Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 197 of 356
Found at i:64185061 original size:100 final size:100
Alignment explanation
Indices: 64184825--64185167 Score: 510
Period size: 100 Copynumber: 3.4 Consensus size: 100
64184815 TAGCCGAAGC
** * * * * * ** *
64184825 TATCTGGTACATATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGATACACGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCAT
* *
64184888 AGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
66 AGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* *
64184924 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCAT
*
64184989 AGTAGCCTGCACTTAGTACTACACATGCGACCAAT
66 AGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
64185024 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCATGTATGCAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCAT
64185089 AGTAGCCTGCACTTAGTACTACACATGTGACCAAT
66 AGTAGCCTGCACTTAGTACTACACATGTGACCAAT
64185124 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
64185168 CCTCACAATA
Statistics
Matches: 221, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
99 38 0.17
100 143 0.65
101 40 0.18
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCAT
AGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:64189967 original size:20 final size:20
Alignment explanation
Indices: 64189931--64189973 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
64189921 GAACTCACAT
* *
64189931 TTGTTGAATTTGGCATATAA
1 TTGTTGAATTTAGCATACAA
*
64189951 TTGTTGAATTTATCATACAA
1 TTGTTGAATTTAGCATACAA
64189971 TTG
1 TTG
64189974 CTTATCTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGTTGAATTTAGCATACAA
Found at i:64190471 original size:21 final size:18
Alignment explanation
Indices: 64190445--64190489 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
64190435 TCTATCTGTT
64190445 AACTCTTGCAACTGAGCTTTC
1 AACTCTTGCAACT---CTTTC
*
64190466 AACTCTTTCAACTCTTTC
1 AACTCTTGCAACTCTTTC
64190484 AACTCT
1 AACTCT
64190490 GTCAGAGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
21 12 0.52
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.38
Consensus pattern (18 bp):
AACTCTTGCAACTCTTTC
Found at i:64190473 original size:9 final size:9
Alignment explanation
Indices: 64190461--64190489 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
64190451 TGCAACTGAG
64190461 CTTTCAACT
1 CTTTCAACT
64190470 CTTTCAACT
1 CTTTCAACT
64190479 CTTTCAACT
1 CTTTCAACT
64190488 CT
1 CT
64190490 GTCAGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (9 bp):
CTTTCAACT
Found at i:64193055 original size:42 final size:42
Alignment explanation
Indices: 64192996--64193081 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
64192986 GAGTATACTG
* *
64192996 ACTTCATTTCAATTTCCACACTAGGGGACACATAGCCGTGTA
1 ACTTCATTTCAATTTCCACACTAGGGGACACAAAGCCGCGTA
64193038 ACTTCATTTCAATTTCCACACTAGGGGACACAAAGCCGCGTA
1 ACTTCATTTCAATTTCCACACTAGGGGACACAAAGCCGCGTA
64193080 AC
1 AC
64193082 ATGTTCGTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (42 bp):
ACTTCATTTCAATTTCCACACTAGGGGACACAAAGCCGCGTA
Found at i:64195485 original size:28 final size:29
Alignment explanation
Indices: 64195373--64195497 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
64195363 GAAAGCATGA
* *
64195373 ATATGCATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
64195402 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
64195431 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
64195460 ATATGAATG-AAATTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
64195488 ATATGTATGT
1 ATATGAATGT
64195498 ATGTAGACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 24 0.28
29 63 0.72
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:64196929 original size:41 final size:40
Alignment explanation
Indices: 64196841--64197024 Score: 215
Period size: 41 Copynumber: 4.5 Consensus size: 40
64196831 GATATCTCGT
* * * * * ** *
64196841 ACACTAAGTGCCGTACATGGCCAAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTGATCTTGC
*
64196881 ACACTAAGTTCCATATATAGCCGAAGCTATCTCGATCTTGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCT-GATCTTGC
* *
64196922 ACACTAAGTGCCATATATAGTCGTAGCTATCTTGATCTTGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATC-TGATCTTGC
* *
64196963 ACACTAAGTGCCATATATAGCCAAAGCTATCATGATCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATC-TGATCTTGC
*
64197004 ACACTAAGTGCCACATATAGC
1 ACACTAAGTGCCATATATAGC
64197025 TGATTTGTCG
Statistics
Matches: 124, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 27 0.22
41 96 0.77
42 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTGATCTTGC
Found at i:64204024 original size:40 final size:41
Alignment explanation
Indices: 64203959--64204107 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 41
64203949 TACTCGATAT
* * *
64203959 CTCGTACACTAAGTGCCGTACATAGCTGAAGCTATCTC-AA
1 CTCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCGAA
* * *
64203999 ATCGCACACTAAGTGCCATATATAGCTGAAGCTATATCGAT
1 CTCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCGAA
* *
64204040 CTCGCACACTAAGTGCCATAT-TAGCCGAAGCTATCTCGAC
1 CTCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCGAA
64204080 CTCGCACACTAAGTGCCATATATAGCTG
1 CTCGCACACTAAGTGCCATATATAGCTG
64204108 CTTTGTCATC
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 70 0.73
41 26 0.27
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (41 bp):
CTCGCACACTAAGTGCCATATATAGCTGAAGCTATCTCGAA
Found at i:64204119 original size:81 final size:81
Alignment explanation
Indices: 64203957--64204107 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 81
64203947 AATACTCGAT
* * *
64203957 ATCTCGTACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
64204022 AGCTGAAGCTATATCG
66 AGCTGAAGCTATATCG
* **
64204038 ATCTCGCACACTAAGTGCCATA-TTAGCCGAAGCTATCTCGACCTCGCACACTAAGTGCCATATA
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTC-AAATCGCACACTAAGTGCCATATA
64204102 TAGCTG
65 TAGCTG
64204108 CTTTGTCATC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 15 0.24
81 48 0.76
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (81 bp):
ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATAT
AGCTGAAGCTATATCG
Found at i:64208507 original size:46 final size:46
Alignment explanation
Indices: 64208446--64208767 Score: 518
Period size: 46 Copynumber: 7.0 Consensus size: 46
64208436 TTTCTGTCAT
* *
64208446 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
*
64208492 GTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
64208538 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * * *
64208584 GTTGCCATTGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
*
64208630 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
64208676 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
64208722 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
64208768 AGAGCACACT
Statistics
Matches: 258, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 258 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:64208762 original size:138 final size:138
Alignment explanation
Indices: 64208446--64208752 Score: 578
Period size: 138 Copynumber: 2.2 Consensus size: 138
64208436 TTTCTGTCAT
* *
64208446 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAGGTTGTCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
*
64208511 ACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 ACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
64208576 CATATCAG
131 CATATCAG
*
64208584 GTTGCCATTGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
64208649 ACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 ACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
64208714 CATATCAG
131 CATATCAG
64208722 GTTGCCATGGTATCTTTCAACCATGGTCTTA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA
64208753 CACATTTCAT
Statistics
Matches: 164, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 164 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (138 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
CATATCAG
Found at i:64210867 original size:16 final size:16
Alignment explanation
Indices: 64210848--64210886 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
64210838 AATTTTTCCC
*
64210848 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
*
64210864 TTTTTTCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
64210880 TCTTTCC
1 TTTTTCC
64210887 CCTGCTCTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:64210935 original size:17 final size:17
Alignment explanation
Indices: 64210913--64210955 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
64210903 TTTCATCCTT
64210913 TTTTTCTTTTTCTATT-C
1 TTTTTCTTTTT-TATTCC
64210930 TTTTTCTTTTTTATTCC
1 TTTTTCTTTTTTATTCC
*
64210947 TTTTACTTT
1 TTTTTCTTT
64210956 ATATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTTTTATTCC
Found at i:64214190 original size:18 final size:18
Alignment explanation
Indices: 64214167--64214220 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
64214157 AAATTAGTAA
64214167 TGAAGAGGAAGAAGATCC
1 TGAAGAGGAAGAAGATCC
*
64214185 TGAAGAGGAAGAGGA-CC
1 TGAAGAGGAAGAAGATCC
*
64214202 TAGAGGAGGAAGAAGATCC
1 T-GAAGAGGAAGAAGATCC
64214221 CAATGAAGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.10
18 26 0.84
19 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.37, T:0.09
Consensus pattern (18 bp):
TGAAGAGGAAGAAGATCC
Found at i:64218612 original size:27 final size:27
Alignment explanation
Indices: 64218569--64218644 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
64218559 TGAACACACT
** *
64218569 AGAAATTGGAAGCCTTTGTGGTGATATA
1 AGAAA-TGGAAGCCTTTGTGGCAATACA
*
64218597 AGAAATGGAAGCCTTTGTGGCAATCCA
1 AGAAATGGAAGCCTTTGTGGCAATACA
* *
64218624 AAAAATGGAAACCTTTGTGGC
1 AGAAATGGAAGCCTTTGTGGC
64218645 GAACTAAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 37 0.88
28 5 0.12
