Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 153 of 311
Found at i:52083564 original size:48 final size:48
Alignment explanation
Indices: 52083487--52083815 Score: 206
Period size: 50 Copynumber: 6.8 Consensus size: 48
52083477 AGGGTAAGAT
* * * *
52083487 GCCGACGCCATGTCTTGGACATGGTCTTACACTGGCTCACACATCAAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACACATCGAA
* * * * * *
52083535 GTCGGTGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATATCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTG--GCTCACACATCGAA
* ** * *
52083585 GCCGATGCCATGTCCCA-ATCATGGTCTTACACTGGCTTTCATCTGTCGAT
1 GCCGATGCCATGTCCTAGA-CATGGTCTTACACTGGCTCACA-C-ATCGAA
* * **
52083635 GCCGATGCCATGTCCTAGACATGGTCTTACA-TTG-ACACGTATC-AA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACACATCGAA
* * * *
52083680 GCCGATGCCATGT-CTCAGACATAGTCTTACACTAGCTTTCATATC-TCGAG
1 GCCGATGCCATGTCCT-AGACATGGTCTTACACTGGC--TCACA-CATCGAA
* * * * * * * *
52083730 GCTGATGCCATATCTTAGACATGGTCTTACATTAGCT--CTCGTCTTAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACACATC-GAA
* *
52083777 TGCCGATGCCATGTCCCAGACAGGGTCTTACACTGGCTC
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC
52083816 TCATAATGTG
Statistics
Matches: 211, Mismatches: 52, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
44 2 0.01
45 29 0.14
46 6 0.03
47 1 0.00
48 64 0.30
49 7 0.03
50 100 0.47
51 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACACATCGAA
Found at i:52083610 original size:50 final size:50
Alignment explanation
Indices: 52083540--52083856 Score: 257
Period size: 50 Copynumber: 6.6 Consensus size: 50
52083530 TCAAAGTCGG
*
52083540 TGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
* * * * *
52083590 TGCCATGTCCCA-ATCATGGTCTTACACTGGCTTTCATCTGTCGATGCCGA
1 TGCCATGTCCCAGA-CATGGTCTTACACTGACTCTCATATATCGAGGCCGA
* * ** *
52083640 TGCCATGTCCTAGACATGGTCTTACATTGA----CACGTATC-AAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
* * * * *
52083685 TGCCATGTCTCAGACATAGTCTTACACT-AGCTTTCATATCTCGAGGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCGA
* ** * * * * *
52083735 TGCCATATCTTAGACATGGTCTTACA-TTAGCTCTCGTCT-T-AATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGCCGA
* * * *
52083783 TGCCATGTCCCAGACAGGGTCTTACACTGGCTCTCATA-AT-GTGGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
52083831 TG-CATGTCCCAGACAT-GTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
52083857 AGCACACATG
Statistics
Matches: 212, Mismatches: 44, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
44 1 0.00
45 30 0.14
46 15 0.07
47 13 0.06
48 40 0.19
49 9 0.04
50 103 0.49
51 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
TGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGA
Found at i:52083718 original size:95 final size:95
Alignment explanation
Indices: 52083540--52083854 Score: 307
Period size: 95 Copynumber: 3.3 Consensus size: 95
52083530 TCAAAGTCGG
* ** *
52083540 TGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCCA-AT
1 TGCCATGTCCTAGACATGGTCTTACATTGA----CACGTATC-AAGCCGATGCCATGTCCCAGA-
* * *
52083604 CATGGTCTTACACTGGCTTTCATCTGTCGATGCCGA
60 CATGGTCTTACACTGGCTTTCATATCTCGAGGCCGA
* *
52083640 TGCCATGTCCTAGACATGGTCTTACATTGACACGTATCAAGCCGATGCCATGTCTCAGACATAGT
1 TGCCATGTCCTAGACATGGTCTTACATTGACACGTATCAAGCCGATGCCATGTCCCAGACATGGT
* *
52083705 CTTACACTAGCTTTCATATCTCGAGGCTGA
66 CTTACACTGGCTTTCATATCTCGAGGCCGA
* * * * * * *
52083735 TGCCATATCTTAGACATGGTCTTACATTAGCTCTCGTCTTAATGCCGATGCCATGTCCCAGACAG
1 TGCCATGTCCTAGACATGGTCTTACATT-G-ACACGTATCAA-GCCGATGCCATGTCCCAGACAT
* * * *
52083800 GGTCTTACACTGGCTCTCATA-AT-GTGGTCGA
63 GGTCTTACACTGGCTTTCATATCTCGAGGCCGA
*
52083831 TG-CATGTCCCAGACAT-GTCTTACA
1 TGCCATGTCCTAGACATGGTCTTACA
52083855 CTAGCACACA
Statistics
Matches: 182, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
94 8 0.04
95 84 0.46
96 15 0.08
97 8 0.04
98 38 0.21
100 29 0.16
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (95 bp):
TGCCATGTCCTAGACATGGTCTTACATTGACACGTATCAAGCCGATGCCATGTCCCAGACATGGT
CTTACACTGGCTTTCATATCTCGAGGCCGA
Found at i:52083753 original size:145 final size:146
Alignment explanation
Indices: 52083484--52083813 Score: 366
Period size: 145 Copynumber: 2.3 Consensus size: 146
52083474 CATAGGGTAA
* * * * * *
52083484 GATGCCGACGCCATGTCTTGGACATGGTCTTACACTGGCTCACACATCAAAGTCGGTGCCATGTC
1 GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGTC
* *
52083549 CTAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATGTCCCAATCATGGTCTTA
66 CTAGACATAGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATATCCCAATCATGGTCTTA
* *
52083614 CACTGGCTTTCATCTGT
131 CACTAGCTCTCATCT-T
* **
52083631 CGATGCCGATGCCATGTCCTAGACATGGTCTTACA-TTG-ACACGTATC-AAGCCGATGCCATGT
1 -GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGT
* * * **
52083693 -CTCAGACATAGTCTTACACT-AGCTTTCATATCTCGAGGCTGATGCCATATCTTAGA-CATGGT
65 CCT-AGACATAGTCTTACACTGA-CTCTCATATATCGAGGCCGATGCCATATCCCA-ATCATGGT
* *
52083755 CTTACATTAGCTCTCGTCTT
127 CTTACACTAGCTCTCATCTT
* * *
52083775 AATGCCGATGCCATGTCCCAGACAGGGTCTTACACTGGC
1 GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
52083814 TCTCATAATG
Statistics
Matches: 153, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
143 31 0.20
144 6 0.04
145 76 0.50
146 7 0.05
147 2 0.01
148 31 0.20
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (146 bp):
GATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACACACATCAAAGCCGATGCCATGTC
CTAGACATAGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATATCCCAATCATGGTCTTA
CACTAGCTCTCATCTT
Found at i:52084926 original size:40 final size:40
Alignment explanation
Indices: 52084882--52084963 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
52084872 GAAAAAGATT
52084882 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
1 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
52084922 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
1 ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
52084962 AC
1 AC
52084964 CTAATGCCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.46
Consensus pattern (40 bp):
ACAACTTTTTCTTTATTTTATTTTATTACCAAAACAAGTC
Found at i:52087628 original size:24 final size:25
Alignment explanation
Indices: 52087592--52087639 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
52087582 TAGTAAACAG
*
52087592 GTTATAAGGAGATGAAATGTGAAAA
1 GTTATAAGAAGATGAAATGTGAAAA
52087617 GTTA-AAGAAGATGAAATGTGAAA
1 GTTATAAGAAGATGAAATGTGAAA
52087640 GGTTGATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (25 bp):
GTTATAAGAAGATGAAATGTGAAAA
Found at i:52089567 original size:47 final size:46
Alignment explanation
Indices: 52089488--52089590 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 46
52089478 CTCACACAAT
* *
52089488 AAGTGCCAATAATAATATAGCCGAAGCTATCTCAATAATCTTGCACCCG
1 AAGTGCCAATAATAATATAGCCGAAGCCATCTCAATAA---TGCACACG
* *
52089537 AAGTGCCAAT-AT-ATATAGCTGAAGCCATCTCGATAATGCACACG
1 AAGTGCCAATAATAATATAGCCGAAGCCATCTCAATAATGCACACG
52089581 AAGTGCCAAT
1 AAGTGCCAAT
52089591 CATAGCCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 17 0.34
47 21 0.42
48 2 0.04
49 10 0.20
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (46 bp):
AAGTGCCAATAATAATATAGCCGAAGCCATCTCAATAATGCACACG
Found at i:52089608 original size:41 final size:45
Alignment explanation
Indices: 52089488--52089613 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 45
52089478 CTCACACAAT
* * *
52089488 AAGTGCCAATAATAATATAGCCGAAGCTATCTCAATAATCTTGCACCCG
1 AAGTGCCAAT-AT-ACATAGCCGAAGCTATCTCGATAA--TTGCACACG
* * *
52089537 AAGTGCCAATATATATAGCTGAAGCCATCTCGATAA-TGCACACG
1 AAGTGCCAATATACATAGCCGAAGCTATCTCGATAATTGCACACG
*
52089581 AAGTGCC-A-AT-CATAGCCAAAGCTATCTCGATAA
1 AAGTGCCAATATACATAGCCGAAGCTATCTCGATAA
52089614 CTATCCCTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
41 19 0.28
42 2 0.03
43 1 0.01
44 14 0.20
47 21 0.30
48 2 0.03
49 10 0.14
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (45 bp):
AAGTGCCAATATACATAGCCGAAGCTATCTCGATAATTGCACACG
Found at i:52090195 original size:21 final size:20
Alignment explanation
Indices: 52090166--52090204 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
52090156 CAAAACTTGT
52090166 ATAATTATCATCAAACATTC
1 ATAATTATCATCAAACATTC
52090186 ATAATCTATCATCAAACAT
1 ATAAT-TATCATCAAACAT
52090205 CAAAATACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATTATCATCAAACATTC
Found at i:52097866 original size:20 final size:21
Alignment explanation
Indices: 52097841--52097885 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
52097831 TCAATTAACA
52097841 AAACTTGT-ATAA-CTATCATC
1 AAACTT-TCATAATCTATCATC
52097861 AAACTTTCATAATCTATCATC
1 AAACTTTCATAATCTATCATC
52097882 AAAC
1 AAAC
52097886 ATCAAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.04
20 10 0.43
21 12 0.52
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (21 bp):
AAACTTTCATAATCTATCATC
Found at i:52102964 original size:29 final size:29
Alignment explanation
Indices: 52102932--52103008 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
52102922 AAATCCTCGG
* *
52102932 TGGTGATCTCTGTTATAAGAAAGCCTTTA
1 TGGTGATCTCTGTTATAAAAAAGCATTTA
* *
52102961 TGGTAATCTCTGTTATAAAAAAGTATTTA
1 TGGTGATCTCTGTTATAAAAAAGCATTTA
52102990 TGGTGATCTCT-TCTATAAA
1 TGGTGATCTCTGT-TATAAA
52103009 GATGCCTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (29 bp):
TGGTGATCTCTGTTATAAAAAAGCATTTA
Found at i:52103027 original size:29 final size:28
Alignment explanation
Indices: 52102995--52103087 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 28
52102985 ATTTATGGTG
*
52102995 ATCTCTTCTATAAAGATGCCTTTGTGGCT
1 ATCTCTT-TATAAGGATGCCTTTGTGGCT
* **
52103024 ATCTTTGTTATAAGGATGAATTTGTGGCT
1 ATCTCT-TTATAAGGATGCCTTTGTGGCT
52103053 ATCTCTGTTATAAGGATGCCTTTGTGGCT
1 ATCTCT-TTATAAGGATGCCTTTGTGGCT
*
52103082 ACCTCT
1 ATCTCT
52103088 ATTAAAAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 54 0.98
30 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (28 bp):
ATCTCTTTATAAGGATGCCTTTGTGGCT
Found at i:52103033 original size:58 final size:58
Alignment explanation
Indices: 52102932--52103087 Score: 158
Period size: 58 Copynumber: 2.7 Consensus size: 58
52102922 AAATCCTCGG
* * *
52102932 TGGTGATCTCTGTTAT-AAGAAAGCCTTTATGG-TAATCTCTGTTATAAAAAAGTATTTA
1 TGGTGATCTCTGTTATAAAG-ATGCCTTTGTGGCT-ATCTCTGTTATAAAAAAGAATTTA
* ** * *
52102990 TGGTGATCTCT-TCTATAAAGATGCCTTTGTGGCTATCTTTGTTATAAGGATGAATTTG
1 TGGTGATCTCTGT-TATAAAGATGCCTTTGTGGCTATCTCTGTTATAAAAAAGAATTTA
* *
52103048 TGGCT-ATCTCTGTTATAAGGATGCCTTTGTGGCTACCTCT
1 TGG-TGATCTCTGTTATAAAGATGCCTTTGTGGCTATCTCT
52103088 ATTAAAAGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
57 1 0.01
58 75 0.91
59 6 0.07
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (58 bp):
TGGTGATCTCTGTTATAAAGATGCCTTTGTGGCTATCTCTGTTATAAAAAAGAATTTA
Found at i:52107005 original size:30 final size:30
