Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 123 of 343
Found at i:41226821 original size:54 final size:53
Alignment explanation
Indices: 41226763--41226902 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 53
41226753 GGTATTTCAA
* *
41226763 TAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGG
1 TAATTTTACA-ATCGAGGGTATTTCAGTAATTTCACAAACTAGGGGTATTTTGG
* * ** *
41226817 TAATTTCACAAAT-TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTAC-AATCGA-GGGTATTTCAGTAATTTCACAAACTAGGGGTATTTTGG
*
41226871 TAATTTTGCTAATCGAGGGTA-TTCAGTAATTT
1 TAATTTTAC-AATCGAGGGTATTTCAGTAATTT
41226903 TGTAAACCAA
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
53 10 0.14
54 58 0.83
55 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (53 bp):
TAATTTTACAATCGAGGGTATTTCAGTAATTTCACAAACTAGGGGTATTTTGG
Found at i:41226934 original size:27 final size:27
Alignment explanation
Indices: 41226888--41226945 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
41226878 GCTAATCGAG
*
41226888 GGTA-TTCAGTAATTTTGTAAACCAAA
1 GGTATTTCAGTAATTTGGTAAACCAAA
*
41226914 GGTATTTCAGTAATTTGGTAAACTAAA
1 GGTATTTCAGTAATTTGGTAAACCAAA
41226941 -GTATT
1 GGTATT
41226946 CTAAACAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTGGTAAACCAAA
Found at i:41230093 original size:64 final size:65
Alignment explanation
Indices: 41230013--41230164 Score: 166
Period size: 67 Copynumber: 2.3 Consensus size: 65
41230003 AGACATTATG
* * * * *
41230013 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTATGGGATA
1 ATGTAGCTAGGTCGCATGGGTGAT-CCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
*
41230076 T
65 A
* *
41230077 ATGTAGCTAGGTCGCATGCGTGGCTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATCCA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
41230142 AA
64 AA
* *
41230144 AT-TGGCTAGGTCACATGGGTG
1 ATGTAGCTAGGTCGCATGGGTG
41230165 GTATTGAGTG
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
64 22 0.30
65 3 0.04
66 17 0.23
67 31 0.42
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGATCCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41232691 original size:27 final size:26
Alignment explanation
Indices: 41232654--41232712 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
41232644 AACATGGTTG
*
41232654 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
41232680 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
41232707 CCAGAA
1 CCAGAA
41232713 TAGAATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:41232946 original size:22 final size:22
Alignment explanation
Indices: 41232918--41232983 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
41232908 GCAAGTACGT
*
41232918 TTGGCACATAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
* *
41232940 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGA
*
41232962 TTAGCACAAAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
41232984 ATAATTGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:41233631 original size:27 final size:27
Alignment explanation
Indices: 41233496--41233630 Score: 162
Period size: 27 Copynumber: 5.0 Consensus size: 27
41233486 GGGGCAAAAT
* * * *
41233496 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
41233523 GGTAATTGTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
41233550 GGTATTTCCACCCTGCAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
41233577 GGTAATTCCACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
41233604 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
41233631 AATTATTTTG
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:41233718 original size:27 final size:26
Alignment explanation
Indices: 41233670--41233844 Score: 136
Period size: 27 Copynumber: 6.5 Consensus size: 26
41233660 TAATTCTGTA
* * *
41233670 AATCGAGGGTACTTTGGAAATTTTAC
1 AATCGAGGGTATTTTAGTAATTTTAC
*
41233696 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AA-TCGAGGGTATTTTAGTAATTTTAC
* * *
41233723 AGGTCGAAGGTATTTTAGTAATTTCAC
1 A-ATCGAGGGTATTTTAGTAATTTTAC
* *
41233750 AAATC-AGTGGTATTTTGGTAATTTCAC
1 -AATCGAG-GGTATTTTAGTAATTTTAC
* * *
41233777 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCGA-GGGTATTTTAGTAATTTTAC
* * * *
41233804 AAACTAGAGGTATTTTGGTAATTTTGC
1 AATCGAG-GGTATTTTAGTAATTTTAC
41233831 TAATCGAGGGTATT
1 -AATCGAGGGTATT
41233845 CAATAATTTT
Statistics
Matches: 125, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
26 7 0.06
27 111 0.89
28 7 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (26 bp):
AATCGAGGGTATTTTAGTAATTTTAC
Found at i:41233842 original size:54 final size:52
Alignment explanation
Indices: 41233670--41233844 Score: 161
Period size: 54 Copynumber: 3.2 Consensus size: 52
41233660 TAATTCTGTA
* * * * **
41233670 AATCGAGGGTACTTTGGAAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTACAAATAGA-GGTATTTTGGTAATTTTAC
* * * * * *
41233723 AGGTCGAAGGTATTTTAGTAATTTCACAAATCAGTGGTATTTTGGTAATTTCAC
1 A-ATCGAGGGTATTTTGGTAATTTTACAAAT-AGAGGTATTTTGGTAATTTTAC
* * *
41233777 AAACTAGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTGC
1 AATCGA-GGGTATTTTGGTAATTTTACAAA-TAGAGGTATTTTGGTAATTTTAC
41233831 TAATCGAGGGTATT
1 -AATCGAGGGTATT
41233845 CAATAATTTT
Statistics
Matches: 94, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
53 3 0.03
54 85 0.90
55 6 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (52 bp):
AATCGAGGGTATTTTGGTAATTTTACAAATAGAGGTATTTTGGTAATTTTAC
Found at i:41233866 original size:26 final size:27
Alignment explanation
Indices: 41233837--41233887 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
41233827 TTGCTAATCG
*
41233837 AGGGTA-TTCA-ATAATTTTGTAAACCA
1 AGGGTATTTCACA-AATTTGGTAAACCA
41233863 AGGGTATTTCACAAATTTGGTAAAC
1 AGGGTATTTCACAAATTTGGTAAAC
41233888 TAAAGTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 15 0.68
28 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (27 bp):
AGGGTATTTCACAAATTTGGTAAACCA
Found at i:41234080 original size:17 final size:17
Alignment explanation
Indices: 41234055--41234093 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
41234045 TATCCAATTA
41234055 GGCCCGTAGGCCCATTG
1 GGCCCGTAGGCCCATTG
*
41234072 GGCCTGTAGGCCCATTG
1 GGCCCGTAGGCCCATTG
41234089 GGCCC
1 GGCCC
41234094 ACATGGCCCC
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:0.10, C:0.36, G:0.36, T:0.18
Consensus pattern (17 bp):
GGCCCGTAGGCCCATTG
Found at i:41241188 original size:99 final size:93
Alignment explanation
Indices: 41241079--41241304 Score: 273
Period size: 99 Copynumber: 2.4 Consensus size: 93
41241069 AGGGTATAAA
*
41241079 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAGATCG-AGGCCGACGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTA-CAAG-TCGTA-GCCGACG-AATGTCC
*
41241143 CAGACATGGTCTTACACTAACTCTCACATATACG-T
62 CAGACAT-GTCTTACACTAACT-T-ACATAT-CGAG
* *
41241178 GCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACATGTCGTAGCCGATGAATGTCCCAGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTACAAGTCGTAGCCGACGAATGTCCCAGA
** *
41241242 CATGTCTTACACTGGCTTACATCTCGAG
66 CATGTCTTACACTAACTTACATATCGAG
*
41241270 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTAACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACT
41241305 CTTGTCTCAA
Statistics
Matches: 116, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
90 13 0.11
91 16 0.14
92 11 0.09
93 1 0.01
94 12 0.10
95 13 0.11
96 9 0.08
97 4 0.03
98 1 0.01
99 36 0.31
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTACAAGTCGTAGCCGACGAATGTCCCAGA
CATGTCTTACACTAACTTACATATCGAG
Found at i:41241203 original size:50 final size:49
Alignment explanation
Indices: 41241079--41241304 Score: 258
Period size: 46 Copynumber: 4.8 Consensus size: 49
41241069 AGGGTATAAA
*
41241079 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-AGATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACT-TCACATATCGAG
* *
41241128 GCCGACGCCATGTCCCAGACATGGTCTTACACTAACTCTCACATATACG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACT-TCACATAT-CGAG
*
41241178 GCCGATGCCATGTCCCAGACATGGTCTTACACTAA---CACATGTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTTCACATATCG-AG
* ** *
41241224 GCCGATG-AATGTCCCAGACAT-GTCTTACACTGGCTT-ACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTTCACATATCGAG
*
41241270 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTAACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACT
41241305 CTTGTCTCAA
Statistics
Matches: 155, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
44 10 0.06
45 16 0.10
46 51 0.33
49 39 0.25
50 37 0.24
51 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTTCACATATCGAG
Found at i:41241350 original size:93 final size:90
Alignment explanation
Indices: 41241087--41241399 Score: 226
Period size: 93 Copynumber: 3.3 Consensus size: 90
41241077 AAGCCGATGC
* * * *
41241087 CATGTCCCAGACATGGTCTTACACTAACTATCAAGATCG-AGGCCGACGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAAC-A-CATG-TCGTA-GCCAATG-AATGTCCCAGACAT-
** * *
41241151 GTCTTACACTAACTCTCACATAT-ACGTGCCGATGC
59 GTCTTACACTGGCTCTCA-AAATGA-G-GCCGAT-A
*
41241186 CATGTCCCAGACATGGTCTTACACTAACACATGTCGTAGCCGATGAATGTCCCAGACATGTCTTA
1 CATGTCCCAGACAT-GTCTTACACTAACACATGTCGTAGCCAATGAATGTCCCAGACATGTCTTA
**
41241251 CACTGGCT-T-ACATCTCGAGGCCGATA
65 CACTGGCTCTCA-AAAT-GAGGCCGATA
* * *
41241277 CATGTCCCAGACATGTCTTACACTAACTCTTGTC-TCAATGCCAAT-ACCATGTCCTAGACATGG
1 CATGTCCCAGACATGTCTTACACTAACACATGTCGT--A-GCCAATGA--ATGTCCCAGACAT-G
* * *
41241340 TCTTA-GCTGGCTCTCAAAATGTGGCCGATG
60 TCTTACACTGGCTCTCAAAATGAGGCCGATA
* *
41241370 CTTGTCCCAGACATGTCTTACACTAGCACA
1 CATGTCCCAGACATGTCTTACACTAACACA
41241400 CCAATAACCC
Statistics
Matches: 183, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
89 1 0.01
90 18 0.10
91 16 0.09
92 16 0.09
93 54 0.30
94 22 0.12
95 14 0.08
96 9 0.05
97 4 0.02
98 1 0.01
99 28 0.15
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (90 bp):
CATGTCCCAGACATGTCTTACACTAACACATGTCGTAGCCAATGAATGTCCCAGACATGTCTTAC
ACTGGCTCTCAAAATGAGGCCGATA
Found at i:41251776 original size:41 final size:40
Alignment explanation
Indices: 41251667--41251814 Score: 109
Period size: 41 Copynumber: 3.6 Consensus size: 40
41251657 ATACTTGATA
* * ** * **
41251667 TCTCGCACACTAAGTGCCAATACATAGCTGAAGCTATTATAA
1 TCTCGCACACAAAGTGCC-ATATATAGCCAAAGCTA-TCTCG
* * * *
41251709 TCTCGTACACAAAGTGCC-TCACATAGCCAAAGTTATCTTGG
1 TCTCGCACACAAAGTGCCAT-ATATAGCCAAAGCTATC-TCG
*
