Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 73 of 228
Found at i:21708770 original size:13 final size:13
Alignment explanation
Indices: 21708752--21708786 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
21708742 TTGTTTTATA
21708752 ATATTTTAAATGT
1 ATATTTTAAATGT
21708765 ATATTTTAAATGT
1 ATATTTTAAATGT
21708778 ATATTTTAA
1 ATATTTTAA
21708787 TTTGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATGT
Found at i:21708770 original size:57 final size:56
Alignment explanation
Indices: 21708708--21708899 Score: 142
Period size: 57 Copynumber: 3.3 Consensus size: 56
21708698 AAACATTTAA
21708708 ATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAATGT
1 ATATTTTAAAGATATGA-CTTTCAAATTTATTATTTGTTTTATAATATTTTAAATGT
* * * * * *
21708765 ATATTTTAAATG-TAT-A-TTTTAATTTGTTTTTTATTT-TTTTA-AATTTTTTTAATTTTTTT
1 ATATTTTAAA-GATATGACTTTCAA---ATTTATTATTTGTTTTATAA-TATTTTAA---ATGT
* *
21708824 AAAATATATTTAAAGATATGGCTTTTCAAATTTATTATTTGTTTTATAATATTTTAAACGT
1 ---ATAT-TTTAAAGATATGACTTT-CAAATTTATTATTTGTTTTATAATATTTTAAATGT
*
21708885 ATATTTTAAATATAT
1 ATATTTTAAAGATAT
21708900 TTTTTATAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 36
0.67 0.10 0.24
Matches are distributed among these distances:
54 5 0.05
55 2 0.02
56 13 0.13
57 32 0.31
58 5 0.05
59 2 0.02
61 1 0.01
62 5 0.05
63 18 0.18
64 12 0.12
65 5 0.05
66 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (56 bp):
ATATTTTAAAGATATGACTTTCAAATTTATTATTTGTTTTATAATATTTTAAATGT
Found at i:21708804 original size:10 final size:10
Alignment explanation
Indices: 21708781--21708823 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
21708771 TAAATGTATA
21708781 TTTTAATTTGT
1 TTTTAATTT-T
*
21708792 TTTTTA-TTT
1 TTTTAATTTT
*
21708801 TTTTAAATTT
1 TTTTAATTTT
21708811 TTTTAATTTT
1 TTTTAATTTT
21708821 TTT
1 TTT
21708824 AAAATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 6 0.21
10 17 0.61
11 5 0.18
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:21708823 original size:9 final size:9
Alignment explanation
Indices: 21708781--21708825 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
21708771 TAAATGTATA
21708781 TTTTAATTTGT
1 TTTTAA-TT-T
*
21708792 TTTTTATTT
1 TTTTAATTT
21708801 TTTTAAATTT
1 TTTT-AATTT
21708811 TTTTAATTT
1 TTTTAATTT
21708820 TTTTAA
1 TTTTAA
21708826 AATATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 16 0.52
10 10 0.32
11 5 0.16
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTAATTT
Found at i:21708823 original size:19 final size:20
Alignment explanation
Indices: 21708781--21708826 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
21708771 TAAATGTATA
* *
21708781 TTTTAATTTGTTTTTTATTT
1 TTTTAAATTGTTTTTAATTT
21708801 TTTTAAATT-TTTTTAATTT
1 TTTTAAATTGTTTTTAATTT
21708820 TTTTAAA
1 TTTTAAA
21708827 ATATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTAAATTGTTTTTAATTT
Found at i:21708835 original size:20 final size:19
Alignment explanation
Indices: 21708797--21708836 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
21708787 TTTGTTTTTT
* *
21708797 ATTTTTTTAAATTTTTTTA
1 ATTTTTTTAAATATATTTA
21708816 ATTTTTTTAAAATATATTTA
1 ATTTTTTT-AAATATATTTA
21708836 A
1 A
21708837 AGATATGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTTTAAATATATTTA
Found at i:21708931 original size:120 final size:119
Alignment explanation
Indices: 21708706--21708934 Score: 311
Period size: 120 Copynumber: 1.9 Consensus size: 119
21708696 TAAAACATTT
*
21708706 AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAATGTATATTT
1 AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACGTATATTT
* *** * * * *
21708771 TAAATGTATATTTTAATTTGTTTTTTATTTTTTTAAATTTTTTTAATTTTTTTA
66 TAAATATATATTTTAATTAAATTATAAATTTTTAAAATTTTTTTAATTTTTTTA
* *
21708825 AAATATATTTAAAGATATGGCTTTTCAAATTTATTATTTGTTTTATAATATTTTAAACGTATATT
1 AAATAT-TTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACGTATATT
*
21708890 TTAAATATAT-TTTTTA-TAAATTATAAATTTTT-AAATTATTTTTAA
65 TTAAATATATATTTTAATTAAATTATAAATTTTTAAAATT-TTTTTAA
21708935 AGATATTCAA
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
117 5 0.05
118 17 0.18
119 11 0.11
120 64 0.66
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (119 bp):
AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACGTATATTT
TAAATATATATTTTAATTAAATTATAAATTTTTAAAATTTTTTTAATTTTTTTA
Found at i:21713139 original size:256 final size:254
Alignment explanation
Indices: 21712792--21713788 Score: 919
Period size: 256 Copynumber: 3.9 Consensus size: 254
21712782 ATGTAGTAGT
* * * * * * *
21712792 GATGAATGAAGAGATTAAATAAGGGAT-AGTGATAGGCTGCCAAGTCTTAAACTGTTTTACC-AG
1 GATGAATGAAGAGATTTAATTAGGGATGA-TGATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAG
* * ** * *
21712855 AAATAAATTATGAGCAGCCGCTTCTTCTCCACAAATACAAGTTGCAGACTTTGTTGGAGAT-AGA
65 AAATAGATTTTGAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGA-A
* * * * *
21712919 ATCAAGTTTACTCCTTAATCGAAAGAGAAAAGGTTATCATAACCCTTAGAAAAATTCACTGTCCA
129 ATCAAATTCACTCCTTAATAGAAAGAGAAAAGGTTATC-TAACCCTTAGAGAAATTCA-TTTCCA
* * * **
21712984 ACT-TGGTTGAATGCAAAGCTTTGAAGATCCAAAAAACCCTATGTTGAACTTGTCTCTAATAGG
192 ACTCTGG-TGAATGGAAAGATTTGAAGATCCAAAAAACCCTCTGTTGAACCAGTCTCTAATAGG
* *
21713047 GATGAATTG-AGAGATTTAATTAGGGATGATGGTCGGCTACCAAGTCTCAACCAGTTTTTCCAAG
1 GATGAA-TGAAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAG
* *
21713111 AAATAGATTTTGAGTAGCTACTTCTTCTCCTCAAATACAAGTTACAGATTTTGTTGGAGATGAAA
65 AAATAGATTTTGAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAA
*
21713176 TCAAATTCACTCCTTAATAGAAAGAGAAAAGGTTATCTTAACCCTTTA-AGAAATCCAATTTCCA
130 TCAAATTCACTCCTTAATAGAAAGAGAAAAGGTTATC-TAACCC-TTAGAGAAATTC-ATTTCCA
* *
21713240 ACTCTGGTGAATGGAAAGATTTGAAGATCC-AAGAACCCTCTGTTTATACCCA-TCTCTAATAGG
192 ACTCTGGTGAATGGAAAGATTTGAAGATCCAAAAAACCCTCTGTTGA-A-CCAGTCTCTAATAGG
* * * * * * *
21713303 GATAAAT-AGATAGATTTAATTAAGGATGATGATCGGCGGTCAAGTCTCAACTAGATTTT-CATA
1 GATGAATGA-AGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACCAGTTTTTCCA-A
* * ** * *
21713366 CAAATAGA-TTCGAAGCTTCTACTTCTTCCCCTCAAATACAAGTTGC-GAATTTTGTTGGTGATG
64 GAAATAGATTTTG-AGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAG-ATTTTGTTGGAGATG
* * * * ** * * *
21713429 AAATCAAATTCATTTCTCAATAAAAAGAGAAAATTTTATCTCAACCTTTTGAGAAATCTGATTTC
127 AAATCAAATTCACTCCTTAATAGAAAGAGAAAAGGTTATCT-AACCCTTAGAGAAAT-TCATTTC
* * * * *
21713494 CAAATCTCGTGAATGGAAAGGTTTGAATAT-CAAAGATAACCCTCTCTTGAAACCAGTCTCTAAT
