Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 9 of 14
Found at i:1042819 original size:107 final size:106
Alignment explanation
Indices: 1042594--1042802 Score: 246
Period size: 108 Copynumber: 1.9 Consensus size: 106
1042584 GCTTGGAAGA
* *
1042594 ACATCAAATTTGTTTGATTTTGAAGAAATTCATACTTCATACATTTCGATCCATTCGTGCCTAGG
1 ACAT-AAATTTGTCTGATTTTGAAGAAATTCATACTTCAAACATTTCGATCCATTCGTGCCTAGG
* *
1042659 AAAATGGGGCATCCTATGAGTTTTGAAATTTTTGAGCCCAAC
65 AAAATGAGGCATCCTATCAGTTTTGAAATTTTTGAGCCCAAC
* *
1042701 AACATTAAATTTGTCTGATTTTTAAGAAATTCATGA--TCTAAACGA-TT-GATCCATTCGTGCT
1 -ACA-TAAATTTGTCTGATTTTGAAGAAATTCAT-ACTTC-AAAC-ATTTCGATCCATTCGTGCC
1042762 TAGGAAAATGAGGCATGTACCATATCAGTTTTGAAATTTTT
61 TAGGAAAATGAGGCA--T-CC-TATCAGTTTTGAAATTTTT
1042803 TAGGCCCACC
Statistics
Matches: 87, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
107 29 0.33
108 34 0.39
109 4 0.05
110 2 0.02
111 18 0.21
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (106 bp):
ACATAAATTTGTCTGATTTTGAAGAAATTCATACTTCAAACATTTCGATCCATTCGTGCCTAGGA
AAATGAGGCATCCTATCAGTTTTGAAATTTTTGAGCCCAAC
Found at i:1043860 original size:89 final size:89
Alignment explanation
Indices: 1043703--1044198 Score: 398
Period size: 91 Copynumber: 5.5 Consensus size: 89
1043693 CGAATCATAT
* * * * * * * *
1043703 ACCACTAAATGGTATTGGTGCATAATAAAGCCTAATTTCCTTAGGGA-AAGGTACAGCCTATACT
1 ACCACTAAATGGTATTGATGCATCACAAAGCCTGATATCCTT-GGGACAAGATACAGCCCATACA
* *
1043767 TTCCCAATCATGTCCCCTTCATCTA
65 TTCCCAATCATATCCCCTTCATCCA
* * * * *
1043792 ACCACTAGATGGTATTGATGCATCACCAAGCTTGATTTCCTTGGGACAAGATGCAGCCCATACAT
1 ACCACTAAATGGTATTGATGCATCACAAAGCCTGATATCCTTGGGACAAGATACAGCCCATACAT
* *
1043857 TCCCTATCATATCTCCTTCATCCA
66 TCCCAATCATATCCCCTTCATCCA
* * *
1043881 ACCACTAAATGGTATTGATACATCACAAAGCCTGATATCCTTGGG-CAAGGATATCTCGACCAGT
1 ACCACTAAATGGTATTGATGCATCACAAAGCCTGATATCCTTGGGACAA-GATA-C-AGCCCA-T
* *
1043945 -CATTCCTAATCATATTCCCTTCATCCA
62 ACATTCCCAATCATATCCCCTTCATCCA
* * * *
1043972 ACCACTAAATGGTATTAATGCATCACTAAGCTTGATATCCTTGGGGA-AAGGATATCCCA-ACCA
1 ACCACTAAATGGTATTGATGCATCACAAAGCCTGATATCCTT-GGGACAA-GATA---CAGCCCA
* * * *
1044035 CT-TATTCCTAATCATATCTCCTTCATCCC
61 -TACATTCCCAATCATATCCCCTTCATCCA
* * * * *
1044064 ACCACTAGATAGTA-TGATGCATCATAAAGCCTGATATCCTTGAGG-CAATGATATCCCGACCAC
1 ACCACTAAATGGTATTGATGCATCACAAAGCCTGATATCCTTG-GGACAA-GATA--CAGCCCA-
* * * *
1044127 T-CATTCCTAATCATATCTCTTTCATCCC
61 TACATTCCCAATCATATCCCCTTCATCCA
* * * *
1044155 ACCACTAGATGGTACTAAAGCATCACAAAGCCTGATATCCTTGG
1 ACCACTAAATGGTATTGATGCATCACAAAGCCTGATATCCTTGG
1044199 AGTAAGGATA
Statistics
Matches: 341, Mismatches: 53, Indels: 24
0.82 0.13 0.06
Matches are distributed among these distances:
88 7 0.02
89 112 0.33
90 4 0.01
91 141 0.41
92 76 0.22
94 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (89 bp):
ACCACTAAATGGTATTGATGCATCACAAAGCCTGATATCCTTGGGACAAGATACAGCCCATACAT
TCCCAATCATATCCCCTTCATCCA
Found at i:1043976 original size:91 final size:91
Alignment explanation
Indices: 1043767--1044239 Score: 521
Period size: 91 Copynumber: 5.2 Consensus size: 91
1043757 AGCCTATACT
* * * * * * *
1043767 TTCCCAATCATGTCCCCTTCATCTAACCACTAGATGGTATTGATGCATCACCAAGCTTGATTTCC
1 TTCCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATATCC
* * *
1043832 TTGGGACAA-G--ATGCAGCCCA-TACA
66 TTGGG-CAAGGATATCCCGACCACT-CA
* *
1043856 TTCCCT-ATCATATCTCCTTCATCCAACCACTAAATGGTATTGATACATCACAAAGCCTGATATC
1 TT-CCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATATC
* *
1043920 CTTGGGCAAGGATATCTCGACCAGTCA
65 CTTGGGCAAGGATATCCCGACCACTCA
* * * *
1043947 TTCCTAATCATAT-TCCCTTCATCCAACCACTAAATGGTATTAATGCATCACTAAGCTTGATATC
1 TTCCTAATCATATCT-CCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATATC
* * *
1044011 CTTGGGGAAAGGATATCCCAACCACTTA
65 CTT-GGGCAAGGATATCCCGACCACTCA
* * *
1044039 TTCCTAATCATATCTCCTTCATCCCACCACTAGATAGTA-TGATGCATCATAAAGCCTGATATCC
1 TTCCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATATCC
*
1044103 TTGAGGCAATGATATCCCGACCACTCA
66 TTG-GGCAAGGATATCCCGACCACTCA
* * * * *
1044130 TTCCTAATCATATCTCTTTCATCCCACCACTAGATGGTACTAAAGCATCACAAAGCCTGATATCC
1 TTCCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATATCC
* * *
1044195 TTGGAGTAAGGATATCTCGACCACCCA
66 TTGG-GCAAGGATATCCCGACCACTCA
*
1044222 TTCCCAATCATATC-CCTT
1 TTCCTAATCATATCTCCTT
1044240 TCTCTTCACC
Statistics
Matches: 328, Mismatches: 44, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
88 3 0.01
89 59 0.18
90 7 0.02
91 148 0.45
92 110 0.34
93 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (91 bp):
TTCCTAATCATATCTCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAGCCTGATATCC
TTGGGCAAGGATATCCCGACCACTCA
Found at i:1044153 original size:183 final size:182
Alignment explanation
Indices: 1043767--1044239 Score: 541
Period size: 183 Copynumber: 2.6 Consensus size: 182
1043757 AGCCTATACT
* * * * * * *
1043767 TTCCCAATCATGTCCCCTTCATCTAACCACTAGATGGTATTGATGCATCACCAAGCTTGATTTCC
1 TTCCTAATCATATTCCCTTCATCCAACCACTAGATGGTATTAATGCATCACAAAGCTTGATATCC
* *
1043832 TT-GGGACAA-GATGCAGCCCATA-CA-T-TCCCT-ATCATATCTCCTTCATCCAACCACTAAAT
66 TTGGGGA-AAGGAT--ATCCCA-ACCACTATTCCTAATCATATCTCCTTCATCCAACCACTAAAT
* * *
1043891 GGTATTGATACATCACAAAGCCTGATATCCTTGGGCAAGGATATCTCGACCAGTCA
127 AGTATTGATACATCACAAAGCCTGATATCCTTGGGCAAGGATATCCCGACCACTCA
* *
1043947 TTCCTAATCATATTCCCTTCATCCAACCACTAAATGGTATTAATGCATCACTAAGCTTGATATCC
1 TTCCTAATCATATTCCCTTCATCCAACCACTAGATGGTATTAATGCATCACAAAGCTTGATATCC
* *
1044012 TTGGGGAAAGGATATCCCAACCACTTATTCCTAATCATATCTCCTTCATCCCACCACTAGATAGT
66 TTGGGGAAAGGATATCCCAACCAC-TATTCCTAATCATATCTCCTTCATCCAACCACTAAATAGT
* * *
1044077 A-TGATGCATCATAAAGCCTGATATCCTTGAGGCAATGATATCCCGACCACTCA
130 ATTGATACATCACAAAGCCTGATATCCTTG-GGCAAGGATATCCCGACCACTCA
* * * * *
1044130 TTCCTAATCATA-TCTCTTTCATCCCACCACTAGATGGTACTAAAGCATCACAAAGCCTGATATC
1 TTCCTAATCATATTC-CCTTCATCCAACCACTAGATGGTATTAATGCATCACAAAGCTTGATATC
* * * * * *
1044194 CTTGGAGTAAGGATATCTCGACCACCCATTCCCAATCATATC-CCTT
65 CTTGGGGAAAGGATATCCCAACCA-CTATTCCTAATCATATCTCCTT
1044240 TCTCTTCACC
Statistics
Matches: 252, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
178 1 0.00
179 7 0.03
180 61 0.24
181 8 0.03
182 36 0.14
183 138 0.55
184 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (182 bp):
TTCCTAATCATATTCCCTTCATCCAACCACTAGATGGTATTAATGCATCACAAAGCTTGATATCC
TTGGGGAAAGGATATCCCAACCACTATTCCTAATCATATCTCCTTCATCCAACCACTAAATAGTA
TTGATACATCACAAAGCCTGATATCCTTGGGCAAGGATATCCCGACCACTCA
Found at i:1044534 original size:47 final size:47
Alignment explanation
Indices: 1044465--1044801 Score: 268
Period size: 47 Copynumber: 7.2 Consensus size: 47
1044455 GTATCTAGTT
* * * *
1044465 AAACTCTTTCCAACTTTGTTTGACTGTATTGGCATTAGGACTTGGTC
1 AAACTCTTTCTACCTTCGTTTGACTGTATTGGCATTAGGACCTGGTC
* *
1044512 AAACTCTTTCTACCTTCATTTGACTATATTGGCATTA-GACCTGGTC
1 AAACTCTTTCTACCTTCGTTTGACTGTATTGGCATTAGGACCTGGTC
1044558 AAACTCAAATTTACT-CC--CGTTTGACTGTATTGGCATTAGGACCTGGTC
1 AAACTC---TTT-CTACCTTCGTTTGACTGTATTGGCATTAGGACCTGGTC
* * *
1044606 AAACT-TTTCTCATCC-TCATTTGATTGTATTGGCATTAGGACCTAGTC
1 AAACTCTTTCT-A-CCTTCGTTTGACTGTATTGGCATTAGGACCTGGTC
* * * *
1044653 AAACTCTTTCCACTCTT-GTTTGATTGTATTGGCTTTAGGACCTAGTC
1 AAACTCTTTCTAC-CTTCGTTTGACTGTATTGGCATTAGGACCTGGTC
* * * *
1044700 AAACTCTTTGC-ACTCTT-GTTTGATTGCATTGGC-GTAGGGGCCTGGTC
1 AAACTCTTT-CTAC-CTTCGTTTGACTGTATTGGCATTA-GGACCTGGTC
* * * * * *
1044747 AAAGT-ATTCTCACCCTT-GTTTGACTGTATTAGCGTTA-GTCCTAGTC
1 AAACTCTTTCT-A-CCTTCGTTTGACTGTATTGGCATTAGGACCTGGTC
1044793 AAACTCTTT
1 AAACTCTTT
1044802 TCATCCTCAT
Statistics
Matches: 243, Mismatches: 28, Indels: 38
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.01
44 3 0.01
45 1 0.00
46 32 0.13
47 175 0.72
48 23 0.09
49 5 0.02
50 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (47 bp):
AAACTCTTTCTACCTTCGTTTGACTGTATTGGCATTAGGACCTGGTC
Found at i:1044721 original size:141 final size:139
Alignment explanation
Indices: 1044483--1044801 Score: 340
Period size: 141 Copynumber: 2.3 Consensus size: 139
1044473 TCCAACTTTG
* * *
1044483 TTTGACTGTATTGGCATTAGGACTTGGTCAAACTCTTTCTACCTTCATTTGACTATATTGGCATT
1 TTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACCTTCATTTGACTATATTGGCATT
* * * *
1044548 AGACCTGGTCAAACTCAAATTTACTCCCGTTTGACTGTATTGGCATTA-GGACCTGGTCAAACTT
66 AGACCTAGTCAAACTC--ATTTACTCCCGTTTGACTGCATTGGC-GTAGGGACCTGGTCAAACTA
*
1044612 TTCTCATCCTCA
128 TTCTCACCCTCA
* * * * *
1044624 TTTGATTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACTCTT-GTTTGATTGTATTGGCTT
1 TTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCAC-CTTCATTTGACTATATTGGCAT
** * * *
1044688 TAGGACCTAGTCAAACTC-TTTGCACTCTTGTTTGATTGCATTGGCGTAGGGGCCTGGTCAAAGT
65 TA-GACCTAGTCAAACTCATTT--ACTCCCGTTTGACTGCATTGGCGTAGGGACCTGGTCAAACT
**
1044752 ATTCTCACCCTTG
127 ATTCTCACCCTCA
* * *
1044765 TTTGACTGTATTAGCGTTA-GTCCTAGTCAAACTCTTT
1 TTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTT
1044802 TCATCCTCAT
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
139 3 0.02
140 19 0.13
141 110 0.74
142 17 0.11
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (139 bp):
TTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACCTTCATTTGACTATATTGGCATT
AGACCTAGTCAAACTCATTTACTCCCGTTTGACTGCATTGGCGTAGGGACCTGGTCAAACTATTC
TCACCCTCA
Found at i:1044722 original size:94 final size:93
Alignment explanation
Indices: 1044459--1044801 Score: 308
Period size: 94 Copynumber: 3.7 Consensus size: 93
1044449 TTGACTGTAT
* * *
1044459 CTAGTTAAACTCTTTCCAACT-TTGTTTGACTGTATTGGCATTAGGACTTGGTCAAACTCTTTCT
1 CTAGTCAAACTCTTTCC-ACTCTTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTC-
* *
1044523 AC-CTTCATTTGACTATATTGGCATTA-GAC
64 ACTCTT-ATTTGATTGTATTGGCATTAGGAC
* ** *
1044552 CTGGTCAAACTCAAATTT--ACTCCCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTT
1 CTAGTCAAACTC---TTTCCACTCTTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTT
* *
1044614 CTCATCCTCATTTGATTGTATTGGCATTAGGAC
63 CAC-T-CTTATTTGATTGTATTGGCATTAGGAC
* *
1044647 CTAGTCAAACTCTTTCCACTCTTGTTTGATTGTATTGGCTTTAGGACCTAGTCAAACTCTTTGCA
1 CTAGTCAAACTCTTTCCACTCTTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTT-CA
* * * *
1044712 CTCTTGTTTGATTGCATTGGC-GTAGGGGC
65 CTCTTATTTGATTGTATTGGCATTA-GGAC
* * * * * * *
1044741 CTGGTCAAAGT-ATTCTCACCCTTGTTTGACTGTATTAGCGTTA-GTCCTAGTCAAACTCTTT
1 CTAGTCAAACTCTTTC-CACTCTTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTT
1044802 TCATCCTCAT
Statistics
Matches: 207, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
92 4 0.02
93 39 0.19
94 139 0.67
95 20 0.10
96 5 0.02
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (93 bp):
CTAGTCAAACTCTTTCCACTCTTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCAC
TCTTATTTGATTGTATTGGCATTAGGAC
Found at i:1045018 original size:43 final size:42
Alignment explanation
Indices: 1044971--1045141 Score: 116
Period size: 42 Copynumber: 4.0 Consensus size: 42
1044961 TCCTATAGTT
*
1044971 TACCCATCAGCTCAAGCCCGAAAGACTTCTTCATCTTTTTGTC
1 TACCCATCAGCTCAAGCCCGAGAGACTTCTTCAT-TTTTTGTC
* * * * *
1045014 TACCCGTTAGCTC-AGACCTAGGAGACTT-TTACATTATTTGTC
1 TACCCATCAGCTCAAGCCCGA-GAGACTTCTT-CATTTTTTGTC
* * * * *
1045056 TGCCCATCGGCTTAGGCTCGAGAGACTTCTAT-ATTTTTTGTC
1 TACCCATCAGCTCAAGCCCGAGAGACTTCT-TCATTTTTTGTC
* * ** *
1045098 TACCCATCGGCT-TAGATTCGAGAGATTTCTTCATTTTTTTGTC
1 TACCCATCAGCTCAAG-CCCGAGAGACTTCTTCA-TTTTTTGTC
1045141 T
1 T
1045142 GCTTGTCGAC
Statistics
Matches: 99, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.02
42 62 0.63
43 34 0.34
44 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.38
Consensus pattern (42 bp):
TACCCATCAGCTCAAGCCCGAGAGACTTCTTCATTTTTTGTC
Found at i:1045081 original size:42 final size:43
Alignment explanation
Indices: 1045035--1045400 Score: 198