41251750 TCTCGCACACAAAGTGCCATATATAGCCGAAGCTATCTCG
1 TCTCGCACACAAAGTGCCATATATAGCCAAAGCTATCTCG
** * *
41251790 AATCGCTCACTAAGTGCCATATATA
1 TCTCGCACACAAAGTGCCATATATA
41251815 TATTCAATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
40 25 0.29
41 44 0.51
42 17 0.20
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
TCTCGCACACAAAGTGCCATATATAGCCAAAGCTATCTCG
Found at i:41260861 original size:28 final size:28
Alignment explanation
Indices: 41260829--41260893 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
41260819 ATTTACTAGA
*
41260829 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
41260857 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41260885 ATACCCCTA
1 ATACCCCTA
41260894 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41261061 original size:27 final size:27
Alignment explanation
Indices: 41261009--41261088 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
41260999 CTGGTGGTTA
* *
41261009 TGCCACAAATTATTTGTTCTGGTGGCCC
1 TGCCACAAA-TATCTGTTCTGGTGGCAC
* *
41261037 TGCCACATATATCTGTTTTGGTGGCAC
1 TGCCACAAATATCTGTTCTGGTGGCAC
41261064 TGCCACAAAATATCTGTATCTGGTG
1 TGCCAC-AAATATCTGT-TCTGGTG
41261089 ACTCTGTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 21 0.48
28 17 0.39
29 6 0.14
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGGCAC
Found at i:41261099 original size:29 final size:28
Alignment explanation
Indices: 41261009--41261099 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
41260999 CTGGTGGTTA
* * * *
41261009 TGCCACAAATTATTTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* * *
41261037 TGCCAC-ATATATCTGTTTTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
41261064 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
41261093 TGTCACA
1 TGCCACA
41261100 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 15 0.29
29 14 0.27
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:41266785 original size:14 final size:14
Alignment explanation
Indices: 41266766--41266795 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41266756 CATTGGCCGA
41266766 ATATACATAAATTC
1 ATATACATAAATTC
*
41266780 ATATACATATATTC
1 ATATACATAAATTC
41266794 AT
1 AT
41266796 GAATCATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATACATAAATTC
Found at i:41268365 original size:14 final size:15
Alignment explanation
Indices: 41268348--41268376 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41268338 ACACGAAAAT
41268348 TTCACACAT-ATAAA
1 TTCACACATAATAAA
41268362 TTCACACATAATAAA
1 TTCACACATAATAAA
41268377 CACTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:41274815 original size:97 final size:97
Alignment explanation
Indices: 41274695--41274870 Score: 248
Period size: 97 Copynumber: 1.8 Consensus size: 97
41274685 CTTGAGTTGT
41274695 GTCAGTGTAAGACCTGTCTGGGACATGGCA-CAACACAGATAAGCGAGAGCCAGTGTAAAACC-T
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAACACAGAT--GCGAGAGCCAGTGTAAAACCAT
*
41274758 GTCTGGGACATGGCATCGGCCTCGATGTATGGAA
64 GTCTGGAACATGGCATCGGCCTCGATGTATGGAA
* * ** * *
41274792 GTCAGTGTAAGTCCTGTCTGGGACATGGCATCGACTTAGATGTGAGAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAACACAGATGCGAGAGCCAGTGTAAAACCATGT
*
41274857 TTGGAACATGGCAT
66 CTGGAACATGGCAT
41274871 TGGCATCGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 18 0.26
97 44 0.64
98 7 0.10
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (97 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCAACACAGATGCGAGAGCCAGTGTAAAACCATGT
CTGGAACATGGCATCGGCCTCGATGTATGGAA
Found at i:41274870 original size:48 final size:47
Alignment explanation
Indices: 41274556--41274870 Score: 198
Period size: 49 Copynumber: 6.6 Consensus size: 47
41274546 TGTGTGTGCT
* * * *
41274556 AGTGTATGACGTGTCTAGGACATGGCATCGGCACC--GATAGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-G-ACCTAGAT-G-TGAGAGCC
** * * *
41274605 AGTGTAAGACCTGTCTGGGACACAGCATCGGCCTCAAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCT--AGATGTG-AGAGCC
* * * * * * * *
41274654 AGTGTAAGACCTCTATAGGACATGGCATC-AGCTTGA-GT-TGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTAGATGTGAGAGCC
* *
41274698 AGTGTAAGACCTGTCTGGGACATGGCA-CAACAC-AGATAAGCGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTAGAT--GTGAGAGCC
* * * *
41274746 AGTGTAAAACCTGTCTGGGACATGGCATCGGCCTCGATGT-ATGGAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTAGATGTGA--G-AGCC
* *
41274795 AGTGTAAGTCCTGTCTGGGACATGGCATCGACTTAGATGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTAGATGTGAGAGCC
* *
41274842 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCAT
41274871 TGGCATCGTA
Statistics
Matches: 203, Mismatches: 44, Indels: 39
0.71 0.15 0.14
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
45 2 0.01
46 3 0.01
47 17 0.08
48 50 0.25
49 97 0.48
50 2 0.01
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTAGATGTGAGAGCC
Found at i:41276990 original size:93 final size:93
Alignment explanation
Indices: 41276858--41277028 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 93
41276848 GCCCCTAAGT
* ** * *
41276858 GAACTCAGACTCAACTCAATGAGCTTGGGCGTTCACATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTTGAACGTTCACATCCATAAGTGAAATCAGAATCAACTCAA
* *
41276923 CGGGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * *
41276951 GAACTCGGACTCAACTCAACGAGTTTGAACTTTCGCATCCGTAAGTGAACTCAGAATCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTTGAACGTTCACATCCATAAGTGAAATCAGAATCAACTCAA
41277016 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41277029 TCAACCATCC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
93 65 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTTGAACGTTCACATCCATAAGTGAAATCAGAATCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41282872 original size:46 final size:47
Alignment explanation
Indices: 41282707--41282875 Score: 170
Period size: 46 Copynumber: 3.6 Consensus size: 47
41282697 AACCCGCCCC
* * * * *
41282707 TAAGTGAACTCAGACTCAACTCAATGAGCTC-AGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCACATCCA
*
41282753 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC-A-TTCACATCCA
* * * *
41282801 TCA-CGAACTTGGACTCAACTCAACGAGTTCGA-ACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCACATCCA
41282846 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
41282876 TGGATGCTCA
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 54 0.53
47 25 0.25
48 3 0.03
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTCACATCCA
Found at i:41282898 original size:46 final size:44
Alignment explanation
Indices: 41282755--41282898 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
41282745 CACATCCATA
41282755 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * * *
41282802 CA-CGAACTTGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGC-CAACCATCT
*
41282848 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
41282894 AGTGA
1 AGTGA
41282899 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 30 0.40
47 29 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:41284648 original size:15 final size:15
Alignment explanation
Indices: 41284616--41284644 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41284606 ATTTTCTGTG
41284616 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
41284631 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
41284645 ATTTTCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:41290050 original size:54 final size:54
Alignment explanation
Indices: 41289970--41290117 Score: 170
Period size: 55 Copynumber: 2.7 Consensus size: 54
41289960 GTTTAAGGAT
* * *
41289970 ACCAAGTAAGACCATGCCAAGGCATGGCGTTGGTAAGTTCTACAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAAGAA
* * * * * * * *
41290024 ATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGGT-AAGTTCTACAAGGCAAAGAA
* *
41290079 CCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
41290118 TAAAAAGGAA
Statistics
Matches: 74, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
54 31 0.42
55 43 0.58
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAAGAA
Found at i:41302240 original size:49 final size:49
Alignment explanation
Indices: 41302168--41302296 Score: 172
Period size: 49 Copynumber: 2.6 Consensus size: 49
41302158 TGATGTGTGT
* * *
41302168 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATAGATG-AGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGC-CTCAAGAGATGCA-A
* *
41302217 GCTAGTGTAGGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGCAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGAGATGCAA
*
41302266 GCTAGTGTAAGACCTATCTGGGACATGGCAT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCAT
41302297 TGGCTTGAGG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
48 1 0.01
49 69 0.97
50 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGAGATGCAA
Found at i:41302430 original size:142 final size:142
Alignment explanation
Indices: 41302164--41302438 Score: 342
Period size: 142 Copynumber: 1.9 Consensus size: 142
41302154 TGGGTGATGT
* * * * *
41302164 GTGTGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAGAGCTAGTGTAGGA
1 GTGTGCTAGTGTAAGACCTGTCTAGGACATGGCATCGGCACAGATAGATGAGAGCCAATGTAAGA
* * * *
41302229 CCTGTCTGGGACATGGCATCAGCCTCAAGATATGCAAGCTAGTGTAAGACCTATCTGGGACATGG
66 CCTGTCTGAGACATGGAATCAGCCTCAAGATATGCAAGCTAGTGTAAGACATATATGGGACATGG
41302294 CATTGGCTTGAG
131 CATTGGCTTGAG
* *
41302306 GTGTGTTAGTGTAAGACCTGTCTAGGACATGGCATCGAG-ATAGATA-AGTGAGAGCCAATGTAA
1 GTGTGCTAGTGTAAGACCTGTCTAGGACATGGCATCG-GCACAGATAGA-TGAGAGCCAATGTAA
* * * * *
41302369 GACCTGTCTGAGACATGGAATCGGCCTCGATG-TATGGAAG-TCAGTGTAAGTCATGTATGGGAC
64 GACCTGTCTGAGACATGGAATCAGCCTC-AAGATATGCAAGCT-AGTGTAAGACATATATGGGAC
41302432 ATGGCAT
127 ATGGCAT
41302439 CAACTTAGAT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
141 2 0.02
142 108 0.96
143 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (142 bp):
GTGTGCTAGTGTAAGACCTGTCTAGGACATGGCATCGGCACAGATAGATGAGAGCCAATGTAAGA
CCTGTCTGAGACATGGAATCAGCCTCAAGATATGCAAGCTAGTGTAAGACATATATGGGACATGG
CATTGGCTTGAG
Found at i:41311210 original size:39 final size:39
Alignment explanation
Indices: 41311166--41311441 Score: 444
Period size: 39 Copynumber: 7.1 Consensus size: 39
41311156 ATGCAAGACA
41311166 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
41311205 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
41311244 CTAGAAATATATCCGGGCTAAAGTCTCGCAGGCTTCGTA
