
74 31 0.53
75 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (74 bp):
ATGCCATGTCCCAGACATGGTCTTACACGCTATCACGATGCCATAACCCAGCTATGGTCTTACAT
GTCCTCACG
Found at i:43152171 original size:8 final size:8
Alignment explanation
Indices: 43152158--43152192 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
43152148 TTTCATTTCA
43152158 TTCCACAT
1 TTCCACAT
43152166 TTCCACAT
1 TTCCACAT
43152174 TTCCACAT
1 TTCCACAT
43152182 TTCCACAT
1 TTCCACAT
43152190 TTC
1 TTC
43152193 TCAACTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (8 bp):
TTCCACAT
Found at i:43160112 original size:39 final size:39
Alignment explanation
Indices: 43160006--43160119 Score: 133
Period size: 39 Copynumber: 2.9 Consensus size: 39
43159996 CCGGACATAC
* * * * *
43160006 TTCCAACACGTAGCCTGCAGACCTTAAGTC-CGATTATAA
1 TTCCAGCACATAGCCTACGGACCTTAAGTCTGGA-TATAA
43160045 TTCCAGCACATAGCCTACGGACCTTAAGTCTGGATATAA
1 TTCCAGCACATAGCCTACGGACCTTAAGTCTGGATATAA
* *
43160084 TTCCAGCACATAGCCTGCGTATCC-TAAGTCTGGATA
1 TTCCAGCACATAGCCTACGGA-CCTTAAGTCTGGATA
43160120 AACATCACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 62 0.94
40 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTACGGACCTTAAGTCTGGATATAA
Found at i:43164780 original size:48 final size:48
Alignment explanation
Indices: 43164689--43164780 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
43164679 CTTACCGAAG
*
43164689 CCATATCCCAAATATGGTCTTACACGTAATCTCATATCGATGCCGATT
1 CCATATCCCAAATATGGTCTTACACGTAATCTCATATCAATGCCGATT
* * *
43164737 CCATATCCCAGATATGGTCTTACACAG-GATCTCATATTAATGCC
1 CCATATCCCAAATATGGTCTTACAC-GTAATCTCATATCAATGCC
43164781 ATGTCCCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (48 bp):
CCATATCCCAAATATGGTCTTACACGTAATCTCATATCAATGCCGATT
Found at i:43164861 original size:37 final size:37
Alignment explanation
Indices: 43164776--43164914 Score: 162
Period size: 37 Copynumber: 3.8 Consensus size: 37
43164766 TCTCATATTA
*
43164776 ATGCCAT-GTCCCAGAC-ATGGTCTTACACG-TATCACA
1 ATGCCATAG-CCCAG-CTATGGTCTTACACGCTATCACG
*
43164812 ATGCCATAGCCCAGCTATGGTCTTAC-CTG-TCCTCACG
1 ATGCCATAGCCCAGCTATGGTCTTACAC-GCT-ATCACG
* *
43164849 ATGCCATAGCCCAACTATGGTCTTACACGCTATTACG
1 ATGCCATAGCCCAGCTATGGTCTTACACGCTATCACG
*
43164886 ATGCCATAACCCAGCTATGGTCTTACACG
1 ATGCCATAGCCCAGCTATGGTCTTACACG
43164915 TACTCACATG
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
35 2 0.02
36 24 0.27
37 62 0.69
38 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGCTATCACG
Found at i:43164921 original size:74 final size:73
Alignment explanation
Indices: 43164776--43164921 Score: 199
Period size: 74 Copynumber: 2.0 Consensus size: 73
43164766 TCTCATATTA
*
43164776 ATGCCATGTCCCAGACATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACCTG
1 ATGCCATGTCCCAGACATGGTCTTACACGTATCACAATGCCATAACCCAGCTATGGTCTTACCTG
*
43164841 TCCTCACG
66 TACTCACG
* *
43164849 ATGCCATAG-CCCA-ACTATGGTCTTACACGCTATTACGATGCCATAACCCAGCTATGGTCTTAC
1 ATGCCAT-GTCCCAGAC-ATGGTCTTACACG-TATCACAATGCCATAACCCAGCTATGGTCTTAC
43164912 AC-GTACTCAC
63 -CTGTACTCAC
43164922 ATGTATTGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
72 2 0.03
73 24 0.37
74 38 0.58
75 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (73 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTATCACAATGCCATAACCCAGCTATGGTCTTACCTG
TACTCACG
Found at i:43165300 original size:8 final size:8
Alignment explanation
Indices: 43165287--43165313 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
43165277 TTTCATTTCA
43165287 TTCCACAT
1 TTCCACAT
43165295 TTCCACAT
1 TTCCACAT
43165303 TTCCACAT
1 TTCCACAT
43165311 TTC
1 TTC
43165314 TCAACTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (8 bp):
TTCCACAT
Found at i:43165982 original size:13 final size:13
Alignment explanation
Indices: 43165964--43165989 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43165954 AACAAAATAG
43165964 AGTCACACGGCCA
1 AGTCACACGGCCA
43165977 AGTCACACGGCCA
1 AGTCACACGGCCA
43165990 GCTGCTAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (13 bp):
AGTCACACGGCCA
Found at i:43190394 original size:120 final size:119
Alignment explanation
Indices: 43190172--43190434 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
43190162 TCCTCGTTCA
* * **
43190172 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
* * * *
43190237 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* *
43190290 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
** * ** *
43190355 TTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
43190411 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
43190435 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 36 0.30
120 80 0.66
121 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:43190395 original size:40 final size:40
Alignment explanation
Indices: 43190172--43190381 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
43190162 TCCTCGTTCA
* * * ** *
43190172 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
43190211 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
43190251 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
43190291 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
43190331 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
43190371 AAGGCCTTCGG
1 AATGCCTTCGG
43190382 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:43190418 original size:80 final size:80
Alignment explanation
Indices: 43190175--43190434 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 80
43190165 TCGTTCAAAT
* * * ** * * *
43190175 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
43190239 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * *
43190254 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
43190319 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
** * **
43190334 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
43190398 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
43190414 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
43190435 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 33 0.21
80 120 0.75
81 6 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:43190443 original size:41 final size:41
Alignment explanation
Indices: 43190366--43190443 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43190356 TTAGTATCTC
* * *
43190366 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43190407 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43190444 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43202451 original size:15 final size:15
Alignment explanation
Indices: 43202431--43202462 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43202421 GTGCATTTGG
*
43202431 AAATGTAAAGGGTAA
1 AAATGTAAAGGGCAA
43202446 AAATGTAAAGGGCAA
1 AAATGTAAAGGGCAA
43202461 AA
1 AA
43202463 GCTATAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.25, T:0.16
Consensus pattern (15 bp):
AAATGTAAAGGGCAA
Found at i:43204911 original size:47 final size:47
Alignment explanation
Indices: 43204833--43205323 Score: 793
Period size: 47 Copynumber: 10.4 Consensus size: 47
43204823 CCCTTCGGGA
* * * * * * *