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (27 bp):
AGAAATGGAAGCCTTTGTGGCAATACA
Found at i:64224111 original size:96 final size:96
Alignment explanation
Indices: 64223962--64224176 Score: 358
Period size: 96 Copynumber: 2.2 Consensus size: 96
64223952 GCAGATGCCG
* *
64223962 TGTCCTAAACATGGTCTTACACTAGCTCTCGTATATATACGTGCTAATGCCATGTCCCAGACATA
1 TGTCCCAAACAT-GTCTTACACTAGCTCTCGTATATATACATGCTAATGCCATGTCCCAGACATA
*
64224027 GTCTTATACTAGCACAACTCTTAGCCGATGCA
65 GTCTTATACTACCACAACTCTTAGCCGATGCA
* * * *
64224059 TGTCCCAAACATGTATTACACTAGCTCTCGTATATATACATGCTGATTCCATGTCCCAGACATGG
1 TGTCCCAAACATGTCTTACACTAGCTCTCGTATATATACATGCTAATGCCATGTCCCAGACATAG
64224124 TCTTATACTACCACAACTCTTAGCCGATGCA
66 TCTTATACTACCACAACTCTTAGCCGATGCA
64224155 TGTCCCAAACATGTCTTACACT
1 TGTCCCAAACATGTCTTACACT
64224177 GGCTATCATC
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 99 0.90
97 11 0.10
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (96 bp):
TGTCCCAAACATGTCTTACACTAGCTCTCGTATATATACATGCTAATGCCATGTCCCAGACATAG
TCTTATACTACCACAACTCTTAGCCGATGCA
Found at i:64224206 original size:47 final size:47
Alignment explanation
Indices: 64224146--64224320 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 47
64224136 ACAACTCTTA
*
64224146 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTATCATCATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAG
* * * * *
64224193 GCCGATGCATGTCCCAGACATGTCTTAGACTAGC-ACTCGTC-TCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGAG
* * * * *
64224239 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTGATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAG
*
64224287 GCTGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
64224321 ACACGAATAA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
46 23 0.22
47 63 0.60
48 18 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAG
Found at i:64224294 original size:94 final size:91
Alignment explanation
Indices: 64224012--64224323 Score: 306
Period size: 96 Copynumber: 3.3 Consensus size: 91
64224002 GTGCTAATGC
* * *
64224012 CATGTCCCAGACATAGTCTTATACTAGCACAACTCTTAGCCGATGCATGTCCCAAACATGTATTA
1 CATGTCCCAGACAT-GTCTTACACTAGCACAACTCTAAGCCGATGCATGTCCCAAACATGTCTTA
* * * * *
64224077 CACTAGCTCTCGTATATATAC-ATGCTGATTC
65 CACTGGCTATC--ATA-AT-CGAGGCCGA-TG
* * *
64224108 CATGTCCCAGACATGGTCTTATACTACCACAACTCTTAGCCGATGCATGTCCCAAACATGTCTTA
1 CATGTCCCAGACAT-GTCTTACACTAGCACAACTCTAAGCCGATGCATGTCCCAAACATGTCTTA
*
64224173 CACTGGCTATCATCATCGAGGCCGATG
65 CACTGGCTATCATAATCGAGGCCGATG
* * *
64224200 CATGTCCCAGACATGTCTTAGACTAGCAC-TCGTCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCACAAC-TCT-AA-GCCGATG-CATGTCCCAAACAT-GT
* * * * *
64224264 CTTACATTGGCTCTGATAAT-GTGGCTGATG
61 CTTACACTGGCTATCATAATCGAGGCCGATG
*
64224294 CATGTCCCAGACATGTCTTACACTGGCACA
1 CATGTCCCAGACATGTCTTACACTAGCACA
64224324 CGAATAACCT
Statistics
Matches: 187, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
90 1 0.01
91 16 0.09
92 17 0.09
93 14 0.07
94 50 0.27
95 18 0.10
96 71 0.38
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTAGCACAACTCTAAGCCGATGCATGTCCCAAACATGTCTTAC
ACTGGCTATCATAATCGAGGCCGATG
Found at i:64231764 original size:52 final size:51
Alignment explanation
Indices: 64231648--64232011 Score: 212
Period size: 52 Copynumber: 7.6 Consensus size: 51
64231638 TAAGTTGCCA
* * * * * * *
64231648 ATGCCATGTCCCAGACATTGTCTTACACTGGCTATC-GT-CAT-CGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATATACG-TGCTG
*
64231697 ATGCCATGTCCCAGACATGGTCTTACACCAGCTCTCGTATATATACGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATATATACGTGCTG
* * * * * *
64231749 ATGCCATGTCTCAGACATGGTCTTATACTAG--CAC-A-A-CT-CTTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATATACGT-GCTG
*
64231795 ATG-CATGTCTCAGACAT-GTCTTACACTAGCTCTCATATATATACGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATATATACGTGCTG
* * * * *
64231845 ATGCCATGTCCCAGACATGGTCTTATACTAG--CAC-A-A-CT-CTTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATATACGT-GCTG
* * *
64231891 ATG-CATGTCCCAGACAT-GTCTTACACTAG-TACTCGTCT-CA-A--TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTC-TATATATACGTGCTG
* * *
64231937 ATGCCATGTCCCAGACATAGTCTTACATTAGCTCTC-ATA-AT--GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATATACGT-GCTG
64231985 ATG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
64232012 GGCACACAAA
Statistics
Matches: 253, Mismatches: 33, Indels: 61
0.73 0.10 0.18
Matches are distributed among these distances:
44 22 0.09
45 32 0.13
46 36 0.14
47 32 0.13
48 24 0.09
49 34 0.13
50 11 0.04
51 16 0.06
52 44 0.17
53 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (51 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATATATACGTGCTG
Found at i:64231836 original size:96 final size:96
Alignment explanation
Indices: 64231693--64232011 Score: 407
Period size: 96 Copynumber: 3.3 Consensus size: 96
64231683 CGTCATCGAG
* *
64231693 GCCGATGCCATGTCCCAGACATGGTCTTACACCAGCTCTCGTATATATACGTGCTGATGCCATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATATATACGTGCTGATGCCATGT
*
64231758 CTCAGACATGGTCTTATACTAGCACAACTCTTA
64 CCCAGACATGGTCTTATACTAGCACAACTCTTA
*
64231791 GCCGATGCATGTCTCAGACATGTCTTACACTAGCTCTCATATATATACGTGCTGATGCCATGTCC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATATATACGTGCTGATGCCATGTCC
64231856 CAGACATGGTCTTATACTAGCACAACTCTTA
66 CAGACATGGTCTTATACTAGCACAACTCTTA
* * * *
64231887 GCCGATGCATGTCCCAGACATGTCTTACACTAG-TACTCGTCT-CA-A--TGCCGATGCCATGTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-CTCATATATATACGTGCTGATGCCATGTC
* * * * * * *
64231947 CCAGACATAGTCTTACATTAGCTCTCATAAT-GTG
65 CCAGACATGGTCTTATACTAG--CACA-ACTCTTA
64231981 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
64232012 GGCACACAAA
Statistics
Matches: 201, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
92 32 0.16
94 36 0.18
95 4 0.02
96 109 0.54
97 13 0.06
98 7 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (96 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATATATACGTGCTGATGCCATGTCC
CAGACATGGTCTTATACTAGCACAACTCTTA
Found at i:64232005 original size:94 final size:95
Alignment explanation
Indices: 64231643--64232011 Score: 381
Period size: 96 Copynumber: 3.8 Consensus size: 95
64231633 TGGGATAAGT
* * * **
64231643 TGCCAATGCCATGTCCCAGACATTGTCTTACACTGGCTATCGTCATCG-AGGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-A-C-AAATCGTA-GCCGATG-CATGTC
*
64231707 CCAGACATGGTCTTACACCAGCTCTCGTATATATAC
61 CCAGACAT-GTCTTACACTAGCTCTCGTATATATAC
* * * * * *
64231743 GTGCTGATGCCATGTCTCAGACATGGTCTTATACTAGCACAACTCTTAGCCGATGCATGTCTCAG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAAATCGTAGCCGATGCATGTCCCAG
*
64231808 ACATGTCTTACACTAGCTCTCATATATATAC
65 ACATGTCTTACACTAGCTCTCGTATATATAC
* * * *
64231839 GTGCTGATGCCATGTCCCAGACATGGTCTTATACTAGCACAACTCTTAGCCGATGCATGTCCCAG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAAATCGTAGCCGATGCATGTCCCAG
* *
64231904 ACATGTCTTACACTAG-TACTCGTCT-CA-A-
65 ACATGTCTTACACTAGCT-CTCGTATATATAC
* * * *
64231932 TGCCGATGCCATGTCCCAGACATAGTCTTACATTAGCTCTCATAAT-GTGGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CACA-AATCGTAGCCGATGCATGTCCC
64231996 AGACATGTCTTACACT
63 AGACATGTCTTACACT
64232012 GGCACACAAA
Statistics
Matches: 237, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
92 32 0.14
94 36 0.15
95 4 0.02
96 109 0.46
97 13 0.05
98 9 0.04
99 2 0.01
100 1 0.00
101 31 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAAATCGTAGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTCGTATATATAC
Found at i:64241011 original size:18 final size:18
Alignment explanation
Indices: 64240984--64241018 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64240974 GAGTTAAATG
*
64240984 AATCGGGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
64241002 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
64241019 CTACTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:64241086 original size:9 final size:9
Alignment explanation
Indices: 64241069--64241105 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
64241059 TTAGTTTTTG
64241069 AATTCGAAT
1 AATTCGAAT
*
64241078 AACTCGAAT
1 AATTCGAAT
64241087 AATTCGAAT
1 AATTCGAAT
64241096 AATTCGAAT
1 AATTCGAAT
64241105 A
1 A
64241106 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:64241205 original size:31 final size:30
Alignment explanation
Indices: 64241154--64241211 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
64241144 AAACCTTTTT
*
64241154 ACTTTCCTTCAAGACTTTTAC-CCCTTCTC
1 ACTTTCCTTCAAAACTTTTACTCCCTTCTC
64241183 ACTTTCCCTTCCAAAACTTTTACTCCCTT
1 ACTTT-CCTT-CAAAACTTTTACTCCCTT
64241212 TCCATCCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 5 0.20
30 4 0.16
31 11 0.44
32 5 0.20
ACGTcount: A:0.19, C:0.38, G:0.02, T:0.41
Consensus pattern (30 bp):
ACTTTCCTTCAAAACTTTTACTCCCTTCTC
Found at i:64252327 original size:10 final size:10
Alignment explanation
Indices: 64252297--64252330 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
64252287 ATTCATCATA
64252297 AAATTAAAGAT
1 AAATTAAA-AT
64252308 AAACTTAAAAT
1 AAA-TTAAAAT
64252319 AAATTAAAAT
1 AAATTAAAAT
64252329 AA
1 AA
64252331 GATTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 8 0.36
12 5 0.23
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:64259846 original size:71 final size:67
Alignment explanation
Indices: 64259769--64259910 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
64259759 TCACCAGATA
* * *
64259769 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
64259834 GGCTGC
62 GGCTGC
* *
64259840 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
64259905 GC
66 GC
64259907 CAGA
1 CAGA
64259911 ATGTTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 41 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:64259888 original size:27 final size:26
Alignment explanation
Indices: 64259840--64259891 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64259830 GCGAGGCTGC