Alignment explanation
Indices: 52106969--52107027 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
52106959 ATTTTTGGGC
* * *
52106969 CTAGGGGTAAAATTGTCATTTTATCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
*
52106999 CTAGGGGCAAAATGGTTATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
52107028 ATATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:52107511 original size:46 final size:45
Alignment explanation
Indices: 52107412--52107537 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 45
52107402 CTATGAGAGC
* *
52107412 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGGGACAAGTG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACAAGTG
* *
52107459 CTAGTGTAAGACGTGTCTGGGACATGCATCGGCCTTGAGACGTAAGT-
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC--AAGTG
*
52107506 CAGTGTAAGACATGTCTGGGACATGAATCGGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGC
52107538 TACGAGATCT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
46 43 0.61
47 14 0.20
48 13 0.19
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAAGTG
Found at i:52110475 original size:41 final size:40
Alignment explanation
Indices: 52110414--52110517 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 40
52110404 CAATGTGGAT
*
52110414 CTTAGCCTACTTAGATACAGAATCA-GATATAAATTAGGGC
1 CTTAGCCTACTCAGATACAGAATCAGGA-ATAAATTAGGGC
* *
52110454 CTTAGCCTAGCTCAGATACAGAGTCAGGAATATATTAGGGC
1 CTTAGCCTA-CTCAGATACAGAATCAGGAATAAATTAGGGC
* * *
52110495 CTCAGCCCAATCAGATACAGAAT
1 CTTAGCCTACTCAGATACAGAAT
52110518 GTAGATCAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 21 0.38
41 32 0.58
42 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
CTTAGCCTACTCAGATACAGAATCAGGAATAAATTAGGGC
Found at i:52113574 original size:19 final size:20
Alignment explanation
Indices: 52113541--52113578 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52113531 TACCCAAATG
52113541 GTACAACTTGAAAAGGTTAT
1 GTACAACTTGAAAAGGTTAT
*
52113561 GTAC-ACTTGGAAAGGTTA
1 GTACAACTTGAAAAGGTTA
52113579 GATATACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (20 bp):
GTACAACTTGAAAAGGTTAT
Found at i:52120371 original size:38 final size:38
Alignment explanation
Indices: 52120329--52120404 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52120319 CTTTACTTAT
52120329 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
1 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
52120367 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
1 TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
52120405 CCATTGAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.18
Consensus pattern (38 bp):
TCATCACAAAACTCACAAAGCAATACATAGAGAGTCTC
Found at i:52121429 original size:30 final size:30
Alignment explanation
Indices: 52121395--52121455 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52121385 TCATTAACTC
*
52121395 AAACTTTTGCAAAATTATAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
52121425 AAACTTTTTCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
52121455 A
1 A
52121456 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:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:52126413 original size:50 final size:48
Alignment explanation
Indices: 52126302--52126625 Score: 250
Period size: 50 Copynumber: 6.7 Consensus size: 48
52126292 TGATATGTGT
* * *
52126302 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAGA
* * * * *
52126348 GCCAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAAGACCTGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATA--TGAGA
* ** **
52126398 GCTAGTGTAAGACCATATCTGGGACATGGCATCGG-CTTGATATTTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAGA
* * * * * *
52126444 TC-AGTGTAAAACCATGTCTAGGATATGGCATCGGCATCGACAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-A-ATATGAGA
* *
52126493 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-A-ATATGAGA
* * ** *
52126543 G-TCAGTGTAAGACCTTGTCTGGGACATGGCATCGAG-TTTGATGT-ATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCG-GCCTCAATATGA-GA
* * *
52126591 GCCAGTGTAAGACCATGTCTGGGATATGGCGTCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
52126626 TATCTTACCC
Statistics
Matches: 218, Mismatches: 47, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
45 28 0.13
46 12 0.06
47 16 0.07
48 50 0.23
49 5 0.02
50 106 0.49
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGAGA
Found at i:52126473 original size:95 final size:96
Alignment explanation
Indices: 52126350--52126536 Score: 245
Period size: 95 Copynumber: 2.0 Consensus size: 96
52126340 TTATGAGGGC
* * * * *
52126350 CAGTATAAGACCATGTTTGGGACATGGCATCGGCCTC-A-AGACCTGAAAGCTAGTGTAAGACCA
1 CAGTATAAAACCATGTCTAGGACATGGCATCGGCATCGACAGA--TGAAAGCCAGTGTAAGACCA
*
52126413 TATCTGGGACATGGCATCGG-CTTGATATTTGT
64 TATCTGGGACATGGCATCGGTCTCGATATTTGT
* * * *
52126445 CAGTGTAAAACCATGTCTAGGATATGGCATCGGCATCGACAGATGAGAGCCAGTGTAAGACCATG
1 CAGTATAAAACCATGTCTAGGACATGGCATCGGCATCGACAGATGAAAGCCAGTGTAAGACCATA
52126510 TCTGGGACATGGCATCGGTCTCGATAT
66 TCTGGGACATGGCATCGGTCTCGATAT
52126537 ATGAGAGTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
95 68 0.86
96 8 0.10
97 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (96 bp):
CAGTATAAAACCATGTCTAGGACATGGCATCGGCATCGACAGATGAAAGCCAGTGTAAGACCATA
TCTGGGACATGGCATCGGTCTCGATATTTGT
Found at i:52131484 original size:21 final size:21
Alignment explanation
Indices: 52131451--52131491 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
52131441 TGGGGAAATT
*
52131451 CAAAATAAATAAT-AATAAAA
1 CAAAAAAAATAATAAATAAAA
52131471 CAAAAAAAAGTAATAAATAAA
1 CAAAAAAAA-TAATAAATAAA
52131492 TAAATCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (21 bp):
CAAAAAAAATAATAAATAAAA
Found at i:52133170 original size:177 final size:178
Alignment explanation
Indices: 52132707--52133213 Score: 651
Period size: 178 Copynumber: 2.8 Consensus size: 178
52132697 CTTCGATGAT
* ** * * ** * *
52132707 ATAAGATTTGCTATCTTCAGTCTGTTCCACTGCAACTTCAAGGAGATAAGACTTCTAGCTTAAAT
1 ATAAGACTTG-TATCTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGCTAGTGGCTAAAAT
*
52132772 CTGCTCCATTACCGATACATGGAGATAAGATTCACCGTCTTTGATTTGCTCCACTACTGCTTAGG
65 CTGCTCCATTACCGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGG
* * *
52132837 GAGATAAGATCTGTAACTTTCAGTCTACTCCCTTGCTACCTCAGGAAAG
130 GAGATAAGATCTGTAATTTTCAGTCTACTCCCTTACTACCTCAAGAAAG
* * *
52132886 ATAAGACTTGTATCTTCAACTTGCTCTC-CTGCTACCTC-AGAGAGATAAGGCTAGTGGCTAAAA
1 ATAAGACTTGTATCTTCAACCTGCTC-CACTGCAACTTCAAG-GAGATAAGGCTAGTGGCTAAAA
* * *
52132949 TTTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATTTGCTCCACTACTGCTTAG
64 TCTGCTCCATTACCGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAG
* *
52133014 GGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTACTACCTCAAG-AAG
129 GGAGATAAGATCTGTAATTTTCAGTCTACTCCCTTACTACCTCAAGAAAG
* ** *
52133063 ATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAAGGAGACGAGGCTGGTGGCTAAAATC
1 ATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGCTAGTGGCTAAAATC
* *** * * ** *
52133128 TACTCCATTTTTGATACATGGAGATAAGATTCGCCGTCTTCGATTTACTCTTCTACAGCTTAGGG
66 TGCTCCATTACCGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGG
*
52133193 AGATAAGATCTGTGATTTTCA
131 AGATAAGATCTGTAATTTTCA
52133214 CTGATGTCGC
Statistics
Matches: 283, Mismatches: 41, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
176 1 0.00
177 131 0.46
178 141 0.50
179 10 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (178 bp):
ATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGCTAGTGGCTAAAATC
TGCTCCATTACCGATACATGGAGATAAGATTCACCGTCTTCGATTTGCTCCACTACTGCTTAGGG
AGATAAGATCTGTAATTTTCAGTCTACTCCCTTACTACCTCAAGAAAG
Found at i:52133304 original size:12 final size:12
Alignment explanation
Indices: 52133287--52133311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52133277 TTATTCCAAA
52133287 TGATTAGGATGC
1 TGATTAGGATGC
52133299 TGATTAGGATGC
1 TGATTAGGATGC
52133311 T
1 T
52133312 ATGATCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TGATTAGGATGC
Found at i:52137089 original size:40 final size:41
Alignment explanation
Indices: 52137034--52137183 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 41
52137024 GGATATAACT
* *
52137034 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* * *
52137074 ACTCGCACAATTGCCTTTGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
*
52137114 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* ** *
52137153 ACTAGTGCAGATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
52137184 ATTTTCATCC
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 30 0.31
40 65 0.67
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
Found at i:52143391 original size:42 final size:46
Alignment explanation
Indices: 52143331--52143630 Score: 266
Period size: 49 Copynumber: 6.5 Consensus size: 46
52143321 CGTTTTCTCA
** *
52143331 ATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACAT-ATCG
*
52143373 ATGCCATAGCCCAGCTATGGTCTTACAC-AT--AT-TCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATATCG
52143415 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATATCG
*
52143464 ATGCCATAGCCCAGCTATGGTTTTACACGTAATCACATATCACATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATATCG
* * *
52143513 ATGCCATAGCCTAGCTATGGTCTTACACGAATCACATATCTCA-CT-G
1 ATGCCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATCACATATCG
* * * * *
52143559 ATGCCATATCCCAGATATGGTCTTATACAGTAGCATAT-ATCACA-CTG
1 ATGCCATAGCCCAGCTATGGTCTTACACAATA-CATATCA-CATATC-G
* *
52143606 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTA
52143631 TACGGAAATC
Statistics
Matches: 226, Mismatches: 18, Indels: 23
0.85 0.07 0.09
Matches are distributed among these distances:
41 2 0.01
42 62 0.27
44 1 0.00
45 11 0.05
46 25 0.11
47 27 0.12
48 15 0.07
49 83 0.37
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (46 bp):
ATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATATCG
Found at i:52143471 original size:49 final size:49
Alignment explanation
Indices: 52143398--52143630 Score: 289
Period size: 49 Copynumber: 4.8 Consensus size: 49
52143388 TATGGTCTTA
*
52143398 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
52143448 CACATATCACATATCGATGCCATAGCCCAGCTATGGTTTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
52143497 CACATATCACATATCGATGCCATAGCCTAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * *
52143545 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
* * * *
52143592 CATATATCACA-CT-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
52143631 TACGGAAATC
Statistics
Matches: 168, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
46 25 0.15
47 40 0.24
48 13 0.08
49 84 0.50
50 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:52143687 original size:31 final size:31
Alignment explanation