43204833 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43204880 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43204927 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43204974 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43205021 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43205068 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43205115 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43205162 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43205211 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43205258 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43205305 CTTATCACATATATACACT
1 CTTATCACATATATACACT
43205324 GTCTTGGCTG
Statistics
Matches: 422, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 376 0.89
49 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43210916 original size:46 final size:46
Alignment explanation
Indices: 43210856--43211175 Score: 478
Period size: 46 Copynumber: 7.0 Consensus size: 46
43210846 TTTGACATGA
* * * * * ** * *
43210856 TGCCATAGTGTCTTTAAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
43210902 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* **
43210948 TGCCATGGTATCTTTCAACCACGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43210994 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
43211040 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43211086 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43211132 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
43211176 AGAGCACACT
Statistics
Matches: 257, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 257 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:43213275 original size:11 final size:11
Alignment explanation
Indices: 43213259--43213306 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
43213249 CTTTATATAC
43213259 TAATAAAATAA
1 TAATAAAATAA
*
43213270 TAATAAAATATCT
1 TAATAAAATA--A
* *
43213283 TATTAAAATAT
1 TAATAAAATAA
43213294 TAATAAAATAA
1 TAATAAAATAA
43213305 TA
1 TA
43213307 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:43214266 original size:55 final size:56
Alignment explanation
Indices: 43214207--43214330 Score: 191
Period size: 55 Copynumber: 2.3 Consensus size: 56
43214197 CCCGTGTGCG
* * *
43214207 ACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCTTGCTCGTGTAC-A
1 ACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCTACCCGTGTACTA
*
43214262 ACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTACCCGTGTACTA
1 ACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCTACCCGTGTACTA
43214318 A-ACTGAC-TTAAAA
1 ACACTGACTTTAAAA
43214331 TTTTAAGTGC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 6 0.09
55 56 0.88
56 2 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (56 bp):
ACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCTACCCGTGTACTA
Found at i:43215317 original size:48 final size:46
Alignment explanation
Indices: 43215146--43215361 Score: 183
Period size: 48 Copynumber: 4.6 Consensus size: 46
43215136 AGGCCAATGC
* * * *
43215146 CATGTCCCAGACATGGTCTTATACTAGCTCT-AGTATATACGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCA-TCTCTAC--GCTGATG
* * * *
43215195 CATGTCCCGGACATGCCTTACACTAGCAC-GA-CTCTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTC-TACGCTGATG
*
43215239 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCTGATG
* * * *
43215285 CCATGTCCCAGACATGGTCTTACACT-GCCACTCATAATGTGC-CCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG-CACTCAT-CTCTACGCTGATG
*
43215333 TATGTCCCAGACATGTCTTACACTAGCAC
1 CATGTCCCAGACATGTCTTACACTAGCAC
43215362 ACAAGAAATC
Statistics
Matches: 140, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
44 32 0.23
45 3 0.02
46 23 0.16
47 31 0.22
48 35 0.25
49 16 0.11
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCTGATG
Found at i:43216789 original size:43 final size:40
Alignment explanation
Indices: 43216741--43216822 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 40
43216731 AGGGTAAATC
* * *
43216741 CAACAACCCATGTTTATCTTTTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCT-C-CTTTTTAAATT-TTTTTT
43216784 CAACAACCCAAGATTATCTTCTCCTTTTTAAATTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTAAATTTTTTT
43216823 AAGATAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 5 0.14
41 11 0.31
42 1 0.03
43 19 0.53
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.50
Consensus pattern (40 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTAAATTTTTTTT
Found at i:43233588 original size:55 final size:55
Alignment explanation
Indices: 43233499--43233623 Score: 223
Period size: 55 Copynumber: 2.3 Consensus size: 55
43233489 TGCTAAGGTT
*
43233499 TATAATGGCATGTATAGGGTGATTTGTGATGGTATTATGGTGTATGTGTTAATAG
1 TATATTGGCATGTATAGGGTGATTTGTGATGGTATTATGGTGTATGTGTTAATAG
*
43233554 TATATTGGCATGTATAGGGTGCTTTGTGATGGTATTATGGTGTATGTGTTAATAG
1 TATATTGGCATGTATAGGGTGATTTGTGATGGTATTATGGTGTATGTGTTAATAG
*
43233609 TGTATTGGCATGTAT
1 TATATTGGCATGTAT
43233624 TAGCTTTGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.43
Consensus pattern (55 bp):
TATATTGGCATGTATAGGGTGATTTGTGATGGTATTATGGTGTATGTGTTAATAG
Found at i:43242461 original size:44 final size:44
Alignment explanation
Indices: 43242377--43242461 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
43242367 TACAGTATCG
* * *
43242377 CATCCATTATGAACTAGGACCAATTCAACGAGTTCGGATGCTCC
1 CATCCATTATGAACTAGAACCAACTCAACGAGTTCAGATGCTCC
*
43242421 CATCCA-TAGTGAACTCGAACCAACTCAACGAGCTT-AGATGC
1 CATCCATTA-TGAACTAGAACCAACTCAACGAG-TTCAGATGC
43242462 CTCATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.06
44 31 0.89
45 2 0.06
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (44 bp):
CATCCATTATGAACTAGAACCAACTCAACGAGTTCAGATGCTCC
Found at i:43244243 original size:54 final size:54
Alignment explanation
Indices: 43244161--43244267 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
43244151 CCACTTTATG
43244161 ATACATCACTGGAAATCATGAATTTCTTGCCCATTGTAGGCCAAGACAAATCTT
1 ATACATCACTGGAAATCATGAATTTCTTGCCCATTGTAGGCCAAGACAAATCTT
*
43244215 ATACATCACTGGAAATCATGAATTTCTTGCCCATTGTAGGCCAAGCCAAATCT
1 ATACATCACTGGAAATCATGAATTTCTTGCCCATTGTAGGCCAAGACAAATCT
43244268 AACATTTCGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (54 bp):
ATACATCACTGGAAATCATGAATTTCTTGCCCATTGTAGGCCAAGACAAATCTT
Found at i:43245575 original size:17 final size:17
Alignment explanation
Indices: 43245553--43245586 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43245543 TAACTGTGAC
43245553 ATGGCATAGTTTGAATG
1 ATGGCATAGTTTGAATG
43245570 ATGGCATAGTTTGAATG
1 ATGGCATAGTTTGAATG
43245587 GTCTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
ATGGCATAGTTTGAATG
Found at i:43248221 original size:44 final size:44
Alignment explanation
Indices: 43248134--43248221 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
43248124 ATTACATGTA
* *
43248134 TCGCATCCATTATGAACTAGGACCAATTCAACGAGTTCGGATGC
1 TCGCATCCATTATGAACTAGGACCAACTCAACGAGTTCAGATGC
*
43248178 TCGCATCCA-TAGTGAACTCGGACCAACTCAACGAGCTT-AGATGC
1 TCGCATCCATTA-TGAACTAGGACCAACTCAACGAG-TTCAGATGC
43248222 CTCATATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 2 0.05
44 35 0.90
45 2 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (44 bp):
TCGCATCCATTATGAACTAGGACCAACTCAACGAGTTCAGATGC
Found at i:43260730 original size:43 final size:43
Alignment explanation
Indices: 43260661--43260801 Score: 237
Period size: 43 Copynumber: 3.3 Consensus size: 43
43260651 GCTGGTATTA
* *