*
64259840 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
64259866 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
64259892 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:64260378 original size:10 final size:10
Alignment explanation
Indices: 64260363--64260393 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
64260353 ACATACCTGG
64260363 TTGATGACGA
1 TTGATGACGA
64260373 TTGATGACGA
1 TTGATGACGA
64260383 TTGATGACGA
1 TTGATGACGA
64260393 T
1 T
64260394 ATCTCCCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (10 bp):
TTGATGACGA
Found at i:64264731 original size:91 final size:91
Alignment explanation
Indices: 64264612--64264807 Score: 293
Period size: 91 Copynumber: 2.1 Consensus size: 91
64264602 AGCAAATATT
* * * *
64264612 AACATAAATTTACAGTCACTTAGACAACATTAATTGATGTCTAAACAACAATTTTTTTGTTGCAT
1 AACATAAA--TACAGTCACTTAGACAACATTAATTGACGCCTAAACAACAATTATTCTGTTGCAT
*
64264677 TAATACACCAAACAACAGTCCTTAAAAT
64 TAATACACCAAACAACAGTCCTTAAAAG
* *
64264705 AGCATAAATACAGTTACTTAGACAACATTAATTGACGCCTAAACAACAATTATTCTGTTGCATTA
1 AACATAAATACAGTCACTTAGACAACATTAATTGACGCCTAAACAACAATTATTCTGTTGCATTA
**
64264770 ATACACCAAACAGTAGTCCTTAAAAG
66 ATACACCAAACAACAGTCCTTAAAAG
64264796 AACATAAATACA
1 AACATAAATACA
64264808 CCTCTCTGAA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
91 86 0.92
93 7 0.08
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (91 bp):
AACATAAATACAGTCACTTAGACAACATTAATTGACGCCTAAACAACAATTATTCTGTTGCATTA
ATACACCAAACAACAGTCCTTAAAAG
Found at i:64273506 original size:24 final size:24
Alignment explanation
Indices: 64273474--64273529 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
64273464 CTCATCCACT
*
64273474 CCACCACCACTTAAGGCCACCAAA
1 CCACCACCACTCAAGGCCACCAAA
*
64273498 CCACCACCACTCAAGGCCACCGAA
1 CCACCACCACTCAAGGCCACCAAA
64273522 CCACCACC
1 CCACCACC
64273530 TCACCTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.34, C:0.52, G:0.09, T:0.05
Consensus pattern (24 bp):
CCACCACCACTCAAGGCCACCAAA
Found at i:64282453 original size:33 final size:33
Alignment explanation
Indices: 64282411--64282474 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
64282401 CTTGTCTAGC
64282411 TTTGGTATATAGATATTTTTATTTTGTTCAAGA
1 TTTGGTATATAGATATTTTTATTTTGTTCAAGA
64282444 TTTGGTATATAGATATTTTTATTTTGTTCAA
1 TTTGGTATATAGATATTTTTATTTTGTTCAA
64282475 TGGCATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (33 bp):
TTTGGTATATAGATATTTTTATTTTGTTCAAGA
Found at i:64286103 original size:45 final size:45
Alignment explanation
Indices: 64286002--64286127 Score: 138
Period size: 44 Copynumber: 2.9 Consensus size: 45
64285992 TTTTCTCAAA
* *
64286002 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
64286044 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* * * *
64286088 CTCACCAGCATTATAG-TTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
64286128 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 29 0.40
45 18 0.25
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:64286519 original size:43 final size:43
Alignment explanation
Indices: 64286458--64286718 Score: 409
Period size: 43 Copynumber: 6.1 Consensus size: 43
64286448 CGACATTACA
* *
64286458 CCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
* * * *
64286501 CCTGCTAGGCACGAAGGCCCGAATACACATCGCCGGTACGAAC
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
64286544 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
*
64286587 CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
*
64286630 CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
* * *
64286673 CCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
64286714 CCTGC
1 CCTGC
64286719 GGGATTTAAC
Statistics
Matches: 207, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 16 0.08
42 2 0.01
43 189 0.91
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.12
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
Found at i:64287990 original size:120 final size:120
Alignment explanation
Indices: 64287758--64288016 Score: 312
Period size: 120 Copynumber: 2.2 Consensus size: 120
64287748 TTGAATGATG
* *
64287758 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAGTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAGTT
* **
64287823 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * ** *
64287878 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAG
* *
64287941 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAA
* *
64287998 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64288017 TACATGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
119 17 0.14
120 94 0.78
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAGTT
GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:64287997 original size:40 final size:40
Alignment explanation
Indices: 64287758--64287983 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
64287748 TTGAATGATG
* * * * *
64287758 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
64287798 TCCGGACTAAGAT-CCGAAGGCAGTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
64287838 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
64287878 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
64287918 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
64287959 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
64287984 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 161 0.94
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64294895 original size:46 final size:46
Alignment explanation
Indices: 64294845--64295004 Score: 126
Period size: 46 Copynumber: 3.3 Consensus size: 46
64294835 GTAGCCATGG
64294845 CCCAGCCATGGTCTTACACGAATCACATATCACACTGATGCCATAT
1 CCCAGCCATGGTCTTACACGAATCACATATCACACTGATGCCATAT
** * * * *
64294891 CCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGATGCCATAG
1 CCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGATGCCATAT
* * * *
64294944 CCCAGCTATGGTCTTACAC-AGATCACATATCTCATTGATGCCATGGT
1 CCCAGCCATGGTCTTACACGA-ATCACATATCACACTGATGCCAT-AT
*
64294991 -CCAACCATGGTCTT
1 CCCAGCCATGGTCTT
64295005 TTCCATCAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
46 37 0.42
47 7 0.08
48 5 0.06
49 1 0.01
50 1 0.01
51 5 0.06
52 5 0.06
53 28 0.31
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (46 bp):
CCCAGCCATGGTCTTACACGAATCACATATCACACTGATGCCATAT
Found at i:64297176 original size:45 final size:45
Alignment explanation
Indices: 64297075--64297201 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 45
64297065 TTTTCTCAAA
* * * *
64297075 TCACCGACATT-TTGCCTGTTAGGCTCG-AGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCATC
*
64297117 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCATC
** * *
64297162 TCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
64297202 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
42 9 0.13
43 14 0.20
44 7 0.10
45 40 0.56
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCATC
Found at i:64297622 original size:42 final size:42
Alignment explanation
Indices: 64297531--64297655 Score: 189
Period size: 42 Copynumber: 3.0 Consensus size: 42
64297521 CCAGCATTAC
* *
64297531 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACAT-ACCGGCACTAA
*
64297574 GCCTGCTAGGCACGAAGGGCCGAATACACATACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATACCGGCACTAA
* *
64297616 GCCTGCTAGGCACGAAGGCCCGAATATA-ATACCAGCACTA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATACCGGCACTA
64297656 GACCTGCGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 11 0.14
42 36 0.47
43 29 0.38
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATACCGGCACTAA
Found at i:64297689 original size:38 final size:38
Alignment explanation
Indices: 64297634--64297717 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
64297624 GGCACGAAGG
* * *
64297634 CCCGAATATAATACCAGCAC-TAGACCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAG-CCTGCGAGATTTAA
*
64297672 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
64297710 CCCGAATA
1 CCCGAATA
64297718 CACATCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 38 0.95
39 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:64298282 original size:65 final size:65
Alignment explanation
Indices: 64298178--64298310 Score: 248
Period size: 65 Copynumber: 2.0 Consensus size: 65
64298168 GCATAAGTAC
*
64298178 ATATCACATACCTTAATAATTTACTTTACGGAACGAATCCACATATCGTATTAGCCCATAGCCTT
1 ATATCACATACCTCAATAATTTACTTTACGGAACGAATCCACATATCGTATTAGCCCATAGCCTT
*
64298243 ATATCACATACCTCAATAATTTACTTTACGGAACGAATCCACATATCGTATTAGCCCATAGTCTT
1 ATATCACATACCTCAATAATTTACTTTACGGAACGAATCCACATATCGTATTAGCCCATAGCCTT
64298308 ATA
1 ATA
64298311 GCACCACACT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (65 bp):
ATATCACATACCTCAATAATTTACTTTACGGAACGAATCCACATATCGTATTAGCCCATAGCCTT
Found at i:64301337 original size:54 final size:53
Alignment explanation
Indices: 64301256--64301683 Score: 252
Period size: 54 Copynumber: 8.3 Consensus size: 53
64301246 GGTTAAGTAT
* *
64301256 ACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAGGGTCCCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGGCAAGGATCCCATATAAG
* * *
64301311 A-CATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATCCCATATAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
* * * *
64301363 ACCATGTCAAGACATGGCATCG--GCA-TTGAT----TAAGGA-CTCCATGTAAG
1 ACCATGTCAAGACATGGCATTGATG-AGTTCATAAGGCAAGGATC-CCATATAAG
** * * * *
64301410 ACCACATCAAGATATGGCA-T--TG-G--CACTAAGACAAGGATACCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTCA-TAAGGCAAGGATCCCATATAAG
*** ** ** *
64301458 ACCATGTTTGGAACATGGCATT--TG-G----TAAGATAAGGATATCATGTAAG
1 ACCATGTCAAG-ACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
* * * *** *
64301505 ACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGCAAGGATCCCATATAAG
* * * * *