Indices: 52143652--52143769 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
52143642 CTTGTCACAT
* *
52143652 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
52143683 GTAGCCGGAGCTACCATTTTTCGCTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
52143714 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
52143745 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
52143770 TGTCATTTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:52143848 original size:50 final size:50
Alignment explanation
Indices: 52143745--52143921 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
52143735 CACTGATCAG
* ** *
52143745 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTTTCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * * *
52143796 GTAGTCGAAGCTTTCACTTATCACTTTCAATTGTTCTTGATCAAATAAGT
1 GTAGCCGAAGCTTTCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
52143846 GTAGCCGAAGCTATT-ACTTATCACTTTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCT-TTCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
52143896 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTTTCACTTATCACTT
52143922 GTTGCCATGG
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.01
50 86 0.78
51 23 0.21
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTTTCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:52154245 original size:18 final size:18
Alignment explanation
Indices: 52154219--52154265 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
52154209 TAAATATTTA
* *
52154219 AAATGAATAAAAAACCAT
1 AAATAAATAAAAAACAAT
52154237 AAATAAATAATAAAACAAT
1 AAATAAATAA-AAAACAAT
52154256 -AATAAA-AAAA
1 AAATAAATAAAA
52154266 TTTGAATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 2 0.08
18 15 0.58
19 7 0.27
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATAAATAAAAAACAAT
Found at i:52154581 original size:21 final size:20
Alignment explanation
Indices: 52154549--52154592 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
52154539 GGGGAAATTC
*
52154549 AAAATAAATAAT-AATAAAAT
1 AAAAAAAATAATAAAT-AAAT
52154569 AAAAAAAAGTAATAAATAAAT
1 AAAAAAAA-TAATAAATAAAT
52154590 AAA
1 AAA
52154593 TCAAGACAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 11 0.52
22 3 0.14
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAAAATAATAAATAAAT
Found at i:52157286 original size:5 final size:5
Alignment explanation
Indices: 52157276--52157345 Score: 92
Period size: 5 Copynumber: 14.2 Consensus size: 5
52157266 TGAATGCAAA
52157276 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC -AAA- AAAAC AAAA-
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
*
52157323 AAAAGA AAAAC AAAAAC AAAAC A
1 AAAA-C AAAAC -AAAAC AAAAC A
52157346 TCATTGAAGA
Statistics
Matches: 59, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
4 10 0.17
5 40 0.68
6 9 0.15
ACGTcount: A:0.83, C:0.16, G:0.01, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:52165467 original size:20 final size:20
Alignment explanation
Indices: 52165423--52165494 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
52165413 ATTAAAAGAT
*
52165423 ATATACGTAATATATA-AAA
1 ATATACATAATATATAGAAA
*
52165442 TGTATACATAATATATAGAAA
1 -ATATACATAATATATAGAAA
* * *
52165463 ATATA-ATATTTAAAAAGAATA
1 ATATACATA-ATATATAGAA-A
52165484 ATATACATAAT
1 ATATACATAAT
52165495 GCAAGAATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
19 3 0.07
20 25 0.61
21 10 0.24
22 3 0.07
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
ATATACATAATATATAGAAA
Found at i:52167882 original size:13 final size:13
Alignment explanation
Indices: 52167866--52167890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52167856 GAAATTAAAG
52167866 ACAGAATTTGAAC
1 ACAGAATTTGAAC
52167879 ACAGAATTTGAA
1 ACAGAATTTGAA
52167891 AATACCTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ACAGAATTTGAAC
Found at i:52168071 original size:76 final size:75
Alignment explanation
Indices: 52167886--52168256 Score: 333
Period size: 76 Copynumber: 4.8 Consensus size: 75
52167876 AACACAGAAT
* * *
52167886 TTGAAAATACCTCAGCATGTGACCTGAGGCCCCAACTCACTTCTCGCAATATGAGTTGA--TTTT
1 TTGAAAATACCTCA-C--GTGTCCTGAGG-CTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
52167949 TTGAAAAGTAAAAA
62 TTGAAAAGCAAAAA
* *
52167963 TTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
1 TTGAAAATACCTC-ACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
*
52168028 AAAAGCAGAAA
65 AAAAGCAAAAA
* * * ** *
52168039 TTGAAAATTCCTCA-GTGTACCCTGAAGTTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTT
1 TTGAAAATACCTCACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
*
52168103 AAAGAATTTGCAAAACAAA
64 GAA-AA---GC--AA-AAA
* * *
52168122 CTTTGAAAATAACTCGGCATGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 --TTGAAAAT-AC-C-TCACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
52168185 TTTG-AAA-CATAAA
61 TTTGAAAAGCAAAAA
* *
52168198 TTGAAAATACCTTAACGTGTCCTGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTT
1 TTGAAAATACC-TCACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
52168257 CTGAAACTTA
Statistics
Matches: 241, Mismatches: 33, Indels: 43
0.76 0.10 0.14
Matches are distributed among these distances:
72 40 0.17
73 2 0.01
74 40 0.17
75 10 0.04
76 70 0.29
77 16 0.07
78 1 0.00
79 1 0.00
80 2 0.01
82 1 0.00
83 5 0.02
84 1 0.00
85 14 0.06
86 1 0.00
87 32 0.13
88 2 0.01
89 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (75 bp):
TTGAAAATACCTCACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
AAAGCAAAAA
Found at i:52168283 original size:14 final size:14
Alignment explanation
Indices: 52168266--52168297 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
52168256 TCTGAAACTT
*
52168266 AAAAGCAGAAATTG
1 AAAAGAAGAAATTG
52168280 AAAAGAAGAAATTG
1 AAAAGAAGAAATTG
52168294 AAAA
1 AAAA
52168298 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.19, T:0.12
Consensus pattern (14 bp):
AAAAGAAGAAATTG
Found at i:52176723 original size:4 final size:4
Alignment explanation
Indices: 52176669--52176704 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
52176659 TGGGATATGC
52176669 AATG AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG
52176705 CATAAATGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:52180956 original size:16 final size:16
Alignment explanation
Indices: 52180935--52180974 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
52180925 AAATGTATAC
52180935 ATAATATATAGAAAA-A
1 ATAATATATA-AAAAGA
*
52180951 ATAATATTTAAAAAGA
1 ATAATATATAAAAAGA
52180967 ATAATATA
1 ATAATATA
52180975 CATAATGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
ATAATATATAAAAAGA
Found at i:52181873 original size:19 final size:20
Alignment explanation
Indices: 52181838--52181876 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
52181828 AAGAAAACAA
52181838 AAGAGAGAAGAAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
*
52181858 AAGAGAG-AGGAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
52181877 GGAAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (20 bp):
AAGAGAGAAGAAGGGAGAGG
Found at i:52183774 original size:21 final size:21
Alignment explanation
Indices: 52183741--52183789 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
52183731 AAAGCGAAAT
52183741 AAATAAATAAATAAATAAAAG
1 AAATAAATAAATAAATAAAAG
**
52183762 AAATGAAAT-AATAAATAAATC
1 AAAT-AAATAAATAAATAAAAG
52183783 AAATAAA
1 AAATAAA
52183790 ATGTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 18 0.72
22 4 0.16
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAAATAAATAAATAAAAG
Found at i:52183786 original size:5 final size:4
Alignment explanation
Indices: 52183737--52183789 Score: 63
Period size: 4 Copynumber: 12.8 Consensus size: 4
52183727 ATAGAAAGCG
*
52183737 AAAT AAAT AAAT AAAT AAAT AAAAG AAAT GAAAT -AAT AAAT AAAT CAAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT -AAAT
52183787 AAA
1 AAA
52183790 ATGTAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 3 0.07
4 29 0.67
5 11 0.26
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:52187484 original size:32 final size:31
Alignment explanation
Indices: 52187440--52187503 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
52187430 GCAAATTTCT
* * *
52187440 TTAATTAGTATGAGTTATCAAATTAAATTAA
1 TTAATTAGTATGAATAATCAAATTAAAGTAA
* *
52187471 TTAATTTATTATGAATAATTAAATTAAAGTAA
1 TTAA-TTAGTATGAATAATCAAATTAAAGTAA
52187503 T
1 T
52187504 CACTTATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (31 bp):
TTAATTAGTATGAATAATCAAATTAAAGTAA
Found at i:52190392 original size:27 final size:27
Alignment explanation
Indices: 52190362--52190538 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
52190352 ATATTGAGTC
* * *
52190362 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
52190389 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
52190415 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
52190443 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
** **
52190470 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
52190497 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
52190524 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52190539 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.17
27 85 0.66
28 22 0.17
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:52195528 original size:82 final size:81
Alignment explanation
Indices: 52195412--52195567 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
52195402 AAATTGTACA
* * * *
52195412 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
52195476 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52195493 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
52195558 TGCGAGTTGA
65 TGCGAATTGA
52195568 TGTATAGCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52195535 original size:55 final size:52
Alignment explanation
Indices: 52195411--52195587 Score: 178
Period size: 55 Copynumber: 3.3 Consensus size: 52
52195401 TAAATTGTAC
* *
52195411 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
52195464 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * * *
52195519 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATGTAT-
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAG-TGA-ATATG
*
52195573 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52195588 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
53 17 0.16
54 36 0.35
55 49 0.47
56 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:52195568 original size:27 final size:27
Alignment explanation
Indices: 52195412--52195567 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
52195402 AAATTGTACA
*
52195412 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
52195439 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
52195466 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