Period size: 42 Copynumber: 8.6 Consensus size: 43
1045025 TCAGACCTAG
*
1045035 GAGACTTTTACAT-TATTTGTCTGCCCATCGGCTTAGGCTCGA
1 GAGACTTTTACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
* * * **
1045077 GAGACTTCTATAT-TTTTTGTCTACCCATCGGCTTAGATTCGA
1 GAGACTTTTACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
* * *** * * *
1045119 GAGA-TTTCTTCATTTTTTTGTCTGCTTGTCGACTTAAGCTCAA
1 GAGACTTT-TACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
* * * * * * * * *
1045162 GAGACTTTTTCATCTTTTTGTTTTCTCGTTGGCTCAGAC-CTA
1 GAGACTTTTACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
* * * *
1045204 GGAGACTTCTATATC-TTTTG-CATGCCCATTGGCTTAGGC-CTA
1 -GAGACTTTTACATCTTTTTGTC-TGCCCATCGGCTTAGGCTCGA
* * * * * *
1045246 GGAGACTTCTT-CATTTTTTTGTCTACCCATTGGCTCAGGCTTGG
1 -GAGACTT-TTACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
* * * * * * *
1045290 GAAACCTTTT-CATCTTTTTATTTGCCCGTCGGCTCAGCCTCAA
1 GAGA-CTTTTACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
* * *
1045333 GAGACTTCTATATC-TTTTGTCTGCCCATCGGCTTAGGCTTGA
1 GAGACTTTTACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
1045375 GAGACTTCTTA-ATC-TTTTGTCTGCCC
1 GAGACTT-TTACATCTTTTTGTCTGCCC
1045401 GTCAGCTCAA
Statistics
Matches: 245, Mismatches: 67, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
41 2 0.01
42 122 0.50
43 114 0.47
44 7 0.03
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (43 bp):
GAGACTTTTACATCTTTTTGTCTGCCCATCGGCTTAGGCTCGA
Found at i:1045209 original size:43 final size:43
Alignment explanation
Indices: 1045162--1045477 Score: 141
Period size: 42 Copynumber: 7.4 Consensus size: 43
1045152 TTAAGCTCAA
* * * *
1045162 GAGACTTTTTCATCTTTTTGTTTTCTCGTTGGCTCAGACCTAG
1 GAGACTTTTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCTAG
* ** *
1045205 GAGACTTCTAT-ATC-TTTTGCATGCCCATTGGCTTAGGCCTAG
1 GAGACTT-TTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCTAG
* * * * * *
1045247 GAGACTTCTTCATTTTTTTGTCTACCCATTGGCTCAGGCTTGG
1 GAGACTTTTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCTAG
* * * * * *
1045290 GAAACCTTTTCATCTTTTTATTTGCCCGTCGGCTCA-GCCTCAA
1 GAGACTTTTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCT-AG
* * * * *
1045333 GAGACTTCTAT-ATC-TTTTGTCTGCCCATCGGCTTAGG-CTTG
1 GAGACTT-TTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCTAG
* * * * ** ** *
1045374 AGAGACTTCTTAATC-TTTTGTCTGCCCGTCAGCTCAAACC-CG
1 -GAGACTTTTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCTAG
* * * * *
1045416 AGAGACTTCTTT-ATC-TTTTATCTGCCCATGGGCTCAGACCTGG
1 -GAGACTT-TTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCTAG
1045459 GAGACTTCTTT-ATCTTTTT
1 GAGACTT-TTTCATCTTTTT
1045478 TCTACCCGTC
Statistics
Matches: 208, Mismatches: 53, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
41 2 0.01
42 126 0.61
43 76 0.37
44 4 0.02
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (43 bp):
GAGACTTTTTCATCTTTTTGTTTGCCCATTGGCTCAGGCCTAG
Found at i:1045232 original size:128 final size:127
Alignment explanation
Indices: 1045056--1045400 Score: 329
Period size: 128 Copynumber: 2.7 Consensus size: 127
1045046 ATTATTTGTC
* * * * * *
1045056 TGCCCATCGGCTTAGGCTCGAGAGACTTCTATATTTTTTGTCTACCCATCGGCTTAGATTCGAGA
1 TGCCCGTCGGCTCAGCCTCAAGAGACTTCTATATCTTTTGTCTGCCCATCGGCTTAG-TTCGAGA
* *** * * * *
1045121 GATTTCTTCATTTTTTTGTCTGCTTGTCGACTTAAGCTCAAGAGACTTTTTCATCTTTTTGTT
65 GACTTCTTCATTTTTTTGTCTGCCCATCGACTCAAGCTCAAGAAACCTTTTCATCTTTTTATT
* * * * * ** *
1045184 TTCTCGTTGGCTCAGACCT-AGGAGACTTCTATATCTTTTG-CATGCCCATTGGCTTAGGCCTAG
1 TGCCCGTCGGCTCAG-CCTCAAGAGACTTCTATATCTTTTGTC-TGCCCATCGGCTTAGTTCGA-
* * * * ***
1045247 GAGACTTCTTCATTTTTTTGTCTACCCATTGGCTCAGGCTTGGGAAACCTTTTCATCTTTTTATT
63 GAGACTTCTTCATTTTTTTGTCTGCCCATCGACTCAAGCTCAAGAAACCTTTTCATCTTTTTATT
1045312 TGCCCGTCGGCTCAGCCTCAAGAGACTTCTATATCTTTTGTCTGCCCATCGGCTTAGGCTT-GAG
1 TGCCCGTCGGCTCAGCCTCAAGAGACTTCTATATCTTTTGTCTGCCCATCGGCTTA-G-TTCGAG
* *
1045376 AGACTTCTT-AATCTTTTGTCTGCCC
64 AGACTTCTTCATTTTTTTGTCTGCCC
1045401 GTCAGCTCAA
Statistics
Matches: 170, Mismatches: 40, Indels: 15
0.76 0.18 0.07
Matches are distributed among these distances:
127 19 0.11
128 146 0.86
129 5 0.03
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (127 bp):
TGCCCGTCGGCTCAGCCTCAAGAGACTTCTATATCTTTTGTCTGCCCATCGGCTTAGTTCGAGAG
ACTTCTTCATTTTTTTGTCTGCCCATCGACTCAAGCTCAAGAAACCTTTTCATCTTTTTATT
Found at i:1045279 original size:85 final size:83
Alignment explanation
Indices: 1044993--1045476 Score: 248
Period size: 85 Copynumber: 5.7 Consensus size: 83
1044983 CAAGCCCGAA
* * * *
1044993 AGACTTCTTCATCTTTTTGTCTACCCGTTAGCTCAGACCTAGGAGACTTTTACATTATTTGTCTG
1 AGACTTCTTCATCTTTTTGTCTACCCATTGGCTCAGACCTAGGAGACTTCTATATT-TTTGTCTG
*
1045058 CCCATCGGCTTAGGCTCGAG
65 CCCATCGGCTTAGGCTAG-G
* * * * * *
1045078 AGACTTCTAT-AT-TTTTTGTCTACCCATCGGCTTAGA-TTCGAGAGATTTCTTCATTTTTTTGT
1 AGACTTCT-TCATCTTTTTGTCTACCCATTGGCTCAGACCTAG-GAGACTTC-T-ATATTTTTGT
*** * * *
1045140 CTGCTTGTCGACTTAAGCTCAAG
62 CTGCCCATCGGCTTAGGCT-AGG
* * * * *
1045163 AGACTTTTTCATCTTTTTGTTTTCTCGTTGGCTCAGACCTAGGAGACTTCTATATCTTTTG-CAT
1 AGACTTCTTCATCTTTTTGTCTACCCATTGGCTCAGACCTAGGAGACTTCTATAT-TTTTGTC-T
*
1045227 GCCCATTGGCTTAGGCCTAGG
64 GCCCATCGGCTTAGG-CTAGG
* * * * * * * * *
1045248 AGACTTCTTCATTTTTTTGTCTACCCATTGGCTCAGGCTTGGGAAACCTTTTCATCTTTTTATTT
1 AGACTTCTTCATCTTTTTGTCTACCCATTGGCTCAGACCTAGGAGA-CTTCT-ATATTTTTGTCT
* * * *
1045313 GCCCGTCGGCTCAGCCTCAAG
64 GCCCATCGGCTTAGGCT-AGG
* * * * *
1045334 AGACTTCTAT-ATC-TTTTGTCTGCCCATCGGCTTAG-GCTTGAGAGACTTCT-TAATCTTTTGT
1 AGACTTCT-TCATCTTTTTGTCTACCCATTGGCTCAGACCTAG-GAGACTTCTAT-AT-TTTTGT
* * * ** **
1045395 CTGCCCGTCAGCTCAAACCCGAG
62 CTGCCCATCGGCTTAGGCTAG-G
* * * * * *
1045418 AGACTTCTTTATC-TTTTATCTGCCCATGGGCTCAGACCTGGGAGACTTCTTTATCTTTT
1 AGACTTCTTCATCTTTTTGTCTACCCATTGGCTCAGACCTAGGAGACTTCTATAT-TTTT
1045477 TTCTACCCGT
Statistics
Matches: 299, Mismatches: 77, Indels: 47
0.71 0.18 0.11
Matches are distributed among these distances:
82 1 0.00
83 4 0.01
84 103 0.34
85 122 0.41
86 63 0.21
87 6 0.02
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (83 bp):
AGACTTCTTCATCTTTTTGTCTACCCATTGGCTCAGACCTAGGAGACTTCTATATTTTTGTCTGC
CCATCGGCTTAGGCTAGG
Found at i:1045419 original size:42 final size:42
Alignment explanation
Indices: 1045332--1045736 Score: 216
Period size: 42 Copynumber: 9.6 Consensus size: 42
1045322 CTCAGCCTCA
* * * * ** **
1045332 AGAGACTTCTATATCTTTTGTCTGCCCATCGGCTTAGGCTTG
1 AGAGACTTCTTTATCTTTTGTCTGCCCGTCAGCTCAAACCCG
*
1045374 AGAGACTTCTTAATCTTTTGTCTGCCCGTCAGCTCAAACCCG
1 AGAGACTTCTTTATCTTTTGTCTGCCCGTCAGCTCAAACCCG
* * ** * *
1045416 AGAGACTTCTTTATCTTTTATCTGCCCATGGGCTCAGACCTG
1 AGAGACTTCTTTATCTTTTGTCTGCCCGTCAGCTCAAACCCG
* * * *
1045458 GGAGACTTCTTTATCTTTTTTCTACCCGTCAGCTCAAA-CCT
1 AGAGACTTCTTTATCTTTTGTCTGCCCGTCAGCTCAAACCCG
* * ** * *
1045499 AGGAGACTTCTTTACCTTTTTTGGGCTCGTCAGCTCAAA-CCT
1 A-GAGACTTCTTTATCTTTTGTCTGCCCGTCAGCTCAAACCCG
* * * * * * * *
1045541 AGGAGATTTCTTTATCTTTTGTCTACTCGTCGGCTTAGACTCA
1 A-GAGACTTCTTTATCTTTTGTCTGCCCGTCAGCTCAAACCCG
* * * * *
1045584 AGAGACTTCTTTATTCTTTTAGT-TGACCATCAACTTAGA-CCG
1 AGAGACTTCTTTA-TCTTTT-GTCTGCCCGTCAGCTCAAACCCG
* * * * **
1045626 AGGAGACTTCTTTGT-TCTTTGTCTGCCTGTCAGTTCAGACTTG
1 A-GAGACTTCTTTATCT-TTTGTCTGCCCGTCAGCTCAAACCCG
* * *
1045669 -GAAGACGTT-TTTAT-TATTTGTCTGCCCTTC-GACTTAAACTCG
1 AG-AGAC-TTCTTTATCT-TTTGTCTGCCCGTCAG-CTCAAACCCG
* *
1045711 AGAGACTTCTATATCCTTTGTCTGCC
1 AGAGACTTCTTTATCTTTTGTCTGCC
1045737 TAAAAGACTT
Statistics
Matches: 279, Mismatches: 70, Indels: 28
0.74 0.19 0.07
Matches are distributed among these distances:
41 8 0.03
42 236 0.85
43 33 0.12
44 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (42 bp):
AGAGACTTCTTTATCTTTTGTCTGCCCGTCAGCTCAAACCCG
Found at i:1045431 original size:84 final size:84
Alignment explanation
Indices: 1045247--1045518 Score: 278
Period size: 84 Copynumber: 3.2 Consensus size: 84
1045237 TTAGGCCTAG
* * * * * *
1045247 GAGACTTCTTCATTTTTTTGTCTACCCATTGGCTCAGGCTTGGGAAACCTT-TTCATCTTTTTAT
1 GAGACTTCTTTA-TCTTTTGTCTGCCCATCGGCTCAGGCTTGGGAGA-CTTCTTAATC-TTTTAT
* * *
1045311 TTGCCCGTCGGCTC-AGCCTCAA
63 CTGCCCGTCAGCTCAAACC-CAA
* * * *
1045333 GAGACTTCTATATCTTTTGTCTGCCCATCGGCTTAGGCTTGAGAGACTTCTTAATCTTTTGTCTG
1 GAGACTTCTTTATCTTTTGTCTGCCCATCGGCTCAGGCTTGGGAGACTTCTTAATCTTTTATCTG
*
1045398 CCCGTCAGCTCAAACCCGA
66 CCCGTCAGCTCAAACCCAA
* * * * * * *
1045417 GAGACTTCTTTATCTTTTATCTGCCCATGGGCTCAGACCTGGGAGACTTCTTTATCTTTTTTCTA
1 GAGACTTCTTTATCTTTTGTCTGCCCATCGGCTCAGGCTTGGGAGACTTCTTAATCTTTTATCTG
* *
1045482 CCCGTCAGCTCAAACCTAG
66 CCCGTCAGCTCAAACCCAA
*
1045501 GAGACTTCTTTACCTTTT
1 GAGACTTCTTTATCTTTT
1045519 TTGGGCTCGT
Statistics
Matches: 156, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
84 110 0.71
85 36 0.23
86 10 0.06
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (84 bp):
GAGACTTCTTTATCTTTTGTCTGCCCATCGGCTCAGGCTTGGGAGACTTCTTAATCTTTTATCTG
CCCGTCAGCTCAAACCCAA
Found at i:1045535 original size:84 final size:84
Alignment explanation
Indices: 1045375--1045596 Score: 241
Period size: 84 Copynumber: 2.6 Consensus size: 84
1045365 TTAGGCTTGA
* * * * *
1045375 GAGACTTCTTAATCTTTTGTCTGCCCGTCAGCTCAAACCCGAGAGACTTCTTTATCTTTTATCTG
1 GAGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAAACCAGAGAGACTTCTTTACCTTTTATCGG
** * *
1045440 CCCATGGGCTCAGACCTGG
66 CCCATCAGCTCAAACCTAG
* * *
1045459 GAGACTTCTTTATCTTTTTTCTACCCGTCAGCTCAAACCTAG-GAGACTTCTTTACCTTTTTTGG
1 GAGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAAACC-AGAGAGACTTCTTTACCTTTTATCG
* *
1045523 GCTCGTCAGCTCAAACCTAG
65 GCCCATCAGCTCAAACCTAG
* * * * *
1045543 GAGATTTCTTTATCTTTTGTCTACTCGTCGGCTTAGACTCA-AGAGACTTCTTTA
1 GAGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAAAC-CAGAGAGACTTCTTTA
1045597 TTCTTTTAGT
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 113 0.98
85 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (84 bp):
GAGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAAACCAGAGAGACTTCTTTACCTTTTATCGG
CCCATCAGCTCAAACCTAG
Found at i:1048631 original size:20 final size:22
Alignment explanation
Indices: 1048596--1048636 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1048586 TGAACATGTT
1048596 AAAATGCATGGAACAT-GGCTC
1 AAAATGCATGGAACATAGGCTC
1048617 AAAATGCAT-GAACATAGGCT
1 AAAATGCATGGAACATAGGCT
1048637 GTTTAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (22 bp):
AAAATGCATGGAACATAGGCTC
Found at i:1049723 original size:20 final size:20
Alignment explanation
Indices: 1049662--1049728 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
1049652 AATGGTCCTA
1049662 TATCGATACATTTC-AGACATG
1 TATCGATACA-TTCAAGA-ATG
* ***
1049683 CATCGATACATTCACTTATG
1 TATCGATACATTCAAGAATG
*
1049703 TATCGATACATTGAAGAATG
1 TATCGATACATTCAAGAATG
1049723 TATCGA
1 TATCGA
1049729 ATTATTTGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
20 27 0.75
21 9 0.25
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCGATACATTCAAGAATG
Found at i:1049900 original size:21 final size:20
Alignment explanation
Indices: 1049852--1049906 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1049842 ACATTTTTGA
* *
1049852 TATGCATCGATACATTCACT
1 TATGTATCGATACATCCACT
*
1049872 TATGTATCGATGCATCCACT
1 TATGTATCGATACATCCACT
1049892 TATTGTATCGATACA
1 TA-TGTATCGATACA
1049907 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (20 bp):
TATGTATCGATACATCCACT
Found at i:1052220 original size:20 final size:20
Alignment explanation
Indices: 1052192--1052232 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1052182 ATTTATTTCC
1052192 TCATCTTTTCTTTTTTTTTT
1 TCATCTTTTCTTTTTTTTTT
*
1052212 TCATTTTTTCTTTTTTTTTT
1 TCATCTTTTCTTTTTTTTTT
1052232 T
1 T
1052233 AGTATCTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (20 bp):