43260661 TATTCGGGCCTTCGTGCTTAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
43260704 TATTCGGGCCTTCGTGCCTAGTAGGCTTCATGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
43260747 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
43260790 TATTCGGGCCTT
1 TATTCGGGCCTT
43260802 TGAGCCTTGC
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.11, C:0.23, G:0.33, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:43263861 original size:13 final size:13
Alignment explanation
Indices: 43263843--43263868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43263833 AATATATTTC
43263843 ACCTAAACCAAAA
1 ACCTAAACCAAAA
43263856 ACCTAAACCAAAA
1 ACCTAAACCAAAA
43263869 CAAATAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCTAAACCAAAA
Found at i:43265057 original size:25 final size:25
Alignment explanation
Indices: 43265029--43265079 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
43265019 AATCACATTA
43265029 ATTCATTGATAATTCTCATTCGGCT
1 ATTCATTGATAATTCTCATTCGGCT
43265054 ATTCATTGATAATTCTCATTCGGCT
1 ATTCATTGATAATTCTCATTCGGCT
43265079 A
1 A
43265080 ACATACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTCATTGATAATTCTCATTCGGCT
Found at i:43268699 original size:29 final size:29
Alignment explanation
Indices: 43268666--43268723 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
43268656 TCTCTGACTC
43268666 GTAACTGATAATAACCCGATCTCAAATCT
1 GTAACTGATAATAACCCGATCTCAAATCT
*
43268695 GTAACTGATAATAACCTGATCTCAAATCT
1 GTAACTGATAATAACCCGATCTCAAATCT
43268724 ATCTTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (29 bp):
GTAACTGATAATAACCCGATCTCAAATCT
Found at i:43276548 original size:49 final size:47
Alignment explanation
Indices: 43276485--43276651 Score: 130
Period size: 49 Copynumber: 3.5 Consensus size: 47
43276475 ATCGATACTG
*
43276485 TGTCCCAAATAGGTCTTACACTGACTTTTGTATATCGAGGCCTATGCCA
1 TGTCCCAAACAGGTCTTACACTGAC-TTTGTATATCGAGG-CTATGCCA
* * ** *
43276534 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC-AGTG-TAAATGCCA
1 TGTCCCAAACAGGTCTTACACTGACT-TTGTATATCGAG-GCT--ATGCCA
43276583 TGTCCCAAACAGGTCTTACACTAGA--TTGTATATCCCGAGGCTGATG-CA
1 TGTCCCAAACAGGTCTTACACT-GACTTTGTATAT--CGAGGCT-ATGCCA
* *
43276631 T-TCCCAGACATGTCTTACACT
1 TGTCCCAAACAGGTCTTACACT
43276652 ATATCTCGTC
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
47 24 0.25
48 6 0.06
49 61 0.64
50 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
TGTCCCAAACAGGTCTTACACTGACTTTGTATATCGAGGCTATGCCA
Found at i:43276689 original size:46 final size:45
Alignment explanation
Indices: 43276625--43276753 Score: 142
Period size: 46 Copynumber: 2.9 Consensus size: 45
43276615 TCCCGAGGCT
*
43276625 GATGCAT-TCCCAGACATGTCTTACACTATATCTCGTC-TCAATAT-C
1 GATGCATGTCCCAGACATGTCTTACACTAT-GCTC-TCAT-AATATGC
* *
43276670 GATGCATGTCCCAGGCATGTCTTACACT-TGCTCTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTATGCTCTCATAATAT-G-C
*
43276716 GATGCATGTCCCAGACATGTCTTACACTA-GCTCACATA
1 GATGCATGTCCCAGACATGTCTTACACTATGCTCTCATA
43276754 CCACCCAATG
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
43 6 0.08
44 4 0.05
45 8 0.11
46 55 0.75
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTATGCTCTCATAATATGC
Found at i:43280702 original size:26 final size:26
Alignment explanation
Indices: 43280673--43280725 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
43280663 TCAAACATGC
43280673 ATTTAGGTCAATTTA-CTCATAGGGGT
1 ATTTAGGT-AATTTATCTCATAGGGGT
* * *
43280699 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCATAGGGGT
43280725 A
1 A
43280726 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCATAGGGGT
Found at i:43282019 original size:24 final size:24
Alignment explanation
Indices: 43281982--43282080 Score: 144
Period size: 24 Copynumber: 4.1 Consensus size: 24
43281972 AACTCCTGCT
* *
43281982 CTTTGATCAACTCCTAAATCTTCTC
1 CTTT-ATCAGCTCCTAAATCCTCTC
43282007 CTTTATCAGCTCCTAAATCCTCTC
1 CTTTATCAGCTCCTAAATCCTCTC
*
43282031 CCTTATCAGCTCCTAAATCCTCTC
1 CTTTATCAGCTCCTAAATCCTCTC
* *
43282055 CCTTATCAGCTCCTAAATCTTCTC
1 CTTTATCAGCTCCTAAATCCTCTC
43282079 CT
1 CT
43282081 GACATCCTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 65 0.94
25 4 0.06
ACGTcount: A:0.21, C:0.37, G:0.04, T:0.37
Consensus pattern (24 bp):
CTTTATCAGCTCCTAAATCCTCTC
Found at i:43288631 original size:24 final size:24
Alignment explanation
Indices: 43288589--43288694 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 24
43288579 GCTGGCCAAC
*
43288589 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
* *
43288614 TCTTCTCCTTTATTAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
43288638 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
43288662 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
43288686 TCTTCTCCT
1 TCCTCTCCT
43288695 GACAGCCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 70 0.96
25 3 0.04
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.38
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:43292102 original size:47 final size:47
Alignment explanation
Indices: 43292031--43292409 Score: 661
Period size: 47 Copynumber: 8.1 Consensus size: 47
43292021 GAAATGATAG
*
43292031 TAAGGCCTAATGGCCGATGAGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43292078 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43292125 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43292172 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43292219 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43292266 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43292313 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
43292360 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43292406 TAAG
1 TAAG
43292410 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
46 37 0.12
47 282 0.88
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:43292584 original size:37 final size:37
Alignment explanation
Indices: 43292528--43292606 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43292518 CCGAGCTCTA
* *
43292528 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
43292565 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43292602 AAGAC
1 AAGAC
43292607 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43294502 original size:43 final size:43
Alignment explanation
Indices: 43294454--43294556 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
43294444 TTGGTTTTCA
43294454 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43294497 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
43294540 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
43294557 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:43294573 original size:29 final size:29
Alignment explanation
Indices: 43294538--43294611 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43294528 GTTGTGAGAT
* *
43294538 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43294567 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43294596 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43294612 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43295057 original size:40 final size:40
Alignment explanation
Indices: 43294922--43295116 Score: 173
Period size: 40 Copynumber: 4.9 Consensus size: 40
43294912 TCGAATGATG
* ** *
43294922 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCT-AGTGA-TATA