52195493 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
52195521 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
52195548 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
52195568 TGTATAGCAC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:52195584 original size:26 final size:26
Alignment explanation
Indices: 52195493--52195587 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 26
52195483 TGACCATGCG
* * *
52195493 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAGT-TGATTA-CTA
* *
52195521 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGTTGATTAC-TA
52195548 GCACTAAGTGTGCGAGTTGATGTA-TA
1 GCACTAAGTGTGCGAGTTGAT-TACTA
*
52195574 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52195588 GGCTCAATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
26 14 0.25
27 25 0.44
28 18 0.32
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTGATTACTA
Found at i:52203498 original size:27 final size:26
Alignment explanation
Indices: 52203468--52203617 Score: 176
Period size: 27 Copynumber: 5.7 Consensus size: 26
52203458 AAATTGTACA
52203468 GCACTAAGTGTGCGATTTCGACTATGT
1 GCACTAAGTGTGCGATTT-GACTATGT
**
52203495 GCACTAAGTGTGCGAAATGA-TATGAT
1 GCACTAAGTGTGCGATTTGACTATG-T
* * *
52203521 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATG-T
* *
52203548 GCACTAAGTGTGCGAGTTGAATATGT
1 GCACTAAGTGTGCGATTTGACTATGT
* *
52203574 AGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGATTTGACTATGT
52203601 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
52203618 GATTGTAAAG
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.04
26 39 0.36
27 64 0.60
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTTGACTATGT
Found at i:52203529 original size:53 final size:53
Alignment explanation
Indices: 52203467--52203615 Score: 194
Period size: 53 Copynumber: 2.8 Consensus size: 53
52203457 TAAATTGTAC
52203467 AGCACTAAGTGTGCGATTTCGACTATGTGCACTAAGTGTGCGAAATG-ATATG-
1 AGCACTAAGTGTGCGATTT-GACTATGTGCACTAAGTGTGCGAAATGAATATGT
* * * **
52203519 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGAATATGT
1 A-GCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAAATGAATATGT
* *
52203574 AGCACTAAGTGTGCGATTTGATTACGTGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGA
52203616 TTGATTGTAA
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
52 7 0.08
53 49 0.59
54 26 0.31
55 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAAATGAATATGT
Found at i:52203579 original size:80 final size:79
Alignment explanation
Indices: 52203468--52203619 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 79
52203458 AAATTGTACA
* * *
52203468 GCACTAAGTGTGCGATTTCGACTATGTGCACTAAGTGTGCGAAATGA-TATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTCGAATATGTGCACTAAGTGTGCGAAATGATTACG-TGCACTAAGTGT
52203532 GCGAATTGACCATGCG
65 GCG-ATTGACCATGCG
**
52203548 GCACTAAGTGTGCGAGTT-GAATATGTAGCACTAAGTGTGCGATTTGATTACGTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTCGAATATGT-GCACTAAGTGTGCGAAATGATTACGTGCACTAAGTGT
52203612 GCGATTGA
65 GCGATTGA
52203620 TTGTAAAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
79 12 0.18
80 50 0.77
81 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (79 bp):
GCACTAAGTGTGCGAGTTCGAATATGTGCACTAAGTGTGCGAAATGATTACGTGCACTAAGTGTG
CGATTGACCATGCG
Found at i:52211522 original size:27 final size:26
Alignment explanation
Indices: 52211489--52211643 Score: 143
Period size: 27 Copynumber: 5.7 Consensus size: 26
52211479 AAATTGTACA
*
52211489 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
52211516 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
52211543 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
* *
52211570 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
52211598 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
52211625 GCACT-AGTGTGCGACTTGA
1 GCACTAAGTGTGCGA-TTGA
52211644 TTGTATAGCA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
26 14 0.13
27 68 0.64
28 25 0.23
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:52211549 original size:54 final size:55
Alignment explanation
Indices: 52211488--52211638 Score: 168
Period size: 54 Copynumber: 2.8 Consensus size: 55
52211478 AAAATTGTAC
*
52211488 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACTATGTGGCACTAAGTGTGCGAAATCGAACTATGT
* * * *
52211541 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCG-AGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTGGCACTAAGTGTGCGAAATCGAACTATGT
* *
52211597 AGCACTAAGTGTGCGATTTGATTACGTGGCACT-AGTGTGCGA
1 AGCACTAAGTGTGCGA-TTGACTATGTGGCACTAAGTGTGCGA
52211639 CTTGATTGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
53 3 0.04
54 45 0.55
55 33 0.40
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTGACTATGTGGCACTAAGTGTGCGAAATCGAACTATGT
Found at i:52211629 original size:82 final size:80
Alignment explanation
Indices: 52211489--52211643 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 80
52211479 AAATTGTACA
* * * *
52211489 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACT-AGTGT
52211554 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
52211570 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAGTG
*
52211634 TGCGACTTGA
64 TGCGAATTGA
52211644 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 31 0.48
82 33 0.52
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (80 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAGTGTG
CGAATTGACCATGCG
Found at i:52217785 original size:27 final size:27
Alignment explanation
Indices: 52217755--52217931 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
52217745 ATATTGAGTC
** *
52217755 CGCACACTCGGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
52217782 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
52217808 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
52217836 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
52217863 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
52217890 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
52217917 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52217932 GTCAATTTAC
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
26 26 0.20
27 80 0.62
28 24 0.18
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:52217893 original size:54 final size:54
Alignment explanation
Indices: 52217755--52217931 Score: 216
Period size: 54 Copynumber: 3.3 Consensus size: 54
52217745 ATATTGAGTC
** * * *
52217755 CGCACACTCGGTGCTATATAATCAA-CTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCTACATAGTCAAT
* *
52217808 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCTACATAGTCAA-T
** *
52217863 CGCACACTTAGTGC-ATCATTTTC-ATTTCGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAATCTCGCACACTTAGTGCTACATAGTC-AAT
52217917 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52217932 GTCAATTTAC
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
53 22 0.21
54 63 0.59
55 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCTACATAGTCAAT
Found at i:52217952 original size:54 final size:53
Alignment explanation
Indices: 52217782--52217954 Score: 177
Period size: 54 Copynumber: 3.2 Consensus size: 53
52217772 ATAATCAACT
* * * * *
52217782 CGCACACTTAGTGCTACGTAATC-AATCGCACACTTAGTGCTACATAATCAATC
1 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCTTCA-ATTTAATC
* * * * * * *
52217835 TCGCACACTTAGTGCCACATGGTCAATTCGCACACTTAGTGCATCATTTTCATTT
1 -CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCTTCAATTT-AATC
*
52217890 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCTGTCAATTTACTC
1 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCT-TCAATTTAATC
*
52217944 CGCGCACTTAG
1 CGCACACTTAG
52217955 CGCCAATCTC
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
54 70 0.73
55 26 0.27
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCTTCAATTTAATC
Found at i:52219322 original size:42 final size:44
Alignment explanation
Indices: 52219250--52219344 Score: 167
Period size: 43 Copynumber: 2.2 Consensus size: 44
52219240 CACACATTTT
*
52219250 TTTTTTTCTTTTGTTTTCCATTTCTTTATTA-CCATACTCCTTA
1 TTTTATTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTA
52219293 TTTTATTCTTTTGTTTT-CATTTCTTTATTACCCATACTCCTTA
1 TTTTATTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTA
52219336 TTTTATTCT
1 TTTTATTCT
52219345 CCATTAACAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 13 0.26
43 37 0.74
ACGTcount: A:0.15, C:0.20, G:0.02, T:0.63
Consensus pattern (44 bp):
TTTTATTCTTTTGTTTTCCATTTCTTTATTACCCATACTCCTTA
Found at i:52219862 original size:22 final size:24
Alignment explanation
Indices: 52219800--52219862 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 24
52219790 ATGCAACTAT
*
52219800 ATGCATGAGTAAACAGAGAGCACCG
1 ATGCATG-CTAAACAGAGAGCACCG
52219825 ATG--TGCTAATAC-GAGAGCA-C-
1 ATGCATGCTAA-ACAGAGAGCACCG
52219845 ATGCATGCTAAACAGAGA
1 ATGCATGCTAAACAGAGA
52219863 ACACTTACGT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
20 3 0.09
21 3 0.09
22 20 0.61
23 4 0.12
25 3 0.09
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (24 bp):
ATGCATGCTAAACAGAGAGCACCG
Found at i:52224617 original size:16 final size:16
Alignment explanation
Indices: 52224596--52224654 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
52224586 ATGAATTGAC
*
52224596 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
*
52224612 AAAAGCCGAAAAGCCG
1 AAAAGCCGAAATGCCG
* * *
52224628 AAAAGCTGAAATGTCA
1 AAAAGCCGAAATGCCG
52224644 AAAAGCCGAAA
1 AAAAGCCGAAA
52224655 GTTGGGCTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.51, C:0.19, G:0.22, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:52224619 original size:8 final size:8
Alignment explanation
Indices: 52224596--52224654 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
52224586 ATGAATTGAC
*
52224596 AAAAGCTG
1 AAAAGCCG
*
52224604 AAATGCCG
1 AAAAGCCG
52224612 AAAAGCCG
1 AAAAGCCG
52224620 AAAAGCCG
1 AAAAGCCG
*
52224628 AAAAGCTG
1 AAAAGCCG
* * *
52224636 AAATGTCA
1 AAAAGCCG
52224644 AAAAGCCG
1 AAAAGCCG
52224652 AAA
1 AAA
52224655 GTTGGGCTAC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.51, C:0.19, G:0.22, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52224783 original size:19 final size:19
Alignment explanation
Indices: 52224751--52224788 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52224741 ACTTAGGTTG
*
52224751 AGAATTGGCCAAATGGGCC
1 AGAATGGGCCAAATGGGCC
*
52224770 AGAATGGGCTAAATGGGCC
1 AGAATGGGCCAAATGGGCC
52224789 TGATAGGCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.34, T:0.16
Consensus pattern (19 bp):
AGAATGGGCCAAATGGGCC
Found at i:52224911 original size:29 final size:29
Alignment explanation
Indices: 52224865--52224972 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
52224855 TGTGAGCATG
*
52224865 AATAT-AATATGATTTGGGCCTAATGGGC