TCATCTTTTCTTTTTTTTTT
Found at i:1052669 original size:13 final size:13
Alignment explanation
Indices: 1052651--1052675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1052641 TGGATCTGAA
1052651 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
1052664 TTTTCTTTTTTT
1 TTTTCTTTTTTT
1052676 TTTGGTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:1058790 original size:67 final size:64
Alignment explanation
Indices: 1058701--1058828 Score: 193
Period size: 67 Copynumber: 2.0 Consensus size: 64
1058691 GATGGTTGGA
* *
1058701 ATAATCTTTTTTACAACGATAACCTGCTTTGATCAATGACCAAAAAAATTTGTAAAGAGCTAATG
1 ATAATCTTTTTTACAACGATAACCTGC-TT-ATCAATGA-CAAAAAAATTCGCAAAGAGCTAATG
1058766 GC
63 GC
* *
1058768 ATAATCTTTTTTACAATGATAACCTGCTTATCAATGACTAAAAAATTCGCAAAGAGCTAAT
1 ATAATCTTTTTTACAACGATAACCTGCTTATCAATGACAAAAAAATTCGCAAAGAGCTAAT
1058829 TTGTAGTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 21 0.37
65 8 0.14
66 2 0.04
67 26 0.46
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (64 bp):
ATAATCTTTTTTACAACGATAACCTGCTTATCAATGACAAAAAAATTCGCAAAGAGCTAATGGC
Found at i:1059004 original size:24 final size:23
Alignment explanation
Indices: 1058971--1059017 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
1058961 TTCATATAAC
1058971 TATATCATATATATATTAATTTTT
1 TATATCATATATATATT-ATTTTT
* * *
1058995 TATATTATATTTTTATTATTTTT
1 TATATCATATATATATTATTTTT
1059018 CTATGTCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TATATCATATATATATTATTTTT
Found at i:1059879 original size:50 final size:51
Alignment explanation
Indices: 1059820--1059934 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
1059810 GAAATAGTAC
* *
1059820 ATGTATCGATACATTCTATTTTT-TACCTAGATGTATTGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTCTACCCAGATGTATCGATACATTTTTCA
* * *
1059870 ATGTATCGATATATTCTGTTTTTCTACCCAGATGTATCGATATATTTTTCA
1 ATGTATCGATACATTCTATTTTTCTACCCAGATGTATCGATACATTTTTCA
1059921 ATGTATCGATACAT
1 ATGTATCGATACAT
1059935 CTAGTTAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 21 0.36
51 37 0.64
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (51 bp):
ATGTATCGATACATTCTATTTTTCTACCCAGATGTATCGATACATTTTTCA
Found at i:1062255 original size:97 final size:97
Alignment explanation
Indices: 1062104--1062348 Score: 438
Period size: 97 Copynumber: 2.5 Consensus size: 97
1062094 TCATTTATCA
* * *
1062104 GGGATACTCCAACCCTATTCC-TCCAAGAGGATACTCCAACCCCACTTTTAAACTCATCAAAGTT
1 GGGACACTCCAACCCCATTCCTTCGAAGA-GATACTCCAACCCCACTTTTAAACTCATCAAAGTT
1062168 TAAATCTTATTCTAGCTTAAATTGTCATCATTT
65 TAAATCTTATTCTAGCTTAAATTGTCATCATTT
1062201 GGGACACTCCAACCCCATTCCTTCGAAGAGATACTCCAACCCCACTTTTAAACTCATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTTCGAAGAGATACTCCAACCCCACTTTTAAACTCATCAAAGTTT
1062266 AAATCTTATTCTAGCTTAAATTGTCATCATTT
66 AAATCTTATTCTAGCTTAAATTGTCATCATTT
*
1062298 GGGACACTCCAACCCCATTCCTTCGAAGAGATACTCCAACCCCATTTTTAA
1 GGGACACTCCAACCCCATTCCTTCGAAGAGATACTCCAACCCCACTTTTAA
1062349 TCAAAAATTA
Statistics
Matches: 143, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
97 137 0.96
98 6 0.04
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.31
Consensus pattern (97 bp):
GGGACACTCCAACCCCATTCCTTCGAAGAGATACTCCAACCCCACTTTTAAACTCATCAAAGTTT
AAATCTTATTCTAGCTTAAATTGTCATCATTT
Found at i:1066874 original size:20 final size:20
Alignment explanation
Indices: 1066823--1066897 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
1066813 AAAAAAACAG
* *
1066823 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTCAAA
* *
1066843 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
1066863 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTCAAA
1066883 AATGTATCGATACAT
1 AATGTATCGATACAT
1066898 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1067588 original size:28 final size:28
Alignment explanation
Indices: 1067463--1068803 Score: 1612
Period size: 28 Copynumber: 46.9 Consensus size: 28
1067453 AAAAAATGGC
*
1067463 GCCACTAACTTGTGTAGGCTTTGAAAAGAGTT
1 GCCACTGACTTGTG--GGCTTTG-AAAGAG-T
* * *
1067495 GTCACCGACTCGTGTAGGCTTTGAAAAGAGTT
1 GCCACTGACT--TGTGGGCTTTG-AAAGAG-T
* * *
1067527 ACCACTGGCCTGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1067556 GCCACTGACTTGTGGGCTTTAAAATG-GT
1 GCCACTGACTTGTGGGCTTTGAAA-GAGT
* *
1067584 GCCACTCACTTGTGGGCTTCGAAAG-GAT
1 GCCACTGACTTGTGGGCTTTGAAAGAG-T
*
1067612 GCCACAGACTTGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
* *
1067641 GCCACTAACTTATGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
* *
1067670 GCCATTGACTTGTGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
*
1067698 GCCACTAACTTGTGGGCTTTGAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1067726 GCCACTAACTTGTGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1067754 ACCTCTGACTTGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
* *
1067783 GCCACCGACTTGTGGGCTTTGAAAAGGGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1067812 GCCACTGACTTGTGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1067840 GCCATTGACATGTGGGCTTTGAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1067868 GCCACTAACTTGTGGGCTTTAAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1067896 GCCACTGACTTGTGGG-TTTCAAAAGGGT
1 GCCACTGACTTGTGGGCTTT-GAAAGAGT
* * *
1067924 ACCTCTAACTTGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1067953 GCCACTGACTTGTGGGCTTTGAAAAGGGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
* *
1067982 GCCACTGACTTATGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1068010 GCCACTGACATGTGGGCTTTGAAAGTGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1068038 GCCACTGACTTGTGGGCTTCGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1068066 TCCACTGACTGGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
1068095 GCCATCTGACTTGTGGGCTTTGAAAAGAGT
1 GCCA-CTGACTTGTGGGCTTTG-AAAGAGT
** * *
1068125 GTCGTCTGACTTGTGGTCTTCGAAA-AGGT
1 G-CCACTGACTTGTGGGCTTTGAAAGA-GT
* * * *
1068154 GTCACTTACTTGTAGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
*
1068182 GCCACTGACTTGTGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1068210 GCCACTGACATGTGGGCTTTGAAAGTGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1068238 GCCACTGACTTGTGGGCTTCGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* * * *
1068266 TCCACTAACTGGTGAGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1068295 GCCATTTGACTTGTGGGCTTTGAAAAGAGT
1 GCCA-CTGACTTGTGGGCTTTG-AAAGAGT
** *
1068325 GCCGTGTGACTTGTGGGCTTCGAAA-AGGT
1 GCC-ACTGACTTGTGGGCTTTGAAAGA-GT
* * * *
1068354 GTCACTAACTTGTAGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* * *
1068382 GCCACTAACTGGTGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
1068410 GCCACTGACTTGTGGGCTTTGAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
1068438 GCCACTGACTTGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
* *
1068467 GCCACTAACTTTTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1068496 GCCACTGACTTTTGGGCTTTGAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
1068524 GCCACTGACTTGTGGGCTTTGAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
*
1068552 GCCACTGACTTGTGGGTTTTGAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* *
1068580 GCCACTAACATGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1068609 GCCACTGACTTGTGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
1068637 GCCACTGACTTGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1068666 GCCACTGACTTGTGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
1068694 GCCACTGACTTGTGGGCTTTGAAAGAGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
* * *
1068722 GCCACTAACTTATGGGCTTTGAAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGAGT
*
1068750 GCCACTGACTCGTGGGCTTTGAAAAGAGT
1 GCCACTGACTTGTGGGCTTTG-AAAGAGT
*
1068779 GCCACTGACTTGTGGGCTTTAAAAG
1 GCCACTGACTTGTGGGCTTTGAAAG
1068804 GGATGAACAT
Statistics
Matches: 1144, Mismatches: 141, Indels: 52
0.86 0.11 0.04
Matches are distributed among these distances:
27 5 0.00
28 674 0.59
29 336 0.29
30 97 0.08
31 1 0.00
32 28 0.02
34 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
GCCACTGACTTGTGGGCTTTGAAAGAGT
Found at i:1067728 original size:142 final size:142
Alignment explanation
Indices: 1067463--1068803 Score: 1691
Period size: 142 Copynumber: 9.4 Consensus size: 142
1067453 AAAAAATGGC
* * * * *
1067463 GCCACTAACTTGTGTAGGCTTTGAAAAGAGTTGTCACCGACTCGTGTAGGCTTTGAAAAGAGTTA
1 GCCACTGACTTGTG--GGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAGAG-TG
* * * * *
1067528 CCACTGGCCTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAATG-GTGCCACTCA
60 CCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTAA
*
1067592 CTTGTGGGCTTCGAAAGGAT
123 CTTGTGGGCTTTGAAAGGAT
* * * *
1067612 GCCACAGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAAGAGTGCCATTG
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
*
1067677 ACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGG
66 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGG
*
1067742 CTTTGAAAGGGT
131 CTTTGAAAGGAT
* * * *
1067754 ACCTCTGACTTGTGGGCTTTGAAAAGAGTGCCACCGACTTGTGGGCTTTGAAAAGGGTGCCACTG
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* *
1067819 ACTTGTGGGCTTTGAAAGGGTGCCATTGACATGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGG
66 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGG
*
1067884 CTTT-AAAAGAGT
131 CTTTGAAAGGA-T
* * * * *
1067896 GCCACTGACTTGTGGG-TTTCAAAAGGGTACCTCTAACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* * * *
1067960 ACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACATGTGG
66 ACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGG
1068025 GCTTTGAAAGTG-T
130 GCTTTGAAAG-GAT
* * * *
1068038 GCCACTGACTTGTGGGCTTCG-AAAGGGTTCCACTGACTGGTGGGCTTTGAAAAGAGTGCCATCT
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA-CT
* ** * * * *
1068102 GACTTGTGGGCTTTGAAAAGAGTGTCGTCTGACTTGTGGTCTTCGAAA-AGGTGTCACTTACTTG
65 GACTTGTGGGCTTTG-AAAGGGTG-CCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTAACTTG
* *
1068166 TAGGCTTTGAAAGGGT
127 TGGGCTTTGAAAGGAT
* * *
1068182 GCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACATGTGGGCTTTG-AAAGTGTGCCACTG
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* * * * * * *
1068245 ACTTGTGGGCTTCGAAAGGGTTCCACTAACTGGTGAGCTTTGAAAAGAGTGCCATTTGACTTGTG
66 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCA-CTAACTTGTG
*
1068310 GGCTTTGAAAAGAGT
129 GGCTTTGAAAGGA-T
** * * * * *
1068325 GCCGTGTGACTTGTGGGCTTCGAAAAG-GTGTCACTAACTTGTAGGCTTTG-AAAGGGTGCCACT
1 GCC-ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
* * *
1068388 AACTGGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGG
65 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGG
*
1068453 GCTTTGAAAAGAGT
130 GCTTTGAAAGGA-T
* * *
1068467 GCCACTAACTTTTGGGCTTTGAAAAGAGTGCCACTGACTTTTGGGCTTTG-AAAGAGTGCCACTG
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* * *
1068531 ACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGTTTTGAAAGAGTGCCACTAACATGTGGG
66 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGG
*
1068596 CTTTGAAAAGAGT
131 CTTTGAAAGGA-T
*
1068609 GCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
*
1068673 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTATGGG
66 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGG
*
1068738 CTTTGAAAGGGT
131 CTTTGAAAGGAT
*
1068750 GCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAG
1 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG
1068804 GGATGAACAT
Statistics
Matches: 1045, Mismatches: 128, Indels: 46
0.86 0.11 0.04
Matches are distributed among these distances:
140 13 0.01
141 144 0.14
142 590 0.56
143 74 0.07
144 186 0.18