190 CAACTCTGGTGAATGGAAAGATTTGAAGATCCAAA-A-AACCCTCTGTTG-AACCAGTCTCTAAT
*
21713558 GGG
252 AGG
* * **
21713561 GATGAATGTAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTAAACCAAG--TTGACAAG
1 GATGAATGAAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACC-AGTTTTTCCAAG
* * * * * * *
21713624 AAATAGATTCTGAGCGGCTACTTCTTCTCCTCATATACAACTAGCAGATTTTATTGGAGATGGAA
65 AAATAGATTTTGAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAA
* * * * * * ** **
21713689 TCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTA-AAAAATTTGTTTTAGA
130 TCAAATTCACTCCTTAATAGAAAGAGAAAAGGTTATCT-AAC-CCTTAGAGAAA-TTCATTTCCA
* * * *
21713753 ACTTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAA
192 ACTCTGGTGAATGGAAAGATTTGAAGATCCAAAAAA
21713789 AATCCAATTC
Statistics
Matches: 604, Mismatches: 108, Indels: 59
0.78 0.14 0.08
Matches are distributed among these distances:
255 71 0.12
256 323 0.53
257 129 0.21
258 78 0.13
259 3 0.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (254 bp):
GATGAATGAAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAGA
AATAGATTTTGAGCAGCTACTTCTTCTCCTCAAATACAAGTTGCAGATTTTGTTGGAGATGAAAT
CAAATTCACTCCTTAATAGAAAGAGAAAAGGTTATCTAACCCTTAGAGAAATTCATTTCCAACTC
TGGTGAATGGAAAGATTTGAAGATCCAAAAAACCCTCTGTTGAACCAGTCTCTAATAGG
Found at i:21713872 original size:102 final size:102
Alignment explanation
Indices: 21713687--21713886 Score: 267
Period size: 102 Copynumber: 2.0 Consensus size: 102
21713677 TTGGAGATGG
*
21713687 AATCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATTTGTTTTAG
1 AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAG
**
21713752 AACTTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAA
66 AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAA
* * * * * * *
21713789 AATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAAAAATTTGTTTTC
1 AATCAAATTCACTCCTAAATCGAAAGAGAA-AGAGTCATCTCAACACTTTAAAAAATTTGTTTTA
* * *
21713853 TAACTCAGGTGAATGGAAAGCTTTGAAGATCCAA
65 GAACTCAGGTGAATAGAAAGCTTTAAAGATCCAA
21713887 GATAACCCTA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 83 0.99
103 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (102 bp):
AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAG
AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAA
Found at i:21714339 original size:258 final size:257
Alignment explanation
Indices: 21713787--21714542 Score: 813
Period size: 258 Copynumber: 2.9 Consensus size: 257
21713777 AGATCCAAAA
* * * * * *
21713787 AAAATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAA-AAATTTGTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAA-AGGGTTATCTCAAACCTTT-AAGAAATCTGAT
* * * *
21713850 TTCTAACTCAGGTGAATGGAAAGCTTTGAAGATCCAAGATAACCCTATGTTG-AACACATCTCTA
64 TTCCAACTCTGGTGAATGGAAAGCTTTGAAGAT-CAAGAAAACCCTATGTTGAAACCCATCTCTA
* * * * **
21713914 ATAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTACAAGGTCTCAACCAATTTTTC
128 ATAGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGAC
* * **
21713979 CATGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTTTTGGAGAT
193 AAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
* * *
21714044 AAAATCAATTTCACTCCTCAATTGAAAGAGGAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
* *
21714109 CCAACTCTGGTGAATCGAAAGCTTTAAAGATCAAGGAAAACCCTATGTTGAAACCCATCTCTAAT
66 CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAA-GAAAACCCTATGTTGAAACCCATCTCTAAT
* * * *
21714174 AAAGG-TGAATGGAGAGATTTAATTTGGAATGATAATCGGCTACCAA-GTCTGC-ACTAACTTGA
130 -AGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTA-CAAGGTCT-CAACCAACTTGA
* * * *
21714236 CAAAGAAATAGATTTTGAGCT-GCTACTTCTTCTCGTAAAATACAAGTTGCAGA-TTTTACTGGT
192 CAAAGAAATAGATTCTGAG-TGGCTACTTCTTCTCCTAAAATACAAATTGCA-ATTTTTACTGGA
21714299 GAT
255 GAT
** * *
21714302 GTAATCAAATTCACTTCC-CAATCGGAAGAGAAAGGGTTATCTC-AACACTTTGAGAAATCTGAT
1 AAAATCAAATTCAC-TCCTCAATCGAAAGAGAAAGGGTTATCTCAAAC-CTTTAAGAAATCTGAT
* * * *
21714365 TTCCAACTCTGGTGAATGGAAAGCTTTGAAGATCTAAGAAAACCATCTGTTGAAACCTATCTCTT
64 TTCCAACTCTGGTGAATGGAAAGCTTTGAAGATC-AAGAAAACCCTATGTTGAAACCCATCTCTA
* * * *
21714430 ATAGGGAAGAATGGAGAGATTTAATTAGGTAAT-ATGATCGACTGTCAA-GTCTCAA-CAAGTAT
128 ATAGGGATGAATGGAGAGATTTAATTAGG-AATGATAATCGACT-ACAAGGTCTCAACCAACT-T
* * * * * *
21714492 GAC-AAGAAATAGATTCTAAGCGGCTATTTTTTATCCTAAAAAAC-AATTGCA
190 GACAAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCA
21714543 TATTGTAACA
Statistics
Matches: 418, Mismatches: 63, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
256 12 0.03
257 134 0.32
258 255 0.61
259 17 0.04
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (257 bp):
AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAAGAAAACCCTATGTTGAAACCCATCTCTAATA
GGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGACAAA
GAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
Found at i:21715860 original size:22 final size:22
Alignment explanation
Indices: 21715835--21715878 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21715825 CATAAAATAG
21715835 TTATAATTTCAATGATTGGTTT
1 TTATAATTTCAATGATTGGTTT
21715857 TTATAATTTCAATGATTGGTTT
1 TTATAATTTCAATGATTGGTTT
21715879 GAACTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.55
Consensus pattern (22 bp):
TTATAATTTCAATGATTGGTTT
Found at i:21718183 original size:258 final size:254
Alignment explanation
Indices: 21717710--21718593 Score: 793
Period size: 258 Copynumber: 3.4 Consensus size: 254
21717700 AGAGGTTACA
* * * *
21717710 CAGATTTTATTTGAGATTGAATAAAATTCACACCAT-AATCAAAAGAGAAAGGGTTATCTCAACC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCC-TCAATCAAAAGAGAAAGGGTTATCTCAACC
* * * * * * * *
21717774 CTTTGAAAAATCCATTTTCCAACTTCGATGAATGTAAAGTTTTGAAGATCTAA-AAACACCCTTT
65 TTTTGAGAAATTCAATTTCCAACTCCGGTGAATGGAAACTTTTGAAGATC-AAGAAA-ACCCTTT
* * ** * * * * *
21717838 GTCGAATTTCGTCTCTAATAGGGATGAATGGAGAGATTTTACTAGGGATTATGACCGACTGTCAA
128 ATTGAAACTCGTCTCTAATAGGGATGAATAGAGAGA-TTTAATAGGAATGATGAGCGACTG-CAA
* * ** *
21717903 GTCTTAACCAATTTTTCCAAGAAATAGAGTTTGAGCTGCTACTTATTCTCCTCTAATACAAGTTG
191 GTCTCAACCAGTTTAACCAAGAAATAGA-TTTGAGCTGCTACTTATTCTCCTCAAATACAAGTTG
* * *
21717968 CAGATTTTGTTAGAGATTGAATCAAATTGACTCCTCAATCGAAAA-AGAAAGGGTTATCTCAATC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATC-AAAAGAGAAAGGGTTATCTCAACC
* * *
21718032 TTTTGAGAAATTCAATTACCAACTCCGGTGAATGGAAACTTTTGAAGATACAAGAAAACTCTTTC
65 TTTTGAGAAATTCAATTTCCAACTCCGGTGAATGGAAACTTTTGAAGAT-CAAGAAAACCCTTTA
* * * *