* * ** * * *
43294962 TCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA-TATA
*
43295002 TCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
*
43295041 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
* * * * *
43295081 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
43295117 CGTGTATTCG
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 20 0.16
40 103 0.80
41 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
Found at i:43295057 original size:79 final size:80
Alignment explanation
Indices: 43294960--43295116 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 80
43294950 TAAGTGACCA
* * *
43294960 TATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAGT-CCGAAGAGC
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGA-TAAATCCGGGCTAAATCCCGAAGAGC
*
43295023 ATTCATGCTAGTGATG
65 AATCATGCTAGTGATG
* * * * *
43295039 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCA
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
*
43295104 ATCATGCTGGTGA
66 ATCATGCTAGTGA
43295117 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
79 32 0.48
80 34 0.52
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
ATCATGCTAGTGATG
Found at i:43298584 original size:47 final size:47
Alignment explanation
Indices: 43298518--43298895 Score: 661
Period size: 47 Copynumber: 8.1 Consensus size: 47
43298508 GAAATGATAG
43298518 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43298565 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43298612 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43298659 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43298705 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43298752 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43298799 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
43298846 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43298892 TAAG
1 TAAG
43298896 TCCCGAAGGG
Statistics
Matches: 318, Mismatches: 11, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
46 83 0.26
47 235 0.74
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:43298700 original size:140 final size:141
Alignment explanation
Indices: 43298518--43298895 Score: 661
Period size: 140 Copynumber: 2.7 Consensus size: 141
43298508 GAAATGATAG
43298518 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
43298583 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
43298648 TATATATGTGA
131 TATATATGTGA
43298659 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
43298723 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
43298788 TATATATGTGA
131 TATATATGTGA
** * * * *
43298799 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
43298863 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
43298896 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
140 181 0.80
141 46 0.20
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:43298833 original size:187 final size:187
Alignment explanation
Indices: 43298518--43298895 Score: 659
Period size: 187 Copynumber: 2.0 Consensus size: 187
43298508 GAAATGATAG
43298518 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
43298583 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
43298648 TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TATATATGTGA-AAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
43298705 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
43298770 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
** * *
43298835 TATATATGTGACGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
131 TATATATGTGAAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
43298892 TAAG
1 TAAG
43298896 TCCCGAAGGG
Statistics
Matches: 181, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
186 6 0.03
187 175 0.97
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (187 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGAAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
Found at i:43299070 original size:37 final size:37
Alignment explanation
Indices: 43299014--43299092 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43299004 CCGAGCTCTA
* *
43299014 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
43299051 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43299088 AAGAC
1 AAGAC
43299093 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43306518 original size:33 final size:34
Alignment explanation
Indices: 43306444--43306528 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 34
43306434 TTATAAAACC
* *
43306444 TAAAGATAAAGTAAAAA-CAGTATTAAAGAGAAA
1 TAAAGATAAAATAAAAAGAAGTATTAAAGAGAAA
*
43306477 TAAA-ATAAAATAAAAAGTAAGT-TTAAA-ATAAA
1 TAAAGATAAAATAAAAAG-AAGTATTAAAGAGAAA
43306509 TAAAGATAAAAGTAAAAAGA
1 TAAAGATAAAA-TAAAAAGA
43306529 TAGAAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
32 19 0.42
33 16 0.36
34 10 0.22
ACGTcount: A:0.67, C:0.01, G:0.12, T:0.20
Consensus pattern (34 bp):
TAAAGATAAAATAAAAAGAAGTATTAAAGAGAAA
Found at i:43315691 original size:40 final size:39
Alignment explanation
Indices: 43315619--43315756 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
43315609 GCTACTCGTT
* * *
43315619 CAAATGCCTTCAGGACATAGCCC-GGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCAGATT-TAGTAACTCGCA
43315659 CAAATGCCTTCCGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTT-CGGACTTAACCCAGATTTAGTAACTCGCA
* * * * * * *
43315699 CCAATGCCTTTGGGCTT-AGCAAGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCA-GATTTAGTAACTCGCA
43315738 CAAATGCCTTCGGATCTTA
1 CAAATGCCTTCGGA-CTTA
43315757 GTCCGGATAT
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
38 3 0.04
39 30 0.38
40 43 0.54
41 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCAGATTTAGTAACTCGCA
Found at i:43315787 original size:79 final size:80
Alignment explanation
Indices: 43315647--43315798 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 80
43315637 AGCCCGGTTA
* * * *
43315647 TAGTAACTCGCACAAATGCCTTCCGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTTGG
1 TAGTAACTCGCACAAATGCCTTCCGGACTTAACCCAGATATAGTAACTAGCACCAAAGCCTTCGG
43315712 G-CTTAGCAAGGAAT
66 GACTTAGCAAGGAAT
* ** * * *
43315726 TAGTATCTCGCACAAATGCCTT-CGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCCGGA-CTTAACCCAGATATAGTAAC-TAGCACCAAAGCCTTC
43315789 GGGACTTAGC
64 GGGACTTAGC
43315799 CCGGACATCA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
78 4 0.07
79 46 0.77
80 10 0.17
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCCGGACTTAACCCAGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCAAGGAAT
Found at i:43322467 original size:29 final size:29
Alignment explanation
Indices: 43322409--43322498 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
43322399 CACATACCTG
*
43322409 TATATGGCCCA-CGAGGCC-TAATCACATT
1 TATATGGCCCATC-AGGCCAAAATCACATT
* *
43322437 TATATGGCCCATTAGGTCAAAATCACATT
1 TATATGGCCCATCAGGCCAAAATCACATT
* *
43322466 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATCAGGCCAAAATCACATT
43322495 TATA
1 TATA
43322499 GTCATGCTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 15 0.28
29 38 0.72
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATCAGGCCAAAATCACATT
Found at i:43322734 original size:16 final size:16
Alignment explanation
Indices: 43322715--43322753 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