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
41311283 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCTTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
41311322 CTGGAAATGTATCCGGGCTAAAATCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
41311361 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
41311400 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
41311439 CTG
1 CTG
41311442 ATAATATAAT
Statistics
Matches: 217, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 217 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:41321912 original size:46 final size:46
Alignment explanation
Indices: 41321862--41322037 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
41321852 TGGTTGAGCA
41321862 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41321908 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
41321953 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41322001 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41322038 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41322018 original size:93 final size:93
Alignment explanation
Indices: 41321859--41322030 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
41321849 GGATGGTTGA
* *
41321859 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41321924 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
41321952 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41322017 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
41322031 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41324162 original size:26 final size:26
Alignment explanation
Indices: 41324130--41324190 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
41324120 GGCTGCTTAA
41324130 AACAGTCATGTATCAT-ATAGGGGTAT
1 AACAGTCATGTA-CATCATAGGGGTAT
* * *
41324156 ATCAGTCATTTACCTCATAGGGGTAT
1 AACAGTCATGTACATCATAGGGGTAT
41324182 AACAGTCAT
1 AACAGTCAT
41324191 TTAACAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (26 bp):
AACAGTCATGTACATCATAGGGGTAT
Found at i:41333079 original size:49 final size:49
Alignment explanation
Indices: 41333010--41333397 Score: 576
Period size: 49 Copynumber: 8.1 Consensus size: 49
41333000 GAAATGATAG
41333010 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
41333059 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
41333106 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
41333155 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
41333202 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
41333251 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
41333298 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
41333347 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
41333394 TAAG
1 TAAG
41333398 TCCCGAAGGG
Statistics
Matches: 306, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
47 140 0.46
48 1 0.00
49 165 0.54
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:41333174 original size:96 final size:96
Alignment explanation
Indices: 41333010--41333397 Score: 641
Period size: 96 Copynumber: 4.0 Consensus size: 96
41333000 GAAATGATAG
* * * *
41333010 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
*
41333075 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* * *
41333106 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
*
41333171 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* *
41333202 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
41333267 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* *
41333298 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
* *
41333363 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
41333394 TAAG
1 TAAG
41333398 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 283 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
ACGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:41335937 original size:56 final size:56
Alignment explanation
Indices: 41335855--41335963 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
41335845 TTACATGTGA
* *
41335855 TCACATATCGATGCCACTGTCCCAAACAG-GGTCTTACTCGCACACATGTATCGGAG
1 TCACATATCGATGCCACTGTACCAAAC-GTGGTCTTACTCGCACACATATATCGGAG
* *
41335911 TCACATATCGATGCCAAC-GTATCAAACGTGGTCTTACTCGCACATATATATCG
1 TCACATATCGATGCC-ACTGTACCAAACGTGGTCTTACTCGCACACATATATCG
41335964 ATGCCATGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 1 0.02
56 44 0.94
57 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (56 bp):
TCACATATCGATGCCACTGTACCAAACGTGGTCTTACTCGCACACATATATCGGAG
Found at i:41344596 original size:56 final size:57
Alignment explanation
Indices: 41344534--41344698 Score: 226
Period size: 56 Copynumber: 2.9 Consensus size: 57
41344524 CATGGCATCG
* * *
41344534 ATATATGGGTGCGAGAAAGACCACGTATAATACATTGGCATCGATATGTGATTTC-A
1 ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATTTCTA
* * *
41344590 ATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGA-TTCTG
1 ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATTTCTA
* * * *
41344646 ATATATGTGTGCGAGTATGACCAAGTCTAGTACGTTGGCATCGATATGTGATT
1 ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATT
41344699 ACATGTAAGA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
55 3 0.03
56 92 0.96
57 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (57 bp):
ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATTTCTA
Found at i:41351994 original size:43 final size:43
Alignment explanation
Indices: 41351946--41352093 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
41351936 TGTGATTACA
*
41351946 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATTGAGATTTCG
* * * *
41351989 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGCTTTTG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATTGAGATTTCG
* * * * * *
41352032 TGTAAGACCCTGTCTGGGAGAGTGGCATCG-ATATG-TATTTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGTAT-TGAGATTT-CG
*
41352075 TGTAAGACCATATCTAGGA
1 TGTAAGACCATGTCTAGGA
41352094 TATGCCATTG
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 5 0.06
43 83 0.94
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTATTGAGATTTCG
Found at i:41355085 original size:29 final size:29
Alignment explanation
Indices: 41355052--41355321 Score: 213
Period size: 29 Copynumber: 9.3 Consensus size: 29
41355042 TCGACCAATA
**
41355052 AAAAGGGATAGCTTCAACTATCGATTATG
1 AAAAGGGATAGCTTCGGCTATCGATTATG
* * * *
41355081 AAAAGGGATAGTTTTGGCTATTGAATATG
1 AAAAGGGATAGCTTCGGCTATCGATTATG
* * * *
41355110 AAAAGAGATAGCTTTGGCTATTGAATATG
1 AAAAGGGATAGCTTCGGCTATCGATTATG
* *
41355139 AACAGGGACAGCTTCGGCTATCGATTATG
1 AAAAGGGATAGCTTCGGCTATCGATTATG
* * * * *
41355168 AAAAGGGAT-GGTGAT-GACCATCAACTATG
1 AAAAGGGATAGCT--TCGGCTATCGATTATG
* * ** * * *
41355197 AAAAGGGAT-GGTGACAACCATCAAATATG
1 AAAAGGGATAGCT-TCGGCTATCGATTATG
*
41355226 AAAAGGGATAGCTTCGGCCATCGATTATG
1 AAAAGGGATAGCTTCGGCTATCGATTATG
* *
41355255 AAAATGGATAGCTTCAGCTATCGATTATG
1 AAAAGGGATAGCTTCGGCTATCGATTATG
** * *
41355284 AAACTGGATAGCTTCAGCTATCGATTATA
1 AAAAGGGATAGCTTCGGCTATCGATTATG
41355313 AAAAGGGAT
1 AAAAGGGAT
41355322 GGTGACAACC
Statistics
Matches: 199, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.01
29 194 0.97
30 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGGCTATCGATTATG
Found at i:41355247 original size:58 final size:58
Alignment explanation
Indices: 41355193--41355408 Score: 186
Period size: 58 Copynumber: 3.7 Consensus size: 58
41355183 GACCATCAAC
*
41355193 TATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGATAGCTTCGGCCATCGAT
1 TATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGATAGCTTCAGCCATCGAT
* * * * * * * ** *
41355251 TATGAAAATGGATAGCT-TCAGCTATCGATTATGAAACTGGATAGCTTCAGCTATCGAT
1 TATGAAAAGGGAT-GGTGACAACCATCAAATATGAAAAGGGATAGCTTCAGCCATCGAT
* * * * *
41355309 TATAAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGAT-G-GTGACGACCATTGAT
1 TATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGATAGCTTCA-G-CCATCGAT
* ** * *
41355367 TAATGAAAAGTGATGGTTTCAACGATCGAATATGAAAAGGGA
1 T-ATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGA
41355409 CGGTTACGAC
Statistics
Matches: 121, Mismatches: 32, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
56 2 0.02
57 4 0.03
58 80 0.66
59 35 0.29
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGGGATAGCTTCAGCCATCGAT
Found at i:41355256 original size:116 final size:116
Alignment explanation
Indices: 41355104--41355350 Score: 300
Period size: 116 Copynumber: 2.1 Consensus size: 116
41355094 TTGGCTATTG
* * * * * *
41355104 AATATGAAAAGAGATAGCTTTGGCTATTGAATATGAACAGGGACAGCTTCGGCTATCGATTATGA
1 AATATGAAAAGGGATAGCTTCGGCCATCGAATATGAAAAGGGACAGCTTCAGCTATCGATTATGA
* * *
41355169 AAAGGGAT-G-GTGATGACCATCAACTATGAAAAGGGATGGTGACAACCATCA
66 AAAGGGATAGCTTCA-G-CCATCAACTATAAAAAGGGATGGTGACAACCATCA
* * *
41355220 AATATGAAAAGGGATAGCTTCGGCCATCGATTATGAAAATGGATAGCTTCAGCTATCGATTATGA
1 AATATGAAAAGGGATAGCTTCGGCCATCGAATATGAAAAGGGACAGCTTCAGCTATCGATTATGA
** * * *
41355285 AACTGGATAGCTTCAGCTATCGATTATAAAAAGGGATGGTGACAACCATCA
66 AAAGGGATAGCTTCAGCCATCAACTATAAAAAGGGATGGTGACAACCATCA
*
41355336 ACTATGAAAAGGGAT
1 AATATGAAAAGGGAT
41355351 GGTGACGACC
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
116 107 0.96
117 2 0.02
118 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (116 bp):
AATATGAAAAGGGATAGCTTCGGCCATCGAATATGAAAAGGGACAGCTTCAGCTATCGATTATGA
AAAGGGATAGCTTCAGCCATCAACTATAAAAAGGGATGGTGACAACCATCA
Found at i:41355423 original size:29 final size:29
Alignment explanation
Indices: 41355158--41355408 Score: 143
Period size: 29 Copynumber: 8.6 Consensus size: 29
41355148 AGCTTCGGCT
* **
41355158 ATCGATTATGAAAAGGGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTGACAACC
41355187 ATC-AACTATGAAAAGGGATGGTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTGACAACC
* * * **
41355216 ATCAAATATGAAAAGGGATAGCT-TCGGCC
1 ATCGAATATGAAAAGGGAT-GGTGACAACC
* * * * * *
41355245 ATCGATTATGAAAATGGATAGCT-TCAGCT
1 ATCGAATATGAAAAGGGAT-GGTGACAACC
* ** * * * *
41355274 ATCGATTATGAAACTGGATAGCT-TCAGCT
1 ATCGAATATGAAAAGGGAT-GGTGACAACC
* *
41355303 ATCGATTATAAAAAGGGATGGTGACAACC
1 ATCGAATATGAAAAGGGATGGTGACAACC
*
41355332 ATC-AACTATGAAAAGGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACAACC
* * * ** *
41355361 ATTGATTAATGAAAAGTGATGGTTTCAACG
1 ATCGAAT-ATGAAAAGGGATGGTGACAACC
41355391 ATCGAATATGAAAAGGGA
1 ATCGAATATGAAAAGGGA
41355409 CGGTTACGAC
Statistics