21718097 TTGAACCCCATATCTAATAGGGATGAATAGAGAGATTTAATACGGAATGATGAGCGACTGCCAAG
129 TTGAAACTCGTCTCTAATAGGGATGAATAGAGAGATTTAATA-GGAATGATGAGCGACTG-CAAG
* * *
21718162 TCTCAACCAGCTTAACCAAGAAATAGATTATGAGCTGCTACTTATTCTCCTAAAATACATGTTG
192 TCTCAACCAGTTTAACCAAGAAATAGATT-TGAGCTGCTACTTATTCTCCTCAAATACAAGTTG
* * * * ** * *
21718226 CAAATCTTGTTGGTGATAGAATCAAATTCACTCCTCCCTCAAAAGACAAAAGGTTATCTCAA-CT
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGAGAAAGGGTTATCTCAACCT
* * * * *
21718290 CTTTAAGAAATTCAATTTCCAACTCCAGTGAATGGAAA-TCTTTGATA-ATTTAAGCAAACCCTC
66 -TTTGAGAAATTCAATTTCCAACTCCGGTGAATGGAAACT-TTTGA-AGA-TCAAGAAAACCCTT
* * * * * *
21718353 TATTGAAACTTGTCTCAAATAGGGATAAATTGAGAGATTTAATTAGGGAAGATGATCAGCTA-TG
127 TATTGAAACTCGTCTCTAATAGGGATGAATAGAGAGATTTAA-TA-GG-A-ATGATGAGCGACTG
* * * * * ** * *
21718417 -AGGTCTCAACCAGTTTGACTAAGAAATATATTTTGAACTAATACTTCTTCTCTTCAAATAC-AG
188 CAAGTCTCAACCAGTTTAACCAAGAAATAGA-TTTGAGCTGCTACTTATTCTCCTCAAATACAAG
* *
21718480 ACTA
252 -TTG
* * ** * *
21718484 CAG-TTTTTTTGGAGATTGAATCAAATTCACTCCTTAATTGAATGAAAAAGGGTTATCTCAACCT
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGAGAAAGGGTTATCTCAACCT
*
21718548 TTTGAGAAA-TCTAATTTCCAACTCCGGTGAATAGAAAGC-TTTGAAG
66 TTTGAGAAATTC-AATTTCCAACTCCGGTGAATGGAAA-CTTTTGAAG
21718594 TTCTAAAAAA
Statistics
Matches: 509, Mismatches: 96, Indels: 43
0.79 0.15 0.07
Matches are distributed among these distances:
256 3 0.01
257 99 0.19
258 379 0.74
259 16 0.03
260 3 0.01
261 9 0.02
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (254 bp):
CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGAGAAAGGGTTATCTCAACCT
TTTGAGAAATTCAATTTCCAACTCCGGTGAATGGAAACTTTTGAAGATCAAGAAAACCCTTTATT
GAAACTCGTCTCTAATAGGGATGAATAGAGAGATTTAATAGGAATGATGAGCGACTGCAAGTCTC
AACCAGTTTAACCAAGAAATAGATTTGAGCTGCTACTTATTCTCCTCAAATACAAGTTG
Found at i:21719190 original size:258 final size:258
Alignment explanation
Indices: 21718683--21719215 Score: 641
Period size: 258 Copynumber: 2.1 Consensus size: 258
21718673 TGTTGAACTC
* * * * *
21718683 GTCTCTAGTAGGAAGGAATGGAGAGATTTGATTAGGGATGATGATCGGCTGCTAAGTCTCAACCA
1 GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCTAAGTCTCAAACA
* *
21718748 GTTTGTCCAAGAAATAGATTCTGAGTTGTTTCTTCTTCTTCTCAAATACAAGTTGCAGATTTTAT
66 GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATTTTAT
* * *
21718813 TATAGATGGAATCAAATTCATTCCTCAATTGAAATAGAAAAGGTTACCTCAACCCTTTGAGAAAT
131 TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
* * *
21718878 CCAATCTCTAAATCTGATGAATGATAAGGTTTAAAAATCCAAGAGAACCCTCTATTGAAACAT
196 CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAGAAACCTCTATTGAAACAT
* * * * *
21718941 GTCTCTAATATGGATGAATGGAGAGATTT-AGTTAGGGGTGATGATCAGTTTC-CAGTTCTCAAA
1 GTCTCTAATAGGGATGAATGGAGAGATTTGA-TTAGGGATGATGATCAGCTGCTAAG-TCTCAAA
* *
21719004 TAGTTTGACCAAGAAATAGATTCTGAGCTT-TTACTTCTTCTTCTCAAATACAAGTTGTAGATTT
64 CAGTTTGACCAAGAAATAGATTCTGAG-TTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATTT
* * * * *
21719068 TGTTAGAGATGGGATTCAAATTCACTCCTTAATTGGAAGAG-AAAGTGTTATCTCAACCCTTTGA
128 TATTAGAGAT-GGAATCAAATTCACTCCTCAATTGAAAGAGAAAAG-GTTACCTCAACCCTTTGA
* * * * * *
21719132 -AAGTTCC-ATTTTTAAA-CTTCGATGAATGAAAAGCTTTGAATATCTAAGA-AAACCTCTATTG
191 GAA-ATCCAATCTCTAAATC-T-GATGAATGAAAAGCTTTAAAAATCCAAGAGAAACCTCTATTG
*
21719193 AAACTT
253 AAACAT
*
21719199 GTCTTTAATAGGGATGA
1 GTCTCTAATAGGGATGA
21719216 TGATCGGCTA
Statistics
Matches: 233, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
257 4 0.02
258 158 0.68
259 71 0.30
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (258 bp):
GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCTAAGTCTCAAACA
GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATTTTAT
TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAGAAACCTCTATTGAAACAT
Found at i:21719686 original size:3 final size:3
Alignment explanation
Indices: 21719680--21719809 Score: 118
Period size: 3 Copynumber: 43.7 Consensus size: 3
21719670 CTTTTTGTTG
* * * * * *
21719680 TTC TTC TTC ATC TTC TTC TTT TTC CTC TTT TTC CTC TTC TTC TTC TCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * * * * * *
21719728 CTC TT- TTC TTC TTC CTC TTC TTC TTA TTC ATC ATC ATC ATC ATC ATC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
21719775 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
21719810 TTTGTGTAAC
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
2 2 0.02
3 104 0.98
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (3 bp):
TTC
Found at i:21722455 original size:20 final size:21
Alignment explanation
Indices: 21722417--21722455 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21722407 TTTATGGTTT
*
21722417 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTAGGGTAAAAA
*
21722438 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGGTAAA
21722456 TTGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAGGGTAAAAA
Found at i:21726635 original size:22 final size:22
Alignment explanation
Indices: 21726583--21726635 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
21726573 ATTGCCATGG
21726583 ATGTATTATGCCAATATAATTGA
1 ATGT-TTATGCCAATATAATTGA
* *
21726606 TTGATTATGCCAATATAATTGA
1 ATGTTTATGCCAATATAATTGA
21726628 ATGTTTAT
1 ATGTTTAT
21726636 ATGTTAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (22 bp):
ATGTTTATGCCAATATAATTGA
Found at i:21731852 original size:528 final size:525
Alignment explanation
Indices: 21730848--21732447 Score: 2206
Period size: 528 Copynumber: 3.0 Consensus size: 525
21730838 CCAAGCCTTA
* * * * *
21730848 AGGGGGAATCGCAAATGTAGTACATGTATAGGTCAATCTATTTTGAAGGAAAAATTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
* * * * * *
21730913 TTTGGTTGTAACAATGCTATTTGGAAGAGGAAATATGGAGAAGGTGGACGAA-AGACTCATTGTG
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGA-ACTCTTTTTA
* *
21730977 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAG-AAAAGGCAATGCCTACC
130 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACC
* * * * *
21731041 TCAAATGTCAAATCCCAATTATGTTTACCTTTGATTTGATACAAATTGCCTTGATATTTCTTCAA
195 TCAAGTGTCAAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAA
* * * *
21731106 ATACAAAGCGTTGCGATGCCCCTAGTCTTGTTCTCAAGGCTGCTATTAGCACTTCACTTTGACAT
260 ATACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACAT
* * * *
21731171 TCCTTATACCTTTTGGTAGCATTTTTTGCTTTCTCGAACAGGTTTCGGCACATATGGGAAGGGTT
324 TGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTT
* *