64301559 ACTATGTCAAGACATCGCATTGATGAGTTACTATAAGGCAAAGTTCCCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGGCAAGGATCCCATATAAG
* * * ** *
64301614 ACCATGACAAGGCATGGCATTGCTGAGTTCATAAGGCAAGGATATCATGTAAG
1 ACCATGTCAAGACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
64301667 ACCATGTCAAGACATGG
1 ACCATGTCAAGACATGG
64301684 AAATGGTAAG
Statistics
Matches: 295, Mismatches: 56, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 1 0.00
46 11 0.04
47 56 0.19
48 21 0.07
49 8 0.03
50 4 0.01
51 5 0.02
52 23 0.08
53 52 0.18
54 68 0.23
55 45 0.15
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (53 bp):
ACCATGTCAAGACATGGCATTGATGAGTTCATAAGGCAAGGATCCCATATAAG
Found at i:64301460 original size:48 final size:46
Alignment explanation
Indices: 64301339--64301461 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 46
64301329 TTGGTGAGTT
* * **
64301339 CATAAGGCAAGGATCCCATATAAGACCATGTCAAGACATGGCATCGG
1 CATAAGACAAGGAT-CCATGTAAGACCACATCAAGACATGGCATCGG
* * * *
64301386 CAT-TGATTAAGGACTCCATGTAAGACCACATCAAGATATGGCATTGG
1 CATAAGA-CAAGGA-TCCATGTAAGACCACATCAAGACATGGCATCGG
64301433 CACTAAGACAAGGATACCATGTAAGACCA
1 CA-TAAGACAAGGAT-CCATGTAAGACCA
64301462 TGTTTGGAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
46 1 0.02
47 38 0.62
48 20 0.33
49 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (46 bp):
CATAAGACAAGGATCCATGTAAGACCACATCAAGACATGGCATCGG
Found at i:64301634 original size:55 final size:54
Alignment explanation
Indices: 64301489--64301683 Score: 257
Period size: 55 Copynumber: 3.6 Consensus size: 54
64301479 TTGGTAAGAT
* * *
64301489 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
64301543 AAGGAAATCATGTAAGACTATGTCAAGACATCGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * ** * * *
64301598 AAAGTTCCCATGTAAGACCATGACAAGGCATGGCATTGCTGAGTTC-ATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
64301651 AAGGATATCATGTAAGACCATGTCAAGACATGG
1 AAGGATATCATGTAAGACCATGTCAAGACATGG
64301684 AAATGGTAAG
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 34 0.29
54 40 0.34
55 44 0.37
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:64301713 original size:108 final size:108
Alignment explanation
Indices: 64301497--64301714 Score: 287
Period size: 108 Copynumber: 2.0 Consensus size: 108
64301487 ATAAGGATAT
* *
64301497 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACT
1 CATGTAAGACCATGACAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
* * * * *
64301562 ATGTCAAGACATCGCATTGATGAGTTACTATAAGGCAAAGTTCC
66 ATGTCAAGACATCGAAATGATAAGTTAC-AAAAGGAAAAGTTCC
* * *
64301606 CATGTAAGACCATGACAAGGCATGGCATTGCTGAGTTC-ATAAGGCAAGGATATCATGTAAGACC
1 CATGTAAGACCATGACAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
* *
64301670 ATGTCAAGACATGGAAATGGTAAGTTTA-AAAAGGAAAAGGTTCC
66 ATGTCAAGACATCGAAATGATAAG-TTACAAAAGGAAAA-GTTCC
64301714 C
1 C
64301715 GGGTAATCCA
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
107 8 0.08
108 49 0.52
109 38 0.40
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (108 bp):
CATGTAAGACCATGACAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
ATGTCAAGACATCGAAATGATAAGTTACAAAAGGAAAAGTTCC
Found at i:64305957 original size:28 final size:28
Alignment explanation
Indices: 64305917--64305972 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
64305907 AAACATCCTC
64305917 AATTAAATCACAAACATAGCATTTGTAT
1 AATTAAATCACAAACATAGCATTTGTAT
64305945 AATTAAATCACAAACATAGCATTTGTAT
1 AATTAAATCACAAACATAGCATTTGTAT
64305973 GTCATGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (28 bp):
AATTAAATCACAAACATAGCATTTGTAT
Found at i:64308206 original size:30 final size:30
Alignment explanation
Indices: 64308172--64308232 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
64308162 TCCTTAACTC
64308172 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
64308202 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
64308232 A
1 A
64308233 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:64313222 original size:22 final size:22
Alignment explanation
Indices: 64313194--64313238 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
64313184 AGTGCACGGG
*
64313194 TAAGTCTCACGGGCATGTGACA
1 TAAGTCTCACGAGCATGTGACA
64313216 TAAGTCTCACGAGCATGTGACA
1 TAAGTCTCACGAGCATGTGACA
64313238 T
1 T
64313239 GGCCGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (22 bp):
TAAGTCTCACGAGCATGTGACA
Found at i:64316642 original size:28 final size:28
Alignment explanation
Indices: 64316602--64316658 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
64316592 GAATGGAAAG
64316602 TAAGTAAATGGAATGATTCATAATTTTA
1 TAAGTAAATGGAATGATTCATAATTTTA
64316630 TAAGTAAATGGAATGATTCATAATTTTA
1 TAAGTAAATGGAATGATTCATAATTTTA
64316658 T
1 T
64316659 GAAAAGGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (28 bp):
TAAGTAAATGGAATGATTCATAATTTTA
Found at i:64317029 original size:20 final size:20
Alignment explanation
Indices: 64317006--64317046 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
64316996 CAAAACCAAT
* *
64317006 AACTTAGGAAATTTTTGAAA
1 AACTTAGAAAATTTTTCAAA
64317026 AACTTAGAAAATTTTTCAAA
1 AACTTAGAAAATTTTTCAAA
64317046 A
1 A
64317047 TACAAGGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (20 bp):
AACTTAGAAAATTTTTCAAA
Found at i:64327021 original size:44 final size:44
Alignment explanation
Indices: 64326958--64327057 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 44
64326948 TATGTGATTT
64326958 CGTGTAAGACCACATCTGGGACGTTGGCATCAACTTCTATTTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCAACTTCTATTTTA
* * * *
64327002 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTTTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCAACTTCTATTTTA
64327046 CGTGTAAGACCA
1 CGTGTAAGACCA
64327058 TGTTTGAGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCAACTTCTATTTTA
Found at i:64327143 original size:62 final size:62
Alignment explanation
Indices: 64327074--64327198 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
64327064 AGACATCAGC
**
64327074 ATCGTATCTAATTTCATGTAAGACCCTGTTTGGGACAGTGGCATCTATGTTTGATTACATGT
1 ATCGTATCTAATTTCATGTAAGACCCTGTCAGGGACAGTGGCATCTATGTTTGATTACATGT
64327136 ATCGTATCTAATTTCATGTAAGACCCTGTCAGGGACAGTGGCATCTATGTTTGATTACATGT
1 ATCGTATCTAATTTCATGTAAGACCCTGTCAGGGACAGTGGCATCTATGTTTGATTACATGT
64327198 A
1 A
64327199 AGACCACATC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (62 bp):
ATCGTATCTAATTTCATGTAAGACCCTGTCAGGGACAGTGGCATCTATGTTTGATTACATGT
Found at i:64331541 original size:6 final size:6
Alignment explanation
Indices: 64331530--64331556 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64331520 ATGTGCCGAC
64331530 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
64331557 CGATTCGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:64331802 original size:18 final size:18
Alignment explanation
Indices: 64331775--64331977 Score: 155
Period size: 18 Copynumber: 11.3 Consensus size: 18
64331765 AAAGGTATAA
* *
64331775 AATAACTGACTATTACTG
1 AATAATTGACTGTTACTG
*
64331793 AATAATTGACTGTTACCG
1 AATAATTGACTGTTACTG
* *
64331811 GATACTTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
64331829 GAT-ATTAGACTGTTACTG
1 AATAATT-GACTGTTACTG
* * *
64331847 AATAACTGAATATTACTG
1 AATAATTGACTGTTACTG
*
64331865 AATAATTGA-TCATTACTG
1 AATAATTGACT-GTTACTG
* * *
64331883 AATAACTGATTGTCACTG
1 AATAATTGACTGTTACTG
* *
64331901 AATGGA-TGACTGTTACTA
1 AAT-AATTGACTGTTACTG
* *
64331919 AATAACTTAATTGTTACTG
1 AATAA-TTGACTGTTACTG
*
64331938 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTGTTACTG
64331955 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
64331973 GATAA
1 AATAA
64331978 CCGATCAATT
Statistics
Matches: 148, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
17 18 0.12
18 114 0.77
19 16 0.11
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGACTGTTACTG
Found at i:64331917 original size:36 final size:36
Alignment explanation
Indices: 64331775--64332057 Score: 175
Period size: 36 Copynumber: 7.6 Consensus size: 36
64331765 AAAGGTATAA
* * *
64331775 AATAACTGACTATTACTGAATAATTGACTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTG
* * *
64331811 GAT-ACTTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAAC-TGATTGTTACTGAATAATT-GACTGTTACTG
* * *
64331847 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGATTGTTACTGAATAATTGACT-GTTACTG
* * *
64331883 AATAACTGATTGTCACTGAATGGA-TGACTGTTACTA
1 AATAACTGATTGTTACTGAAT-AATTGACTGTTACTG
* *
64331919 AATAACTTAATTGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGACTGTTACTG
* * *
64331955 AATAATTGACTGTTACTGGATAACCGATCAATTGA-TCGATACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGACT-GTTACTG
* * * * * *
64331999 AATAACTGGTTATTATTGAATAATTTATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGACTGTTACTG
64332035 AATAACTGATTGTTACTGAATAA
1 AATAACTGATTGTTACTGAATAA
64332058 ATAATTGTTC
Statistics
Matches: 191, Mismatches: 35, Indels: 42
0.71 0.13 0.16
Matches are distributed among these distances:
35 16 0.08
36 121 0.63
37 26 0.14
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGACTGTTACTG
Found at i:64332064 original size:18 final size:18
Alignment explanation
Indices: 64331775--64332070 Score: 152
Period size: 18 Copynumber: 16.1 Consensus size: 18
64331765 AAAGGTATAA
* *
64331775 AATAACTGACTATTACTG
1 AATAACTGATTGTTACTG
* * *
64331793 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* *
64331811 GAT-ACTTGACTGTTACTG
1 AATAAC-TGATTGTTACTG
* * *
64331829 GAT-ATTAGACTGTTACTG
1 AATAACT-GATTGTTACTG
* *
64331847 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
64331865 AATAATTGATCATTACTG
1 AATAACTGATTGTTACTG
*
64331883 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* * *
64331901 AATGGA-TGACTGTTACTA
1 AAT-AACTGATTGTTACTG
*
64331919 AATAACTTAATTGTTACTG
1 AATAAC-TGATTGTTACTG
*
64331938 AATATCTGATT-TTACTG
1 AATAACTGATTGTTACTG
* *
64331955 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
64331973 GATAACCGATCAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