Matches: 182, Mismatches: 33, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
28 4 0.02
29 151 0.83
30 27 0.15
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACAACC
Found at i:41358222 original size:28 final size:28
Alignment explanation
Indices: 41358157--41358307 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
41358147 GAGATTGGCG
* * * *
41358157 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
41358186 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41358214 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41358242 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41358270 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41358297 CTGAGTGTGCG
1 CTAAGTGTGCG
41358308 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41366387 original size:28 final size:28
Alignment explanation
Indices: 41366322--41366471 Score: 212
Period size: 28 Copynumber: 5.4 Consensus size: 28
41366312 GAGACTGGCG
* * * *
41366322 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
41366351 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41366379 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41366407 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41366435 CTAACTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41366462 CTGAGTGTGC
1 CTAAGTGTGC
41366472 AGACTTAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.20
28 75 0.67
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41366483 original size:27 final size:27
Alignment explanation
Indices: 41366347--41366485 Score: 100
Period size: 28 Copynumber: 5.0 Consensus size: 27
41366337 TAAATTGTAC
* * * *
41366347 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAACTGTGCGA-CTTGAATATAT
* * * *
41366375 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAACTGTGCGA-CTTGAATATAT
* * *
41366403 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAACTGTGCGA-CTTGAATATAT
* *
41366431 AGCACTAACTGTGCGAGTTGATTATAT
1 AGCACTAACTGTGCGACTTGAATATAT
* *
41366458 AGCACTGAGTGTGCAGACTT-AATATAT
1 AGCACTAACTGTGC-GACTTGAATATAT
41366485 A
1 A
41366486 CTTTTGAATC
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
27 29 0.28
28 74 0.72
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAACTGTGCGACTTGAATATAT
Found at i:41371461 original size:28 final size:29
Alignment explanation
Indices: 41371361--41371474 Score: 110
Period size: 28 Copynumber: 4.0 Consensus size: 29
41371351 TACATACATG
* *
41371361 CATATAGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* *
41371389 CAAATGGCCGATCT-GGCCCAATTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
*
41371418 CTTATGGCCCACTAGGCCCAATTCACT-TT
1 CATATGGCCCACTAGGCCCAATTCA-TATT
* * *
41371447 -ATATGGCCTATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
41371475 ATACTCATAC
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.01
28 39 0.56
29 29 0.41
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:41371464 original size:57 final size:57
Alignment explanation
Indices: 41371367--41371474 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
41371357 CATGCATATA
* *
41371367 GCCCACTAGGCCCAATCTTATTCAAATGGCCGATCTGGCCCAATTCATATTCTTATG
1 GCCCACTAGGCCCAATCTCATTCAAATGGCCGATCTGGCCCAAATCATATTCTTATG
* * *
41371424 GCCCACTAGGCCCAAT-TCACTTTATATGGCCTAT-TAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA-TTCAAATGGCCGATCT-GGCCCAAATCATATT
41371475 ATACTCATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
56 3 0.07
57 41 0.93
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATGGCCGATCTGGCCCAAATCATATTCTTATG
Found at i:41371570 original size:18 final size:19
Alignment explanation
Indices: 41371547--41371592 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
41371537 TAGGCCCAAC
*
41371547 AGCCCA-TCAGTCCCATTT
1 AGCCCATTCAGGCCCATTT
*
41371565 AGCCCATTCTGGCCCATTT
1 AGCCCATTCAGGCCCATTT
*
41371584 AGCCAATTC
1 AGCCCATTC
41371593 TCAACCCAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.22, C:0.37, G:0.13, T:0.28
Consensus pattern (19 bp):
AGCCCATTCAGGCCCATTT
Found at i:41371733 original size:8 final size:8
Alignment explanation
Indices: 41371690--41371736 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
41371680 GTAGCCCAAC
41371690 TTTCGGCT
1 TTTCGGCT
*
41371698 TTTTGGCAT
1 TTTCGGC-T
41371707 TTT-GGCT
1 TTTCGGCT
*
41371714 TTTCAGCT
1 TTTCGGCT
*
41371722 TTTCGGCA
1 TTTCGGCT
41371730 TTTCGGC
1 TTTCGGC
41371737 CTTTGTCGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.06, C:0.21, G:0.23, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:41375974 original size:29 final size:29
Alignment explanation
Indices: 41375883--41375974 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
41375873 TATAGCCTAC
** *
41375883 TAGGCCCAA-TCTTATTCAAATGGCCCAT
1 TAGGCCCAATTCACATTCATATGGCCCAT
* * * * *
41375911 CTA-GCCCATTTCATATTCTTATGACCCAC
1 -TAGGCCCAATTCACATTCATATGGCCCAT
* *
41375940 TGGGCCCAATTCACCTTCATATGGCCCAT
1 TAGGCCCAATTCACATTCATATGGCCCAT
41375969 TAGGCC
1 TAGGCC
41375975 ATAATCATAT
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
28 6 0.13
29 41 0.87
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (29 bp):
TAGGCCCAATTCACATTCATATGGCCCAT
Found at i:41377655 original size:23 final size:25
Alignment explanation
Indices: 41377636--41377706 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 25
41377626 TCTTGTACAT
*
41377636 GTATGCTCATACGAGCTGTAAATTG
1 GTATGCTCACACGAGCTGTAAATTG
* * *
41377661 GTATGCTCACACGAACTATGAAAATAG
1 GTATGCTCACACGAGC--TGTAAATTG
**
41377688 GCCTGCTCACACGAGCTGT
1 GTATGCTCACACGAGCTGT
41377707 GGGTCAGAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 16 0.44
27 20 0.56
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATTG
Found at i:41381911 original size:40 final size:38
Alignment explanation
Indices: 41381866--41381948 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
41381856 ATATCTGAGC
* *
41381866 AGCTATGCTGCAACTGTGGAGTGTAGGGATGGGTGGGTTG
1 AGCTATGC-CCAACT-TGGAGTGTAGGGATAGGTGGGTTG
* * *
41381906 AGCTATTCCCCACTTGGAGTGTAGGGCTAGGTGGGTTG
1 AGCTATGCCCAACTTGGAGTGTAGGGATAGGTGGGTTG
41381944 AGCTA
1 AGCTA
41381949 CCTGAATGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 27 0.71
39 4 0.11
40 7 0.18
ACGTcount: A:0.18, C:0.14, G:0.40, T:0.28
Consensus pattern (38 bp):
AGCTATGCCCAACTTGGAGTGTAGGGATAGGTGGGTTG
Found at i:41388319 original size:43 final size:42
Alignment explanation
Indices: 41388253--41388367 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
41388243 AGCATATGCA
* * * *
41388253 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAACCAAACA-CG
* * * ***
41388296 ATGCCATTGTCCCAGACAAGGTCTTACACGAAACCAGGTACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAACCAAACACG
41388338 ATGCCAATGTCCCAGACATGGTCTTACATG
1 ATGCCAATGTCCCAGACATGGTCTTACATG
41388368 CAAAACAGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAACCAAACACG
Found at i:41389306 original size:26 final size:26
Alignment explanation
Indices: 41389268--41389318 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
41389258 ATGATGATTT
* * *
41389268 TTAATTTGGTTTTAACTAATATAACA
1 TTAATATGCTTTTAACCAATATAACA
*
41389294 TTAATATGCTTTTTACCAATATAAC
1 TTAATATGCTTTTAACCAATATAAC
41389319 CTTATTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (26 bp):
TTAATATGCTTTTAACCAATATAACA
Found at i:41396794 original size:43 final size:42
Alignment explanation
Indices: 41396746--41396852 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
41396736 CAATGCGAAC
* *
41396746 GTCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAACA-CGATGCCAAT
* ** * *
41396789 GTCCCAGACAGGGTCTTACACAAAATCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTACATGAAATCAAACACGATGCCAAT
41396831 GTCCCAGACATGGTCTTACATG
1 GTCCCAGACATGGTCTTACATG
41396853 CAAAACAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGAAATCAAACACGATGCCAAT
Found at i:41398593 original size:48 final size:46
Alignment explanation
Indices: 41398518--41398688 Score: 200
Period size: 48 Copynumber: 3.6 Consensus size: 46
41398508 GTAAATTGCT
*
41398518 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATAATAT-GCC
* * * *
41398566 GATGCCATGTCCCAGACATGGTTTTACACTAGCATACAT-ATCAATGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATAAT--ATGCC
* *
41398614 GATGCCATGTCCAAGACATGGTCTTACACTGGCTTTCATAATGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATAATAT-GCC
*
41398662 GATGCTATGTCCCAGACATGGTCTTAC
1 GATGCCATGTCCCAGACATGGTCTTAC
41398689 GCTAGCACAC
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 3 0.03
48 96 0.92
49 5 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATATGCC
Found at i:41398682 original size:96 final size:96
Alignment explanation
Indices: 41398518--41398704 Score: 302
Period size: 96 Copynumber: 1.9 Consensus size: 96
41398508 GTAAATTGCT
* *
41398518 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATATAGCCGATGCCATGTCCCAGAC
* *
41398583 ATGGTTTTACACTAGCATACATATCAATGAC
66 ATGGTCTTACACTAGCACACATATCAATGAC
* * *
41398614 GATGCCATGTCCAAGACATGGTCTTACACTGGCTTTCATAATGTAGCCGATGCTATGTCCCAGAC
1 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATATAGCCGATGCCATGTCCCAGAC
*
41398679 ATGGTCTTACGCTAGCACACATATCA
66 ATGGTCTTACACTAGCACACATATCA
41398705 CCCAAATGTC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATATAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATCAATGAC
Found at i:41404949 original size:47 final size:48
Alignment explanation
Indices: 41404857--41405039 Score: 217
Period size: 48 Copynumber: 3.8 Consensus size: 48
41404847 GGTGAATTGT
* *
41404857 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGC
* *
41404905 CGATGCCATGTCCCAGACATGG-CTTACACTGGCTCTCGTAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGC
* * * * ****
41404952 TGATGCCATGTCCCACACATGGTCTTACACTAGCACACAT-ATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGC
* *
41405000 CGATGCCATGTCCCAGACATGGTCTCACACTCGCTCTCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
41405040 TGTAACAGTC
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 44 0.39
48 69 0.61
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGC
Found at i:41406130 original size:41 final size:43
Alignment explanation
Indices: 41406085--41406183 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 43
41406075 GCAATTTAAA
* *
41406085 CTAGCTTCGACT-ATAT-GA-GGCAGTAAGTGTAG-GGAATTGTT
1 CTAGCTTCGACTAAT-TGGATGGCACTAAGTGT-GCGGAATTATT