21731236 TTCTTTTGAATCATTTGTTTATATTATTATAGACTTGAAATTAACCTTA-CCTTCTTAAGCAATG
388 TTCTTTTGAATCATTTG-TTATATTATTACAGACTTGAAATTAGCCTTACCCTT-TTAAGCAATG
* * * * *
21731300 ATGTATCTAGAACATTGGGCTTTTGAAATTCTTATCTTGCTACCAGGATTGAAGCCAAATTTATA
451 ATGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATA
21731365 AATAACTTTG
516 AATAACTTTG
* * *
21731375 AGGGGGAATCGTAAATGCAATACGTGTATAGGTCAATCTATTTCGAAAGG-TAATTTGAAAGAAT
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCG-AAGGAAAATTTGAAGGAAT
* *
21731439 ATTTGGTTGTAACAATGTTATTTCGTAGTGGAAATAGGGAGAAGGTGGACGAAGAACTCTTTTTA
65 ATTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTA
* *
21731504 GCTAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTTGATGCCTACC
130 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACC
*
21731569 TCAAGTGTCGAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAA
195 TCAAGTGTCAAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAA
*
21731634 ATACAAAGCGTTGTGATGTCCCTAGTCTTGTTCTCAAAGCTGCCATTGGTACTTCACTTTGACAT
260 ATACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACAT
* * **
21731699 TGCTTATACCTTTTGGTAGCCTTTGCTGCTTTCTCTAACAAGTTTCGGCACATATATGAATGGTT
324 TGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTT
*
21731764 TTCTTTTAAATCATTTAGTTATATTATTACAGACTTGAAATTAGCCTTACCCTTTTAAGCAATGA
388 TTCTTTTGAATCATTT-GTTATATTATTACAGACTTGAAATTAGCCTTACCCTTTTAAGCAATGA
* *
21731829 TGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTTTTGCTACCAGGATTGATGCCAAAATTATAA
452 TGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAA
21731894 ATAACTTTG
517 ATAACTTTG
* * *
21731903 AGGGGGAATCACAAATGCAATACGTGTATAGGTCAATCTTTTTCGAAGGACAATTTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
*
21731968 TTTGGTTGTAACAATGTTATTTCGAAGTGAAAATATGGAGAAGGTGGACGAAAGACTCATTGTAA
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGAC----GA---A--G-AA
* * * *
21732033 CCAAGCTAATATTAATATTTCCCAAGCTAATATTAATATTTCTTCATCAACAGCTTGATATTTCA
121 -C--TCT--T-TT--TA---GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCA
* *
21732098 AGAAAAAGGTCGATGCGTACCTTAAGTGTCAAATCCCAGTTATGTTTACCTTTGGTTTGATACAA
175 AGAAAAA-GTCGATGCCTACCTCAAGTGTCAAATCCCAGTTATGTTTACCTTTGGTTTGATACAA
* * * *
21732163 ATCGTCTTGATATTTCTTCAAATACAAAGTGTTGTGATGCACCTAGTCTTGTTCTCAAGGTTCCC
239 ATAGTCTTGATATTTCTTCAAATACAAAGCGTTGTGATGC-CCTAGTCTTGTTCTCAAGGCTGCC
* * *
21732228 ATTGGTACTTTACTTTGACATTGCGTATACCTTTCGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
303 ATTGGTACTTCACTTTGACATTGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
*
21732293 TCGGCACATATGGGAAGGATTTTC--TTGAGTCATTTTGTTATATTATTACAGACTTGAAATTAG
368 TCGGCACATATGGGAAGG-TTTTCTTTTGAATCA-TTTGTTATATTATTACAGACTTGAAATTAG
* * *
21732356 CCATACCCTCTTAAGAAAT-AGTGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACC
431 CCTTACCCTTTTAAGCAATGA-TGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACC
21732420 AGGATTGATGCCAAATTTATAAATAACT
495 AGGATTGATGCCAAATTTATAAATAACT
21732448 ACTTCGTTGG
Statistics
Matches: 954, Mismatches: 87, Indels: 43
0.88 0.08 0.04
Matches are distributed among these distances:
527 156 0.16
528 416 0.44
529 5 0.01
532 2 0.00
535 1 0.00
537 1 0.00
538 2 0.00
539 1 0.00
541 2 0.00
543 1 0.00
544 2 0.00
546 2 0.00
547 1 0.00
548 118 0.12
549 54 0.06
550 190 0.20
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (525 bp):
AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTAG
CCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACCT
CAAGTGTCAAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAA
TACAAAGCGTTGTGATGCCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACATTG
CTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAAGGTTTTC
TTTTGAATCATTTGTTATATTATTACAGACTTGAAATTAGCCTTACCCTTTTAAGCAATGATGTG
TCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAAATAA
CTTTG
Found at i:21732087 original size:27 final size:21
Alignment explanation
Indices: 21732033--21732074 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21732023 CTCATTGTAA
21732033 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
21732054 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
21732075 TTCATCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
CCAAGCTAATATTAATATTTC
Found at i:21733995 original size:17 final size:17
Alignment explanation
Indices: 21733973--21734010 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21733963 TCATAATAGT
21733973 TTTAAAAAATA-AAAATA
1 TTTAAAAAATACAAAA-A
*
21733990 TTTAAAATATACAAAAA
1 TTTAAAAAATACAAAAA
21734007 TTTA
1 TTTA
21734011 TTAACATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TTTAAAAAATACAAAAA
Found at i:21734794 original size:27 final size:28
Alignment explanation
Indices: 21734764--21734830 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
21734754 TTAACAGCTC
*
21734764 AGTGACTAAAACGTT-ACA-ACACACATA
1 AGTGACTAAAAC-TTAACATACAAACATA
*
21734791 AGTGACTAAAACTTAACATTTCAAACATA
1 AGTGACTAAAACTTAACA-TACAAACATA
21734820 AGTGACTAAAA
1 AGTGACTAAAA
21734831 TATAACCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 15 0.43
29 18 0.51
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.22
Consensus pattern (28 bp):
AGTGACTAAAACTTAACATACAAACATA
Found at i:21735447 original size:19 final size:19
Alignment explanation
Indices: 21735425--21735479 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
21735415 CCACTGTCAC
21735425 CCACCGTAATAAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
21735444 CCACCATAATTAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
21735463 CCACCGAAATCAAATTT
1 CCACCGTAATAAAATTT
21735480 TTTATTAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (19 bp):
CCACCGTAATAAAATTTGT
Found at i:21736646 original size:20 final size:20
Alignment explanation
Indices: 21736603--21736646 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21736593 ACTTTTATTC
* *
21736603 CCCTAAACTTTTTATTTTCC
1 CCCTAAACTTTTTATTCTCA
21736623 CCCTAAAC-TTTTACTTCTCA
1 CCCTAAACTTTTTA-TTCTCA
21736643 CCCT
1 CCCT
21736647 TTACTCTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.43
Consensus pattern (20 bp):
CCCTAAACTTTTTATTCTCA
Found at i:21736778 original size:17 final size:17
Alignment explanation
Indices: 21736758--21736804 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
21736748 CACATTTTAT
21736758 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
21736775 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
21736793 A-TATTTATATTA