1 AATATGAATATGAATTGGGCCTAATGGGC
* *
52224893 AATATGAATGTGAATTGGGCCTAGTGGGC
1 AATATGAATATGAATTGGGCCTAATGGGC
* * *
52224922 TATAAGAATATGAACTGGGCC-AGATGGGC
1 AATATGAATATGAATTGGGCCTA-ATGGGC
* * *
52224951 CATTTGAATAAG-ATTGGGCCTA
1 AATATGAATATGAATTGGGCCTA
52224973 GTAGGCCATA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 13 0.20
29 51 0.80
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (29 bp):
AATATGAATATGAATTGGGCCTAATGGGC
Found at i:52229119 original size:8 final size:8
Alignment explanation
Indices: 52229092--52229136 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
52229082 ATGAATCAGC
52229092 AAAAGCCG
1 AAAAGCCG
* *
52229100 AAATGCTG
1 AAAAGCCG
*
52229108 AAAAGCCA
1 AAAAGCCG
52229116 AAAAGCCG
1 AAAAGCCG
*
52229124 AAATGCCG
1 AAAAGCCG
52229132 AAAAG
1 AAAAG
52229137 TTGAAAGTTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.51, C:0.20, G:0.22, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52229401 original size:29 final size:29
Alignment explanation
Indices: 52229368--52229447 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
52229358 ATATGATTTG
* *
52229368 GGCCTAATGGGCCATATGAATGTGAATTA
1 GGCCTAATGGGCCATATGAATATGAACTA
* * *
52229397 GGCCTAGTGGGCCATAAGAATATGAACTG
1 GGCCTAATGGGCCATATGAATATGAACTA
*
52229426 GGCC-AGATGGGCCATTTGAATA
1 GGCCTA-ATGGGCCATATGAATA
52229448 AGATTGGGCC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATATGAACTA
Found at i:52229420 original size:58 final size:57
Alignment explanation
Indices: 52229357--52229469 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
52229347 GCATGAATAT
** ** *
52229357 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTAGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTAGGCCTAGTAGGCCATAAG
* *
52229415 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTAGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTAGGCCTAGTAGGCCATA
52229470 TGCATGTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTAGGCCTAGTAGGCCATAAG
Found at i:52233789 original size:12 final size:12
Alignment explanation
Indices: 52233772--52233796 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52233762 GTTTGGCACA
52233772 ACCTAGCACACG
1 ACCTAGCACACG
52233784 ACCTAGCACACG
1 ACCTAGCACACG
52233796 A
1 A
52233797 GCGTGTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.16, T:0.08
Consensus pattern (12 bp):
ACCTAGCACACG
Found at i:52240575 original size:11 final size:11
Alignment explanation
Indices: 52240561--52240593 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
52240551 AAATAAACAT
52240561 AAAAAGAAAAA
1 AAAAAGAAAAA
52240572 AAAAAGAAAAA
1 AAAAAGAAAAA
52240583 AAAAAGAAAAA
1 AAAAAGAAAAA
52240594 TATAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:52240626 original size:16 final size:16
Alignment explanation
Indices: 52240591--52240634 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
52240581 AAAAAAAGAA
*
52240591 AAATATAAATATAAATAT
1 AAATAT-AA-ATAAACAT
52240609 AAATATAAATAAACAT
1 AAATATAAATAAACAT
*
52240625 AAAGATAAAT
1 AAATATAAAT
52240635 GGACTCAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 16 0.67
17 2 0.08
18 6 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATATAAATAAACAT
Found at i:52240633 original size:6 final size:6
Alignment explanation
Indices: 52240591--52240619 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
52240581 AAAAAAAGAA
52240591 AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA
52240620 AACATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:52242247 original size:16 final size:16
Alignment explanation
Indices: 52242226--52242302 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 16
52242216 ACCTAGAAAA
52242226 AAATAAATAAATAAAG
1 AAATAAATAAATAAAG
* *
52242242 AAATAAA-GAATAATG
1 AAATAAATAAATAAAG
*
52242257 ACAATAATATTAATTAATAG
1 A-AATAA-A-TAAATAA-AG
52242277 AAATAGTAATAAATAAAAG
1 AAATA--AATAAAT-AAAG
52242296 AAATAAA
1 AAATAAA
52242303 ATTATCTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
15 7 0.15
16 12 0.26
17 3 0.06
19 19 0.40
20 5 0.11
21 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (16 bp):
AAATAAATAAATAAAG
Found at i:52245500 original size:20 final size:20
Alignment explanation
Indices: 52245477--52245521 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
52245467 TCACACACGG
*
52245477 CCGTGTGGCTTGGGACACAC
1 CCGTGTGGCTTGAGACACAC
*
52245497 CCGTGTGGCTTGAGACACGC
1 CCGTGTGGCTTGAGACACAC
52245517 CCGTG
1 CCGTG
52245522 CCCTTAGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.31, G:0.36, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCTTGAGACACAC
Found at i:52247928 original size:42 final size:43
Alignment explanation
Indices: 52247849--52247929 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
52247839 TCCCGGACGT
* **
52247849 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGGCAA
1 GGTCTTACATGTAAATCAATATCGATGCCGATGTCCCAGGCAA
52247892 GGTCTTACATG-AAATCAGATA-CGATGCCGATGTCCCAG
1 GGTCTTACATGTAAATCA-ATATCGATGCCGATGTCCCAG
52247930 ACATTGTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 20 0.59
43 14 0.41
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCGATGTCCCAGGCAA
Found at i:52247939 original size:42 final size:43
Alignment explanation
Indices: 52247830--52247950 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
52247820 AACAAGTACA
* * * *
52247830 ATGCCGACGTCCCGGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCAATATCG
** * *
52247873 ATGCCTCTGTCCCAGGCAAGGTCTTACATG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCA-ATATCG
* * *
52247915 ATGCCGATGTCCCAGACATTGTCTTATACGTAAATC
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATC
52247951 TCAACAGAGG
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCAATATCG
Found at i:52250728 original size:22 final size:22
Alignment explanation
Indices: 52250703--52250745 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52250693 AGTAAACAAA
* *
52250703 AATTGAAATTAAAATTAAAATT
1 AATTGAAATAAAAATAAAAATT
*
52250725 AATTGTAATAAAAATAAAAAT
1 AATTGAAATAAAAATAAAAAT
52250746 AAAAATGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
AATTGAAATAAAAATAAAAATT
Found at i:52257110 original size:23 final size:23
Alignment explanation
Indices: 52257084--52257146 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
52257074 TATGATTATT
*
52257084 TATTTAAAATTATTATACCTTAA
1 TATTTAAAATTATTATAACTTAA
** * *
52257107 TATTTATTACTATCATAACTTAA
1 TATTTAAAATTATTATAACTTAA
52257130 TATTTAAAATTATTATA
1 TATTTAAAATTATTATA
52257147 TATTAAAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTTAAAATTATTATAACTTAA
Found at i:52257152 original size:23 final size:23
Alignment explanation
Indices: 52257069--52257157 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 23
52257059 TAAAATTTTA
*
52257069 AAAATTATGAT-TATT--TATTT
1 AAAATTATTATATATTAATATTT
**
52257089 AAAATTATTATACCTTAATATTT
1 AAAATTATTATATATTAATATTT
** * *
52257112 ATTACTATCATA-ACTTAATATTT
1 AAAATTATTATATA-TTAATATTT
*
52257135 AAAATTATTATATATTAAAATTT
1 AAAATTATTATATATTAATATTT
52257158 TAGGATTGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
20 10 0.20
21 2 0.04
23 38 0.75
24 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (23 bp):
AAAATTATTATATATTAATATTT
Found at i:52257806 original size:16 final size:15
Alignment explanation
Indices: 52257754--52257805 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
52257744 ATGTGAAAAA
52257754 TATTATTTAA-AATT
1 TATTATTTAATAATT
* *
52257768 TATTATTAAAATAATA
1 TATTATT-TAATAATT
*
52257784 AATTATATTAATAATT
1 TATTAT-TTAATAATT
52257800 TATTAT
1 TATTAT
52257806 AATAATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 7 0.24
15 2 0.07
16 19 0.66
17 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTTAATAATT
Found at i:52257811 original size:16 final size:16
Alignment explanation
Indices: 52257764--52257811 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
52257754 TATTATTTAA
52257764 AATTTATTATTAA-AAT
1 AATTTATTA-TAATAAT
** *
52257780 AATAAATTATATTAAT
1 AATTTATTATAATAAT
52257796 AATTTATTATAATAAT
1 AATTTATTATAATAAT
52257812 TAAATATGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTATTATAATAAT
Found at i:52272073 original size:23 final size:23
Alignment explanation
Indices: 52272033--52272077 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
52272023 TTCAGTCGCA
52272033 ATTTCTCACATTTTCAATTCAATC
1 ATTTCTCACATTTTCAA-TCAATC
*
52272057 ATTTTTCAC-TTTTCAATCAAT
1 ATTTCTCACATTTTCAATCAAT
52272078 TTTCAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTCTCACATTTTCAATCAATC
Found at i:52272371 original size:15 final size:15
Alignment explanation
Indices: 52272329--52272371 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
52272319 TACTTACTAT
* *
52272329 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
52272344 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
52272358 AAAATAAATAACTT
1 AAAATAAATAACTT
52272372 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:52275213 original size:35 final size:35
Alignment explanation
Indices: 52275154--52275232 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
52275144 CTTAAGGTTT
52275154 TTTA-GGTTTAGGGTTTTGCTAAAATA-ATTTA-GG
1 TTTAGGGTTTAGGGTTTTGCTAAAATACA-TTAGGG
* *
52275187 TTTAGGGTTTAGGTTTTTTGTTAAAATACATTAGGG
1 TTTAGGGTTTAGG-GTTTTGCTAAAATACATTAGGG
52275223 TTTAGGGTTT
1 TTTAGGGTTT
52275233 TAGTGGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 4 0.10
34 8 0.20
35 15 0.38
36 13 0.32
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (35 bp):
TTTAGGGTTTAGGGTTTTGCTAAAATACATTAGGG
Found at i:52275548 original size:126 final size:126
Alignment explanation
Indices: 52275400--52275777 Score: 569
Period size: 126 Copynumber: 3.0 Consensus size: 126
52275390 ATTGACTATT
* * *
52275400 TTTCCTTACAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTTAAGCA
1 TTTCCTGA-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCA
* *** * * *
52275465 GGATGCACTGTGTGCAAAATTACTGAAAAAAGCTCCAATGTGGACGCTCTTTTTTTACAGTA
65 GGATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
*
52275527 TTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAG
1 TTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAG
* *
52275592 AATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACATTA
66 GATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
* * *
52275653 TTTCCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAATCAG
1 TTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAG
* * *
52275718 GATGCAATATCAACAAAATTTCTGAAAAAA-CTCCCACGTGGACGTTCTTTTTCTACAGTA
66 GATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
52275778 GTTCATGTTT
Statistics
Matches: 229, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
125 28 0.12
126 194 0.85
127 7 0.03