*
41406126 CTAGCTTCGGCTAATTGGGATGGCACTAAGTGTGCGGAATTATT
1 CTAGCTTCGACTAATT-GGATGGCACTAAGTGTGCGGAATTATT
*
41406170 CTAGCTTCGGCTAA
1 CTAGCTTCGACTAA
41406184 CTGTTTCAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
41 12 0.24
42 2 0.04
43 3 0.06
44 33 0.66
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
CTAGCTTCGACTAATTGGATGGCACTAAGTGTGCGGAATTATT
Found at i:41413256 original size:46 final size:46
Alignment explanation
Indices: 41413206--41413379 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
41413196 TGGTTGAGAA
41413206 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
41413252 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41413296 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41413344 -CCCAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41413380 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 40 0.38
46 42 0.40
47 7 0.07
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41420692 original size:46 final size:45
Alignment explanation
Indices: 41420642--41420764 Score: 196
Period size: 46 Copynumber: 2.8 Consensus size: 45
41420632 TGGTTGAGCA
*
41420642 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAACG
41420688 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAACG
* *
41420733 CCCG-A-GCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41420765 GGGCGGGTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
43 26 0.35
44 1 0.01
45 12 0.16
46 35 0.47
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAACG
Found at i:41423095 original size:46 final size:47
Alignment explanation
Indices: 41423020--41423167 Score: 145
Period size: 47 Copynumber: 3.1 Consensus size: 47
41423010 AGCACATAGT
* * * ** * *
41423020 CACATACTACACACCGAAGCCATAGCCCAGCCATGGTCTTACA-CGGAT
1 CACATA-T-CACACTGATGCCATATCCCAGATATGGTCTTACATAGGAG
* * *
41423068 CACATATCGCACTGATGCCATATCCCAGATATGGTCTTATATAGTAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTACATAGGAG
* * * *
41423115 CACATATCACATTGATGCCATATCCTAGATATGGTCTTATATAGAAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTACATAGGAG
41423162 CACATA
1 CACATA
41423168 ATTACATCTC
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 27 0.32
47 52 0.61
48 6 0.07
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATATCACACTGATGCCATATCCCAGATATGGTCTTACATAGGAG
Found at i:41423135 original size:47 final size:47
Alignment explanation
Indices: 41423068--41423167 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
41423058 TTACACGGAT
* *
41423068 CACATATCGCACTGATGCCATATCCCAGATATGGTCTTATATAGTAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGAAG
* *
41423115 CACATATCACATTGATGCCATATCCTAGATATGGTCTTATATAGAAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGAAG
41423162 CACATA
1 CACATA
41423168 ATTACATCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (47 bp):
CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGAAG
Found at i:41423252 original size:54 final size:54
Alignment explanation
Indices: 41423144--41423335 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
41423134 ATATCCTAGA
* * * * * * * * *
41423144 TATGGTCTTATA-TAGAAGCACATAATTACATCTCTCCGATGCCATAGCCAAGC
1 TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
*
41423197 TATGGTATTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
1 TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
* * * *
41423251 TACGATCTTATACGGAAATCACATGATCACATCACATCGATGCC-CTAGCCCAGC
1 TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCAC-AGCCCAGC
41423305 TATGGTCTTATACGAAAATCACAT-ATCACAT
1 TATGGTCTTATACGAAAATCACATGATCACAT
41423336 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 19 0.16
54 100 0.84
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (54 bp):
TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
Found at i:41424125 original size:105 final size:105
Alignment explanation
Indices: 41423943--41424154 Score: 406
Period size: 105 Copynumber: 2.0 Consensus size: 105
41423933 ATAAAATAAG
*
41423943 AACTTCAATTCCATAATAATTCACCATAATAATATAGCATGTATTCATGGTAACTTTTAAAGTCA
1 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
*
41424008 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
66 CCCATAAAATCAAAAACTAATGAATTAGATAGTTGGACCT
41424048 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
1 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
41424113 CCCATAAAATCAAAAACTAATGAATTAGATAGTTGGACCT
66 CCCATAAAATCAAAAACTAATGAATTAGATAGTTGGACCT
41424153 AA
1 AA
41424155 TTGTAAAAGT
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (105 bp):
AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
CCCATAAAATCAAAAACTAATGAATTAGATAGTTGGACCT
Found at i:41430390 original size:29 final size:29
Alignment explanation
Indices: 41430355--41430428 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
41430345 GTTGTGAGAT
* *
41430355 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
41430384 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
41430413 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41430429 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:41433105 original size:45 final size:45
Alignment explanation
Indices: 41433047--41433176 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
41433037 CGATATCATT
*
41433047 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
41433092 TCATCGGCATTATAGCCTGCTAGGTTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
41433137 TCACCAGCATCACAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
41433177 ATACCTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:41435088 original size:13 final size:13
Alignment explanation
Indices: 41435070--41435095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41435060 TAGATTTCAG
41435070 CAAATGAAAGAAA
1 CAAATGAAAGAAA
41435083 CAAATGAAAGAAA
1 CAAATGAAAGAAA
41435096 GAATGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (13 bp):
CAAATGAAAGAAA
Found at i:41436803 original size:29 final size:29
Alignment explanation
Indices: 41436770--41436832 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
41436760 GTCTAGGCCC
41436770 TGTGAGGGACACGGGCATGTGCTCCGCCG
1 TGTGAGGGACACGGGCATGTGCTCCGCCG
* *
41436799 TGTGAGGGACACGGGCGTGTGCTCGGCCG
1 TGTGAGGGACACGGGCATGTGCTCCGCCG
41436828 TGTGA
1 TGTGA
41436833 AATCCCTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.44, T:0.19
Consensus pattern (29 bp):
TGTGAGGGACACGGGCATGTGCTCCGCCG
Found at i:41437229 original size:48 final size:48
Alignment explanation
Indices: 41437169--41437351 Score: 217
Period size: 48 Copynumber: 3.8 Consensus size: 48
41437159 AGTAAATTGC
* * * *** *
41437169 CGATGCCTTGTCCCAGACATGGTCTTACAC-AGGCTCTCAGAAT-GTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTA-GCACACA-AATCAACGA
*
41437217 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
* * *
41437265 CGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
* *
41437313 CGATGCCATGTCCCAGATATGGTCTTACAGTAGCACACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
41437352 TCACCCAAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 2 0.02
48 117 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
Found at i:41437352 original size:48 final size:48
Alignment explanation
Indices: 41437217--41437352 Score: 236
Period size: 48 Copynumber: 2.8 Consensus size: 48
41437207 AGAATGTGGT
41437217 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
* *
41437265 CGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
* *
41437313 CGATGCCATGTCCCAGATATGGTCTTACAGTAGCACACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
41437353 CACCCAAATG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
Found at i:41438687 original size:20 final size:20
Alignment explanation
Indices: 41438642--41438687 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
41438632 GAGTACACAA
***
41438642 GCGTGTCCCAAGCCATGCGG
1 GCGTGTCCCAAGCCACAAGG
*
41438662 GTGTGTCCCAAGCCACAAGG
1 GCGTGTCCCAAGCCACAAGG
41438682 GCGTGT
1 GCGTGT
41438688 GTATGACCAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (20 bp):
GCGTGTCCCAAGCCACAAGG
Found at i:41446458 original size:29 final size:29
Alignment explanation
Indices: 41446426--41446483 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
41446416 TACATGTTTG
*
41446426 GACAATGTGAAATTATTAATAATTGACTA
1 GACAATGTGAAATTAGTAATAATTGACTA
41446455 GACAATGTGAAATTAGTAATAATTGACTA
1 GACAATGTGAAATTAGTAATAATTGACTA
41446484 TTTGTGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (29 bp):
GACAATGTGAAATTAGTAATAATTGACTA
Found at i:41450127 original size:27 final size:26
Alignment explanation
Indices: 41450097--41450252 Score: 114
Period size: 27 Copynumber: 5.8 Consensus size: 26
41450087 ATTACCAAAG
* *
41450097 TACCCTCGATTTCCATAATTATCGTTT
1 TACCCTCGATTTACATAATTA-CCTTT
*
41450124 TACCCCCGATTTACATAATTACCTTT
1 TACCCTCGATTTACATAATTACCTTT
* *
41450150 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACATAATTACC-TTT
** * * * *
41450177 TAAACTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACATAATTAC-CTTT
* * * * *
41450204 TACCATTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACATAATTAC-CTTT
* *
41450231 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACATAATTAC
41450253 TAAAATACCC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.22
27 87 0.78
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (26 bp):
TACCCTCGATTTACATAATTACCTTT
Found at i:41450170 original size:53 final size:53
Alignment explanation
Indices: 41450097--41450254 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 53
41450087 ATTACCAAAG
** * ** * *
41450097 TACCCTCGATTTCCATAATTATCGTTTTACCCCCGATTTACATAATTAC-CTTT
1 TACCCTCGATTTATAGAATTA-CGTTTTACCCTTGATTTACAAAATTACTATTT
** * *
41450150 TACCCTCGATTTATAGAATTACCGTTTTAAACTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTA-CGTTTTACCCTTGATTTACAAAATTACTATTT
* * *
41450204 TACCATTGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTAC-GTTTTACCCTTGATTTACAAAATTACTA
41450255 AAATACCCTT
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
53 40 0.47
54 45 0.53
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (53 bp):
TACCCTCGATTTATAGAATTACGTTTTACCCTTGATTTACAAAATTACTATTT
Found at i:41450253 original size:27 final size:27
Alignment explanation
Indices: 41450121--41450279 Score: 140
Period size: 27 Copynumber: 5.9 Consensus size: 27
41450111 ATAATTATCG