1 ATTATTTATATTA
21736805 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:21737252 original size:10 final size:10
Alignment explanation
Indices: 21737239--21737264 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21737229 CTCGAAAATT
21737239 TTCGATTCAA
1 TTCGATTCAA
21737249 TTCGATTCAA
1 TTCGATTCAA
21737259 TTCGAT
1 TTCGAT
21737265 GAATGCTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (10 bp):
TTCGATTCAA
Found at i:21738264 original size:16 final size:17
Alignment explanation
Indices: 21738245--21738281 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
21738235 ACATAATATA
21738245 TAAAAATAATAT-AACT
1 TAAAAATAATATAAACT
*
21738261 T-AAAATATTATAAACT
1 TAAAAATAATATAAACT
21738277 TAAAA
1 TAAAA
21738282 TGGGTTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 9 0.50
16 6 0.33
17 3 0.17
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATAATATAAACT
Found at i:21738267 original size:15 final size:16
Alignment explanation
Indices: 21738247--21738282 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
21738237 ATAATATATA
21738247 AAAATAATAT-AACTT
1 AAAATAATATAAACTT
*
21738262 AAAATATTATAAACTT
1 AAAATAATATAAACTT
21738278 AAAAT
1 AAAAT
21738283 GGGTTGGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAATATAAACTT
Found at i:21755123 original size:46 final size:44
Alignment explanation
Indices: 21755056--21755385 Score: 204
Period size: 46 Copynumber: 7.6 Consensus size: 44
21755046 ATAATACAGG
*
21755056 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
21755102 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
21755146 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
21755185 TCGTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
21755226 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
21755272 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
21755316 TCTCATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
21755359 TCCTATCTCCCTGA-AGTTACAGTGGAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAA
21755386 TGGATTAAAA
Statistics
Matches: 222, Mismatches: 45, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 27 0.12
42 5 0.02
43 24 0.11
44 69 0.31
45 1 0.00
46 70 0.32
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:21756992 original size:3 final size:3
Alignment explanation
Indices: 21756986--21757032 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
21756976 TTTAGCCATT
*
21756986 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
21757031 TT
1 TT
21757033 TGTTTATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:21769989 original size:76 final size:76
Alignment explanation
Indices: 21769906--21770059 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
21769896 AATACTTATA
*
21769906 ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATTAACATAAATAATATGTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATCAACATAAATAATATGTATCTTTATTAGGT
* *
21769971 TCATGATTCAC
66 TCACGATTAAC
* *
21769982 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATATCAACATAAATAATATTTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATCAACATAAATAATATGTATCTTTATTAGGT
21770047 TCACGATTAAC
66 TCACGATTAAC
21770058 AT
1 AT
21770060 AAATTATTGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (76 bp):
ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATCAACATAAATAATATGTATCTTTATTAGGT
TCACGATTAAC
Found at i:21770681 original size:16 final size:17
Alignment explanation
Indices: 21770653--21770686 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
21770643 TGACAATTCA
21770653 TTCCAATCTATTTATTT
1 TTCCAATCTATTTATTT
21770670 TTCCAA-CTATTTATTT
1 TTCCAATCTATTTATTT
21770686 T
1 T
21770687 CTCCCCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (17 bp):
TTCCAATCTATTTATTT
Found at i:21777864 original size:22 final size:23
Alignment explanation
Indices: 21777833--21777875 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21777823 AAAAAAAATC
*
21777833 TGCTAATTTTATTTTTGTTTTTA
1 TGCTAATTTTATTGTTGTTTTTA
*
21777856 TGCT-ATTTTCTTGTTGTTTT
1 TGCTAATTTTATTGTTGTTTT
21777876 CTCCTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.70
Consensus pattern (23 bp):
TGCTAATTTTATTGTTGTTTTTA
Found at i:21778480 original size:22 final size:23
Alignment explanation
Indices: 21778455--21778515 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 23
21778445 TATATATGGC
*
21778455 AAATATA-TTTTTTCACTATTCA
1 AAATATATTTTTTTCAATATTCA
*
21778477 AAATTTATTTTTTTCAATATTC-
1 AAATATATTTTTTTCAATATTCA
*
21778499 --ATATTTTTTTTTCAATA
1 AAATATATTTTTTTCAATA
21778516 GCCAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 15 0.44
22 6 0.18
23 13 0.38
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATATATTTTTTTCAATATTCA
Found at i:21778510 original size:23 final size:23
Alignment explanation
Indices: 21778462--21778515 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
21778452 GGCAAATATA
*
21778462 TTTTTTCACTATTCAAAATTTAT
1 TTTTTTCAATATTCAAAATTTAT
*
21778485 TTTTTTCAATATTC-ATA-TT-T
1 TTTTTTCAATATTCAAAATTTAT
21778505 TTTTTTCAATA
1 TTTTTTCAATA
21778516 GCCAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 12 0.41
21 2 0.07
22 2 0.07
23 13 0.45
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTTTCAATATTCAAAATTTAT
Found at i:21796640 original size:23 final size:23
Alignment explanation
Indices: 21796609--21796674 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
21796599 TATTGGATTT
21796609 ATATATTTTAAAATTTTATAAAAA
1 ATAT-TTTTAAAATTTTATAAAAA
* *
21796633 ATATTTTTAAAACTTTTTTAAAAT
1 ATATTTTTAAAA-TTTTATAAAAA
* *
21796657 A-ATTTTTACATTTTTATA
1 ATATTTTTAAAATTTTATA
21796675 TTTTTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 6 0.17
23 16 0.44
24 14 0.39
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTTTTAAAATTTTATAAAAA
Found at i:21796744 original size:16 final size:15
Alignment explanation
Indices: 21796725--21796755 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
21796715 CACTATCCCT
21796725 TTTTTAGTAAATTTTA
1 TTTTTA-TAAATTTTA
21796741 TTTTTATAAATTTTA
1 TTTTTATAAATTTTA
21796756 ATAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTTTATAAATTTTA
Found at i:21798495 original size:23 final size:24
Alignment explanation
Indices: 21798458--21798520 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
21798448 AAAATAATGA
*
21798458 AAAACAATA-AGAAAATAA-CAAC
1 AAAACAATATAAAAAATAAGCAAC
* *