43322705 TCAAACTTTG
43322715 GGCTTTTCAACATTTT
1 GGCTTTTCAACATTTT
**
43322731 GGCTTTTCGGCATTTT
1 GGCTTTTCAACATTTT
43322747 GGCTTTT
1 GGCTTTT
43322754 GCCGATCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.10, C:0.18, G:0.21, T:0.51
Consensus pattern (16 bp):
GGCTTTTCAACATTTT
Found at i:43323498 original size:4 final size:4
Alignment explanation
Indices: 43323489--43323514 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
43323479 TATTTATACT
43323489 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
43323515 ATACACTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:43326361 original size:13 final size:13
Alignment explanation
Indices: 43326343--43326369 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43326333 GTTCGACATG
43326343 GACACGCCCGTGT
1 GACACGCCCGTGT
43326356 GACACGCCCGTGT
1 GACACGCCCGTGT
43326369 G
1 G
43326370 CGATTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:43328083 original size:40 final size:40
Alignment explanation
Indices: 43328028--43328233 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
43328018 TATTCGGATG
*
43328028 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43328068 ATATCCAGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43328108 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43328148 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43328188 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
43328228 ATATCC
1 ATATCC
43328234 AACTAACTCC
Statistics
Matches: 156, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
40 154 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43333649 original size:46 final size:46
Alignment explanation
Indices: 43333547--43333677 Score: 140
Period size: 46 Copynumber: 2.8 Consensus size: 46
43333537 ATCCTGAGGT
* *
43333547 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGT-CTCAATGC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAAT-AATGC
** * *
43333593 CGATATATGTCCTAGACATGTCTTCCACTGGCTCTCATAAT-ATGGC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAATAAT-GC
* * * *
43333639 TGATGCATGTCCCAGACATTTCTTACACTAGCTCACATA
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATA
43333678 CCACCCAATG
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
45 2 0.03
46 66 0.96
47 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (46 bp):
CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAATAATGC
Found at i:43348973 original size:15 final size:16
Alignment explanation
Indices: 43348943--43348977 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
43348933 TATACATATG
43348943 TCATGCAAAAATTATA
1 TCATGCAAAAATTATA
*
43348959 TCATGC-AATATTATA
1 TCATGCAAAAATTATA
43348974 TCAT
1 TCAT
43348978 AAATCTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (16 bp):
TCATGCAAAAATTATA
Found at i:43353775 original size:7 final size:7
Alignment explanation
Indices: 43353763--43353789 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
43353753 AAGTAACATT
43353763 TTTATCA
1 TTTATCA
43353770 TTTATCA
1 TTTATCA
43353777 TTTATCA
1 TTTATCA
43353784 TTTATC
1 TTTATC
43353790 GGGCATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:43354154 original size:18 final size:18
Alignment explanation
Indices: 43354131--43354165 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
43354121 CCCTAGGCTC
43354131 GGAAAATGAAATTTATGT
1 GGAAAATGAAATTTATGT
43354149 GGAAAATGAAATTTATG
1 GGAAAATGAAATTTATG
43354166 CAATTTACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (18 bp):
GGAAAATGAAATTTATGT
Found at i:43356650 original size:27 final size:27
Alignment explanation
Indices: 43356619--43357228 Score: 756
Period size: 27 Copynumber: 22.6 Consensus size: 27
43356609 TTAATTTACC
43356619 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
43356646 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43356673 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
43356700 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
43356727 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
43356754 AAATTACTAAAATACCCTTGCTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43356781 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43356808 AAATTACCAAAATACCCTTGG-TT-TA
1 AAATTACCAAAATACCCCTGGTTTGTA
43356833 CAAATTACCAAAATACCCCTGGTTTGTA
1 -AAATTACCAAAATACCCCTGGTTTGTA
** * * *
43356861 AAATTAGTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
43356888 AAATCACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
43356915 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
43356942 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
43356969 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43356996 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
43357023 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43357050 AAATTACCAAAATAACCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
43357077 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43357104 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43357131 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
43357158 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
43357185 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
43357212 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
43357229 TCGACCTATA
Statistics
Matches: 497, Mismatches: 83, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
25 2 0.00
26 22 0.04
27 471 0.95
28 2 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:43356688 original size:54 final size:54
Alignment explanation
Indices: 43356619--43357336 Score: 882
Period size: 54 Copynumber: 13.3 Consensus size: 54
43356609 TTAATTTACC
*
43356619 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
43356673 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
43356727 AAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGCTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
43356781 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTA-C
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** *
43356834 AAATTACCAAAATACCCCTGGTTTGTAAAATTAGTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* ** *
43356888 AAATCACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
43356942 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
43356996 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
43357050 AAATTACCAAAATAACCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
43357104 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *
43357158 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** *** * *** *** *
43357212 AAATTACTGAAATA-CCCTCGACCTATAAAATTATTGAAATACCCTTAACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * **** * *
43357266 AAATTACCAAAGTACCTCTGATTTATAGAATTACCGTTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
43357320 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
43357337 TTGTAGGGTA
Statistics
Matches: 573, Mismatches: 88, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
53 52 0.09
54 518 0.90
55 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:43357228 original size:108 final size:108
Alignment explanation
Indices: 43356613--43357201 Score: 982
Period size: 108 Copynumber: 5.5 Consensus size: 108
43356603 AATACTTTAA