** * *
41450121 TTTTACCCCCGATTTACATAATTAC-C
1 TTTTACCCTTGATTTACAGAATTACTA
* * **
41450147 TTTTACCCTCGATTTATAGAATTACCG
1 TTTTACCCTTGATTTACAGAATTACTA
** *
41450174 TTTTAAACTTGATTTATAGAATTACTA
1 TTTTACCCTTGATTTACAGAATTACTA
* *
41450201 TTTTACCATTGATTTATAGAATTACTA
1 TTTTACCCTTGATTTACAGAATTACTA
*
41450228 TTTTACCCTTGATTTACAAAATTACTA
1 TTTTACCCTTGATTTACAGAATTACTA
*** * *
41450255 AAATACCCTTGGTTTACAAAATTAC
1 TTTTACCCTTGATTTACAGAATTAC
41450280 CAAAATACCC
Statistics
Matches: 113, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 22 0.19
27 91 0.81
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (27 bp):
TTTTACCCTTGATTTACAGAATTACTA
Found at i:41450284 original size:27 final size:27
Alignment explanation
Indices: 41450231--41450563 Score: 224
Period size: 27 Copynumber: 12.3 Consensus size: 27
41450221 ATTACTATTT
* ** *
41450231 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
**
41450258 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * ** *
41450285 TACCCTCGATCAGTAAATTTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * *
41450312 TA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
*
41450338 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * *
41450365 TACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
41450392 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTGTAAAATTACCAAAA
***
41450419 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * ** *
41450446 TACCCCTGATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTGTAAAATTACCA-AAA
* * * *
41450473 TACACTTGACTTTCTAAAAGTTA-TAGAAA
1 TACCCTTG-GTTTGTAAAA-TTACCA-AAA
* * ** **
41450502 TATCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
41450529 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
*
41450556 CACCCTTG
1 TACCCTTG
41450564 TAGGGTGAAA
Statistics
Matches: 242, Mismatches: 57, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
26 22 0.09
27 190 0.79
28 16 0.07
29 14 0.06
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTGTAAAATTACCAAAA
Found at i:41450367 original size:80 final size:81
Alignment explanation
Indices: 41450245--41450451 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 81
41450235 CTTGATTTAC
* ** *
41450245 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAATTTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
*
41450309 AAATACC-TTGGTCTGT
65 AAATACCACTGGTCTGT
* * ** *
41450325 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
41450390 AATACCACTGGTTTGT
66 AATACCACTGGTCTGT
* ** **
41450406 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCC
41450452 TGATTTACAA
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.02
80 63 0.59
81 42 0.39
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:41450658 original size:27 final size:27
Alignment explanation
Indices: 41450581--41450658 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
41450571 AAATGACTAA
* *
41450581 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
41450608 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
41450635 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
41450659 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:41451489 original size:25 final size:24
Alignment explanation
Indices: 41451451--41451557 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
41451441 AGGAAGTGCT
* *
41451451 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
41451476 AAAAGGGCTTTGCCCCAATTTATTG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
41451501 AAAAGGGCTTTGCCCCAGTTTATA
1 AAAAGGGCTTTGCCCCAGTTTATG
* *
41451525 AAAAGGGCTTTGCCACAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
41451548 AAAAGAGGCT
1 AAAAG-GGCT
41451558 AGGCCTCTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
23 9 0.12
24 22 0.30
25 42 0.58
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:41451533 original size:24 final size:25
Alignment explanation
Indices: 41451451--41451544 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
41451441 AGGAAGTGCT
* *
41451451 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
* *
41451476 AAAAGGGCTTTGCCCCAATTTATTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
41451501 AAAAGGGCTTTGCCCCAGTTTA-TA
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
41451525 AAAAGGGCTTTGCCACAGTT
1 AAAAGGGCTTTGCCCCAGTT
41451545 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 20 0.32
25 42 0.68
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:41454126 original size:27 final size:27
Alignment explanation
Indices: 41454096--41454156 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
41454086 CGACTTGTAA
* *
41454096 AATTACCAAAGTACCCTCGATTTCCAT
1 AATTACCAAAGTACCCCCGATTTACAT
****
41454123 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
41454150 AATTACC
1 AATTACC
41454157 TTTTACCCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:41454195 original size:27 final size:27
Alignment explanation
Indices: 41454107--41454262 Score: 179
Period size: 27 Copynumber: 5.8 Consensus size: 27
41454097 ATTACCAAAG
* * *
41454107 TACCCTCGATTTCCATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
41454134 TACCCCCGATTTACATAATTACC-TTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
41454160 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
41454187 TACACTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
41454214 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
41454241 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
41454263 TAAAACACCC
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 23 0.20
27 93 0.80
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:41454197 original size:80 final size:81
Alignment explanation
Indices: 41454111--41454262 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 81
41454101 CCAAAGTACC
* * * * * *
41454111 CTCGATTTCCATAATTACCGTTTTACCCCCGATTTACATAATTAC-CTTTTACCCTCGATTTATA
1 CTCGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACTATTTTACCCTCGATTTACA
*
41454175 GAATTACCGTTTTACA
66 AAATTACCGTTTTACA
* * ** *
41454191 CTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTTGATTTACA
1 CTCGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACTATTTTACCCTCGATTTACA
41454256 AAATTAC
66 AAATTAC
41454263 TAAAACACCC
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
80 37 0.63
81 22 0.37
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (81 bp):
CTCGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACTATTTTACCCTCGATTTACA
AAATTACCGTTTTACA
Found at i:41454272 original size:27 final size:27
Alignment explanation
Indices: 41454214--41454546 Score: 167
Period size: 27 Copynumber: 12.3 Consensus size: 27
41454204 ATTACTATTT
* ***
41454214 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
41454241 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
41454268 CACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * * *
41454295 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-CAAAATTACTAAAA
* * ** * * *
41454322 TA-CCTTGGTCTGTAAAAGTGCAAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * ** *
41454348 TACCCCTGTTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* **
41454375 TACCCCT-AGTTTGTAAAATTACTAAAA
1 TACCCTTGA-TTTACAAAATTACTAAAA
* *** **
41454402 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACTAAAA
** ** *
41454429 TACCCTCAATTTGTAAAATTACGAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
*
41454456 TACCCCTGATTTACAAAATTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
*
41454483 TACACTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * *
41454512 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
41454539 TACCCTTG
1 TACCCTTG
41454547 GTTTGTAGAT
Statistics
Matches: 242, Mismatches: 50, Indels: 28
0.76 0.16 0.09
Matches are distributed among these distances:
26 22 0.09
27 193 0.80
28 8 0.03
29 19 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:41454273 original size:54 final size:54
Alignment explanation
Indices: 41454161--41454291 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
41454151 ATTACCTTTT
* * * * * ****
41454161 ACCCTCGATTTATAGAATTACCGTTTTACACTCGATTTATAGAATTACTATTTT
1 ACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACTAAAAC
* * *
41454215 ACCCTTGATTTACAGAATTACTATTTTACCCTTGATTTACAAAATTACTAAAAC
1 ACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACTAAAAC
* *
41454269 ACCCTTGGTTTACAAAATTACCA
1 ACCCTTGATTTACAGAATTACCA
41454292 AAATACCCTC
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (54 bp):
ACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACTAAAAC
Found at i:41454299 original size:54 final size:54
Alignment explanation
Indices: 41454241--41454573 Score: 226
Period size: 54 Copynumber: 6.1 Consensus size: 54
41454231 ATTACTATTT
* * **
41454241 TACCCTTGATTTACAAAATTACTAAAACACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * * * *
41454295 TACCCTCGA-TCAGTAAAATTACCAAAATA-CCTTGGTCTGTAAAAGTGCAAAAA
1 TACCCTTGATTTA-CAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * ** * * *
41454348 TACCCCTGTTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* *** * *** *
41454402 TACCACTAG-TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACGAAAA
1 TACC-CTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * *
41454456 TACCCCTGATTTACAAAATTA-CAGAAATACACTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAATACCCTTG-GTTTGT-AAAATTACCA-AAA
* * ** * *
41454512 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
41454566 CACCCTTG
1 TACCCTTG
41454574 TAGGGTGAAA
Statistics
Matches: 213, Mismatches: 55, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
53 45 0.21
54 118 0.55
55 12 0.06
56 38 0.18
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:41455494 original size:25 final size:25
Alignment explanation
Indices: 41455456--41455549 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
41455446 AGGAAGTGCT
* * *
41455456 AAAAGGGCTATGCCCGAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
* *
41455481 AAAAGGGCTTTGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATCG
41455506 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTATCG
41455530 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
41455550 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 20 0.32
25 43 0.68
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:41455538 original size:24 final size:24