145 4 0.00
146 8 0.01
147 14 0.01
149 12 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (142 bp):
GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGG
CTTTGAAAGGAT
Found at i:1067767 original size:170 final size:170
Alignment explanation
Indices: 1067537--1068803 Score: 1736
Period size: 170 Copynumber: 7.4 Consensus size: 170
1067527 ACCACTGGCC
* *
1067537 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAATG-GTGCCACTCACTTGTGGGC
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
* * * * *
1067601 TTCGAAAGGA-TGCCACAGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAA
64 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AA
* * *
1067665 AGAGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
128 AGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
* * * *
1067708 TGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTACCTCTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* *
1067773 TGAAAAGAGTGCCACCGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
66 TGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
1067838 GTGCCATTGACATGTGGGCTTTGAAAGAGTGCCACTAACT
131 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
* * * * * *
1067878 TGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGG-TTTCAAAAGGGTACCTCTAACTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGAGTGCCACTGACTTGTGGGCT
* *
1067942 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCTTTGAAAG
65 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
1068007 GGTGCCACTGACATGTGGGCTTTGAAAGTGTGCCACTGACT
130 GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
* * * *
1068048 TGTGGGCTTCGAAAGGGTTCCACTGACTGGTGGGCTTTGAAAAGAGTGCCATCTGACTTGTGGGC
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCA-CTGACTTGTGGGC
** * * * * *
1068113 TTTGAAAAGAGTGTCGTCTGACTTGTGGTCTTCGAAAAG-GTGTCACTTACTTGTAGGCTTTGAA
64 TTTGAAAAGAGTG-CCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
* * *
1068177 AGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACA
128 AGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
* * * * * * *
1068220 TGTGGGCTTTGAAAGTGTGCCACTGACTTGTGGGCTTCGAAAGGGTTCCACTAACTGGTGAGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* ** *
1068285 TGAAAAGAGTGCCATTTGACTTGTGGGCTTTGAAAAGAGTGCCGTGTGACTTGTGGGCTTCGAAA
66 TGAAAAGAGTGCCA-CTGACTTGTGGGCTTTGAAAAGAGTGCC-ACTGACTTGTGGGCTTTGAAA
* * * * *
1068350 AGGTGTCACTAACTTGTAGGCTTTGAAAGGGTGCCACTAACT
129 GGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
* *
1068392 GGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* * * *
1068457 TGAAAAGAGTGCCACTAACTTTTGGGCTTTGAAAAGAGTGCCACTGACTTTTGGGCTTTGAAAGA
66 TGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
*
1068522 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
131 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
* * *
1068562 TGTGGGTTTTGAAAGAGTGCCACTAACATGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCT
*
1068627 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
65 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
1068691 GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
130 GGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
* * *
1068732 TATGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCT
1068797 TT-AAAAG
65 TTGAAAAG
1068804 GGATGAACAT
Statistics
Matches: 974, Mismatches: 110, Indels: 25
0.88 0.10 0.02
Matches are distributed among these distances:
169 5 0.01
170 570 0.59
171 135 0.14
172 243 0.25
173 21 0.02
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (170 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
TGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACT
Found at i:1070047 original size:12 final size:12
Alignment explanation
Indices: 1070032--1070074 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
1070022 TTTTTTGCTA
1070032 TTTTTTTCTTGG
1 TTTTTTTCTTGG
1070044 --TTTTT-TTGG
1 TTTTTTTCTTGG
*
1070053 TTTTTTTTTTGG
1 TTTTTTTCTTGG
1070065 TTTTTTTCTT
1 TTTTTTTCTT
1070075 TTTTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 5 0.19
12 13 0.48
ACGTcount: A:0.00, C:0.05, G:0.14, T:0.81
Consensus pattern (12 bp):
TTTTTTTCTTGG
Found at i:1070056 original size:21 final size:21
Alignment explanation
Indices: 1070032--1070093 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1070022 TTTTTTGCTA
1070032 TTTTTTTCTTGGTTTTTTTGG
1 TTTTTTTCTTGGTTTTTTTGG
* **
1070053 TTTTTTTTTTGGTTTTTTTCT
1 TTTTTTTCTTGGTTTTTTTGG
*
1070074 TTTTTTTGTT--TTTTTTTGG
1 TTTTTTTCTTGGTTTTTTTGG
1070093 T
1 T
1070094 GTAAAGGACG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 8 0.23
21 27 0.77
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (21 bp):
TTTTTTTCTTGGTTTTTTTGG
Found at i:1070078 original size:17 final size:17
Alignment explanation
Indices: 1070056--1070088 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1070046 TTTTTGGTTT
1070056 TTTTTTTGGTTTTTTTC
1 TTTTTTTGGTTTTTTTC
*
1070073 TTTTTTTTGTTTTTTT
1 TTTTTTTGGTTTTTTT
1070089 TTGGTGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTTGGTTTTTTTC
Found at i:1070089 original size:9 final size:9
Alignment explanation
Indices: 1070015--1070089 Score: 53
Period size: 9 Copynumber: 7.7 Consensus size: 9
1070005 TCTAGACCCA
1070015 TTTTTTGTT
1 TTTTTTGTT
1070024 TTTTGCTAT-TT
1 TTTT--T-TGTT
1070035 TTTTCTTGGTT
1 TTTT-TT-GTT
*
1070046 TTTTTGGTTTT
1 TTTTT--TGTT
*
1070057 TTTTTTGGT
1 TTTTTTGTT
*
1070066 TTTTTTCTT
1 TTTTTTGTT
1070075 TTTTTTGTT
1 TTTTTTGTT
1070084 TTTTTT
1 TTTTTT
1070090 TGGTGTAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
9 28 0.53
10 3 0.06
11 20 0.38
12 2 0.04
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.83
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:1081197 original size:13 final size:13
Alignment explanation
Indices: 1081179--1081205 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1081169 ACATACTGCT
1081179 TTGTATCGATACA
1 TTGTATCGATACA
1081192 TTGTATCGATACA
1 TTGTATCGATACA
1081205 T
1 T
1081206 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1081202 original size:33 final size:32
Alignment explanation
Indices: 1081160--1081224 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1081150 CACTCCCAGA
*
1081160 TGTATCGATACATACTGCTTTGTATCGATACAT
1 TGTATCGATACATACT-CATTGTATCGATACAT
*
1081193 TGTATCGATACATGCTCATTGTATCGATACAT
1 TGTATCGATACATACTCATTGTATCGATACAT
1081225 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTCATTGTATCGATACAT
Found at i:1081235 original size:20 final size:19
Alignment explanation
Indices: 1081189--1081245 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1081179 TTGTATCGAT
1081189 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
1081208 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
*
1081227 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
1081246 AAACTGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1081292 original size:13 final size:13
Alignment explanation
Indices: 1081274--1081300 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1081264 CTATCACTAT
1081274 TTGTATCGATACA
1 TTGTATCGATACA
1081287 TTGTATCGATACA
1 TTGTATCGATACA
1081300 T
1 T
1081301 AACGGCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1082321 original size:13 final size:13
Alignment explanation
Indices: 1082303--1082329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1082293 CATTACTCAA
1082303 TGTATCGATACAT
1 TGTATCGATACAT
1082316 TGTATCGATACAT
1 TGTATCGATACAT
1082329 T
1 T
1082330 TGGGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1093495 original size:71 final size:71
Alignment explanation
Indices: 1093420--1093574 Score: 292
Period size: 71 Copynumber: 2.2 Consensus size: 71
1093410 CATAGGTATT
*
1093420 TGTATCGATACATTATGGTTGACTTAGGCTACAAAGGTCAAAACCCTTGAATGTATCGATACACT
1 TGTATCGATACATTATGGTTGACTTAGGCTACAAAGGTCAAAACCCTGGAATGTATCGATACACT
1093485 CCCAGA
66 CCCAGA
*
1093491 TGTATCGATACATTATGGTTGACTTAGGCTACAAAGGTTAAAACCCTGGAATGTATCGATACACT
1 TGTATCGATACATTATGGTTGACTTAGGCTACAAAGGTCAAAACCCTGGAATGTATCGATACACT
1093556 CCCAGA
66 CCCAGA
1093562 TGTATCGATACAT
1 TGTATCGATACAT
1093575 ACTGCTTTGT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (71 bp):
TGTATCGATACATTATGGTTGACTTAGGCTACAAAGGTCAAAACCCTGGAATGTATCGATACACT
CCCAGA
Found at i:1093606 original size:33 final size:32
Alignment explanation
Indices: 1093564--1093626 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1093554 CTCCCAGATG
* *
1093564 TATCGATACATACTGCTTTGTGTCGATACATTA
1 TATCGATACATACT-CATTGTATCGATACATTA
*
1093597 TATCGATACATGCTCATTGTATCGATACAT
1 TATCGATACATACTCATTGTATCGATACAT
1093627 GTACAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (32 bp):
TATCGATACATACTCATTGTATCGATACATTA
Found at i:1093637 original size:20 final size:20
Alignment explanation
Indices: 1093612--1093667 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1093602 ATACATGCTC
*
1093612 ATTGTATCGATACATGTACA
1 ATTGTATCAATACATGTACA
1093632 ATTGTATCAATACATGTACA
1 ATTGTATCAATACATGTACA
1093652 ATTGTATCAATACATG
1 ATTGTATCAATACATG
1093668 AAACTGGCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (20 bp):
ATTGTATCAATACATGTACA
Found at i:1093714 original size:13 final size:13
Alignment explanation
Indices: 1093696--1093758 Score: 91
Period size: 13 Copynumber: 5.2 Consensus size: 13
1093686 CTATCACTAT
1093696 TTGTATCGATACA
1 TTGTATCGATACA
1093709 TTGTATCGATACA
1 TTGTATCGATACA
1093722 TTGTATCGATACA
1 TTGTATCGATACA
1093735 -TG-AT-GA-A-A
1 TTGTATCGATACA
1093743 TTGTATCGATACA
1 TTGTATCGATACA
1093756 TTG
1 TTG
1093759 CTTGTAACGG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.02
9 3 0.07
10 4 0.09
11 4 0.09
12 3 0.07
13 30 0.67
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1093747 original size:21 final size:25
Alignment explanation
Indices: 1093696--1093756 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 25
1093686 CTATCACTAT
1093696 TTGTATCGATACATTGTATCGATACA
1 TTGTATCGATACA-TGTATCGATACA
1093722 TTGTATCGATACATG-AT-GA-A-A
1 TTGTATCGATACATGTATCGATACA
1093743 TTGTATCGATACAT
1 TTGTATCGATACAT
1093757 TGCTTGTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.43
22 1 0.03
23 2 0.06
24 2 0.06
25 2 0.06
26 13 0.37
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (25 bp):
TTGTATCGATACATGTATCGATACA
Found at i:1094013 original size:23 final size:23
Alignment explanation
Indices: 1093949--1094006 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
1093939 CCAGCACCTG
1093949 AACATCAAGAGAACTAAGCAAGA
1 AACATCAAGAGAACTAAGCAAGA
1093972 AACATCAAGAGAACTAAGCAAGA
1 AACATCAAGAGAACTAAGCAAGA
1093995 AACATCAAGAGA
1 AACATCAAGAGA
1094007 TCAAAGCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (23 bp):
AACATCAAGAGAACTAAGCAAGA
Found at i:1097743 original size:20 final size:20
Alignment explanation
Indices: 1097710--1097747 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1097700 GTAAAAAGAC
* *
1097710 AGAATCTATTGATACATTGA
1 AGAATATATCGATACATTGA
1097730 AGAATATATCGATACATT
1 AGAATATATCGATACATT
1097748 CATACATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (20 bp):
AGAATATATCGATACATTGA
Found at i:1097759 original size:20 final size:20
Alignment explanation
Indices: 1097720--1097786 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
1097710 AGAATCTATT
* * *
1097720 GATACATTGAAGAATATATC
1 GATACATTAAAAAATGTATC
* * *
1097740 GATACATTCATACATGTATC
1 GATACATTAAAAAATGTATC
*
1097760 GATATATTAAAAAATGTATC
1 GATACATTAAAAAATGTATC
*
1097780 AATACAT
1 GATACAT
1097787 CTGGGTAAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
GATACATTAAAAAATGTATC
Found at i:1098664 original size:13 final size:13
Alignment explanation