21798480 AAAATAATATAAAAAA-AAGCAAG
1 AAAACAATATAAAAAATAAGCAAC
*
21798503 AAAACAGTA-AAAAAATAA
1 AAAACAATATAAAAAATAA
21798521 TAGTTTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.75, C:0.08, G:0.06, T:0.11
Consensus pattern (24 bp):
AAAACAATATAAAAAATAAGCAAC
Found at i:21800112 original size:25 final size:25
Alignment explanation
Indices: 21800084--21800135 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
21800074 GCCGTATGTT
21800084 TGTTTCTTCTGATTCTGAATGTCCA
1 TGTTTCTTCTGATTCTGAATGTCCA
21800109 TGTTTCTTCTGATTCTGAATGTCCA
1 TGTTTCTTCTGATTCTGAATGTCCA
21800134 TG
1 TG
21800136 GACCATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.48
Consensus pattern (25 bp):
TGTTTCTTCTGATTCTGAATGTCCA
Found at i:21810682 original size:46 final size:46
Alignment explanation
Indices: 21810664--21810816 Score: 157
Period size: 46 Copynumber: 3.2 Consensus size: 46
21810654 TGACAAGTGG
* * *
21810664 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
21810710 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* **
21810756 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 ------AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
21810808 AAAGTGATA
1 AAAGTGATA
21810817 GGTGGCTACA
Statistics
Matches: 95, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
46 53 0.56
52 41 0.43
53 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:21810683 original size:52 final size:51
Alignment explanation
Indices: 21810612--21810803 Score: 268
Period size: 52 Copynumber: 3.8 Consensus size: 51
21810602 ATCAAGTGAC
* *
21810612 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
21810664 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
21810710 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
21810761 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
21810804 AAACAAAGTG
Statistics
Matches: 125, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
46 44 0.35
52 81 0.65
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:21810718 original size:98 final size:98
Alignment explanation
Indices: 21810598--21810821 Score: 349
Period size: 98 Copynumber: 2.3 Consensus size: 98
21810588 TTTGAGTACT
*
21810598 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
21810663 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
* *
21810696 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
21810761 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
** *
21810794 TCTGATCAAGAAACAAAGTGATAGGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
21810822 CTACACTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
Found at i:21814782 original size:82 final size:82
Alignment explanation
Indices: 21814694--21814856 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
21814684 ACCATAAACA
*
21814694 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTGAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
21814759 TAATAAAATAACTCTAG
66 TAATAAAATAACTCTAG
21814776 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
21814841 TAATAAAATAACTCTA
66 TAATAAAATAACTCTA
21814857 TATCCTAGAG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (82 bp):
TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
TAATAAAATAACTCTAG
Found at i:21817330 original size:5 final size:5
Alignment explanation
Indices: 21817322--21817348 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
21817312 AAATAAAAGA
21817322 AATCT AATCT AATCT AATCT AATCT AA
1 AATCT AATCT AATCT AATCT AATCT AA
21817349 AAATATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (5 bp):
AATCT
Found at i:21817660 original size:16 final size:16
Alignment explanation
Indices: 21817639--21817669 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21817629 GAGATTAAAA
*
21817639 AATTAAATTAATTAAT
1 AATTAAATCAATTAAT
21817655 AATTAAATCAATTAA
1 AATTAAATCAATTAA
21817670 ATTAGTATAA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATCAATTAAT
Found at i:21819177 original size:17 final size:17
Alignment explanation
Indices: 21819155--21819187 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21819145 ATATTTTTTA
21819155 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
21819172 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
21819188 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:21832132 original size:28 final size:28
Alignment explanation
Indices: 21832089--21832144 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
21832079 ACGTATTCCC
21832089 AATTCATAAATGTCAGCTTGTGTGAGCA
1 AATTCATAAATGTCAGCTTGTGTGAGCA
*
21832117 AATTCATAAATTTCAGCTTGTGTGAGCA
1 AATTCATAAATGTCAGCTTGTGTGAGCA
21832145 CTATAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (28 bp):
AATTCATAAATGTCAGCTTGTGTGAGCA
Found at i:21836434 original size:20 final size:21
Alignment explanation
Indices: 21836405--21836453 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
21836395 TATAAACAAT
21836405 TATAT-ATATATTAGGTCGAA
1 TATATCATATATTAGGTCGAA
21836425 TATATCTATATATTAGGTCGAA
1 TATATC-ATATATTAGGTCGAA
21836447 TATATCA
1 TATATCA
21836454 GAAATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 21 0.78
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (21 bp):
TATATCATATATTAGGTCGAA
Found at i:21836437 original size:22 final size:22
Alignment explanation
Indices: 21836409--21836452 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21836399 AACAATTATA
21836409 TATATATTAGGTCGAATATATC
1 TATATATTAGGTCGAATATATC
21836431 TATATATTAGGTCGAATATATC
1 TATATATTAGGTCGAATATATC
21836453 AGAAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
TATATATTAGGTCGAATATATC
Found at i:21842296 original size:16 final size:17
Alignment explanation
Indices: 21842264--21842298 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21842254 TTTCTACTTA
*
21842264 ACATGTTTAAGTTCATT
1 ACATGATTAAGTTCATT
21842281 ACATGATTAA-TTCATT
1 ACATGATTAAGTTCATT
21842297 AC
1 AC
21842299 TTACACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (17 bp):
ACATGATTAAGTTCATT
Found at i:21845878 original size:14 final size:14
Alignment explanation
Indices: 21845859--21845888 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21845849 TTTTTGAATT
21845859 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
21845873 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
21845887 TT
1 TT
21845889 ATTCAAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:21846112 original size:18 final size:19