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (126 bp):
TTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAG
GATGCAATGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTA
Found at i:52278842 original size:25 final size:27
Alignment explanation
Indices: 52278812--52278887 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 27
52278802 GTCTTATTCA
52278812 AAAAAACTTTTATTTTATTAAAA-A-T
1 AAAAAACTTTTATTTTATTAAAATATT
* *
52278837 ATAAAA--TTAATTTACTATTAAAATATT
1 AAAAAACTTTTATTT--TATTAAAATATT
52278864 AAAACTAACTTTTATTTTATTAAA
1 AAAA--AACTTTTATTTTATTAAA
52278888 TGAAATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
23 6 0.15
25 13 0.33
26 1 0.03
27 4 0.10
29 9 0.23
31 6 0.15
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAAAACTTTTATTTTATTAAAATATT
Found at i:52279915 original size:7 final size:7
Alignment explanation
Indices: 52279896--52279929 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
52279886 AAATATTAGT
52279896 TAAATAC
1 TAAATAC
52279903 -ATAATAC
1 TA-AATAC
52279910 TAAATAC
1 TAAATAC
52279917 TAAATAC
1 TAAATAC
52279924 TAAATA
1 TAAATA
52279930 TGAAACAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 23 0.92
8 1 0.04
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAATAC
Found at i:52280888 original size:26 final size:25
Alignment explanation
Indices: 52280859--52280948 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 25
52280849 TAAAAAAATT
52280859 ATAAATTACAAATTAATTAAAATTAC
1 ATAAATTA-AAATTAATTAAAATTAC
* * *
52280885 ATAAATGAAAA-AATATTAAATAATATTC
1 ATAAATTAAAATTA-ATT-AA-AAT-TAC
* *
52280913 AAAAATTAAAATTAATTAGAATTAC
1 ATAAATTAAAATTAATTAAAATTAC
*
52280938 ATAAATGAAAA
1 ATAAATTAAAA
52280949 AAATATTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
24 1 0.02
25 17 0.35
26 12 0.24
27 4 0.08
28 14 0.29
29 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (25 bp):
ATAAATTAAAATTAATTAAAATTAC
Found at i:52280942 original size:53 final size:54
Alignment explanation
Indices: 52280861--52280981 Score: 217
Period size: 54 Copynumber: 2.2 Consensus size: 54
52280851 AAAAAATTAT
52280861 AAATTACAAATTAATTAAAATTACATAAATG-AAAAAATATTAAATAATATTCAA
1 AAATTA-AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAA
*
52280915 AAATTAAAATTAATTAGAATTACATAAATGAAAAAAATATTAAATAATATTCAA
1 AAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAA
52280969 AAATTAAAATTAA
1 AAATTAAAATTAA
52280982 CCTTTACCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
53 23 0.35
54 42 0.65
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (54 bp):
AAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAA
Found at i:52280949 original size:26 final size:25
Alignment explanation
Indices: 52280859--52280949 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 25
52280849 TAAAAAAATT
* *
52280859 ATAAATTACAAATTAATTAAAATTAC
1 ATAAATGAAAAATTAATT-AAATTAC
*
52280885 ATAAATGAAAAAAT-ATTAAATAATATTC
1 ATAAATGAAAAATTAATTAAAT--TA--C
* *
52280913 AAAAAT-TAAAATTAATTAGAATTAC
1 ATAAATGAAAAATTAATTA-AATTAC
52280938 ATAAATGAAAAA
1 ATAAATGAAAAA
52280950 AATATTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
24 4 0.08
25 9 0.18
26 17 0.34
27 7 0.14
28 10 0.20
29 3 0.06
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (25 bp):
ATAAATGAAAAATTAATTAAATTAC
Found at i:52280956 original size:26 final size:25
Alignment explanation
Indices: 52280878--52280959 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
52280868 AAATTAATTA
52280878 AAATTACATAAATG-AAAAAATATT
1 AAATTACATAAATGAAAAAAATATT
* * **
52280902 AAATAATATTCAAAAATTAAAATTA-ATT
1 AAAT--TA--CATAAATGAAAAAAATATT
52280930 AGAATTACATAAATGAAAAAAATATT
1 A-AATTACATAAATGAAAAAAATATT
52280956 AAAT
1 AAAT
52280960 AATATTCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
24 4 0.09
25 14 0.33
26 6 0.14
27 2 0.05
28 10 0.23
29 7 0.16
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
AAATTACATAAATGAAAAAAATATT
Found at i:52281185 original size:21 final size:21
Alignment explanation
Indices: 52281136--52281185 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
52281126 TAAAGAAAGC
** *
52281136 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAGCTTTAAGGAGAAA
52281157 TTTGAGAGCTTTAAGGAGAAA
1 TTTGAGAGCTTTAAGGAGAAA
*
52281178 TTTTAGAG
1 TTTGAGAG
52281186 TTTTTTTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
TTTGAGAGCTTTAAGGAGAAA
Found at i:52286710 original size:24 final size:22
Alignment explanation
Indices: 52286662--52286713 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
52286652 ATAGTTTTAA
* *
52286662 ATTTTTATAATATTTATTCAAT
1 ATTTTTATAATATTCATGCAAT
52286684 ATTTTTATAATATATCATGCAATT
1 ATTTTTATAATAT-TCATGCAA-T
52286708 ATTTTT
1 ATTTTT
52286714 TTATTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 13 0.50
23 6 0.23
24 7 0.27
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTATAATATTCATGCAAT
Found at i:52297199 original size:46 final size:46
Alignment explanation
Indices: 52297102--52297272 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
52297092 GGGGTCAGGT
* *
52297102 GCCGATGTCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACGTCTCA-A
* *
52297148 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TACGTCTC-AA
* *
52297194 GCCGATG-CATGTACCAAACAT-GTCTTACACTAGAACT-CGTCGT-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTACGTC-TCAA
52297239 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
52297273 AGCTCACAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
44 12 0.11
45 15 0.14
46 53 0.50
47 16 0.15
48 11 0.10
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTACGTCTCAA
Found at i:52309272 original size:22 final size:22
Alignment explanation
Indices: 52309225--52309272 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
52309215 CTATAACAAC
* * * *
52309225 AAAATAGTAGTAACATAATAAT
1 AAAATAGTAGCAAAATAAGAAG
52309247 AAAATAGTAGCAAAATAAGAAG
1 AAAATAGTAGCAAAATAAGAAG
52309269 AAAA
1 AAAA
52309273 CAATAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAAG
Found at i:52312535 original size:24 final size:24
Alignment explanation
Indices: 52312507--52312612 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 24
52312497 AAAACCAAAC
*
52312507 AAAGCCTTTGTGGCGAATATTCGT
1 AAAGCCTTTGTGGCGAATATTCAT
52312531 AAAGCCTTTGTGGC-AA-ACTCTCTAT
1 AAAGCCTTTGTGGCGAATA-T-TC-AT
* **
52312556 AAAGCCTTTGTGGCGAACTCTTTGT
1 AAAGCCTTTGTGGCGAA-TATTCAT
* *
52312581 AAAACCTTCT-TGGCGTATTATTCAT
1 AAAGCCTT-TGTGGCG-AATATTCAT
52312606 AAAGCCT
1 AAAGCCT
52312613 CAGTGGCAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
22 1 0.02
23 3 0.05
24 16 0.25
25 38 0.59
26 5 0.08
27 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
AAAGCCTTTGTGGCGAATATTCAT
Found at i:52312583 original size:25 final size:25
Alignment explanation
Indices: 52312507--52312588 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
52312497 AAAACCAAAC
* *
52312507 AAAGCCTTTGTGGCGAA-TATTCGT
1 AAAGCCTTTGTGGCGAACTCTTTGT
* * *
52312531 AAAGCCTTTGTGGCAAACTCTCTAT
1 AAAGCCTTTGTGGCGAACTCTTTGT
52312556 AAAGCCTTTGTGGCGAACTCTTTGT
1 AAAGCCTTTGTGGCGAACTCTTTGT
*
52312581 AAAACCTT
1 AAAGCCTT
52312589 CTTGGCGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
24 16 0.33
25 32 0.67
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (25 bp):
AAAGCCTTTGTGGCGAACTCTTTGT
Found at i:52314277 original size:38 final size:38
Alignment explanation
Indices: 52314225--52314359 Score: 198
Period size: 40 Copynumber: 3.4 Consensus size: 38
52314215 CCTGCGAAAC
* *
52314225 TTTAAGCCCGGATATAGTACCAGCACTAAGCCTGCGGGA
1 TTTAA-CCCGGATATATTACCAGCACGAAGCCTGCGGGA
52314264 TTTAACCCGGATATATATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGG--ATATATTACCAGCACGAAGCCTGCGGGA
*
52314304 TTTAACCCGAATATATATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCG--GATATATTACCAGCACGAAGCCTGCGGGA
52314344 TTTAACCCGGATATAT
1 TTTAACCCGGATATAT
52314360 GATATATCAA
Statistics
Matches: 88, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
38 11 0.12
39 5 0.06
40 72 0.82
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (38 bp):
TTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGA
Found at i:52315181 original size:2 final size:2
Alignment explanation
Indices: 52315174--52315205 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
52315164 AAGCTGAATG
52315174 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
52315206 TATATACGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:52322373 original size:39 final size:38
Alignment explanation
Indices: 52322328--52322433 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 38
52322318 CACTAGCTCA
*
52322328 AAGCCTGCGAAACTTTAAGCCCGG-TATAGTACCAGCACT
1 AAGCCTGCGAAA-TTTAA-CCCGGATATAGTACCAGCACG
** *
52322367 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGAAATTTAACCCGG--ATATAGTACCAGCACG
**
52322407 AAGCCTGCGGGATTTAACCCGGATATA
1 AAGCCTGCGAAATTTAACCCGGATATA
52322434 TAATATATCA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
37 5 0.08
38 10 0.17
39 10 0.17
40 35 0.58
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
AAGCCTGCGAAATTTAACCCGGATATAGTACCAGCACG
Found at i:52322405 original size:40 final size:40
Alignment explanation
Indices: 52322352--52322435 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
52322342 TTAAGCCCGG
*
52322352 TATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGGATA
1 TATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGATA
*
52322392 TATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATA
1 TATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGATA
52322432 TATA
1 TATA
52322436 ATATATCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
TATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGGATA
Found at i:52325099 original size:15 final size:15
Alignment explanation
Indices: 52325079--52325116 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
52325069 TGGAATTCTG
52325079 TTTAGATTAATCAGA
1 TTTAGATTAATCAGA
*
52325094 TTTAGA-AAATCAGA
1 TTTAGATTAATCAGA
*
52325108 TTTACATTA
1 TTTAGATTA
52325117 TATATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (15 bp):
TTTAGATTAATCAGA
Found at i:52327349 original size:18 final size:18
Alignment explanation
Indices: 52327326--52327379 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
52327316 ACAAGTGATG
52327326 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
52327344 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
52327356 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
52327374 GTGGAG
1 GTGGAG
52327380 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:52327362 original size:30 final size:30
Alignment explanation
Indices: 52327324--52327419 Score: 149
Period size: 30 Copynumber: 3.2 Consensus size: 30
52327314 GTACAAGTGA
*
52327324 TGGTGGAGCAAGTGTGGCTAGTGGAGTAGG
1 TGGTGGAGCAAGTGTGGCTAGTGGAGTTGG