*
43356613 TTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
43356678 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
* * *
43356721 TTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGCTTTATAAAATC
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
*
43356786 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
* *
43356829 TTTAC-AAATTACCAAAATACCCCTGGTTTGTAAAATTAGTAGAATACCCTTGGTTTATAAAATC
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
** *
43356893 ACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTGG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
*
43356936 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATC
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
43357001 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
* * *
43357044 TTTACAAAATTACCAAAATAACCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
* *
43357109 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
** * * *
43357152 TTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
43357202 CTGATTTGTG
Statistics
Matches: 452, Mismatches: 28, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
107 100 0.22
108 352 0.78
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (108 bp):
TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG
Found at i:43357335 original size:27 final size:27
Alignment explanation
Indices: 43356619--43357339 Score: 645
Period size: 27 Copynumber: 26.7 Consensus size: 27
43356609 TTAATTTACC
* *
43356619 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
43356646 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
43356673 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
**
43356700 AAATTACCAAAATACCCTT-AGTTTACA
1 AAATTACCAAAATACCCTTGA-TTTGTA
43356727 AAATTACCAAAATACCCTT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* * *
43356754 AAATTACTAAAATACCCTTGCTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
43356781 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
43356808 AAATTACCAAAATACCCTTG-GTT-TA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
43356833 CAAATTACCAAAATACCCCTGGTTTGTA
1 -AAATTACCAAAATACCCTTGATTTGTA
** * * *
43356861 AAATTAGTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
43356888 AAATCACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* **
43356915 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
43356942 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * * *
43356969 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
43356996 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
**
43357023 AAATTACCAAAATACCCTT-AGTTTACA
1 AAATTACCAAAATACCCTTGA-TTTGTA
*
43357050 AAATTACCAAAATAACCC-TGGTTTGTA
1 AAATTACCAAAAT-ACCCTTGATTTGTA
* *
43357077 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TTGATTTGTA
*
43357104 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
*
43357131 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
43357158 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
43357185 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
** * ** *
43357212 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*** * *
43357239 AAATTATTGAAATACCCTTAACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
43357266 AAATTACCAAAGTA-CCTCTGATTTATA
1 AAATTACCAAAATACCCT-TGATTTGTA
* **** **
43357293 GAATTACCGTTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
43357320 AAATTACCAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
43357340 TAGGGTAGAA
Statistics
Matches: 574, Mismatches: 105, Indels: 30
0.81 0.15 0.04
Matches are distributed among these distances:
25 2 0.00
26 29 0.05
27 531 0.93
28 12 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:43357354 original size:27 final size:27
Alignment explanation
Indices: 43357324--43357563 Score: 272
Period size: 27 Copynumber: 9.0 Consensus size: 27
43357314 TTTACAAAAT
* *
43357324 TACCAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
43357351 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
43357378 TACCGAAATACCCCTATAGGGT-GAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
43357404 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** *
43357431 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
43357458 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
** *
43357485 TACCGAAATACCCCTGTA-AATAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * *
43357511 TA-CTAAATACCCCTGTAGAGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * * *
43357537 TATCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
43357563 T
1 T
43357564 TACCATTTTA
Statistics
Matches: 187, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.07
26 44 0.24
27 129 0.69
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:43357425 original size:80 final size:81
Alignment explanation
Indices: 43357324--43357549 Score: 269
Period size: 80 Copynumber: 2.8 Consensus size: 81
43357314 TTTACAAAAT
* * * *
43357324 TACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCGAAATAC
43357389 CCCTATAGGGT-GAAA
66 CCCTATAGGGTAGAAA
* * * *
43357404 TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCGAAATAC
* *
43357469 CCTTGTAGGGTAGAAA
66 CCCTATAGGGTAGAAA
** * * * * * *
43357485 TACCGAAATACCCCTGTA-AATAGAATTA-CTAAATACCCCTGTAGAGTAGAATTATCGAGATAC
1 TACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCGAAATAC
43357548 CC
66 CC
43357550 TTGTGGGGTA
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 31 0.24
80 74 0.58
81 22 0.17
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (81 bp):
TACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACCGAAATAC
CCCTATAGGGTAGAAA
Found at i:43357439 original size:107 final size:106
Alignment explanation
Indices: 43357321--43357563 Score: 321
Period size: 107 Copynumber: 2.3 Consensus size: 106
43357311 TGATTTACAA
*
43357321 AATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
** *
43357386 TACCCCTATAGGGT-GAAATACCGAAATACCCCTGTAGGGTAG
66 TACCCCTATA-AATAGAAATA-CGAAATACCCCTGTAGAGTAG
* * *
43357428 AATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
* * *
43357493 TACCCCTGTAAATAGAATTACTAAATACCCCTGTAGAGTAG
66 TACCCCTATAAATAGAAATACGAAATACCCCTGTAGAGTAG
* * *
43357534 AATTA-TCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACT-AAAATACCCTTGTAGGGTAGAAAT
43357564 TACCATTTTA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
105 4 0.03
106 40 0.34
107 75 0.63
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (106 bp):
AATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
TACCCCTATAAATAGAAATACGAAATACCCCTGTAGAGTAG
Found at i:43357566 original size:53 final size:53
Alignment explanation
Indices: 43357324--43357566 Score: 249
Period size: 53 Copynumber: 4.6 Consensus size: 53
43357314 TTTACAAAAT
* * *
43357324 TACCAAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTA-AAATTA-CGAAATACCCCTGTAGGGTAGAAA
* * *
43357378 TACCGAAATACCCCTATAGGGTGAAA-TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAAAATTA-CGAAATACCCCTGTAGGGTAGAAA
** * *
43357431 TACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAAAATTAC-GAAATACCCCTGTAGGGTAGAAA
** * * * *
43357485 TACCGAAATACCCCTGTA-AATAGAATTACTAAATACCCCTGTAGAGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAAAATTACGAAATACCCCTGTAGGGTAGAAA
* * * *