64331999 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* * *
64332017 AATAATTTATTGTTACCG
1 AATAACTGATTGTTACTG
64332035 AATAACTGATTGTTACTG
1 AATAACTGATTGTTACTG
* *
64332053 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
64332070 A
1 A
64332071 TTGTTAATAA
Statistics
Matches: 212, Mismatches: 51, Indels: 31
0.72 0.17 0.11
Matches are distributed among these distances:
17 21 0.10
18 155 0.73
19 17 0.08
21 2 0.01
22 5 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:64334905 original size:43 final size:44
Alignment explanation
Indices: 64334808--64334977 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 44
64334798 CATAGGATTC
* * * * *
64334808 CGATATGTGATTT-TGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATATGATTTACGTGTAAGACCATGTCTGGGACATTGGCCT
* * * * *
64334851 CAATTTTTGATTTACGTGTAAGACCTTGTCTAGGACATTGGCCT
1 CGATATATGATTTACGTGTAAGACCATGTCTGGGACATTGGCCT
* * * *
64334895 CG-TATATGATTT-TGTGTAAGACCCTGTCTGGGACAGTGGCTT
1 CGATATATGATTTACGTGTAAGACCATGTCTGGGACATTGGCCT
* * *
64334937 CGATATTTGA-TTACATGTAAGACCATGTCTGGGACGTTGGC
1 CGATATATGATTTACGTGTAAGACCATGTCTGGGACATTGGC
64334978 GTTGTACGAG
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
42 29 0.29
43 47 0.47
44 25 0.25
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (44 bp):
CGATATATGATTTACGTGTAAGACCATGTCTGGGACATTGGCCT
Found at i:64334946 original size:86 final size:85
Alignment explanation
Indices: 64334815--64334977 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 85
64334805 TTCCGATATG
* * *
64334815 TGATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCAATTTTTGATTTACGTGTAAGACCTTGT
1 TGATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGA-TTACATGTAAGACCATGT
64334880 CTAGGACATTGGCCTCGTATA
65 CTAGGACATTGGCCTCGTATA
* *
64334901 TGATTTTGTGTAAGACC-CTGTCTGGGACAG-TGGCTTCGATATTTGATTACATGTAAGACCATG
1 TGATTTTGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATATTTGATTACATGTAAGACCATG
* *
64334964 TCTGGGACGTTGGC
64 TCTAGGACATTGGC
64334978 GTTGTACGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 28 0.41
86 39 0.57
87 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (85 bp):
TGATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTACATGTAAGACCATGTC
TAGGACATTGGCCTCGTATA
Found at i:64341348 original size:43 final size:43
Alignment explanation
Indices: 64341267--64341348 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
64341257 GAGATATGTG
* *
64341267 GCATCCGAGCTCGTTGAAAGGTCTGAGTTCATTATGGATACGA
1 GCATCCGAGCTCGTTGAAAGGTCCGAGTTCATGATGGATACGA
* * *
64341310 GCATCTGAGCTCGTTGAGAGGTCCGAGTTCATGGTGGAT
1 GCATCCGAGCTCGTTGAAAGGTCCGAGTTCATGATGGAT
64341349 GCTATTCATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAAAGGTCCGAGTTCATGATGGATACGA
Found at i:64346504 original size:42 final size:42
Alignment explanation
Indices: 64346398--64346558 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
64346388 CGTACCAATG
* * * *
64346398 CCATATCCCAGATATAGTCTTACATGTAA-TCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCGATT
* *
64346440 CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCGATT
1 CC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATT
* * *
64346483 CCATATCCCAGATATGGTCTTACACGTAGTCTCATATTGGTGT
1 CCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGAT-T
*
64346526 -CATATCCCAGATATGGTCTTACACGTAGTCTCA
1 CCATATCCCAGATATGGTCTTACACGAAGTCTCA
64346559 GTAACCCTAA
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
42 71 0.68
43 34 0.32
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATT
Found at i:64350648 original size:93 final size:93
Alignment explanation
Indices: 64350489--64350659 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
64350479 GGATGGTTGA
* * * *
64350489 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
64350554 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
64350582 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
*
64350647 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
64350660 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64350662 original size:46 final size:46
Alignment explanation
Indices: 64350493--64350664 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
64350483 GGTTGAGCAT
* * * *
64350493 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
64350539 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
64350584 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
64350632 CCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
64350665 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:64351527 original size:14 final size:14
Alignment explanation
Indices: 64351508--64351534 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
64351498 ACAGAGTGAT
64351508 TTCTGGATCCCCTG
1 TTCTGGATCCCCTG
64351522 TTCTGGATCCCCT
1 TTCTGGATCCCCT
64351535 TTGGATAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.37, G:0.19, T:0.37
Consensus pattern (14 bp):
TTCTGGATCCCCTG
Found at i:64352033 original size:46 final size:46
Alignment explanation
Indices: 64351966--64352138 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
64351956 AACCCGCCCC
* * *
64351966 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
64352012 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCGCATCCA
* * *
64352060 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
64352105 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64352139 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 1 0.01
46 59 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:64352079 original size:93 final size:93
Alignment explanation
Indices: 64351971--64352141 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
64351961 GCCCCTAAGT
* *
64351971 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64352036 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * *
64352064 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
64352129 CGAGTTCGGATGC
66 CGAGTTCGAATGC
64352142 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:64352595 original size:30 final size:30
Alignment explanation
Indices: 64352561--64352620 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
64352551 ATTTAATACG
64352561 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
64352591 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
64352621 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:64358793 original size:46 final size:46
Alignment explanation
Indices: 64358671--64358795 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
64358661 GGTTGAGCAT
* * * *
64358671 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
64358717 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
64358763 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
64358796 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:64364194 original size:23 final size:23
Alignment explanation
Indices: 64364160--64364223 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
64364150 AAGAACGAAA
*
64364160 TAAAAATTAAA-CTATAATTACAAT
1 TAAAAA-TAAACCTA-AATTACAAG
*
64364184 TGAAAATAAACCTAAATTACAAG
1 TAAAAATAAACCTAAATTACAAG
*
64364207 TAAAAATAAAACTAAAT
1 TAAAAATAAACCTAAAT
64364224 AGGAAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 27 0.77
24 8 0.23
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (23 bp):
TAAAAATAAACCTAAATTACAAG
Found at i:64366947 original size:9 final size:9
Alignment explanation
Indices: 64366933--64366958 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
64366923 TTTCCCCCCT
64366933 TTTTTTTTC
1 TTTTTTTTC
64366942 TTTTTTTTC
1 TTTTTTTTC
64366951 TTTTTTTT
1 TTTTTTTT
64366959 GTTATACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:64369373 original size:30 final size:31
Alignment explanation
Indices: 64369325--64369387 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
64369315 TAGTAAAGGT
* *
64369325 AAAATTATATTTTGATTCTTTTA-AAATTATA
1 AAAATTATAATTTAATTC-TTTACAAATTATA
64369356 AAAATT-TAATTTAATTCTTTACAAATTATA
1 AAAATTATAATTTAATTCTTTACAAATTATA
64369386 AA
1 AA
64369388 GATATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 19 0.66
31 6 0.21
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (31 bp):
AAAATTATAATTTAATTCTTTACAAATTATA
Found at i:64369856 original size:21 final size:21
Alignment explanation
Indices: 64369830--64369871 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
64369820 GGGAGAAATA
*
64369830 AGAATGACTAGATCAAGCCCT
1 AGAATGACTAAATCAAGCCCT
64369851 AGAATGACTAAATCAAGCCCT
1 AGAATGACTAAATCAAGCCCT
64369872 TCACCATGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (21 bp):
AGAATGACTAAATCAAGCCCT
Found at i:64372701 original size:42 final size:42
Alignment explanation
Indices: 64372542--64372703 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 42
64372532 TACCGTACCA
* * * * * * *
64372542 ATGCCATATCCTAGTTATAGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * **
64372584 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * *
64372627 ATTCCATATCCCAGATATGGTCTTACATGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
*
64372669 GTGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
64372704 TAGTAACCCT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 68 0.69
43 31 0.31
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:64373907 original size:22 final size:22
Alignment explanation
Indices: 64373878--64373937 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 22
64373868 CCAAACTCGA
64373878 AGCT-GTGTGAGCCCATTTCAC
1 AGCTCGTGTGAGCCCATTTCAC
64373899 AGCTCGTGTGAGTAAGCCCATTTCAC
1 AGCTCGTGT--G--AGCCCATTTCAC
*
64373925 AACTCGTGTGAGC
1 AGCTCGTGTGAGC
64373938 AATAATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 4 0.12
22 7 0.21
24 2 0.06
26 20 0.61
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (22 bp):
AGCTCGTGTGAGCCCATTTCAC
Found at i:64373916 original size:26 final size:26