Alignment explanation
Indices: 41455456--41455562 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
41455446 AGGAAGTGCT
* * *
41455456 AAAAGGGCTATGCCCGAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* *
41455480 GAAAAGGGCTTTGCCCTAGTTTATTG
1 -AAAAGGGCTTTGCCCCAGTTTA-TC
41455506 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
41455530 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
41455553 AAAAGAGGCT
1 AAAAG-GGCT
41455563 AGGCCTCCAG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.12
24 23 0.32
25 41 0.56
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:41458092 original size:27 final size:27
Alignment explanation
Indices: 41458062--41458122 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
41458052 CGATTTGTAA
*
41458062 AATTACCAAAGTACCCCCGATTTCCAT
1 AATTACCAAAGTACCCCCGATTTACAT
**** *
41458089 AATTACCGTTTTACCCCTGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
41458116 AATTACC
1 AATTACC
41458123 TTTTACCCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:41458147 original size:53 final size:54
Alignment explanation
Indices: 41458073--41458230 Score: 167
Period size: 53 Copynumber: 2.9 Consensus size: 54
41458063 ATTACCAAAG
* * * * *
41458073 TACCCCCGATTTCCATAATTACCGTTTTACCCCTGATTTACATAATTAC-CTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCTGATTTACAAAATTACTATTT
* ** * *
41458126 TACCCTCGATTTATAGAATTACCGTTTTACCTTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCTGATTTACAAAATTACTATTT
* * **
41458180 TATCCTTGATTTACAGAATTACTATTTTA-CCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCT-GATTTACAAAATTACTA
41458231 AAATACCCTT
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
53 43 0.51
54 42 0.49
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCCTGATTTACAAAATTACTATTT
Found at i:41458163 original size:27 final size:27
Alignment explanation
Indices: 41458080--41458257 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
41458070 AAGTACCCCC
* * * *
41458080 GATTTCCATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCATTTTACCCTT
* *
41458107 GATTTACATAATTACC-TTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTT
* * *
41458133 GATTTATAGAATTACCGTTTTACCTTT
1 GATTTACAGAATTACCATTTTACCCTT
* * *
41458160 GATTTATAGAATTACTATTTTATCCTT
1 GATTTACAGAATTACCATTTTACCCTT
* *
41458187 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTT
* * ***
41458214 GATTTACAAAATTACTAAAATACCCTT
1 GATTTACAGAATTACCATTTTACCCTT
* *
41458241 GGTTTACAAAATTACCA
1 GATTTACAGAATTACCA
41458258 AAATACCCTC
Statistics
Matches: 129, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 22 0.17
27 107 0.83
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (27 bp):
GATTTACAGAATTACCATTTTACCCTT
Found at i:41458260 original size:27 final size:27
Alignment explanation
Indices: 41458221--41458539 Score: 223
Period size: 27 Copynumber: 11.8 Consensus size: 27
41458211 CTCGATTTAC
* **
41458221 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
41458248 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
41458275 AAAATTACCAAAATA-CCTTGGTCTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
41458301 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
41458328 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
41458355 AAAATTACTAAAATACCAC-TAGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTGT
* * ***
41458382 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
41458409 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
** * *
41458436 AAAATTA-CAGAAATACATTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
* * **
41458464 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
** *
41458492 AAAATTACTGAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
41458519 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
41458540 TAGGGTGAAA
Statistics
Matches: 234, Mismatches: 51, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
26 24 0.10
27 184 0.79
28 8 0.03
29 18 0.08
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:41458318 original size:80 final size:80
Alignment explanation
Indices: 41458221--41458371 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 80
41458211 CTCGATTTAC
*
41458221 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
41458285 AAATACCTTGGTCTGT
65 AAATACCTTGGTCTGT
* ** * ** *
41458301 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
41458366 AATACC
66 AATACC
41458372 ACTAGTTTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 2 0.03
80 60 0.97
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCTTGGTCTGT
Found at i:41458603 original size:27 final size:27
Alignment explanation
Indices: 41458565--41458629 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
41458555 AACCTTATTA
*
41458565 GGTAAAAAGATCGTAA-AGCCCCTGTAG
1 GGTAAAATGATCGTAATA-CCCCTGTAG
* *
41458592 GGTAAAGTGATCGTAATACCCCTGTAT
1 GGTAAAATGATCGTAATACCCCTGTAG
41458619 GGTAAAATGAT
1 GGTAAAATGAT
41458630 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
GGTAAAATGATCGTAATACCCCTGTAG
Found at i:41459523 original size:24 final size:24
Alignment explanation
Indices: 41459418--41459523 Score: 133
Period size: 24 Copynumber: 4.4 Consensus size: 24
41459408 GAGGAAGTGC
* * *
41459418 TAAAAGGGCTATGCCCGAGTTTAC
1 TAAAAGGGCTTTGCCCCAGTTTAT
* *
41459442 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
41459466 TGAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
41459490 CAAAAGGGCTTTGCCCCAG-TTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
41459513 TAAAAGAGGCT
1 TAAAAG-GGCT
41459524 AGGCCTCCAG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
23 9 0.13
24 62 0.87
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:41461709 original size:27 final size:27
Alignment explanation
Indices: 41461663--41461739 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
41461653 ATTATTGAAA
41461663 TACCCTCGACTTGTA-A-AATTACCAAAG
1 TACCCTCGA-TT-TACATAATTACCAAAG
****
41461690 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACATAATTACCAAAG
* *
41461717 TACCCCCGATTTACATATTTACC
1 TACCCTCGATTTACATAATTACC
41461740 TTTTACTCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
25 2 0.05
26 3 0.07
27 37 0.88
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACATAATTACCAAAG
Found at i:41461777 original size:27 final size:27
Alignment explanation
Indices: 41461690--41461833 Score: 146
Period size: 27 Copynumber: 5.4 Consensus size: 27
41461680 ATTACCAAAG
* * *
41461690 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * * * *
41461717 TACCCCCGATTTACATATTTAC-CTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
41461743 TACTCTCGATTTATAGAATTGCTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
41461770 TACCCTCGATTTATAGAATTAATATTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
41461797 TACCCTTGATTTGTAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
41461824 TTCCCTCGAT
1 TACCCTCGAT
41461834 ATACAAAATT
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 19 0.20
27 77 0.80
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:41461953 original size:22 final size:22
Alignment explanation
Indices: 41461910--41461953 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41461900 CAAAATACCC
*
41461910 TGGTCTGTAAAATTGCTAAAAT
1 TGGTCTGTAAAATTACTAAAAT
* *
41461932 TGGTTTGTAAAATTACTGAAAT
1 TGGTCTGTAAAATTACTAAAAT
41461954 ACCACTGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (22 bp):
TGGTCTGTAAAATTACTAAAAT
Found at i:41461971 original size:27 final size:27
Alignment explanation
Indices: 41461838--41462010 Score: 101
Period size: 27 Copynumber: 6.6 Consensus size: 27
41461828 CTCGATATAC
** * **
41461838 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCGAAATACCACTGGTTTGT
* * **
41461865 AAAATTACCAAAATACC-CTTGATCAGT
1 AAAATTACCGAAATACCAC-TGGTTTGT
* *
41461892 AAAATTACCAAAATACC-CTGGTCTGT
1 AAAATTACCGAAATACCACTGGTTTGT
* * *
41461918 AAAATT-GC-TAA-A--ATTGGTTTGT
1 AAAATTACCGAAATACCACTGGTTTGT
*
41461940 AAAATTACTGAAATACCACTGGTTTGT
1 AAAATTACCGAAATACCACTGGTTTGT
* **
41461967 GAAATTACCGAAATACC-CTCAATTTGT
1 AAAATTACCGAAATACCACT-GGTTTGT
*
41461994 AAAATTACCAAAATACC
1 AAAATTACCGAAATACC
41462011 CCAGATTTAC
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
22 13 0.11
23 1 0.01
24 4 0.03
25 2 0.02
26 14 0.12
27 81 0.70
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCACTGGTTTGT
Found at i:41462089 original size:27 final size:27
Alignment explanation
Indices: 41461838--41462101 Score: 96
Period size: 27 Copynumber: 9.9 Consensus size: 27
41461828 CTCGATATAC
* *
41461838 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACTGAAATACCATTGGTTTAT
** * * *
41461865 AAAATTACCAAAATACCCTT-GATCAGT
1 AAAATTACTGAAATACCATTGGTTTA-T
** * * *
41461892 AAAATTACCAAAATACC-CTGGTCTGT
1 AAAATTACTGAAATACCATTGGTTTAT
* *
41461918 AAAATTGCT--AA-A--ATTGGTTTGT
1 AAAATTACTGAAATACCATTGGTTTAT
* *
41461940 AAAATTACTGAAATACCACTGGTTTGT
1 AAAATTACTGAAATACCATTGGTTTAT
* * * *** *
41461967 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCATTGGTTTAT
** *** * *
41461994 AAAATTACCAAAATACCCCAGATTTAC
1 AAAATTACTGAAATACCATTGGTTTAT
* * * * *
41462021 AAATTTACAGAAATACCCTTGACTTTTT
1 AAAATTACTGAAATACCATTG-GTTTAT
*
41462049 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACT-GAAATACCATTGGTTTAT
41462077 AAAATTACTGAAATATCC-TTGGTTT
1 AAAATTACTGAAATA-CCATTGGTTT
41462102 GTAGATTTAA
Statistics
Matches: 180, Mismatches: 44, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
22 15 0.08
23 1 0.01
24 4 0.02
25 1 0.01
26 12 0.07
27 121 0.67
28 9 0.05
29 17 0.09
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAT
Found at i:41462197 original size:27 final size:27
Alignment explanation
Indices: 41462155--41462219 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
41462145 ACCCTAATTA
* *
41462155 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAATGACTGTAATA-CCCCTGTAG
* * *
41462182 GGTAAAGTGACTGTAATACCTCTGTAT
1 GGTAAAATGACTGTAATACCCCTGTAG
41462209 GGTAAAATGAC
1 GGTAAAATGAC
41462220 GAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCCTGTAG
Found at i:41463107 original size:24 final size:24
Alignment explanation
Indices: 41463027--41463118 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
41463017 AGGAAGTGCT
* * *
41463027 AAAAGGGCTATGCCCGAG-TTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* * *