43357537 TATCGAGATACCCTTGTGGGGTAAAATTAC
1 TACCGAAATACCCCTGTAGGGTAAAATTAC
43357567 CATTTTACCC
Statistics
Matches: 158, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
52 33 0.21
53 67 0.42
54 58 0.37
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (53 bp):
TACCGAAATACCCCTGTAGGGTAAAATTACGAAATACCCCTGTAGGGTAGAAA
Found at i:43357578 original size:79 final size:80
Alignment explanation
Indices: 43357356--43357563 Score: 271
Period size: 80 Copynumber: 2.6 Consensus size: 80
43357346 AGAAATACCG
* * * * * *
43357356 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGT-GAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGAGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
**
43357420 TAGGGTAGAATTACTA
66 TA-AATAGAATTACTA
*
43357436 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGAGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
43357501 TAAATAGAATTACT-
66 TAAATAGAATTACTA
* *
43357515 AAATACCCCTGTAGAGTAGAATTA-TCGAGATACCCTTGTGGGGTA-AAAT
1 AAATACCCCTGTAGAGTAGAATTACT-GAAATACCCTTGTAGGGTAGAAAT
43357564 TACCATTTTA
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
78 5 0.04
79 40 0.34
80 49 0.42
81 22 0.19
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (80 bp):
AAATACCCCTGTAGAGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
TAAATAGAATTACTA
Found at i:43358134 original size:6 final size:6
Alignment explanation
Indices: 43358095--43358169 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 6
43358085 TTGCATTCAC
* * *
43358095 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
43358144 ATTCTA ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
43358170 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
5 3 0.05
6 48 0.86
7 4 0.07
8 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:43358178 original size:24 final size:24
Alignment explanation
Indices: 43358117--43358184 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
43358107 ATTCTGTTAC
43358117 CTGATACTGATTCTGATTCTAATT
1 CTGATACTGATTCTGATTCTAATT
* * *
43358141 CTGATTCTAATTCTGATTCTAGTT
1 CTGATACTGATTCTGATTCTAATT
* * *
43358165 CTGATAATGTTTCTTATTCT
1 CTGATACTGATTCTGATTCT
43358185 GTAATGGGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (24 bp):
CTGATACTGATTCTGATTCTAATT
Found at i:43362389 original size:16 final size:17
Alignment explanation
Indices: 43362368--43362404 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
43362358 CTTTTATTAA
43362368 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
43362385 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
43362402 GTT
1 GTT
43362405 CTCCTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCATTT
Found at i:43364913 original size:40 final size:40
Alignment explanation
Indices: 43364858--43365171 Score: 384
Period size: 40 Copynumber: 7.7 Consensus size: 40
43364848 TATTCGGATG
*
43364858 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
43364898 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43364938 ATATTCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* *
43364981 ATACCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43365021 ATATCCGGGCGAAGTCCCGAAGGCATTTGTG-TGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGT-G--ACT
* *
43365064 ATACCCGGGCTAAGTCCCGAAGGCATTAGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
43365104 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * *
43365144 ATAT-CTGGCTAAATCCCGAAGGTATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
43365172 GGTTTGGAAG
Statistics
Matches: 238, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
39 22 0.09
40 143 0.60
41 3 0.01
42 1 0.00
43 66 0.28
44 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43365005 original size:83 final size:83
Alignment explanation
Indices: 43364858--43365171 Score: 437
Period size: 83 Copynumber: 3.9 Consensus size: 83
43364848 TATTCGGATG
* *
43364858 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGC---TAG-TGACTATATCCGGGCTAAGTCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAA
43364919 GGCATTTGTGCTAGTGACT
65 GGCATTTGTGCTAGTGACT
* * *
43364938 ATATTCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
43365003 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* *
43365021 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
*
43365086 GCATTAGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* * * * *
43365104 ATATCCGGGCTAAGACCCGAAGGCATGTGTGC--G-AGTTGCTATA-TCTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
*
43365165 GTATTTG
66 GCATTTG
43365172 GGTTTGGAAG
Statistics
Matches: 211, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
79 20 0.09
80 39 0.18
81 1 0.00
83 149 0.71
84 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
GCATTTGTGCTAGTGACT
Found at i:43365106 original size:123 final size:121
Alignment explanation
Indices: 43364862--43365171 Score: 378
Period size: 123 Copynumber: 2.5 Consensus size: 121
43364852 CGGATGATAT
*
43364862 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
** *
43364927 TGCTAGTGACTATATTCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATAC
66 TGCTAGTGACTATACCCGGGCAAAGTCCCGAAGGCATTAGTGC--GTAGTTGCTATAC
* *
43364985 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
43365050 TG-TGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTAGTGC-TAG-TGACTATAT
66 TGCT-AGT-G--ACTATACCCGGGCAAAGTCCCGAAGGCATTAGTGCGTAGTTG-CTATAC
* * * * * *
43365108 CCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CTATAT-CTGGCTAAATCCCGAAGGTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTT
43365171 G
65 G
43365172 GGTTTGGAAG
Statistics
Matches: 164, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
122 23 0.14
123 108 0.66
124 3 0.02
126 30 0.18
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCTAGTGACTATACCCGGGCAAAGTCCCGAAGGCATTAGTGCGTAGTTGCTATAC
Found at i:43373410 original size:40 final size:40
Alignment explanation
Indices: 43373353--43373666 Score: 411
Period size: 40 Copynumber: 7.7 Consensus size: 40
43373343 TATTCGGATG
*
43373353 ATATCCGGGCTACGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
43373393 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43373433 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
43373476 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43373516 ATATCCGGGCGAAGTCCCGAAGGCATTTGTACGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--G-CTAG-TGACT
*
43373559 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
43373599 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * *
43373639 ATAT-CTGGCTAAATCCCGAAGGTATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
43373667 GGTTTGGAAG
Statistics
Matches: 244, Mismatches: 19, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
39 23 0.09
40 145 0.59
41 3 0.01
42 1 0.00
43 68 0.28
44 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43373601 original size:123 final size:121
Alignment explanation
Indices: 43373357--43373666 Score: 405
Period size: 123 Copynumber: 2.5 Consensus size: 121
43373347 CGGATGATAT
*
43373357 CCGGGCTACGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
43373422 TGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATAC
66 TGCTAGTGACTATACCCGGGCAAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATAC
*