Alignment explanation
Indices: 64373887--64373936 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
64373877 AAGCTGTGTG
*
64373887 AGCCCATTTCACAGCTCGTGTGAGTA
1 AGCCCATTTCACAACTCGTGTGAGTA
64373913 AGCCCATTTCACAACTCGTGTGAG
1 AGCCCATTTCACAACTCGTGTGAG
64373937 CAATAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (26 bp):
AGCCCATTTCACAACTCGTGTGAGTA
Found at i:64376425 original size:32 final size:35
Alignment explanation
Indices: 64376384--64376461 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 35
64376374 TATTAAAGGG
*
64376384 AAAAAAATAT-AAAATT-T-AA-ATTCAAATATAA
1 AAAAAAATATAAAAATTATAAATATTAAAATATAA
64376415 CAAAAAAATATAAAAATTATACAATATTAAAATATAA
1 -AAAAAAATATAAAAATTATA-AATATTAAAATATAA
64376452 AAAAAAATAT
1 AAAAAAATAT
64376462 TCTTACCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
32 10 0.25
33 6 0.15
34 1 0.03
36 12 0.30
37 11 0.28
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (35 bp):
AAAAAAATATAAAAATTATAAATATTAAAATATAA
Found at i:64382237 original size:27 final size:27
Alignment explanation
Indices: 64382183--64382254 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
64382173 AAACAAAAGT
64382183 ACAAATACCAAAGT-AA-TTTTTTTTTG
1 ACAAA-ACCAAAGTAAACTTTTTTTTTG
64382209 ACAAAACCAAAGTAAACTTTTTTTTTG
1 ACAAAACCAAAGTAAACTTTTTTTTTG
*
64382236 ACAAAATCAAAGTAAACTT
1 ACAAAACCAAAGTAAACTT
64382255 AATTGTTAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
25 8 0.19
26 7 0.16
27 28 0.65
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (27 bp):
ACAAAACCAAAGTAAACTTTTTTTTTG
Found at i:64394512 original size:16 final size:16
Alignment explanation
Indices: 64394491--64394521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64394481 ATCGGCAAAA
*
64394491 GCCGAAATGTCGAAAT
1 GCCGAAAAGTCGAAAT
64394507 GCCGAAAAGTCGAAA
1 GCCGAAAAGTCGAAA
64394522 CTTTGGCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.13
Consensus pattern (16 bp):
GCCGAAAAGTCGAAAT
Found at i:64394812 original size:29 final size:30
Alignment explanation
Indices: 64394744--64394840 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 30
64394734 TGAATGTAAC
*
64394744 TGGGCCTAA-CAAGCCATATAAATGTGATT
1 TGGGCCTAATGAAGCCATATAAATGTGATT
*
64394773 TGGGCCTAATGAA-CCATATACATGTGATT
1 TGGGCCTAATGAAGCCATATAAATGTGATT
* * *
64394802 TGGGCCTAATG-GGCCATATGAATATGA-T
1 TGGGCCTAATGAAGCCATATAAATGTGATT
*
64394830 TGGGCTTAATG
1 TGGGCCTAATG
64394841 GGCCAGATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.19
29 46 0.78
30 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (30 bp):
TGGGCCTAATGAAGCCATATAAATGTGATT
Found at i:64399053 original size:33 final size:33
Alignment explanation
Indices: 64399015--64399080 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
64399005 TAAGTTACAG
64399015 AATAAGACCATAACCGGGCTATGGCTATC-GAAT
1 AATAAGACCATAACCGGGCTATGGC-ATCTGAAT
* *
64399048 AATAAGACCATAACTGGGTTATGGCATCTGAAT
1 AATAAGACCATAACCGGGCTATGGCATCTGAAT
64399081 GAAAGATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (33 bp):
AATAAGACCATAACCGGGCTATGGCATCTGAAT
Found at i:64401240 original size:21 final size:22
Alignment explanation
Indices: 64401194--64401243 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
64401184 CTGAGCTTTA
*
64401194 ATTTTCAACTTGCTATTTTTCT
1 ATTTTCAACTTGCTATTTTGCT
64401216 ATTTTCAACTTGCTA-TTTGCT
1 ATTTTCAACTTGCTATTTTGCT
64401237 ATTTTCA
1 ATTTTCA
64401244 GTTGCTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.56
Consensus pattern (22 bp):
ATTTTCAACTTGCTATTTTGCT
Found at i:64403076 original size:25 final size:24
Alignment explanation
Indices: 64403043--64403091 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
64403033 TGGGGGATTT
64403043 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
*
64403067 TTATATTTATTTAGTATTAATATAA
1 TTAT-TTTATTTAATATTAATATAA
64403092 AATTGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:64404771 original size:9 final size:9
Alignment explanation
Indices: 64404757--64404829 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
64404747 TATTTTTCAC
64404757 ATAAAAAAT
1 ATAAAAAAT
*
64404766 ATAAAATAT
1 ATAAAAAAT
*
64404775 CAGAAAAAAATT
1 -A-TAAAAAA-T
64404787 ATAAAAAAT
1 ATAAAAAAT
*
64404796 AT-AAATAT
1 ATAAAAAAT
**
64404804 -TATTAAAT
1 ATAAAAAAT
*
64404812 ATAGAAAAT
1 ATAAAAAAT
64404821 ATAAAAAAT
1 ATAAAAAAT
64404830 CTATTAAACT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 1 0.02
8 8 0.17
9 25 0.52
10 7 0.15
11 6 0.12
12 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:64404834 original size:27 final size:25
Alignment explanation
Indices: 64404786--64404867 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
64404776 AGAAAAAAAT
*
64404786 TATAAAAAATATAAATATTATTAAA
1 TATAAAAAATATAAAAATTATTAAA
*
64404811 TATAGAAAATATAAAAAATCTATTAAA
1 TATAAAAAATAT-AAAAAT-TATTAAA
* * * *
64404838 CTCTAATAAATTATAAAAATCATAAAA
1 -TATAA-AAAATATAAAAATTATTAAA
64404865 TAT
1 TAT
64404868 TTAAAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
25 11 0.24
26 7 0.16
27 12 0.27
28 9 0.20
29 6 0.13
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (25 bp):
TATAAAAAATATAAAAATTATTAAA
Found at i:64404894 original size:21 final size:19
Alignment explanation
Indices: 64404859--64404904 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
64404849 TATAAAAATC
*
64404859 ATAAAATATTTAAAATTTT
1 ATAAAATATTTAAAATTCT
64404878 ATAAAAGTATATTAAAATTCT
1 ATAAAA-TAT-TTAAAATTCT
64404899 ATAAAA
1 ATAAAA
64404905 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 3 0.12
21 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAAAATATTTAAAATTCT
Found at i:64405672 original size:19 final size:20
Alignment explanation
Indices: 64405650--64405688 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
64405640 TAAATTTTCT
*
64405650 AAAATTTTAAATAT-ATTAA
1 AAAATGTTAAATATAATTAA
*
64405669 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
64405689 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAATGTTAAATATAATTAA
Found at i:64405712 original size:17 final size:17
Alignment explanation
Indices: 64405690--64405728 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
64405680 TATAATTAAT
64405690 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
64405707 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
64405724 CTTAA
1 TTTAA
64405729 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:64405717 original size:70 final size:67
Alignment explanation
Indices: 64405636--64405916 Score: 233
Period size: 70 Copynumber: 4.0 Consensus size: 67
64405626 AATGTGATTT
* * * *
64405636 TTTTTAAATTTTCTAAAATTTTAAATATATTAAAAAATGTTAAGTATAATTAATTTTAAAAGTTT
1 TTTTAAAATTTT-TAAAAATTTAAATATATTAAAAAA-GTTAAGTATAACTAATTTTAAAATTTT
64405701 AATA
64 AATA
* * * * * ** *
64405705 TATTTAAAA-TTTTAATATACTTAATATATATTTTTAATAAGTAAAG-ATAAAAAAATTCTTAAT
1 T-TTTAAAATTTTTAA-AAATTTAA-ATATA--TTAAAAAAGTTAAGTAT-AACTAATT-TTAAA
*
64405768 ATATTTAAAA
59 AT-TTTAATA
*** *
64405778 TTTTAAAAAACTTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACTAATTTTAATATTTTA
1 TTTTAAAATTTTTAAAAATTTAAATATATTAAAAAA-GTTAAGTATAACTAATTTTAAAATTTTA
64405843 ATA
65 ATA
** * *
64405846 TTTTAAATATATTTTTAAAAAACTAAATATATTAAAAAAGTTAAGTACAACCAATTTTAAAATTT
1 TTTT-AA-A-ATTTTTAAAAATTTAAATATATTAAAAAAGTTAAGTATAACTAATTTTAAAATTT
64405911 TAATA
63 TAATA
64405916 T
1 T
64405917 ATTCAATATA
Statistics
Matches: 168, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
68 13 0.08
69 24 0.14
70 54 0.32
71 42 0.25
72 24 0.14
73 11 0.07
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (67 bp):
TTTTAAAATTTTTAAAAATTTAAATATATTAAAAAAGTTAAGTATAACTAATTTTAAAATTTTAA
TA
Found at i:64405809 original size:17 final size:17
Alignment explanation
Indices: 64405755--64405883 Score: 57
Period size: 17 Copynumber: 7.3 Consensus size: 17
64405745 GTAAAGATAA
*
64405755 AAAAATTCTTAATATATTT
1 AAAAATT-TAAATATA-TT
* *
64405774 AAAATTTTAAA-AAACTT
1 AAAAATTTAAATATA-TT
64405791 AAAAATTTAAATATATT
1 AAAAATTTAAATATATT
*
64405808 AAAAAATGTTAAGTATA--
1 -AAAAAT-TTAAATATATT
** * *
64405825 ACTAATTTTAATATTTT
1 AAAAATTTAAATATATT
* *
64405842 AATATTTTAAATATATTTTT
1 AAAAATTTAAATATA---TT
**
64405862 AAAAAACTAAATATATT
1 AAAAATTTAAATATATT
64405879 AAAAA
1 AAAAA
64405884 AGTTAAGTAC
Statistics
Matches: 82, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
15 6 0.07
16 4 0.05
17 34 0.41
18 11 0.13
19 14 0.17
20 13 0.16
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAAATTTAAATATATT
Found at i:64405932 original size:71 final size:71
Alignment explanation
Indices: 64405789--64405931 Score: 216
Period size: 70 Copynumber: 2.0 Consensus size: 71
64405779 TTTAAAAAAC
** * * * *
64405789 TTAAAAATTTAAATATATTAAAAAATGTTAAGTATAACTAATTTTAATATTTTAATATTTTAAAT
1 TTAAAAAACTAAATATATTAAAAAATGTTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
64405854 ATATTT
66 ATATTT
*
64405860 TTAAAAAACTAAATATATTAAAAAA-GTTAAGTACAACCAATTTTAAAATTTTAATATATTCAAT
1 TTAAAAAACTAAATATATTAAAAAATGTTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
64405924 ATATTT
66 ATATTT
64405930 TT
1 TT
64405932 TTAAAATATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 42 0.65
71 23 0.35
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (71 bp):
TTAAAAAACTAAATATATTAAAAAATGTTAAGTACAACCAATTTTAAAATTTTAATATATTAAAT
ATATTT
Found at i:64406050 original size:16 final size:17
Alignment explanation
Indices: 64405998--64406066 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
64405988 AAAAATATTT
*
64405998 TTTTATATAT-TTAAAA
1 TTTTAAATATATTAAAA
* *
64406014 TTTTAAAAAAATTTAGAAAA
1 TTTTAAATATA-TT--AAAA
*
64406034 ATTTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
64406051 TTTTAAATATGTTAAA
1 TTTTAAATATATTAAA
64406067 GAAAATGTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 7 0.17
17 18 0.44
18 2 0.05
19 2 0.05
20 12 0.29
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:64406115 original size:18 final size:18