Alignment explanation
Indices: 21846078--21846113 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21846068 AATAATTTTC
21846078 AAAATTCTAAATATTTATT
1 AAAATTCTAAATATTTATT
21846097 AAAATTCTAAAT-TTTAT
1 AAAATTCTAAATATTTAT
21846114 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTCTAAATATTTATT
Found at i:21846124 original size:24 final size:24
Alignment explanation
Indices: 21846088--21846136 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
21846078 AAAATTCTAA
* *
21846088 ATATTTATTAAAATTCTAAATTTT
1 ATATTTATTAAAATTATAAAATTT
21846112 ATATTT-TTAAAAATTATAAAATTT
1 ATATTTATT-AAAATTATAAAATTT
21846136 A
1 A
21846137 AAAAAATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTTATTAAAATTATAAAATTT
Found at i:21848980 original size:35 final size:36
Alignment explanation
Indices: 21848941--21849008 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
21848931 ATTAGGTTAC
*
21848941 TTATTTTTT-AAATTTTAAACTAAATTAAATTACTG
1 TTATTTTTTAAAACTTTAAACTAAATTAAATTACTG
* *
21848976 TTATTTTTTAAAACTTTACATTAAATTAAATTA
1 TTATTTTTTAAAACTTTAAACTAAATTAAATTA
21849009 TTAAAGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (36 bp):
TTATTTTTTAAAACTTTAAACTAAATTAAATTACTG
Found at i:21849248 original size:21 final size:21
Alignment explanation
Indices: 21849222--21849261 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21849212 AAAAAAATCA
*
21849222 ATTTTCATTTTAG-TTTGTTTT
1 ATTTTC-TTATAGATTTGTTTT
21849243 ATTTTCTTATAGATTTGTT
1 ATTTTCTTATAGATTTGTT
21849262 CCAATGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.68
Consensus pattern (21 bp):
ATTTTCTTATAGATTTGTTTT
Found at i:21873411 original size:12 final size:11
Alignment explanation
Indices: 21873394--21873427 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
21873384 TTCACACACG
21873394 AAAAAAAAGCAA
1 AAAAAAAAG-AA
21873406 AAAAAAAAG-A
1 AAAAAAAAGAA
21873416 AAAAAAAAGAA
1 AAAAAAAAGAA
21873427 A
1 A
21873428 GGGGAGAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 2 0.10
12 9 0.43
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:21873729 original size:22 final size:20
Alignment explanation
Indices: 21873683--21873735 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
21873673 AGGCCGGAGA
21873683 AGAGAAAGGGGGTGAGATAG
1 AGAGAAAGGGGGTGAGATAG
*
21873703 AGAGAAATGGGGTGAGATAG
1 AGAGAAAGGGGGTGAGATAG
*
21873723 AGAGAGAGGGGGT
1 AGAGAAAGGGGGT
21873736 TCAGCCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.51, T:0.11
Consensus pattern (20 bp):
AGAGAAAGGGGGTGAGATAG
Found at i:21874213 original size:3 final size:3
Alignment explanation
Indices: 21874185--21874350 Score: 120
Period size: 3 Copynumber: 55.3 Consensus size: 3
21874175 TTTAGTCCTG
* *
21874185 TTA TTG TTA TTG TTA TT- TTCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
21874230 TTA TTA TTA TTA TTA TTA TCA TCA TTA CTA GTA TTA TTA TTA GTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * ** ** * * *
21874275 TTA TTG CTA TTT TTA ACA TTA TTA TTA GAA TTA TTA TTA ATG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
21874323 CTA TTA ATA TTA TTA TTA CCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21874351 ATACATATAT
Statistics
Matches: 122, Mismatches: 37, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
2 4 0.03
3 114 0.93
4 4 0.03
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:21876468 original size:16 final size:16
Alignment explanation
Indices: 21876429--21876461 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21876419 CGTTTGGTTC
21876429 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
21876445 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
21876461 G
1 G
21876462 GCGTAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:21876501 original size:45 final size:44
Alignment explanation
Indices: 21876450--21876541 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
21876440 ATAGAGCTGT
21876450 AATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGT-ATT-AATGTGTTTGGTTGAATGG
* *
21876495 AATGGAATGGAGGCGTAATAGTATTATTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAATGG
21876539 AAT
1 AAT
21876542 AATGTTGTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 2 0.05
44 21 0.48
45 21 0.48
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGTATTAATGTGTTTGGTTGAATGG
Found at i:21876837 original size:28 final size:28
Alignment explanation
Indices: 21876655--21876842 Score: 77
Period size: 24 Copynumber: 6.9 Consensus size: 28
21876645 GATTATTAAT
* *
21876655 ATAAATAATAAATAATTTAATCATATTTTA
1 ATAAAT-ATATATAATTTAAT-ATAATTTA
* *
21876685 ACATAAT-TAT-T-ATTAAATATAATTTA
1 ATA-AATATATATAATTTAATATAATTTA
*
21876711 AT--A-ATATATAA-TTAATAAAATTTA
1 ATAAATATATATAATTTAATATAATTTA
21876735 AT--ATA-A-AT-ATCTT-ATATGAATTTA
1 ATAAATATATATAAT-TTAATAT-AATTTA
* *
21876759 CTAAATCATAATATAATACTATAAAATAATTT-
1 ATAAAT-AT-ATATAAT--T-TAATATAATTTA
*
21876791 A-AAATGATAT-T-ATTAAATATAATTTA
1 ATAAAT-ATATATAATTTAATATAATTTA
*
21876817 ATAAATATATATAATTTAATAAAATT
1 ATAAATATATATAATTTAATATAATT
21876843 CTTAATATTA
Statistics
Matches: 120, Mismatches: 16, Indels: 46
0.66 0.09 0.25
Matches are distributed among these distances:
22 1 0.01
23 9 0.08
24 25 0.21
25 11 0.09
26 16 0.13
27 12 0.10
28 14 0.12
29 4 0.03
30 6 0.05
31 11 0.09
32 2 0.02
33 6 0.05
34 3 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (28 bp):
ATAAATATATATAATTTAATATAATTTA
Found at i:21876934 original size:120 final size:120
Alignment explanation
Indices: 21876681--21877182 Score: 816
Period size: 120 Copynumber: 4.3 Consensus size: 120
21876671 TTAATCATAT
*
21876681 TTTAACATAATTATTATTAAATATAATTTAAT---AATATATAA-TTAATAAAA-T-TTAATA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
21876739 AAATA-TCTTATATGAATTTACT-AAATCAT-A-ATATAATACTAT-AAA-ATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
21876788 TTTAAAATGA-TATTATTAAATATAATTTAATAAATATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
21876852 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
21876907 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
21876972 AAACATTCTTATATGAATTTACTAAAATCATAATATATAATATTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
21877027 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATGTATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
21877092 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