Indices: 1098646--1098671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1098636 ACATTATGCT
1098646 TTGTATCGATACA
1 TTGTATCGATACA
1098659 TTGTATCGATACA
1 TTGTATCGATACA
1098672 CGTTCATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1098702 original size:20 final size:19
Alignment explanation
Indices: 1098656--1098712 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1098646 TTGTATCGAT
* *
1098656 ACATTGTATCGATACACGT
1 ACATTGTATCGATACATGG
*
1098675 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1098694 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1098713 AGATTGGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1098780 original size:13 final size:13
Alignment explanation
Indices: 1098764--1098788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1098754 TGGTACAATG
1098764 TATCGATACATTA
1 TATCGATACATTA
1098777 TATCGATACATT
1 TATCGATACATT
1098789 GATGAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:1103774 original size:19 final size:20
Alignment explanation
Indices: 1103750--1103800 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1103740 AGGACTTCAA
**
1103750 GTATCGATACATGTTC-ATT
1 GTATCGATACATGGACAATT
*
1103769 GTATCGATAAATGGACAATT
1 GTATCGATACATGGACAATT
1103789 GTATCGATACAT
1 GTATCGATACAT
1103801 AAGATTGGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (20 bp):
GTATCGATACATGGACAATT
Found at i:1103858 original size:20 final size:20
Alignment explanation
Indices: 1103831--1103897 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
1103821 TACCACTGTT
1103831 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
*
1103851 TATATCGATACA---T----
1 TGTATCGATACATGGTACAA
1103864 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
1103884 TGTATCGATACATG
1 TGTATCGATACATG
1103898 ATGAGTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.29
16 1 0.03
17 1 0.03
20 25 0.66
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGGTACAA
Found at i:1103872 original size:33 final size:33
Alignment explanation
Indices: 1103830--1103896 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
1103820 CTACCACTGT
1103830 TTGTATCGATACATGGTACAATATATCGATACA
1 TTGTATCGATACATGGTACAATATATCGATACA
*
1103863 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATATATCGATACA
1103896 T
1 T
1103897 GATGAGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATATATCGATACA
Found at i:1106125 original size:12 final size:12
Alignment explanation
Indices: 1106101--1106134 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1106091 CTCAAAAAGC
1106101 AACAAAAACAAAA
1 AACAAAAA-AAAA
1106114 AACAAAAAAAAA
1 AACAAAAAAAAA
*
1106126 CACAAAAAA
1 AACAAAAAA
1106135 GGAGGGGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AACAAAAAAAAA
Found at i:1107004 original size:28 final size:28
Alignment explanation
Indices: 1106963--1107022 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
1106953 CTATGTCATG
* * *
1106963 TCCCTAAAAAAGTTTGTACAGCCTGCAA
1 TCCCCAAAAAAGTTTGAACAGCCTACAA
*
1106991 TCCCCAAAAGAGTTTGAACAGCCTACAA
1 TCCCCAAAAAAGTTTGAACAGCCTACAA
1107019 TCCC
1 TCCC
1107023 TAATGGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (28 bp):
TCCCCAAAAAAGTTTGAACAGCCTACAA
Found at i:1107466 original size:28 final size:28
Alignment explanation
Indices: 1107428--1107482 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
1107418 ACGACACCTT
*
1107428 TTTCAATGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
1107456 TTTCAAAGCCCACAAGTTAGTGGCATC
1 TTTCAAAGCCCACAAGTCAGTGGCATC
1107483 TGTTAGGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:1107901 original size:20 final size:20
Alignment explanation
Indices: 1107856--1107907 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1107846 GTAGCCAAAC
**
1107856 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1107876 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1107895 TTGTATCGATACA
1 TTGTATCGATACA
1107908 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1111989 original size:13 final size:13
Alignment explanation
Indices: 1111971--1112006 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1111961 TTTTTCTTTA
*
1111971 TATCGATACATTG
1 TATCGATACACTG
1111984 TATCGATACACTG
1 TATCGATACACTG
1111997 TATCGATACA
1 TATCGATACA
1112007 GGCAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:1114581 original size:13 final size:13
Alignment explanation
Indices: 1114563--1114587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1114553 TAGCCAAACT
1114563 TGTATCGATACAA
1 TGTATCGATACAA
1114576 TGTATCGATACA
1 TGTATCGATACA
1114588 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1115410 original size:28 final size:28
Alignment explanation
Indices: 1115368--1115793 Score: 522
Period size: 28 Copynumber: 15.2 Consensus size: 28
1115358 CTTTCAGCAT
* *
1115368 CTTTT-AAAGCTCACAAGTTAGTGGTAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1115395 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
* *
1115423 CATCTT-AAAGCCCACAAGTCAGTGGCATC
1 C-TTTTCAAAGCCCACAAGTTAGTGGCA-C
**
1115452 C-TTTCAAAGCCCACAAGTCCGTGGCAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
* * *
1115479 CATTTTCAAAGCCTACAAGTCAGTAGCAC
1 C-TTTTCAAAGCCCACAAGTTAGTGGCAC
* *
1115508 ATTTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
* *
1115536 ATTTTCAAAGCCCACAAGTTAATGGCAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
** * *
1115564 CTTTTTGAAGCCCACACGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1115592 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
* *
1115620 CTTCTT-AAAGCCCATAAGTTAGTGGCAT
1 CTT-TTCAAAGCCCACAAGTTAGTGGCAC
1115648 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
*
1115676 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
* *
1115704 CTTTTCAAAGCCCACAAGTTAATGGTAC
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
*
1115732 CATCTT-AAAGCCCACAAGTTAGTGGCATC
1 C-TTTTCAAAGCCCACAAGTTAGTGGCA-C
** *
1115761 C-TTTCAAAGCCCACAAGTCGGTGGCAA
1 CTTTTCAAAGCCCACAAGTTAGTGGCAC
1115788 CTTTTC
1 CTTTTC
1115794 TAAAACCTAC
Statistics
Matches: 348, Mismatches: 39, Indels: 23
0.85 0.10 0.06
Matches are distributed among these distances:
27 14 0.04
28 299 0.86
29 35 0.10
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTTAGTGGCAC
Found at i:1115846 original size:31 final size:30
Alignment explanation
Indices: 1115368--1115891 Score: 192
Period size: 28 Copynumber: 18.3 Consensus size: 30
1115358 CTTTCAGCAT
* * *
1115368 CTTT-TAAAGCTC-ACAAGTTAGTGG-TAC
1 CTTTCTAAAGCCCAACAAGTTGGTGGCAAC
*
1115395 CTTT-TCAAAGCCC-ACAAGTTAGTGGC-AC
1 CTTTCT-AAAGCCCAACAAGTTGGTGGCAAC
* ** *
1115423 C-ATCTTAAAGCCC-ACAAGTCAGTGGCATC
1 CTTTC-TAAAGCCCAACAAGTTGGTGGCAAC
**
1115452 CTTTC-AAAGCCC-ACAAGTCCGTGGC-AC
1 CTTTCTAAAGCCCAACAAGTTGGTGGCAAC
* ** *
1115479 CATTT-TCAAAG-CCTACAAGTCAGTAGC-AC
1 C-TTTCT-AAAGCCCAACAAGTTGGTGGCAAC
* **
1115508 ATTT-TCAAAGCCC-ACAAGTCAGTGGC-AC
1 CTTTCT-AAAGCCCAACAAGTTGGTGGCAAC
* **
1115536 ATTT-TCAAAGCCC-ACAAGTTAATGGC-AC
1 CTTTCT-AAAGCCCAACAAGTTGGTGGCAAC
* * * * *
1115564 CTTTTTGAAGCCC-ACACGTTAGTGGCATC
1 CTTTCTAAAGCCCAACAAGTTGGTGGCAAC
* *
1115593 TTTTC-AAAGCCC-ACAAGTTAGTGGC-AC
1 CTTTCTAAAGCCCAACAAGTTGGTGGCAAC
* * *
1115620 C-TTCTTAAAGCCC-ATAAGTTAGTGGCATC
1 CTTTC-TAAAGCCCAACAAGTTGGTGGCAAC
* *
1115649 TTTTC-AAAGCCC-ACAAGTTAGTGGC-AC
1 CTTTCTAAAGCCCAACAAGTTGGTGGCAAC
**
1115676 CTTT-TCAAAGCCC-ACAAGTCAGTGGC-AC
1 CTTTCT-AAAGCCCAACAAGTTGGTGGCAAC
** *
1115704 CTTT-TCAAAGCCC-ACAAGTTAATGG-TAC
1 CTTTCT-AAAGCCCAACAAGTTGGTGGCAAC
* * *
1115732 C-ATCTTAAAGCCC-ACAAGTTAGTGGCATC
1 CTTTC-TAAAGCCCAACAAGTTGGTGGCAAC
*
1115761 CTTTC-AAAGCCC-ACAAGTCGGTGGCAAC
1 CTTTCTAAAGCCCAACAAGTTGGTGGCAAC
* * * * * * *
1115789 TTTTCTAAAACCTACGCAGGTCGGTGGAAAC
1 CTTTCTAAAGCCCA-ACAAGTTGGTGGCAAC
1115820 CTTTCTAAAGCCCATACAAGTTGGTGGCAAC
1 CTTTCTAAAGCCCA-ACAAGTTGGTGGCAAC
1115851 CTTCTCTAAAGCCC-ACATGAGTTGGTGGCAAC
1 CTT-TCTAAAGCCCAACA--AGTTGGTGGCAAC
*
1115883 CCTTCTAAA
1 CTTTCTAAA
1115892 CCTAATGTTG
Statistics
Matches: 411, Mismatches: 56, Indels: 56
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.01
27 14 0.03
28 278 0.68
29 36 0.09
30 10 0.02
31 45 0.11
32 25 0.06
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (30 bp):
CTTTCTAAAGCCCAACAAGTTGGTGGCAAC
Found at i:1123496 original size:13 final size:13
Alignment explanation
Indices: 1123478--1123503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1123468 TACACCAAGT
1123478 ATGTATCGATACA
1 ATGTATCGATACA
1123491 ATGTATCGATACA
1 ATGTATCGATACA
1123504 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1123501 original size:32 final size:33
Alignment explanation
Indices: 1123460--1123523 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1123450 TAGCAAAACT
* **
1123460 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1123492 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1123524 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1125048 original size:49 final size:51
Alignment explanation
Indices: 1124983--1125097 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
1124973 TGAACAGTAC
*
1124983 ATGTATCGATATATTCTATTTTT-TACCCAGAT-TATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTCTACCCAGATGTATCGATACATTTTTCA
* *
1125032 ATGTATTGATACATTCTGTTTTTCTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTTTTCTACCCAGATGTATCGATACATTTTTCA
*
1125083 ATGTATCAATACATT
1 ATGTATCGATACATT
1125098 TAGTTAATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 20 0.34
50 9 0.15
51 30 0.51
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (51 bp):
ATGTATCGATACATTCTATTTTTCTACCCAGATGTATCGATACATTTTTCA
Found at i:1125510 original size:12 final size:13
Alignment explanation
Indices: 1125485--1125522 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1125475 AAGAATCCTC
*
1125485 TTTCAACCACA-T
1 TTTCAGCCACATT
*
1125497 TTTCAGCCATATT
1 TTTCAGCCACATT
1125510 TTTCAGCCACATT
1 TTTCAGCCACATT
1125523 ACCACTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.39
Consensus pattern (13 bp):
TTTCAGCCACATT
Found at i:1126021 original size:19 final size:20
Alignment explanation
Indices: 1125984--1126021 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1125974 TAGCCTTTGA
* *
1125984 TCATGCATTTTTACTATGTT
1 TCATGAATTTTAACTATGTT
1126004 TCATGAATTTTAAC-ATGT
1 TCATGAATTTTAACTATGT
1126022 CCAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (20 bp):
TCATGAATTTTAACTATGTT
Found at i:1130299 original size:16 final size:15
Alignment explanation
Indices: 1130268--1130309 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
1130258 TTGATGAATG
*
1130268 TAATA-AATATTTAT
1 TAATATAATATTAAT
1130282 TAATATAATATATAAT
1 TAATATAATAT-TAAT
*
1130298 TAATATATTATT
1 TAATATAATATT
1130310 TTTAAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATATAATATTAAT
Found at i:1130375 original size:11 final size:11
Alignment explanation
Indices: 1130352--1130399 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
1130342 ATTCTTTTAA
*
1130352 AAATAATAATT
1 AAATAATATTT
*
1130363 AAATAATTTTT
1 AAATAATATTT
*
1130374 AATTAATATTT
1 AAATAATATTT
1130385 ATAA-AATATTT
1 A-AATAATATTT
1130396 AAAT
1 AAAT
1130400 CGTATTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
10 2 0.07
11 27 0.90
12 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AAATAATATTT
Found at i:1134735 original size:19 final size:19
Alignment explanation
Indices: 1134713--1134751 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1134703 TTACATTTAA
*
1134713 AATATTCTATATATATATT
1 AATATTCTATACATATATT
* *
1134732 AATATTTTTTACATATATT
1 AATATTCTATACATATATT
1134751 A
1 A
1134752 GATGTGTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTCTATACATATATT
Found at i:1134787 original size:24 final size:24
Alignment explanation
Indices: 1134759--1134828 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
1134749 TTAGATGTGT
*
1134759 ATAATAAAATCATATATATTAATATTA
1 ATAATAATAT-ATATATATT-ATA-TA
*
1134786 AT-ATATATAGATATATATTATATA
1 ATAATA-ATATATATATATTATATA
*
1134810 ATATTAATATATATATATT
1 ATAATAATATATATATATT
1134829 GAAAAATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 16 0.43
25 5 0.14
26 12 0.32
27 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
ATAATAATATATATATATTATATA
Found at i:1134825 original size:6 final size:6
Alignment explanation
Indices: 1134770--1134827 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 6
1134760 TAATAAAATC
*
1134770 ATATAT AT-TA- ATAT-T A-ATAT ATATAG ATATAT AT-TAT ATA-AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1134812 AT-TA- ATATAT ATATAT
1 ATATAT ATATAT ATATAT
1134828 TGAAAAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
4 6 0.14
5 18 0.43
6 18 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
ATATAT
Found at i:1134838 original size:32 final size:32
Alignment explanation
Indices: 1134773--1134871 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 32
1134763 TAAAATCATA
* * *
1134773 TATATTAATATTAATATATATAGA-T-ATATAT
1 TATA-TAATATTAATATATATATATTGAAAAAT
1134804 TATATAATATTAATATATATATATTGAAAAAT
1 TATATAATATTAATATATATATATTGAAAAAT
* * *
1134836 TATAT-ACATTAAAAT-TATATTTATGAATAAAT
1 TATATAATATTAATATATATATAT-TGAA-AAAT
1134868 TATA
1 TATA
1134872 ATATTTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
30 24 0.41
31 17 0.29
32 17 0.29
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (32 bp):
TATATAATATTAATATATATATATTGAAAAAT
Found at i:1134839 original size:17 final size:17
Alignment explanation
Indices: 1134819--1134876 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
1134809 AATATTAATA
1134819 TATATATATTGAAAAAT
1 TATATATATTGAAAAAT
*
1134836 TATATACATT--AAAAT
1 TATATATATTGAAAAAT
*
1134851 TATATTTA-TGAATAAAT
1 TATATATATTGAA-AAAT
1134868 TATA-ATATT
1 TATATATATT
1134877 TTTTATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 11 0.33
16 3 0.09
17 18 0.55
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (17 bp):
TATATATATTGAAAAAT
Found at i:1134841 original size:2 final size:2
Alignment explanation
Indices: 1134770--1134827 Score: 51
Period size: 2 Copynumber: 33.0 Consensus size: 2
1134760 TAATAAAATC
*
1134770 AT AT AT AT -T A- AT AT -T A- AT AT AT AT AG AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1134807 AT A- AT AT -T A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
1134828 TGAAAAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
1 8 0.17
2 38 0.83
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1135096 original size:18 final size:18
Alignment explanation
Indices: 1135073--1135108 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1135063 ATAGCAGTGG
1135073 AATGTTTAATTATTGATA
1 AATGTTTAATTATTGATA
*
1135091 AATGTTTATTTATTGATA
1 AATGTTTAATTATTGATA
1135109 TTAATAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
AATGTTTAATTATTGATA
Found at i:1135889 original size:44 final size:44
Alignment explanation
Indices: 1135834--1135923 Score: 155
Period size: 44 Copynumber: 2.0 Consensus size: 44
1135824 TTCTTTCCTC
*
1135834 ATCCTAAATCAATATTAATTAGCTAAA-CTCATTGGTTTCTATTA
1 ATCCAAAATCAATATTAATTAGCTAAACCT-ATTGGTTTCTATTA
1135878 ATCCAAAATCAATATTAATTAGCTAAACCTATTGGTTTCTATTA
1 ATCCAAAATCAATATTAATTAGCTAAACCTATTGGTTTCTATTA
1135922 AT
1 AT
1135924 GTGCAAAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (44 bp):
ATCCAAAATCAATATTAATTAGCTAAACCTATTGGTTTCTATTA
Found at i:1136275 original size:21 final size:22
Alignment explanation
Indices: 1136240--1136292 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
1136230 TCTTAGAGAT
*
1136240 TTTTTATTTAAATTTTTAATAA
1 TTTTTATTTAAATTTTAAATAA
* *
1136262 TTTTTATTT-TATTTTAAATTA
1 TTTTTATTTAAATTTTAAATAA
*
1136283 GTTTTATTTA
1 TTTTTATTTA
1136293 TGCTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTTATTTAAATTTTAAATAA
Found at i:1136693 original size:21 final size:21
Alignment explanation
Indices: 1136660--1136700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1136650 CTAAGTAAAA
1136660 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1136681 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1136701 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1136765 original size:20 final size:19
Alignment explanation
Indices: 1136740--1136810 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1136730 ACCCTGAAAA
1136740 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1136760 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
1136779 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1136800 GTATCGATACA
1 GTATCGATACA
1136811 GGACATTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1136862 original size:53 final size:53
Alignment explanation
Indices: 1136780--1136916 Score: 211
Period size: 53 Copynumber: 2.6 Consensus size: 53
1136770 AGATTGCATA
* * *
1136780 GTATCGATACACACAAATATGTATCGATACAGGACATTGGTAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTAGCAGTAGCCAAATTT
* *
1136834 GTATCAATACACACAATATGTATCGATACAGGTCACTAGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTAGCAGTAGCCAAATTT
*
1136887 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1136917 TTGGTAGTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
53 63 0.83
54 13 0.17
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTAGCAGTAGCCAAATTT
Found at i:1136996 original size:21 final size:22
Alignment explanation
Indices: 1136961--1137021 Score: 97
Period size: 21 Copynumber: 2.8 Consensus size: 22
1136951 CACTATTCAT
*
1136961 CATCACTGCTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1136983 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
*
1137004 CATCACTGTTCACGTATC
1 CATCACTGTTCATGTATC
1137022 ACTATTCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1138094 original size:13 final size:13
Alignment explanation
Indices: 1138076--1138101 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1138066 TACACAAAGT
1138076 ATGTATCGATACA
1 ATGTATCGATACA
1138089 ATGTATCGATACA
1 ATGTATCGATACA
1138102 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1138099 original size:32 final size:33
Alignment explanation
Indices: 1138058--1138121 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1138048 TAGCCAAACT
**
1138058 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1138090 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1138122 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1140312 original size:84 final size:84
Alignment explanation
Indices: 1140152--1140312 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
1140142 ACTCAAAGAA
* * * *
1140152 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
* *
1140217 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* *
1140236 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
1140297 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
1140313 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
82 11 0.17
83 6 0.09
84 48 0.74
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:1143330 original size:20 final size:20
Alignment explanation
Indices: 1143285--1143336 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1143275 GTAGCCAAAC
**
1143285 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1143305 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1143324 TTGTATCGATACA
1 TTGTATCGATACA
1143337 TTGCCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1144284 original size:247 final size:247
Alignment explanation
Indices: 1143848--1144345 Score: 942
Period size: 247 Copynumber: 2.0 Consensus size: 247
1143838 AGATAGTGTT
*
1143848 GTAAGGTTATACCTTAGCCTCAAAGGTAAACAATTCGGTTAGTGAATTATGGTATACTTGGCAAG
1 GTAAGGTTATACATTAGCCTCAAAGGTAAACAATTCGGTTAGTGAATTATGGTATACTTGGCAAG
1143913 GAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCTCGTGTTTG
66 GAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCTCGTGTTTG
1143978 ATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAAGTTTTATTAATTTTTCA
131 ATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAAGTTTTATTAATTTTTCA
* *
1144043 TTAGAACCAATTCACGCCCCCTCTTGGTTTAATTCCTTTTTTTGAGCTCACA
196 TTAGAACCAATTCACCCCCCCTCTTGGTTTAATTCCTATTTTTGAGCTCACA
*
1144095 GTAAGGTTATACATTAGCCTCAAAGGTAAACAATTCGGTTAGTGAATTGTGGTATACTTGGCAAG
1 GTAAGGTTATACATTAGCCTCAAAGGTAAACAATTCGGTTAGTGAATTATGGTATACTTGGCAAG
1144160 GAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCTCGTGTTTG
66 GAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCTCGTGTTTG
*
1144225 ATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTATGAAAAAGTTTTATTAATTTTTCA
131 ATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAAGTTTTATTAATTTTTCA
*
1144290 TTAGAACCAATTCACCCCCCCTCTTTGTTTAATTCCTATTTTTGAGCTCACA
196 TTAGAACCAATTCACCCCCCCTCTTGGTTTAATTCCTATTTTTGAGCTCACA
1144342 GTAA
1 GTAA
1144346 CCATCAAAAG
Statistics
Matches: 245, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
247 245 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (247 bp):
GTAAGGTTATACATTAGCCTCAAAGGTAAACAATTCGGTTAGTGAATTATGGTATACTTGGCAAG
GAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATCTCGTGTTTG
ATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAAGTTTTATTAATTTTTCA
TTAGAACCAATTCACCCCCCCTCTTGGTTTAATTCCTATTTTTGAGCTCACA
Found at i:1151595 original size:52 final size:52
Alignment explanation
Indices: 1151472--1151622 Score: 162
Period size: 52 Copynumber: 2.9 Consensus size: 52
1151462 TCTTCGAAAG
* * * * * * *
1151472 GATACTCCAACCCTGTTTTTACTTCTAAAATGCCAAATTTCTCATCTTTGGA
1 GATACTCCAACCCAGTTTTTACTTCTAAAACGTCGAATTTTTCATCTCTAGA
* *
1151524 GATGCTCCAACCCAATTTTTACTTCTAAAACGTCGAATTTTTCATCTCTAGA
1 GATACTCCAACCCAGTTTTTACTTCTAAAACGTCGAATTTTTCATCTCTAGA
* * *
1151576 GATACTCCAACCTC-GTTTTTACTT-TCAAAACATTGAATTTTTTATCT
1 GATACTCCAACC-CAGTTTTTACTTCT-AAAACGTCGAATTTTTCATCT
1151623 TTTGGGATAC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 81 0.98
53 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (52 bp):
GATACTCCAACCCAGTTTTTACTTCTAAAACGTCGAATTTTTCATCTCTAGA
Found at i:1153147 original size:19 final size:20
Alignment explanation
Indices: 1153103--1153157 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1153093 ATACCCAGAT
*
1153103 GTATGGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
1153123 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
1153142 GTATCGATACATATTG
1 GTATCGATACATATTG
1153158 AATTATATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:1153218 original size:13 final size:13
Alignment explanation
Indices: 1153200--1153226 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1153190 AAAACTCACT
1153200 TTGTATCGATACA
1 TTGTATCGATACA
1153213 TTGTATCGATACA
1 TTGTATCGATACA
1153226 T
1 T
1153227 ACTTGAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1153261 original size:20 final size:21
Alignment explanation
Indices: 1153211--1153264 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1153201 TGTATCGATA
*
1153211 CATTGTATCGATACATACTTG
1 CATTGTATCGATACATACGTG
*
1153232 AATTGTATCGATACATA-GTG
1 CATTGTATCGATACATACGTG
*
1153252 CATTGCATCGATA
1 CATTGTATCGATA
1153265 TATTTAGCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
CATTGTATCGATACATACGTG
Found at i:1158182 original size:33 final size:33
Alignment explanation
Indices: 1158140--1158238 Score: 121
Period size: 33 Copynumber: 3.0 Consensus size: 33
1158130 GTTGCAGGCT
*
1158140 ATGTATCGATACATT-T-CTTCATGTATCGATATA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