41463050 GAAAGGGCTTTGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTA-TC
41463075 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
41463099 AAAAGGGCTTTGTCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
41463119 ATTAAAGAGG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.26
24 23 0.40
25 20 0.34
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:41465312 original size:27 final size:27
Alignment explanation
Indices: 41465282--41465342 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
41465272 CGACTTGTAA
41465282 AATTACCAAAGTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
****
41465309 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
*
41465336 ATTTACC
1 AATTACC
41465343 TTTTACTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:41465380 original size:27 final size:27
Alignment explanation
Indices: 41465293--41465436 Score: 137
Period size: 27 Copynumber: 5.4 Consensus size: 27
41465283 ATTACCAAAG
* * * *
41465293 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * * * *
41465320 TACCCCCGATTTACATATTTAC-CTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
41465346 TACTCTCGATTTATAGAATTGCTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
41465373 TACCCTCGATTTATAGAATTAATATTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
41465400 TACCCTTGATTTGTAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
41465427 TTCCCTCGAT
1 TACCCTCGAT
41465437 ATACAAAATT
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 19 0.20
27 78 0.80
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:41465498 original size:27 final size:27
Alignment explanation
Indices: 41465439--41465511 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
41465429 CCCTCGATAT
* * *
41465439 ACAAAATTACTAAAATACCATTGGTTT
1 ACAAAATTACCAAAATACCATTGGATC
41465466 ACAAAATTACCAAAATACCATT-GATC
1 ACAAAATTACCAAAATACCATTGGATC
*
41465492 AGTAAAATTACCAAAATACC
1 A-CAAAATTACCAAAATACC
41465512 CTGGTCTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.07
27 38 0.93
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.26
Consensus pattern (27 bp):
ACAAAATTACCAAAATACCATTGGATC
Found at i:41465765 original size:64 final size:63
Alignment explanation
Indices: 41465690--41465815 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 63
41465680 TACAAAATTA
*
41465690 TGAAATGACTAAAATACCTCT-AATTAGGT-AAAAGATCCGTAAAGCCCCTGTAGGGTAAAGTGA
1 TGAAATGACTAAAATACC-CTAAATTAGGTAAAAAGA-CCGTAAAGCCCCTATA-GGTAAAGTGA
41465753 G
63 G
41465754 TGAAATGACTAAAATACCCTAAATTAGGTAAAAAGACCGTAAAGCCCCTATAGGTAAAGTGA
1 TGAAATGACTAAAATACCCTAAATTAGGTAAAAAGACCGTAAAGCCCCTATAGGTAAAGTGA
41465816 CCGTAATACC
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
63 12 0.20
64 41 0.69
65 6 0.10
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (63 bp):
TGAAATGACTAAAATACCCTAAATTAGGTAAAAAGACCGTAAAGCCCCTATAGGTAAAGTGAG
Found at i:41465843 original size:27 final size:26
Alignment explanation
Indices: 41465778--41465843 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
41465768 TACCCTAAAT
*
41465778 TAGGTAAAAAGACCGTAAAGCCCCTA
1 TAGGTAAAATGACCGTAAAGCCCCTA
* * *
41465804 TAGGTAAAGTGACCGTAATA-CCTCTG
1 TAGGTAAAATGACCGTAA-AGCCCCTA
41465830 TATGGTAAAATGAC
1 TA-GGTAAAATGAC
41465844 GAATATGCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 22 0.67
27 11 0.33
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (26 bp):
TAGGTAAAATGACCGTAAAGCCCCTA
Found at i:41466581 original size:25 final size:24
Alignment explanation
Indices: 41466543--41466618 Score: 109
Period size: 24 Copynumber: 3.1 Consensus size: 24
41466533 TTACCGAAAA
*
41466543 GCTTTGCCCTAGTTTATTGAAAAGG
1 GCTTTGCCCCAGTTTATT-AAAAGG
*
41466568 GCTTTGCCCCAGTTTATCAAAAGG
1 GCTTTGCCCCAGTTTATTAAAAGG
41466592 GCTTTGCCCCAG-TTATTAAAAGAG
1 GCTTTGCCCCAGTTTATTAAAAG-G
41466616 GCT
1 GCT
41466619 AGGCCTCCAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 9 0.19
24 22 0.47
25 16 0.34
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (24 bp):
GCTTTGCCCCAGTTTATTAAAAGG
Found at i:41467519 original size:32 final size:32
Alignment explanation
Indices: 41467478--41467542 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
41467468 TCACTTATTA
41467478 ACTTAGCAAAGACTATCTTTTAAAACACTAAG
1 ACTTAGCAAAGACTATCTTTTAAAACACTAAG
41467510 ACTTAGCAAAGACTATCTTTTAAAACACTAAG
1 ACTTAGCAAAGACTATCTTTTAAAACACTAAG
41467542 A
1 A
41467543 AGGACGTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (32 bp):
ACTTAGCAAAGACTATCTTTTAAAACACTAAG
Found at i:41468871 original size:27 final size:28
Alignment explanation
Indices: 41468809--41468860 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
41468799 TACCAAAGTA
41468809 CCCGATTT-ACATAATTACCGTTTTAAC
1 CCCGATTTAACATAATTACCGTTTTAAC
*
41468836 CCCGATTTAACATATTTACC-TTTTA
1 CCCGATTTAACATAATTACCGTTTTA
41468861 CTCTCGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (28 bp):
CCCGATTTAACATAATTACCGTTTTAAC
Found at i:41468886 original size:27 final size:27
Alignment explanation
Indices: 41468856--41468949 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
41468846 CATATTTACC
* *
41468856 TTTTACTCTCGATTTATAGAATTGCTG
1 TTTTACCCTCGATTTATAGAATTACTG
* *
41468883 TTTTACCCTCGATTTATAGAATTAATA
1 TTTTACCCTCGATTTATAGAATTACTG
*
41468910 TTTTACCCT-GATTTGTAGAATTAACTG
1 TTTTACCCTCGATTTATAGAATT-ACTG
*
41468937 TTTTTCCCTCGAT
1 TTTTACCCTCGAT
41468950 ATACAAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.21
27 42 0.74
28 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (27 bp):
TTTTACCCTCGATTTATAGAATTACTG
Found at i:41468960 original size:54 final size:54
Alignment explanation
Indices: 41468856--41468960 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
41468846 CATATTTACC
* * * * *
41468856 TTTTACTCTCGATTTATAGAATTGCTGTTTTACCCTCGATTTATAGAATTAATA
1 TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATATACAAAATTAATA
* *
41468910 TTTTACCCT-GATTTGTAGAATTAACTGTTTTTCCCTCGATATACAAAATTA
1 TTTTACCCTCGATTTATAGAATT-ACTGTTTTACCCTCGATATACAAAATTA
41468961 CTAAAATACC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 12 0.28
54 31 0.72
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (54 bp):
TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATATACAAAATTAATA
Found at i:41469015 original size:26 final size:25
Alignment explanation
Indices: 41468981--41469037 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
41468971 ATTGGTTTAC
41468981 AAAATTACCAAAATACCTTGATCAGT
1 AAAATTACCAAAATACC-TGATCAGT
* *
41469007 AAAATTACCAAAATACCTGGTCTGT
1 AAAATTACCAAAATACCTGATCAGT
41469032 AAAATT
1 AAAATT
41469038 GCTAAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.28
Consensus pattern (25 bp):
AAAATTACCAAAATACCTGATCAGT
Found at i:41469067 original size:22 final size:22
Alignment explanation
Indices: 41469005--41469067 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
41468995 ACCTTGATCA
*
41469005 GTAAAATTACCAAAATACCTGGTCT
1 GTAAAATTACTAAAAT---TGGTCT
* *
41469030 GTAAAATTGCTAAAATTGGTTT
1 GTAAAATTACTAAAATTGGTCT
*
41469052 GTAAAATTACTGAAAT
1 GTAAAATTACTAAAAT
41469068 ACCACTGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 19 0.58
25 14 0.42
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (22 bp):
GTAAAATTACTAAAATTGGTCT
Found at i:41469201 original size:27 final size:26
Alignment explanation
Indices: 41469158--41469213 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
41469148 CCCTTGACTT
41469158 TTTAAAAATTATAGAAATA-CCATTGG
1 TTTAAAAATTATAGAAATATCC-TTGG
41469184 TTTACAAAATTACT-GAAATATCCTTGG
1 TTTA-AAAATTA-TAGAAATATCCTTGG
41469211 TTT
1 TTT
41469214 GTAGATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.15
27 20 0.74
28 3 0.11
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATATCCTTGG
Found at i:41469331 original size:27 final size:27
Alignment explanation
Indices: 41469267--41469331 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
41469257 ACCCTAATTA
*
41469267 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
41469294 GGTAAAGTGACCGTAATA-CCTCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
41469321 GGTAAAATGAC
1 GGTAAAATGAC
41469332 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:41470181 original size:25 final size:24
Alignment explanation
Indices: 41470136--41470204 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
41470126 AGGAAGTGCT
* *
41470136 AAAAGGGCTGTGCCTATGTTTACC
1 AAAAGGGCTTTGCCCATGTTTACC
**
41470160 GAAAAGGGCTTTGCTCCA-GTTTGTC
1 -AAAAGGGCTTTGC-CCATGTTTACC
*
41470185 AAAAGGGCTTTGCCCCTGTT
1 AAAAGGGCTTTGCCCATGTT
41470205 ATGAAAAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.05
24 16 0.43
25 17 0.46
26 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCATGTTTACC
Found at i:41470217 original size:24 final size:22
Alignment explanation
Indices: 41470160--41470217 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
41470150 TATGTTTACC
*
41470160 GAAAAGGGCTTTGCTCCAGTTT
1 GAAAAGGGCTTTGCCCCAGTTT
*
41470182 GTCAAAAGGGCTTTGCCCCTGTTAT
1 G--AAAAGGGCTTTGCCCCAGTT-T
41470207 GAAAAGAGGCT
1 GAAAAG-GGCT
41470218 AGGCCTCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 1 0.03
23 5 0.17
24 22 0.73
25 2 0.07
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (22 bp):
GAAAAGGGCTTTGCCCCAGTTT
Found at i:41470460 original size:31 final size:31
Alignment explanation
Indices: 41470425--41470503 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
41470415 CATTTACAGT
41470425 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
* *
41470456 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
41470487 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
41470504 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:41470859 original size:55 final size:54
Alignment explanation
Indices: 41470779--41470895 Score: 216
Period size: 55 Copynumber: 2.1 Consensus size: 54
41470769 TTATTAATAT
41470779 TATTATTTGGTTTTGGGTTGTAATAAGGCCATTTTTAATTATTTTTCTGGGATTA
1 TATTATTTGGTTTTGGGTTGTAATAAGGCCA-TTTTAATTATTTTTCTGGGATTA
41470834 TATTATTTGGTTTTGGGTTGTAATAAGGCCATTTTAATTATTTTTCTGGGATTA
1 TATTATTTGGTTTTGGGTTGTAATAAGGCCATTTTAATTATTTTTCTGGGATTA
*
41470888 TTTTATTT
1 TATTATTT
41470896 TATACCCTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 30 0.49
55 31 0.51
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.55
Consensus pattern (54 bp):
TATTATTTGGTTTTGGGTTGTAATAAGGCCATTTTAATTATTTTTCTGGGATTA
Done.