Alignment explanation
Indices: 64406089--64406149 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
64406079 CATCATCAAT
64406089 TTTAAATATTT-AATATA
1 TTTAAATATTTAAATATA
64406106 TTTAATATATTTAAATATA
1 TTTAA-ATATTTAAATATA
* *
64406125 TTAAAAT-TTTGAAACATA
1 TTTAAATATTT-AAATATA
*
64406143 TTAAAAT
1 TTTAAAT
64406150 TCTTTTAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.21
18 21 0.54
19 10 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTAAATATTTAAATATA
Found at i:64406124 original size:10 final size:9
Alignment explanation
Indices: 64406089--64406126 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
64406079 CATCATCAAT
64406089 TTTAA-ATA
1 TTTAATATA
64406097 TTTAATATA
1 TTTAATATA
64406106 TTTAATATA
1 TTTAATATA
64406115 TTTAAATATA
1 TTT-AATATA
64406125 TT
1 TT
64406127 AAAATTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 5 0.18
9 15 0.54
10 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTTAATATA
Found at i:64406128 original size:9 final size:9
Alignment explanation
Indices: 64406090--64406147 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
64406080 ATCATCAATT
64406090 TTAAATAT-
1 TTAAATATA
64406098 TT-AATATA
1 TTAAATATA
*
64406106 TTTAATATA
1 TTAAATATA
64406115 TTTAAATATA
1 -TTAAATATA
*
64406125 TTAAA-ATT
1 TTAAATATA
*
64406133 TTGAAACATA
1 TT-AAATATA
64406143 TTAAA
1 TTAAA
64406148 ATTCTTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
7 5 0.12
8 8 0.19
9 17 0.40
10 12 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (9 bp):
TTAAATATA
Found at i:64406158 original size:80 final size:79
Alignment explanation
Indices: 64406034--64406196 Score: 188
Period size: 80 Copynumber: 2.1 Consensus size: 79
64406024 ATTTAGAAAA
* * * *
64406034 ATTTAAATATATTAAAATTTTAAATATGTTAAAGAAAATGTTAAGCATCATC-AATTTTAAATAT
1 ATTTAAATATATTAAAATTTTAAACATATTAAAGAAAATGTTAAGCATAAGCAAATTTTAAAT-T
64406098 TTAATATATT-TAATAT
65 TTAA-AT-TTCTAATAT
*** * *
64406114 ATTTAAATATATTAAAATTTTGAAACATATTAAA-ATTCTTTTAAGTATAAGCAAATTTTAAATT
1 ATTTAAATATATTAAAATTTT-AAACATATTAAAGAAAATGTTAAGCATAAGCAAATTTTAAATT
64406178 TTAAATTTCTAATAT
65 TTAAATTTCTAATAT
64406193 ATTT
1 ATTT
64406197 TTTAATAGGT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 12 0.17
80 37 0.52
81 20 0.28
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (79 bp):
ATTTAAATATATTAAAATTTTAAACATATTAAAGAAAATGTTAAGCATAAGCAAATTTTAAATTT
TAAATTTCTAATAT
Found at i:64407831 original size:41 final size:41
Alignment explanation
Indices: 64407786--64407863 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
64407776 ACATATATGC
**
64407786 TTGAAACATGTCTTTTGAATGTAAGATGAAATTATTAATGT
1 TTGAAACATGTCTTTTGAATGTAAGACAAAATTATTAATGT
64407827 TTGAAACATGTCTTTTGAATGTAAGACAAAATTATTA
1 TTGAAACATGTCTTTTGAATGTAAGACAAAATTATTA
64407864 GTTATACCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (41 bp):
TTGAAACATGTCTTTTGAATGTAAGACAAAATTATTAATGT
Found at i:64408006 original size:18 final size:17
Alignment explanation
Indices: 64407970--64408016 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
64407960 AATACAACCC
64407970 AAAAT-AAAAAATAAAA
1 AAAATAAAAAAATAAAA
*
64407986 AAAATAAAAAAATGAAGA
1 AAAATAAAAAAAT-AAAA
*
64408004 AAAAGAAAAAAAT
1 AAAATAAAAAAAT
64408017 TTAACCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 5 0.19
17 7 0.26
18 15 0.56
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAATAAAA
Found at i:64409204 original size:19 final size:19
Alignment explanation
Indices: 64409180--64409217 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64409170 TTGAGATTGC
*
64409180 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
64409199 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
64409218 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:64420927 original size:39 final size:40
Alignment explanation
Indices: 64420811--64420995 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
64420801 GCTACTCGTT
* *
64420811 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
64420851 AAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
64420891 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
64420930 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
64420971 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64420996 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:64435178 original size:40 final size:40
Alignment explanation
Indices: 64435095--64435350 Score: 353
Period size: 40 Copynumber: 6.5 Consensus size: 40
64435085 CAACCAAGTA
** *
64435095 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
64435133 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
64435173 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
64435213 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
64435253 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
64435293 CCTTCAGG-CTTAGCCCGGA-ATTAGTCACTTGCACAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
64435332 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
64435351 TTATCATCCA
Statistics
Matches: 197, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
38 14 0.07
39 45 0.23
40 136 0.69
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:64450073 original size:29 final size:30
Alignment explanation
Indices: 64449993--64450071 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
64449983 GTCATGAGAT
*
64449993 TGGCACTAAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACA
*
64450024 --GCACTAAGTGTGTGAGTTTAAA-GTACA
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA
64450051 TGGCACTAAGTGTGCGCAGTT
1 TGGCACTAAGTGTGCG-AGTT
64450072 AATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
29 33 0.79
30 4 0.10
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:64450289 original size:174 final size:174
Alignment explanation
Indices: 64450024--64450351 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
64450014 AAATTGTACA
64450024 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCAGTTAATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCAGTTAATTATTAAGCACTATG
* *
64450089 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64450154 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
64450198 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCAGTTAATTATTAAGCACTATG
64450263 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64450328 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
64450352 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCAGTTAATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:64453699 original size:26 final size:25
Alignment explanation
Indices: 64453591--64453709 Score: 90
Period size: 24 Copynumber: 4.8 Consensus size: 25
64453581 TCGAGCTATG
*
64453591 ATCAGTAAGCTCCTT-CTGAGTTGATGA
1 ATCAGTAAGCT-CTTAC-GAGCTGA-GA
*
64453618 AT-AGCAAGCTCATT--GAGCTG-GA
1 ATCAGTAAGCTC-TTACGAGCTGAGA
*
64453640 A-CAGTAAGCTCTAACGAGCTGAGA
1 ATCAGTAAGCTCTTACGAGCTGAGA
* *
64453664 AT-AGTAAGCTCTTACAAGCTGATA
1 ATCAGTAAGCTCTTACGAGCTGAGA
*
64453688 TATCAGTAAGCTCATACGAGCT
1 -ATCAGTAAGCTCTTACGAGCT
64453710 AAGGTGAGTC
Statistics
Matches: 75, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.01
22 11 0.15
23 6 0.08
24 27 0.36
25 3 0.04
26 25 0.33
27 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (25 bp):
ATCAGTAAGCTCTTACGAGCTGAGA
Found at i:64459731 original size:31 final size:31
Alignment explanation
Indices: 64459696--64459754 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
64459686 ATAATTTTTG
64459696 AACTATTTAAAAGTTTTCATTCAAGTCATTA
1 AACTATTTAAAAGTTTTCATTCAAGTCATTA
* *
64459727 AACTATTTAAAAGTTTTTATTTAAGTCA
1 AACTATTTAAAAGTTTTCATTCAAGTCA
64459755 CTGAGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (31 bp):
AACTATTTAAAAGTTTTCATTCAAGTCATTA
Found at i:64466496 original size:12 final size:12
Alignment explanation
Indices: 64466463--64466496 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64466453 TTGCATAAGT
64466463 ATTTTTTGTTGAA
1 ATTTTTT-TTGAA
*
64466476 ATTTGTTTTGAA
1 ATTTTTTTTGAA
64466488 ATTTTTTTT
1 ATTTTTTTT
64466497 ATAAGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (12 bp):
ATTTTTTTTGAA
Found at i:64473951 original size:11 final size:11
Alignment explanation
Indices: 64473935--64473964 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64473925 GTTTAAAGAC
64473935 GGACTTAATGA
1 GGACTTAATGA
64473946 GGACTTAATGA
1 GGACTTAATGA
*
64473957 AGACTTAA
1 GGACTTAA
64473965 GAGTGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (11 bp):
GGACTTAATGA
Found at i:64481858 original size:48 final size:49
Alignment explanation
Indices: 64481787--64481885 Score: 155
Period size: 48 Copynumber: 2.0 Consensus size: 49
64481777 CTAAGAGTAG
*
64481787 ATCTAACAGAATTAAGAAGAGTTGATTGCACGCCTAGAGGTAGGGT-AC
1 ATCTAACAGAATTAAGAAGAGTTGATTGCACGCCTAGAGATAGGGTGAC
* **
64481835 ATCTAACATAATTAAGCGGAGTTGATTGCACGCCTAGAGATAGGGTGAC
1 ATCTAACAGAATTAAGAAGAGTTGATTGCACGCCTAGAGATAGGGTGAC
64481884 AT
1 AT
64481886 AATTTTTACG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 42 0.91
49 4 0.09
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (49 bp):
ATCTAACAGAATTAAGAAGAGTTGATTGCACGCCTAGAGATAGGGTGAC
Found at i:64483633 original size:40 final size:39
Alignment explanation
Indices: 64483596--64483741 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 39
64483586 GCTACTCGTT
*
64483596 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGATT-TAGTAACTCGCA
*
64483636 CAATTGCCTTCGGGACTTCACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCCGGATTTAGTAACTCGCA
* *
64483676 CAAATGCCTTCGGGACTTAACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTT-ACCCGGATTTAGTAAC-TCGCA
*
64483717 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTA-CCCGGA
64483742 CATCATTCAA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
39 1 0.01
40 83 0.87
41 11 0.12
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