*
52327354 TAGTGGAGCAAGTGTGGCTAGTGGAGTTGG
1 TGGTGGAGCAAGTGTGGCTAGTGGAGTTGG
*
52327384 TGGTGGAAG-AATTGTGGCTAGTGGAGTTGG
1 TGGTGG-AGCAAGTGTGGCTAGTGGAGTTGG
52327414 TGGTGG
1 TGGTGG
52327420 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
30 59 0.97
31 2 0.03
ACGTcount: A:0.19, C:0.05, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGTGGAGCAAGTGTGGCTAGTGGAGTTGG
Found at i:52328224 original size:87 final size:89
Alignment explanation
Indices: 52328074--52328659 Score: 460
Period size: 87 Copynumber: 6.6 Consensus size: 89
52328064 GTGATCGTGA
** * * * *
52328074 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAA-ATAGACA-T-TAAAATAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATA-A-ATTGTAAAACAGAAATT
* * * *
52328135 GAACATAGCTCAGCACGTGAGCCAAG
64 GAAAATACCTCAGCATGTGAGCCGAG
* * **
52328161 GCTTAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAACA-AAATATGTAAAACAGATTTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAAT-TGTAAAACAGAAATTG
* * *
52328223 AAAATACCTCGGTATGTGACCCGAG
65 AAAATACCTCAGCATGTGAGCCGAG
* * * * * *
52328248 GCTCAACTCACCTTTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTGGAAAAAAAATCAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATAAATTGTAAAACAGA--AAT
*
52328312 TGAAAATACCTCAGCGTGTGA-CCTGAG
63 TGAAAATACCTCAGCATGTGAGCC-GAG
*
52328339 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTG-AAAA-AAAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAACATAAATTGTAAAACAGAAATT
* *
52328402 GAAAATACCTTAGC--GTG-TCCTGAG
64 GAAAATACCTCAGCATGTGAGCC-GAG
* * *
52328426 GCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACAGAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-G-AAAACATAAA-TTGTAAAACAGAAA
* *
52328490 TTGAAAATACCTCAGCATGTGAGTCAAG
62 TTGAAAATACCTCAGCATGTGAGCCGAG
* * * * *
52328518 GCTCAACTCACCACTCGCAATATGAGCTGATTTTTTGAAACACAGAAATTG-AAGAACAAAAATG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACATAAATTGTAA-AACAGAAATT
* *
52328582 GAAAACACCTCAG--TGT---CTTGAG
64 GAAAATACCTCAGCATGTGAGC-CGAG
* * * *
52328604 GTTTAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTG-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACATAAATTGTAAAA
52328660 TACCTCAACG
Statistics
Matches: 420, Mismatches: 52, Indels: 55
0.80 0.10 0.10
Matches are distributed among these distances:
84 1 0.00
85 1 0.00
86 41 0.10
87 158 0.38
88 12 0.03
89 40 0.10
90 50 0.12
91 62 0.15
92 37 0.09
93 18 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (89 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGTAAAACAGAAATTGA
AAATACCTCAGCATGTGAGCCGAG
Found at i:52328369 original size:178 final size:176
Alignment explanation
Indices: 52328123--52328659 Score: 472
Period size: 178 Copynumber: 3.0 Consensus size: 176
52328113 AATAGACATT
* * * * * * *
52328123 AAAATAGAAATTGAACATAGCTCAGCACGTGAGC-CAAGGCTTAACTCACTTCTCGCAATATGAG
1 AAAACAGAATTTGAAAATACCTCAGCATGTGA-CTCAAGGCTCAACTCACCTCTCGCAATATGAG
* ** *
52328187 TTGATTTTT-A-AAACA-AAATATGTAAAACAGATTTTGAAAATACCTCGGTA-TGTGACCCGAG
65 TTGATTTTTGACAAACATAAAT-TG-AAAA-AAAAATTGAAAATACCT---TAGCGTGACCCGAG
* * * *
52328248 GCTCAACTCACCTTTCGTAATATGAGTTGA-TTTTT-GCAAAGCATAAATTGGA
124 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACA-AAATTGGA
* *
52328300 AAAA-A-AATCAATTGAAAATACCTCAGCGTGTGAC-CTGAGGCTCAACTCACCTCTCGCAATAT
1 AAAACAGAAT---TTGAAAATACCTCAGCATGTGACTC-AAGGCTCAACTCACCTCTCGCAATAT
* *
52328362 GAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAATTGAAAATACCTTAGCGTGTCCTGAGG
62 GAGTTGA--TTTTTGACAAACATAAATTGAAAAAAAAATTGAAAATACCTTAGCGTGACCCGAGG
* *
52328427 CTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACAAAATTTGA
125 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGGAAAAACAAAATTGGA
* * *
52328480 AAAACAGAATTTGAAAATACCTCAGCATGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGC
1 AAAACAGAATTTGAAAATACCTCAGCATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * ** *
52328545 TGATTTTTTGA-AACACAGAAATTGAAGAACAAAAATGGAAAACACCTCA--GTGTCTTGAGGTT
66 TGA-TTTTTGACAA-ACATAAATTGAA-AA-AAAAATTGAAAATACCTTAGCGTGACCCGAGGCT
* * * *
52328607 TAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATT-GA
127 CAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACA-AAATTGGA
52328657 AAA
1 AAA
52328660 TACCTCAACG
Statistics
Matches: 305, Mismatches: 35, Indels: 40
0.80 0.09 0.11
Matches are distributed among these distances:
175 2 0.01
176 1 0.00
177 28 0.09
178 143 0.47
179 53 0.17
180 52 0.17
181 12 0.04
182 10 0.03
183 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (176 bp):
AAAACAGAATTTGAAAATACCTCAGCATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGACAAACATAAATTGAAAAAAAAATTGAAAATACCTTAGCGTGACCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTGGA
Found at i:52328496 original size:13 final size:14
Alignment explanation
Indices: 52328464--52328496 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
52328454 GATTTTTTTG
52328464 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
52328478 GAAAAACAGAATTT
1 GAAAAACAAAATTT
52328492 GAAAA
1 GAAAA
52328497 TACCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:52328626 original size:265 final size:262
Alignment explanation
Indices: 52328159--52328659 Score: 636
Period size: 265 Copynumber: 1.9 Consensus size: 262
52328149 ACGTGAGCCA
* * * *
52328159 AGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAAAATATGTAAAACAGATTTTGA
1 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAAATATGAAAAACAGAATTTGA
* * * ** * * *
52328224 AAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTGCAAAG
66 AAATACCTCAGCATGTGACCCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTGCAAAA
* * *
52328289 CATAAATTGGAAAAAAAATCAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCT
131 CAGAAATTGGAAAAAAAA-CAATGGAAAACACCTCA-CGTGT-ACCTGAGGCTCAACTCACCTCT
* *
52328354 CGCAATATGAGTTGATTTTTTTGACAA-ACATAAATTGAAAAAAAAATTGAAAATACCTTAGCGT
193 CGCAATATGAGCTGATTTTTTTGA-AAGACAGAAATTGAAAAAAAAATTGAAAATACCTTAGCGT
52328418 GTCCTG
257 GTCCTG
*
52328424 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACAAAATTTGAAAAACAGAA
1 AGGCTGAACTCACCTCTCGCAATATGAGTTGA--TTTTT---AAAACAAAATATGAAAAACAGAA
**
52328489 TTTGAAAATACCTCAGCATGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
61 TTTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCACTCGCAATATGAGCTGA-TTTTT
* * * *
52328554 G-AAACACAGAAATT-GAAGAACAAA-AATGGAAAACACCTCA-GTGT-CTTGAGGTTTAACTCA
125 GCAAA-ACAGAAATTGGAA-AAAAAACAATGGAAAACACCTCACGTGTACCTGAGGCTCAACTCA
52328614 CCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
188 CCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
52328660 TACCTCAACG
Statistics
Matches: 203, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
264 2 0.01
265 84 0.41
267 9 0.04
269 14 0.07
270 76 0.37
271 18 0.09
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (262 bp):
AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAAATATGAAAAACAGAATTTGA
AAATACCTCAGCATGTGACCCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTGCAAAA
CAGAAATTGGAAAAAAAACAATGGAAAACACCTCACGTGTACCTGAGGCTCAACTCACCTCTCGC
AATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAAAAAAATTGAAAATACCTTAGCGTGTCC
TG
Found at i:52329020 original size:146 final size:146
Alignment explanation
Indices: 52328572--52329006 Score: 753
Period size: 147 Copynumber: 3.0 Consensus size: 146
52328562 GAAATTGAAG
* ** * *
52328572 AACAAAAATGGAAAACACCTCAGTGTCTTGAGGTTTAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
52328637 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
52328702 GAGTTGATTTTTAACA
131 GAGTTGATTTTTAACA
*
52328718 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA-TT
* *
52328783 TTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTTTCGCATTA
65 TTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
52328848 TGAGTTGATTTTTGACA
130 TGAGTTGATTTTTAACA
52328865 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
* * *
52328930 TTTTGGAAGACAGAAATTGAAAATACATCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
52328995 GAGTTGATTTTT
131 GAGTTGATTTTT
52329007 TTTAAACATA
Statistics
Matches: 273, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
146 131 0.48
147 142 0.52
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (146 bp):
AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTAACA
Found at i:52329231 original size:14 final size:13
Alignment explanation
Indices: 52329195--52329239 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
52329185 TTGATTTTTG
52329195 AAAAACAGAAATT
1 AAAAACAGAAATT
**
52329208 AAAAGTAGAAATT
1 AAAAACAGAAATT
52329221 GAAAAACAGAAATT
1 -AAAAACAGAAATT
52329235 AAAAA
1 AAAAA
52329240 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:52329252 original size:100 final size:100
Alignment explanation
Indices: 52329023--52329311 Score: 381
Period size: 100 Copynumber: 2.9 Consensus size: 100
52329013 CATAAATTAA
*
52329023 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
52329087 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
64 TGATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
*
52329122 AAAAACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTTAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
52329187 GATTTTTGAAAAACAGAAATT-AAAAGTAGAAATTG
65 GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* * * *
52329222 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
52329287 GATTTTT-AAAAAGCATAAATTGAAA
65 GATTTTTGAAAAA-CAGAAATTGAAA
52329312 TTACCTCAGC
Statistics
Matches: 169, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
98 2 0.01
99 65 0.38
100 82 0.49
101 20 0.12
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (100 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
Found at i:52329349 original size:73 final size:73
Alignment explanation
Indices: 52329222--52329458 Score: 377
Period size: 73 Copynumber: 3.2 Consensus size: 73
52329212 GTAGAAATTG
* * * * * * *
52329222 AAAAA-CAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
1 AAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
52329286 TGATTTTT
66 TGATTTTT
*
52329294 AAAAAGCATAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
52329359 TGATTTTT
66 TGATTTTT
52329367 AAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
52329432 TGATTTTTT
66 TGA-TTTTT
*
52329441 GAAAAGCATAAATTGAAA
1 AAAAAGCATAAATTGAAA
52329459 AAACAGAAAT
Statistics
Matches: 153, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
72 5 0.03
73 126 0.82
74 22 0.14
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
AAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTT
Found at i:52329584 original size:250 final size:248
Alignment explanation
Indices: 52329122--52329979 Score: 779
Period size: 250 Copynumber: 3.4 Consensus size: 248
52329112 GCAAAAATTG
*