1158173 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
** * *
1158206 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
1158239 TCTGAGTGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
33 57 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:1158190 original size:13 final size:13
Alignment explanation
Indices: 1158160--1158219 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
1158150 ACATTTCTTC
*
1158160 ATGTATCGATATA
1 ATGTATCGATACA
1158173 ATGTATCGATAC-
1 ATGTATCGATACA
*
1158185 A--T-T-G-TACC
1 ATGTATCGATACA
1158193 ATGTATCGATACA
1 ATGTATCGATACA
1158206 ATGTATCGATACA
1 ATGTATCGATACA
1158219 A
1 A
1158220 AGCAGCATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 1 0.03
10 2 0.05
11 1 0.03
12 2 0.05
13 28 0.72
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1158198 original size:20 final size:20
Alignment explanation
Indices: 1158173--1158210 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1158163 TATCGATATA
*
1158173 ATGTATCGATACATTGTACC
1 ATGTATCGATACAATGTACC
1158193 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
1158211 TCGATACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1159932 original size:308 final size:308
Alignment explanation
Indices: 1159372--1160299 Score: 1610
Period size: 308 Copynumber: 3.0 Consensus size: 308
1159362 CGAGGCACTA
1159372 AGGTTCAGTTTCGTACTACATAGCCAATCTTGGCCATGGTTTTCAAACCGATGATGCGTGGTCGG
1 AGGTTCAGTTTCGTACTACATAGCCAATCTTGGCCATGGTTTTCAAACCGATGATGCGTGGTCGG
* * *
1159437 GATATGGGAATCCTGGCGTTGCATGACATATCAACTCCATTAACCTCGAAAAAATAGCTGAGAAT
66 GATATGGGAATCCCGGCGTCGCATGACATATCAACTCCATTAACCTCAAAAAAATAGCTGAGAAT
* *
1159502 CATACCGTGAAGGATCGCTGAAGTGCCTTCCAAATCACCTACGATGTCGACGAAGATAAAGTATG
131 CATACCGTGAAGGATCGCTAAAGTGCCTTCCAAATCACATACGATGTCGACGAAGATAAAGTATG
1159567 CA-AGGTTGGGTCTTTGACCGGTTCGGATCATATGGAGCCACCAGTAATC-GAAGTTACTGAGGG
196 -AGAGGTTGGGTCTTTGACCGGTTCGGATCATATGGAGCCACCAGTAATCAG-AGTTACTGAGGG
*
1159630 TCGAATATTGAGTGCCGAAGGGTCAGAGTATATGTGTGATAAGGAGATGG
259 TCGAATATTGAGTGCCGAAGGGTCGGAGTATATGTGTGATAAGGAGATGG
*
1159680 AGGTTCAGTTTCGTACTACATAGCCAATCTTGGCCATGGTTTTCAAACCAATGATGCGTGGTCGG
1 AGGTTCAGTTTCGTACTACATAGCCAATCTTGGCCATGGTTTTCAAACCGATGATGCGTGGTCGG
*
1159745 GATATGGGAATCCCGGCATCGCATGACATATCAACTCCATTAACCTCAAAAAAATAGCTGAGAAT
66 GATATGGGAATCCCGGCGTCGCATGACATATCAACTCCATTAACCTCAAAAAAATAGCTGAGAAT
* *
1159810 CATACCGTGAAGGATTGCTAAAGTGCCTTCCAAATCAAATACGATGTCGACGAAGATAAAGTATG
131 CATACCGTGAAGGATCGCTAAAGTGCCTTCCAAATCACATACGATGTCGACGAAGATAAAGTATG
*
1159875 AGAGGTTGGGTCTTTGACCGGTTCAGATCATATGGAGCCACCAGTAATCAGAGTTACTGAGGGTC
196 AGAGGTTGGGTCTTTGACCGGTTCGGATCATATGGAGCCACCAGTAATCAGAGTTACTGAGGGTC
*
1159940 GAATATTGAGTGCCGAAGGGTTGGAGTATATGTGTGATAAGGAGATGG
261 GAATATTGAGTGCCGAAGGGTCGGAGTATATGTGTGATAAGGAGATGG
* *
1159988 AGGTTTAGTTTCGTACTACATAGCCAATCTTGGCCATGGTTTTCAAATCGATGATGCGTGGTCGG
1 AGGTTCAGTTTCGTACTACATAGCCAATCTTGGCCATGGTTTTCAAACCGATGATGCGTGGTCGG
*
1160053 GATATGGGAATCCCGGCGTCGTATGACATATCAACTCCATTAACCTCAAAAAAATAGCTGAGAAT
66 GATATGGGAATCCCGGCGTCGCATGACATATCAACTCCATTAACCTCAAAAAAATAGCTGAGAAT
* * * *
1160118 CATACTGTGAAGGATCGCTAAAGTGTCTTCCAAATCACTTACGATGTCGACAAAGATAAAGTATG
131 CATACCGTGAAGGATCGCTAAAGTGCCTTCCAAATCACATACGATGTCGACGAAGATAAAGTATG
* *
1160183 CGAGGTTGGGTCTTTGACCGGTTCGGATCATATGGAGCCACCAGTAATCTA-AGTTATTGAGGGT
196 AGAGGTTGGGTCTTTGACCGGTTCGGATCATATGGAGCCACCAGTAATC-AGAGTTACTGAGGGT
*
1160247 CGAATATTGAGTGCCGAAGGGTCGGAGTATATGTGTGATAAGGAGATGC
260 CGAATATTGAGTGCCGAAGGGTCGGAGTATATGTGTGATAAGGAGATGG
1160296 AGGT
1 AGGT
1160300 ATCGGTCATG
Statistics
Matches: 589, Mismatches: 28, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
307 1 0.00
308 586 0.99
309 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (308 bp):
AGGTTCAGTTTCGTACTACATAGCCAATCTTGGCCATGGTTTTCAAACCGATGATGCGTGGTCGG
GATATGGGAATCCCGGCGTCGCATGACATATCAACTCCATTAACCTCAAAAAAATAGCTGAGAAT
CATACCGTGAAGGATCGCTAAAGTGCCTTCCAAATCACATACGATGTCGACGAAGATAAAGTATG
AGAGGTTGGGTCTTTGACCGGTTCGGATCATATGGAGCCACCAGTAATCAGAGTTACTGAGGGTC
GAATATTGAGTGCCGAAGGGTCGGAGTATATGTGTGATAAGGAGATGG
Found at i:1161991 original size:20 final size:21
Alignment explanation
Indices: 1161944--1161996 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1161934 GACAATCACC
*
1161944 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
1161965 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
1161985 TGTATCGATACA
1 TGTATCGATACA
1161997 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:1166540 original size:52 final size:52
Alignment explanation
Indices: 1166470--1166590 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1166460 GAAAATTTAT
*
1166470 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1166522 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1166574 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1166591 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1166603 original size:52 final size:51
Alignment explanation
Indices: 1166470--1166610 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1166460 GAAAATTTAT
1166470 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1166522 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1166574 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1166611 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1166617 original size:13 final size:13
Alignment explanation
Indices: 1166599--1166623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1166589 CAAAGATCAG
1166599 TGTATCGATACAA
1 TGTATCGATACAA
1166612 TGTATCGATACA
1 TGTATCGATACA
1166624 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1166706 original size:13 final size:13
Alignment explanation
Indices: 1166688--1166712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1166678 CAAAAAAATA
1166688 TGTATCGATACAT
1 TGTATCGATACAT
1166701 TGTATCGATACA
1 TGTATCGATACA
1166713 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1166708 original size:33 final size:33
Alignment explanation
Indices: 1166666--1166732 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1166656 AGTAGCTTAA
1166666 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1166699 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1166732 A
1 A
1166733 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1167909 original size:52 final size:52
Alignment explanation
Indices: 1167761--1167889 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1167751 CGAAATATGA
* *
1167761 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1167813 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1167865 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1167890 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1167916 original size:13 final size:13
Alignment explanation
Indices: 1167898--1167922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1167888 CAAAGATCAG
1167898 TGTATCGATACAA
1 TGTATCGATACAA
1167911 TGTATCGATACA
1 TGTATCGATACA
1167923 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1167985 original size:13 final size:13
Alignment explanation
Indices: 1167967--1168018 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1167957 AGCTTCGTAG
1167967 CGATACATTGTAT
1 CGATACATTGTAT
1167980 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1167999 CGATACATTGTAT
1 CGATACATTGTAT
1168012 CGATACA
1 CGATACA
1168019 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1167999 original size:19 final size:19
Alignment explanation
Indices: 1167975--1168089 Score: 128
Period size: 19 Copynumber: 6.7 Consensus size: 19
1167965 AGCGATACAT
*
1167975 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
1167994 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1168007 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1168026 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1168045 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1168058 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
1168077 TGTATCAATACAA
1 TGTATCGATACAA
1168090 ATCGTTGAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 24
0.76 0.02 0.22
Matches are distributed among these distances:
13 18 0.22
14 2 0.02
16 11 0.13
18 2 0.02
19 49 0.60
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1168008 original size:32 final size:32
Alignment explanation
Indices: 1167967--1168037 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1167957 AGCTTCGTAG
1167967 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1167999 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1168031 CGATACA
1 CGATACA
1168038 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1168051 original size:51 final size:51
Alignment explanation
Indices: 1167975--1168090 Score: 214
Period size: 51 Copynumber: 2.3 Consensus size: 51
1167965 AGCGATACAT
1167975 TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTA
*
1168026 TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTA
*
1168077 TGTATCAATACAAA
1 TGTATCGATACAAA
1168091 TCGTTGAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (51 bp):
TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTA
Found at i:1168062 original size:32 final size:32
Alignment explanation
Indices: 1168026--1168088 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1168016 ACAACACTTA
*
1168026 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCAATACAT
1168058 TGTATCGATACAACACTTATGTATCAATACA
1 TGTATCGATACAACACTTATGTATCAATACA
1168089 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCAATACAT
Found at i:1168063 original size:13 final size:13
Alignment explanation
Indices: 1168045--1168069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1168035 ACAACACTTA
1168045 TGTATCGATACAT
1 TGTATCGATACAT
1168058 TGTATCGATACA
1 TGTATCGATACA
1168070 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1169134 original size:49 final size:49
Alignment explanation
Indices: 1169017--1169886 Score: 1145
Period size: 49 Copynumber: 17.7 Consensus size: 49
1169007 AAAAGGATGT
* *
1169017 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1169069 CGATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169118 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169167 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGC
* * * *
1169215 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1169264 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169313 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1169362 CAATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169411 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169460 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AAGGTGC
* * * *
1169508 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1169557 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169606 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169655 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1169704 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1169753 CAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169802 CAATGTGCTGAGTCAAGGCCAGCCACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169851 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
1169887 GAAGGGTTGC
Statistics
Matches: 703, Mismatches: 109, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
48 82 0.12
49 584 0.83
51 1 0.00
52 36 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1169192 original size:98 final size:98
Alignment explanation
Indices: 1169017--1169886 Score: 1478
Period size: 98 Copynumber: 8.9 Consensus size: 98
1169007 AAAAGGATGT
* * *
1169017 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
* * *