43373480 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
43373545 TACGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACTATAT
66 T--G-CTAG-TGACTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATAC
* * * * * *
43373603 CCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CTATAT-CTGGCTAAATCCCGAAGGTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTT
43373666 G
65 G
43373667 GGTTTGGAAG
Statistics
Matches: 168, Mismatches: 13, Indels: 13
0.87 0.07 0.07
Matches are distributed among these distances:
122 22 0.13
123 106 0.63
124 2 0.01
125 1 0.01
126 35 0.21
127 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCTAGTGACTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATAC
Found at i:43373679 original size:83 final size:81
Alignment explanation
Indices: 43373353--43373666 Score: 456
Period size: 83 Copynumber: 3.9 Consensus size: 81
43373343 TATTCGGATG
* *
43373353 ATATCCGGGCTACGTCCCGAAGGCATTTGTGC-TAG-TGACTATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATACCCGGGCTAAGTCCCGAAGG
43373416 CATTTGTGCTAGTGACT
65 CATTTGTGCTAGTGACT
*
43373433 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATACCCGGGCTAAGTCCCGAAG
43373498 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* *
43373516 ATATCCGGGCGAAGTCCCGAAGGCATTTGTACGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GCGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
43373581 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* * * * * *
43373599 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCG-AGTTGCTATA-TCTGGCTAAATCCCGAAGGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGC
43373662 ATTTG
66 ATTTG
43373667 GGTTTGGAAG
Statistics
Matches: 215, Mismatches: 13, Indels: 13
0.89 0.05 0.05
Matches are distributed among these distances:
79 21 0.10
80 40 0.19
81 2 0.01
83 149 0.69
84 2 0.01
85 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGC
ATTTGTGCTAGTGACT
Found at i:43379159 original size:25 final size:25
Alignment explanation
Indices: 43379122--43379179 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
43379112 CATCACATTA
43379122 AATATGTATGTATTTACCATACATGC
1 AATA-GTATGTATTTACCATACATGC
43379148 AATAGTATGTATTTACCATACATGC
1 AATAGTATGTATTTACCATACATGC
43379173 AATAGTA
1 AATAGTA
43379180 AAGCATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (25 bp):
AATAGTATGTATTTACCATACATGC
Found at i:43383779 original size:23 final size:22
Alignment explanation
Indices: 43383747--43383809 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
43383737 CCATAGCTCG
*
43383747 TATGACCTTACCGTTTCAAATCT
1 TATGAGCTTACC-TTTCAAATCT
**
43383770 TATGAGCTTACCTTTCAGCTCT
1 TATGAGCTTACCTTTCAAATCT
43383792 TCA-GAGCTTACCATTTCA
1 T-ATGAGCTTACC-TTTCA
43383810 GTCCTTCGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 18 0.51
23 17 0.49
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (22 bp):
TATGAGCTTACCTTTCAAATCT
Found at i:43383846 original size:23 final size:23
Alignment explanation
Indices: 43383741--43383848 Score: 89
Period size: 23 Copynumber: 4.7 Consensus size: 23
43383731 GACTCACCAT
* *
43383741 AGCTCGTATGACCTTACCGTTTC
1 AGCTCTTATGAGCTTACCGTTTC
**
43383764 AAATCTTATGAGCTTACC-TTTC
1 AGCTCTTATGAGCTTACCGTTTC
*
43383786 AGCTCTTCA-GAGCTTACCATTTC
1 AGCTCTT-ATGAGCTTACCGTTTC
** *
43383809 AG-TCCTTCGGGGCTTACCGTTTC
1 AGCT-CTTATGAGCTTACCGTTTC
43383832 AGCT-TTATGGAGCTTAC
1 AGCTCTTAT-GAGCTTAC
43383849 ATGCAGCCTA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
22 21 0.31
23 45 0.67
24 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (23 bp):
AGCTCTTATGAGCTTACCGTTTC
Found at i:43384074 original size:16 final size:16
Alignment explanation
Indices: 43384029--43384085 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
43384019 AAACATAAAG
43384029 TACATGTTACATGAAT
1 TACATGTTACATGAAT
* **
43384045 AATATACCTTACATGAAT
1 --TACATGTTACATGAAT
*
43384063 TACATGTTACATGGAT
1 TACATGTTACATGAAT
*
43384079 TATATGT
1 TACATGT
43384086 ATTAAGAGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
16 18 0.58
18 13 0.42
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (16 bp):
TACATGTTACATGAAT
Found at i:43391557 original size:23 final size:22
Alignment explanation
Indices: 43391451--43391586 Score: 84
Period size: 23 Copynumber: 6.0 Consensus size: 22
43391441 AGACTAACCA
* *
43391451 CAGCTCGTATGAGCTTACCATTT
1 CAGCTC-TAAGAGCTTACCGTTT
* *
43391474 TAGCTCTTATGAGCTTACCG-TT
1 CAGCTC-TAAGAGCTTACCGTTT
* *
43391496 CAGCTTTTCAGAGCTTACCGTTT
1 CAGC-TCTAAGAGCTTACCGTTT
* *
43391519 CAG-TCCTTAGGGGCTTACCGTTT
1 CAGCT-C-TAAGAGCTTACCGTTT
43391542 CAGCTCTACAGAGCTTA-C-TATT
1 CAGCTCTA-AGAGCTTACCGT-TT
43391564 CAGCTC-AATTGAGCTTACCGTTT
1 CAGCTCTAA--GAGCTTACCGTTT
43391587 ATCGGCTTAG
Statistics
Matches: 89, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
20 1 0.01
21 3 0.03
22 34 0.38
23 49 0.55
24 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (22 bp):
CAGCTCTAAGAGCTTACCGTTT
Found at i:43397493 original size:27 final size:26
Alignment explanation
Indices: 43397455--43397538 Score: 123
Period size: 27 Copynumber: 3.2 Consensus size: 26
43397445 AGGGAGTATA
43397455 CTGGTGGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTCTGCCAC-AATATCTGTT
43397482 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGT-T
* * *
43397509 CTGGTGACTCTGTCACAATATCTATT
1 CTGGTGGCTCTGCCACAATATCTGTT
43397535 CTGG
1 CTGG
43397539 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:43400161 original size:12 final size:12
Alignment explanation
Indices: 43400144--43400171 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43400134 ATAATAGTTA
43400144 GTTTTTGGCACT
1 GTTTTTGGCACT
43400156 GTTTTTGGCACT
1 GTTTTTGGCACT
43400168 GTTT
1 GTTT
43400172 AAAACCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.25, T:0.54
Consensus pattern (12 bp):
GTTTTTGGCACT
Found at i:43408262 original size:15 final size:16
Alignment explanation
Indices: 43408226--43408262 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
43408216 ACATATCATT
43408226 TATTTCATTATATCAA
1 TATTTCATTATATCAA
43408242 TATTTCA-TATA-CAA
1 TATTTCATTATATCAA
43408256 TAGTTTC
1 TA-TTTC
43408263 CATGTATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:43410198 original size:30 final size:30
Alignment explanation
Indices: 43410164--43410224 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43410154 TCCTTAACTC
43410164 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
43410194 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
43410224 A
1 A
43410225 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:43414619 original size:30 final size:30
Alignment explanation
Indices: 43414585--43414645 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43414575 TCCTTAACTC
43414585 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
43414615 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
43414645 A
1 A
43414646 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43437182 original size:20 final size:20
Alignment explanation
Indices: 43437157--43437194 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43437147 GTCACATATA
43437157 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
43437177 TCATGAATTCAGATCACA
1 TCATGAACTCAGACCACA
43437195 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Done.