52329122 AAAAA-CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTTAACTCACCTCTCGCAATATGAGT
1 AAAAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
** *
52329186 TGATTTTTGAAAAACAGAAATTAAAAGTAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGT
66 TGATTTTTGAAAAACAGAAATTAAAAACAGAAATTGAAAAACAGAAATTAAAAAGACCTCGGCGT
* * * *
52329251 GCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTAAAAAGCATAAATTGAAATTAC
131 GCCCCGAGACTCAACTCACCTCTCGCAATACGAGTTGATTTTTAAAAAGCAGAAATTGAAATTAC
*
52329316 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTT
196 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT
* *
52329367 AAAAAGCATAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAAGCAGAAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
52329431 TTGATTTTTTGAAAAGCATAAATTGAAAAAACAGAAATTG-AAAACA-AAATTTGAAAAGACCTC
65 TTGA-TTTTTGAAAAACAGAAATT--AAAAACAGAAATTGAAAAACAGAAA-TTAAAAAGACCTC
* * * *
52329494 GGCGTATGGCTCGAGACTCAACTCACCTCTCGCAATACGAGTTGATTTTTTGACAA-CAGAAATT
126 GGCG--TGCCCCGAGACTCAACTCACCTCTCGCAATACGAGTTGA-TTTTTAAAAAGCAGAAATT
52329558 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAA
188 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTC-TTT----
52329623 AGT
248 --T
*
52329626 AGAAATTGAAAGCAGAAATTGAAAATACCTCAACACGTGAGCC--GAGGCTCAACTCACCTCTCG
1 ---AA---AAAGCAGAAATTGAAAATACCTC-A-GCGT--GCCTTGAGGCTCAACTCACCTCTCG
* * * *
52329689 CAATATAAGTTGGATTTTTG----A-A-AAA-T--------AAATTGACAAACGGAAATTGAAAA
56 CAATATGAGTT-GATTTTTGAAAAACAGAAATTAAAAACAGAAATTGAAAAACAGAAATTAAAAA
* * ** * *
52329739 TACCTCAGCGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTT
120 GACCTCGGCGTGCCCCGAGACTCAACTCACCTCTCGCAATACGAGTTGA--TTTTT-A-------
* * * *
52329802 TGAAAGACAAAAATTG-AATATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
175 -AAAAG-CAGAAATTGAAAT-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
52329866 GTTGATTTTTTT
237 GTTGATTCTTTT
* *
52329878 GAAAAA-TAGAAATT-AAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 -AAAAAGCAGAAATTGAAAA-TACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
52329941 GTTGATTCTTT-AAAAACAGACATT-AAAATAGAAATTGAA
64 GTTGATT-TTTGAAAAACAGAAATTAAAAACAGAAATTGAA
52329980 CATAGCTCAG
Statistics
Matches: 507, Mismatches: 44, Indels: 112
0.76 0.07 0.17
Matches are distributed among these distances:
242 2 0.00
243 4 0.01
244 36 0.07
245 10 0.02
246 69 0.14
247 59 0.12
248 28 0.06
249 15 0.03
250 103 0.20
251 28 0.06
252 4 0.01
253 3 0.01
257 9 0.02
258 6 0.01
259 58 0.11
260 1 0.00
261 3 0.01
262 3 0.01
265 21 0.04
266 1 0.00
267 39 0.08
268 4 0.01
269 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (248 bp):
AAAAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAGAAATTAAAAACAGAAATTGAAAAACAGAAATTAAAAAGACCTCGGCGT
GCCCCGAGACTCAACTCACCTCTCGCAATACGAGTTGATTTTTAAAAAGCAGAAATTGAAATTAC
CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT
Found at i:52329636 original size:14 final size:14
Alignment explanation
Indices: 52329617--52329650 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
52329607 GTTGATTCTT
*
52329617 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
52329631 TTG-AAAGCAGAAA
1 TTGAAAAGCAGAAA
52329644 TTGAAAA
1 TTGAAAA
52329651 TACCTCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.56, C:0.03, G:0.21, T:0.21
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:52329915 original size:75 final size:76
Alignment explanation
Indices: 52329791--52330113 Score: 266
Period size: 75 Copynumber: 4.1 Consensus size: 76
52329781 GTTGATTTTT
* * *
52329791 TTGATTTTTTTTGAAAGACAAAAATT-GAATATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TTGA-TTTTTTTGAAAAACAGAAATTAAAATATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
52329855 TCGCAATATGAG
65 TCGCAATATGAG
* *
52329867 TTGATTTTTTTGAAAAATAGAAATTAAAAT-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
1 TTGATTTTTTTGAAAAACAGAAATTAAAATATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
52329931 CGCAATATGAG
66 CGCAATATGAG
* * * ** * * *
52329942 TTGA-TTCTTT-AAAAACAGACATTAAAATAGAAATTGAACATAG-CTCAGCACGTGAGC-CAAG
1 TTGATTTTTTTGAAAAACAGAAATTAAAATA-TACCTCAACGT-GTCT-TG-A---G-GCTCAA-
* *
52330003 GCTCAACTCACTTCTCGTAATATGAA
57 -CTC-A--C-C-TCTCGCAATATGAG
* * *
52330029 TTGATTTTTTT-AAAAGACAGAAATTGAGA-ATACCTCAACTTGTCTTGAGGCTCAACTCACCTC
1 TTGATTTTTTTGAAAA-ACAGAAATTAAAATATACCTCAACGTGTCTTGAGGCTCAACTCACCT-
52330092 CTCGCAATATGAG
64 CTCGCAATATGAG
52330105 TTGATTTTT
1 TTGATTTTT
52330114 GAAAACAGAA
Statistics
Matches: 196, Mismatches: 29, Indels: 44
0.73 0.11 0.16
Matches are distributed among these distances:
73 16 0.08
74 5 0.03
75 74 0.38
76 30 0.15
77 2 0.01
79 1 0.01
80 7 0.04
81 4 0.02
82 7 0.04
83 1 0.01
85 2 0.01
86 3 0.02
87 24 0.12
88 10 0.05
89 10 0.05
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (76 bp):
TTGATTTTTTTGAAAAACAGAAATTAAAATATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAG
Found at i:52330075 original size:162 final size:160
Alignment explanation
Indices: 52329457--52330205 Score: 626
Period size: 162 Copynumber: 4.6 Consensus size: 160
52329447 CATAAATTGA
* * * * * * *
52329457 AAAAACAGAAATTGAAAACA-AAATTTGAAAAGACCTCGGCGTATGGCTCGAGACTCAACTCACC
1 AAAAACAGAATTTAAAAACAGAAA-TTGAAAATACCTCAGCG--T-GCCCAAGGCTCAACTCACC
* * * * *
52329521 TCTCGCAATACGAGTTGA-TTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
62 TCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAACGTGTCTTGAGGC
52329584 TCAACTCACCT-CTCGCAATATGAGTTGATTCTTTT
127 TCAACTCACCTCCTCGCAATATGAGTTGA-T-TTTT
** * * * * * *
52329619 GAAAAGTAGAAATTGAAAGCAGAAATTGAAAATACCTCAACACGTGAGCCGAGGCTCAACTCACC
1 -AAAAACAGAATTTAAAAACAGAAATTGAAAATACCTC-A-GCGTG-CCCAAGGCTCAACTCACC
* * *
52329684 TCTCGCAATATAAGTTGGATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAA-TACCTC-A-
62 TCTCGCAATATGAGTT-GA-TTTT------T---TTGAAAAACAGAAATT-AAAATTACCTCAAC
*
52329746 GCGTCTTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTT
115 GTGTCTTGAGGCTCAACTCACCTCCTCGCAATATGAGTTGATTTTT
*** ***** * * * * ***
52329791 -TTGATTTTTTTTGAAAGACAAAAATTGAATATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 AAAAACAGAATTT-AAAAACAGAAATTGAAAATACCTCAGCGTG-CCCAAGGCTCAACTCACCTC
* *
52329855 TCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAATTACCTCAGCGTGTCTTGAGGCTC
64 TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTC
52329920 AACTCACCT-CTCGCAATATGAGTTGATTCTTT
129 AACTCACCTCCTCGCAATATGAGTTGATT-TTT
* * * * *
52329952 AAAAACAGACA-TT-AAAATAGAAATTGAACATAGCTCAGCACGTGAGCCAAGGCTCAACTCACT
1 AAAAACAGA-ATTTAAAAACAGAAATTGAAAATACCTCAG--CGTG-CCCAAGGCTCAACTCACC
* * * *
52330015 TCTCGTAATATGAATTGATTTTTTT-AAAAGACAGAAATTGAGAA-TACCTCAACTTGTCTTGAG
62 TCTCGCAATATGAGTTGATTTTTTTGAAAA-ACAGAAATT-AAAATTACCTCAACGTGTCTTGAG
52330078 GCTCAACTCACCTCCTCGCAATATGAGTTGATTTTT
125 GCTCAACTCACCTCCTCGCAATATGAGTTGATTTTT
* **
52330114 GAAAACAGAATTTGAAAAACAGATTTTGAAAATACCTCAGCGTGCCCAAGGCTCAACTCACCTCT
1 AAAAACAGAATTT-AAAAACAGAAATTGAAAATACCTCAGCGTGCCCAAGGCTCAACTCACCTCT
*
52330179 CGCAATATGAGTAGATTTTTTTGAAAA
65 CGCAATATGAGTTGATTTTTTTGAAAA
52330206 CATAAATAAA
Statistics
Matches: 473, Mismatches: 79, Indels: 69
0.76 0.13 0.11
Matches are distributed among these distances:
157 4 0.01
158 19 0.04
160 60 0.13
161 47 0.10
162 103 0.22
163 81 0.17
164 25 0.05
165 2 0.00
166 3 0.01
167 4 0.01
168 2 0.00
169 35 0.07
170 4 0.01
171 19 0.04
172 5 0.01
173 1 0.00
174 38 0.08
175 3 0.01
176 15 0.03
177 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (160 bp):
AAAAACAGAATTTAAAAACAGAAATTGAAAATACCTCAGCGTGCCCAAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAA
CTCACCTCCTCGCAATATGAGTTGATTTTT
Found at i:52330134 original size:14 final size:14
Alignment explanation
Indices: 52330111--52330145 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
52330101 TGAGTTGATT
52330111 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
52330124 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
52330138 TTTGAAAA
1 TTTGAAAA
52330146 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:52337713 original size:18 final size:18
Alignment explanation
Indices: 52337690--52337743 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
52337680 ACAAGTGGTG
52337690 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
52337708 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
52337720 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
52337738 GTGGAG
1 GTGGAG
52337744 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:52337726 original size:30 final size:30
Alignment explanation
Indices: 52337685--52337783 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
52337675 TAGGTACAAG
52337685 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
52337715 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
52337745 TGGTGGTGGAGCAATTGTAGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
52337775 TGGTGGTGG
1 TGGTGGTGG
52337784 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.06, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:52340156 original size:19 final size:19
Alignment explanation
Indices: 52340132--52340169 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
52340122 AAATTGCATT
52340132 AAAAAT-GAATAGAAATAAA
1 AAAAATCGAATA-AAATAAA
*
52340151 AAAAATCGCATAAAATAAA
1 AAAAATCGAATAAAATAAA
52340170 GTTTTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (19 bp):
AAAAATCGAATAAAATAAA
Found at i:52340856 original size:28 final size:27
Alignment explanation
Indices: 52340824--52340887 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
52340814 TATTACTTTG
52340824 ATTTTACTTTATAAATCTAGA-ATTTATAT
1 ATTTTACTTT-TAAAT-TA-ACATTTATAT
* *
52340853 -TTTTAATTTTAAATTAACTTTTATAT
1 ATTTTACTTTTAAATTAACATTTATAT
52340879 ATTTTACTT
1 ATTTTACTT
52340888 AAGGTTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 9 0.30
27 12 0.40
28 8 0.27
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTTTACTTTTAAATTAACATTTATAT
Found at i:52341694 original size:10 final size:11
Alignment explanation
Indices: 52341652--52341691 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
52341642 AGTTCAATCG
*
52341652 ATTCAATTAGAA
1 ATTC-ATTAAAA
*
52341664 ATTTATTAAAA
1 ATTCATTAAAA
52341675 ATTCATTAAAA
1 ATTCATTAAAA
52341686 ATTCAT
1 ATTCAT
52341692 AAAGTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 22 0.88
12 3 0.12
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (11 bp):
ATTCATTAAAA
Found at i:52348688 original size:19 final size:20
Alignment explanation
Indices: 52348650--52348693 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
52348640 ACATAATTAT
*
52348650 AATAATATAATTAGAATAAA
1 AATAATATAATCAGAATAAA
*
52348670 AATAATTTAATCA-AATAAA
1 AATAATATAATCAGAATAAA
52348689 AATAA
1 AATAA
52348694 ATTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AATAATATAATCAGAATAAA
Done.