1169082 CAAGGCCAGCTATATTGGACTGAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1169118 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1169183 GGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 GGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
*
1169215 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
1169280 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1169313 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* * *
1169378 GGCCAGCTATATTGGACTGAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1169411 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1169476 GGCCAGCTATA-TGGACTTAATGGTGCAA-GTGC
66 GGCCAGCTATATTGGACTTAATGGTG-AAGGTGC
*
1169508 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
1169573 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1169606 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1169671 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * * *
1169704 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTAATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1169769 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * *
1169802 CAATGTGCTGAGTCAAGGCCAGCCACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
1169867 GGCCAGCTATATTGGGCTTA
66 GGCCAGCTATATTGGACTTA
1169887 GAAGGGTTGC
Statistics
Matches: 733, Mismatches: 30, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
97 184 0.25
98 510 0.70
101 39 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (98 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:1169547 original size:293 final size:293
Alignment explanation
Indices: 1168953--1169886 Score: 1564
Period size: 293 Copynumber: 3.1 Consensus size: 293
1168943 GAAAAGTGAT
* * * * * *
1168953 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGGATGTC
1 AAAG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT--A-ATGGTG---AAGG-TGCC
* * *
1169018 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATTC
58 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATTC
1169083 AAGGCCAGCTATATTGGACTGAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
120 AAGGCCAGCTATATTGGACTGAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
1169148 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGT
185 GACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGT
1169213 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA
250 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA
1169257 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCT
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCT
1169322 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
1169387 TATTGGACTGAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
131 TATTGGACTGAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1169452 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
196 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
1169517 GAGTCAAGGCCAGCTACATTGGACTTAAAGATA
261 GAGTCAAGGCCAGCTACATTGGACTTAAAGATA
1169550 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCT
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCT
1169615 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
* * *
1169680 TATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
131 TATTGGACTGAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * *
1169745 GATGATGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGCCAATGTG
196 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAATGTG
* *
1169809 CTGAGTCAAGGCCAGCCACATTGGACTTAAAGATG
259 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA
* *
1169844 AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1169887 GAAGGGTTGC
Statistics
Matches: 608, Mismatches: 20, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
293 420 0.69
294 99 0.16
296 41 0.07
297 4 0.01
300 5 0.01
301 1 0.00
303 34 0.06
304 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (293 bp):
AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
TATTGGACTGAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATGGACTTAATGGTGCAAGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATA
Found at i:1170008 original size:34 final size:33
Alignment explanation
Indices: 1169907--1170025 Score: 175
Period size: 34 Copynumber: 3.5 Consensus size: 33
1169897 CACCGACTTG
* *
1169907 TGTGGGCTTTAGAAGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
1169940 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGT
1169977 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGT
1170011 TGTGGGCTTTAAAAG
1 TGTGGGCTTTAAAAG
1170026 GGAAAGAGAG
Statistics
Matches: 79, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
33 12 0.15
34 28 0.35
35 7 0.09
36 9 0.11
37 23 0.29
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.22
Consensus pattern (33 bp):
TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
Found at i:1170048 original size:70 final size:70
Alignment explanation
Indices: 1169907--1170049 Score: 225
Period size: 70 Copynumber: 2.0 Consensus size: 70
1169897 CACCGACTTG
*
1169907 TGTGGGCTTTAGAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
**
1169972 GGAGT
66 AAAGT
* *
1169977 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAGAGAGTGCCA
1 TGTGGGCTTTAAA-AGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
1170041 CAAAGT
65 CAAAGT
1170047 TGT
1 TGT
1170050 AGGTGCCACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
70 38 0.57
71 29 0.43
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (70 bp):
TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
AAAGT
Found at i:1170113 original size:87 final size:87
Alignment explanation
Indices: 1169965--1170136 Score: 301
Period size: 87 Copynumber: 2.0 Consensus size: 87
1169955 GGGAAAAAGA
* *
1169965 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAA
*
1170030 AGAGAGTGCCACAAAGTTGTAG
66 AAAGAGTGCCACAAAGTTGTAG
1170052 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGAA
1170116 AAAAGAGTGCCACAAAGTTGT
65 AAAAGAGTGCCACAAAGTTGT
1170137 GGGCTTTAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
86 30 0.37
87 51 0.63
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (87 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAA
AAAGAGTGCCACAAAGTTGTAG
Found at i:1170165 original size:70 final size:66
Alignment explanation
Indices: 1170050--1170243 Score: 264
Period size: 70 Copynumber: 2.9 Consensus size: 66
1170040 ACAAAGTTGT
*
1170050 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1 AGGTGCCACAAAGTTGTGGGCTTTAAAAG-AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-
1170115 AAAA
63 AAAA
*
1170119 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGAGCTTTGAAAAGA
1 AG-GTGCCACAAAGTTGTGGGCTTTAAAAGAA-AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
*
1170184 AGA
64 AAA
** * * *
1170187 AGGTGCCACAAAGTTGTGGGCTTT-AAAGAAAAAATGCCACTGAGTCGTGGACTTTGA
1 AGGTGCCACAAAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1170244 GACAAAATGC
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
65 21 0.18
66 6 0.05
67 22 0.19
68 5 0.04
69 5 0.04
70 55 0.48
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (66 bp):
AGGTGCCACAAAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
A
Found at i:1170187 original size:34 final size:33
Alignment explanation
Indices: 1170050--1170241 Score: 226
Period size: 33 Copynumber: 5.7 Consensus size: 33
1170040 ACAAAGTTGT
1170050 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
*
1170083 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACAGAGTTGTGGGCTTT-AAAA-G-AAAA
* *
1170119 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
* * *
1170153 AGGTGCCACGGAGTTGTGAGCTTTGAAAAGAAGA
1 AGGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAA
*
1170187 AGGTGCCACAAAGTTGTGGGCTTT-AAAGAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
* * * *
1170219 A-ATGCCACTGAGTCGTGGACTTT
1 AGGTGCCACAGAGTTGTGGGCTTT
1170242 GAGACAAAAT
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
31 17 0.12
32 8 0.06
33 42 0.30
34 39 0.28
35 2 0.01
36 10 0.07
37 20 0.14
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (33 bp):
AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
Found at i:1170288 original size:93 final size:94
Alignment explanation
Indices: 1170179--1170361 Score: 221
Period size: 93 Copynumber: 2.0 Consensus size: 94
1170169 TGAGCTTTGA
* *
1170179 AAAGAAGAAGGTGCCACAAAGTTGTGGGCTTTAAAG-AAAAAATGCCACTGAGTCGTGGACTTTG
1 AAAGAAGAAGGTGCCACAAAGTCGTGGACTTT-AAGCAAAAAATGCCACTGAGTCGTGGACTTTG
1170243 AGACA-A-AATGCCACTGAGTCGTGGACTTT
65 AGA-AGAGAATGCCACTGAGTCGTGGACTTT
*** * * * *
1170272 AAAG-AGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTCGTGGACTTTG
1 AAAGAAGAAGG-TGCCACAAAGTCGTGGACTTTAAGCAAAAAATGCCACTGAGTCGTGGACTTTG
*
1170336 AGAAGAGATTGCCACTGAGTCGTGGA
65 AGAAGAGAATGCCACTGAGTCGTGGA
1170362 TTTTTTTTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
92 9 0.12
93 49 0.64
94 18 0.24
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (94 bp):
AAAGAAGAAGGTGCCACAAAGTCGTGGACTTTAAGCAAAAAATGCCACTGAGTCGTGGACTTTGA
GAAGAGAATGCCACTGAGTCGTGGACTTT
Found at i:1170297 original size:62 final size:63
Alignment explanation
Indices: 1170202--1170361 Score: 206
Period size: 62 Copynumber: 2.6 Consensus size: 63
1170192 CCACAAAGTT
* **
1170202 GTGGGCTTTAAAGA-AAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTC
1 GTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTC
* *
1170263 GTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
1170326 GTGGACTTT---GAGAAGAGATTGCCACTGAGTCGTGGA
1 GTGGACTTTAAAGAGAAG-GA-TGCCACTGAGTCGTGGA
1170362 TTTTTTTTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
60 6 0.07
61 17 0.19
62 43 0.49
63 22 0.25
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (63 bp):
GTGGACTTTAAAGAGAAGGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
Found at i:1170321 original size:31 final size:31
Alignment explanation
Indices: 1170221--1170361 Score: 182
Period size: 31 Copynumber: 4.5 Consensus size: 31
1170211 AAAGAAAAAA
*
1170221 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
*
1170251 TGCCACTGAGTCGTGGACTTTAAAG-AGAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGCAG-A-GAT
*
1170283 TGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
*
1170314 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1170345 TGCCACTGAGTCGTGGA
1 TGCCACTGAGTCGTGGA
1170362 TTTTTTTTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
29 1 0.01
30 23 0.23
31 52 0.53
32 22 0.22
33 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:1171367 original size:17 final size:16
Alignment explanation
Indices: 1171335--1171365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1171325 GTTTTTCCTC
*
1171335 TTTTTTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
1171351 TTTTGTTTCTTTTTT
1 TTTTGTTTCTTTTTT
1171366 TGGAAAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTG
Found at i:1172511 original size:52 final size:52
Alignment explanation
Indices: 1172363--1172491 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1172353 CGAAATATGA
* *
1172363 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1172415 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1172467 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1172492 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1172518 original size:13 final size:13
Alignment explanation
Indices: 1172500--1172524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1172490 CAAAGATCAG
1172500 TGTATCGATACAA
1 TGTATCGATACAA
1172513 TGTATCGATACA
1 TGTATCGATACA
1172525 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.