Found at i:64491530 original size:40 final size:39
Alignment explanation
Indices: 64491493--64491678 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 39
64491483 GCTACTCGTT
*
64491493 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-CCCGGATT-TAGTAACTCGCA
*
64491533 CAATTGCCTTCGGGACTTCACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCCGGATTTAGTAACTCGCA
*
64491573 CAAATGCCTTCGGCACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-ACCCGGATTTAGTAACTCGCA
* * * *
64491613 CAAATGCCTTCAGGATTTAACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTT-ACCCGGATTTAGTAAC-TCGCA
64491654 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTA-CCCGGA
64491679 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
Found at i:64491607 original size:80 final size:82
Alignment explanation
Indices: 64491493--64491678 Score: 263
Period size: 80 Copynumber: 2.3 Consensus size: 82
64491483 GCTACTCGTT
* * * *
64491493 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTCACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
*
64491557 GATTTAGTAAC-TCGCA
66 GATTTAGTAACTTAGCA
* * *
64491573 CAAATGCCTTCGGCACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCAGGATTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
*
64491637 GATTTAGTCACTTAGCA
66 GATTTAGTAACTTAGCA
64491654 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64491679 CATCATTCAA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 83 0.89
81 10 0.11
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
GATTTAGTAACTTAGCA
Found at i:64502722 original size:39 final size:39
Alignment explanation
Indices: 64502679--64502794 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
64502669 CCGGACATAT
* * *
64502679 TTCCAGCACGTAGCCTGTGGACCTTAAGTCCAGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
* *
64502718 TTCCAGCACATAGCCTACGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
* *
64502757 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATA
64502795 CATCACTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
Found at i:64502724 original size:78 final size:78
Alignment explanation
Indices: 64502635--64502787 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
64502625 TTAAACCTGG
* * * * * *
64502635 TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTGTG
1 TATAATACCAGCAC-ATAGCCTAC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCG
*
64502698 GACCTTAAGTCCAGT
64 GACCCTAAGTCCAGT
* * *
64502713 TATAATTCCAGCACATAGCCTACGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGA
1 TATAATACCAGCACATAGCCTACGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
64502778 CCCTAAGTCC
66 CCCTAAGTCC
64502788 GGATATACAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 4 0.06
78 59 0.94
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTACGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
CCCTAAGTCCAGT
Found at i:64511684 original size:28 final size:29
Alignment explanation
Indices: 64511649--64511704 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
64511639 TTAATAAAAA
*
64511649 TGTAAA-TTAGGGGCTAAATTGTGAAATG
1 TGTAAATTTAGGGGCTAAAATGTGAAATG
* *
64511677 TGTAAATTTAGTGGTTAAAATGTGAAAT
1 TGTAAATTTAGGGGCTAAAATGTGAAAT
64511705 AAATGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
TGTAAATTTAGGGGCTAAAATGTGAAATG
Found at i:64512883 original size:14 final size:15
Alignment explanation
Indices: 64512864--64512893 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
64512854 AATTTTGGCT
64512864 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
64512878 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
64512893 T
1 T
64512894 CTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:64514801 original size:27 final size:27
Alignment explanation
Indices: 64514769--64514944 Score: 142
Period size: 27 Copynumber: 6.5 Consensus size: 27
64514759 TTATTGAGCC
* *
64514769 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
64514796 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
64514823 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAAT-CAACT
** ** *
64514851 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
64514878 CGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTA-CATAAT-CAACT
* *
64514905 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
64514932 CGCACATTTAGTG
1 CGCACACTTAGTG
64514945 TTGTACAATT
Statistics
Matches: 124, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 97 0.78
28 26 0.21
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64514861 original size:55 final size:54
Alignment explanation
Indices: 64514769--64514944 Score: 187
Period size: 54 Copynumber: 3.2 Consensus size: 54
64514759 TTATTGAGCC
* * * * *
64514769 CGCACACTCAGTGCTAT-ATAAT-CAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCAT-ATCCATCTCGCACACTTAGTGCAACATAGTCAAAT
** * *
64514823 CGCACACTTAGTGCCA-CATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTG-CATCATA-TCCATCTCGCACACTTAGTGCAACATAGTCAAAT
* *
64514878 CGCACACTTAGTGCATCATATCCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCATCATATCCATCTCGCACACTTAGTGCAACATAGTCAAAT
*
64514932 CGCACATTTAGTG
1 CGCACACTTAGTG
64514945 TTGTACAATT
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
53 1 0.01
54 58 0.57
55 43 0.42
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATATCCATCTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:64522828 original size:27 final size:27
Alignment explanation
Indices: 64522796--64522972 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
64522786 TTATTGAGCC
* *
64522796 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
64522823 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
64522850 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAAT-CAACT
** ** *
64522878 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
64522905 CGCACACTTAGTGC-ATCAT-ATCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
64522931 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
64522958 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64522973 GTACAATTTA
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 22 0.17
27 80 0.63
28 24 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64522888 original size:55 final size:54
Alignment explanation
Indices: 64522796--64522971 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
64522786 TTATTGAGCC
* * * * * *
64522796 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCCATCAT-ATCATCTCGCACACTTAGTGCAACATAGTCAAAT
** * *
64522850 CGCACACTTAGTGCCA-CATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCATCATA-T-CATCTCGCACACTTAGTGCAACATAGTCAAAT
* *
64522905 CGCACACTTAGTG-CATCATATCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCCATCATATCATCTCGCACACTTAGTGCAACATAGTCAAAT
64522958 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64522972 TGTACAATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
53 40 0.39
54 20 0.20
55 42 0.41
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCCATCATATCATCTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:64533657 original size:37 final size:38
Alignment explanation
Indices: 64533552--64533757 Score: 164
Period size: 39 Copynumber: 5.6 Consensus size: 38
64533542 GCTCCTCGTT
* *
64533552 CAAATGCCTTCGGGACATAGCCGG-TATAG-AA--CGCA
1 CAAATGCCTTC-GGACTTAGCCGGATTTAGTAACTCGCA
* *
64533587 CAAATGCC-TCGGAC-TA-ACTGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCGGATTTAGTAACTCGCA
64533621 CAAATGCCTTCGGACTTA-CCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCGGATTTAGTAACTCGCA
* * * *
64533658 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAG-CCGGATTTAGTAACTCGCA
* * * * *
64533697 C-AATGCCTCCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAG-CCGGATTTAGTAAC-TCGCA
64533737 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTC-GGACTTAGCC
64533758 CGGACATCAT
Statistics
Matches: 139, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
31 5 0.04
32 4 0.03
33 4 0.03
34 14 0.10
35 14 0.10
36 5 0.04
37 29 0.21
38 10 0.07
39 34 0.24
40 15 0.11
41 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAGCCGGATTTAGTAACTCGCA
Found at i:64533695 original size:39 final size:37
Alignment explanation
Indices: 64533583--64533714 Score: 137
Period size: 37 Copynumber: 3.6 Consensus size: 37
64533573 CGGTATAGAA
* * *
64533583 CGCACAAATGCC-TCGGAC-TAACTG-ATTAGTAACT
1 CGCACCAATGCCTTCGGACTTACCGGAATTAGTAACT
* *
64533617 CGCACAAATGCCTTCGGACTTACCGGATTTAGTAACT
1 CGCACCAATGCCTTCGGACTTACCGGAATTAGTAACT
* *
64533654 CGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCT
1 CGCACCAATGCCTTCGGACTTA--CCGGAATTAGTAACT
*
64533693 CGCA-CAATGCCTCCGGATCTTA
1 CGCACCAATGCCTTCGGA-CTTA
64533715 GTCCGGATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
34 12 0.14
35 6 0.07
36 4 0.05
37 29 0.35
38 11 0.13
39 21 0.25
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
CGCACCAATGCCTTCGGACTTACCGGAATTAGTAACT
Found at i:64540478 original size:40 final size:40
Alignment explanation
Indices: 64540431--64540575 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
64540421 CTCGCACAAG
* * * * *
64540431 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
64540471 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
64540511 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
64540552 GCGTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
64540576 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:64541803 original size:38 final size:38
Alignment explanation
Indices: 64541761--64541836 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
64541751 CAAGAACTCC
64541761 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
64541799 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
64541837 AAAGGATGAA
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:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Done.