21877147 TTCAAAATAATTATTATTAAATATAGTTTAATAAAA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAA
21877183 TTCAATATAA
Statistics
Matches: 366, Mismatches: 15, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
106 21 0.06
107 8 0.02
109 8 0.02
110 9 0.02
111 1 0.00
112 6 0.02
113 6 0.02
114 17 0.05
115 7 0.02
116 1 0.00
117 12 0.03
118 3 0.01
119 13 0.04
120 254 0.69
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:21877026 original size:22 final size:24
Alignment explanation
Indices: 21876981--21877027 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
21876971 TAAACATTCT
21876981 TATATGAATTTACTAAAATCATAA
1 TATATGAATTTACTAAAATCATAA
21877005 TATAT-AATATTA-TAAAAT-ATAA
1 TATATGAAT-TTACTAAAATCATAA
21877027 T
1 T
21877028 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATGAATTTACTAAAATCATAA
Found at i:21877041 original size:13 final size:13
Alignment explanation
Indices: 21877013--21877054 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
21877003 AATATATAAT
21877013 ATTATAAAATATA
1 ATTATAAAATATA
21877026 ATT-TAAAATAATA
1 ATTATAAAAT-ATA
*
21877039 ATTATTAAATATA
1 ATTATAAAATATA
21877052 ATT
1 ATT
21877055 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 6 0.23
13 15 0.58
14 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTATAAAATATA
Found at i:21877048 original size:26 final size:25
Alignment explanation
Indices: 21877008--21877057 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
21876998 ATCATAATAT
21877008 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
21877033 ATAATAATTATTAAATATAATTTAA
1 ATAAT-ATTATAAAATATAATTTAA
21877058 TAAAAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:21877093 original size:18 final size:18
Alignment explanation
Indices: 21877048--21877093 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
21877038 AATTATTAAA
*
21877048 TATAATTTAATAAAAATG
1 TATAATTTAATAAAAATC
*
21877066 TATAATTTAATAAAATTC
1 TATAATTTAATAAAAATC
21877084 T-TAATATTAA
1 TATAAT-TTAA
21877094 ATATTCTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TATAATTTAATAAAAATC
Found at i:21878470 original size:23 final size:23
Alignment explanation
Indices: 21878444--21878489 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21878434 TGCATTAATG
21878444 TAAATAGCTATTT-AAATAAAAAA
1 TAAATA-CTATTTGAAATAAAAAA
* *
21878467 TAAATATTTTTTGAAATAAAAAA
1 TAAATACTATTTGAAATAAAAAA
21878490 AATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAATACTATTTGAAATAAAAAA
Found at i:21879645 original size:6 final size:6
Alignment explanation
Indices: 21879634--21879660 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21879624 ATTTATTATT
21879634 AATGTG AATGTG AATGTG AATGTG AAT
1 AATGTG AATGTG AATGTG AATGTG AAT
21879661 ATCAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (6 bp):
AATGTG
Found at i:21879887 original size:18 final size:18
Alignment explanation
Indices: 21879864--21879903 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
21879854 TTTTTTCGAG
*
21879864 ATTTTGATATTTACACTC
1 ATTTTGATATTTACACTA
21879882 ATTTTGATATTTACACTA
1 ATTTTGATATTTACACTA
21879900 ATTT
1 ATTT
21879904 ACTGTCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTTGATATTTACACTA
Found at i:21892211 original size:16 final size:16
Alignment explanation
Indices: 21892187--21892224 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
21892177 TTTGGTTCGC
* *
21892187 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
21892203 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
21892219 TGTAAT
1 TGTAAT
21892225 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:21892269 original size:45 final size:44
Alignment explanation
Indices: 21892203--21892293 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
21892193 GGATTAGAGG
*
21892203 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
21892248 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
21892292 TG
1 TG
21892294 AAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:21892479 original size:18 final size:17
Alignment explanation
Indices: 21892458--21892492 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21892448 TTATTATTAA
*
21892458 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21892476 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21892493 TCTTAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21892546 original size:157 final size:157
Alignment explanation
Indices: 21892352--21892657 Score: 576
Period size: 157 Copynumber: 1.9 Consensus size: 157
21892342 CCCTTAACAT
*
21892352 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
21892417 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
21892482 TTTAATAAAATTCTTAATACTTAGCAG
131 TTTAATAAAATTCTTAATACTTAGCAG
*
21892509 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
21892574 TAATAAATAATTTAATCGTATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
21892639 TTTAATAAAATTCTTAATA
131 TTTAATAAAATTCTTAATA
21892658 ATTAATATTC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATACTTAGCAG
Found at i:21892632 original size:16 final size:16
Alignment explanation
Indices: 21892595--21892636 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21892585 TTAATCGTAT
*
21892595 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
21892611 TT-AAATATATTATAA
1 TTAAAATATATTATAA
21892626 TTAAAATATAT
1 TTAAAATATAT
21892637 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:21892643 original size:14 final size:15
Alignment explanation
Indices: 21892604--21892645 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21892594 TTTAAACATA
*
21892604 ATTATTATTAAATAT
1 ATTATAATTAAATAT
21892619 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
21892633 A-TATAATTTAATA
1 ATTATAATTAAATA
21892646 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:21892746 original size:120 final size:121
Alignment explanation
Indices: 21892593--21892890 Score: 487
Period size: 120 Copynumber: 2.5 Consensus size: 121
21892583 ATTTAATCGT
*
21892593 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
21892658 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
*
21892715 A-TT-AACATAATTATTGTTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
21892778 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * * *
21892834 ATTTGAA-ACAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
21892891 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
119 7 0.04
120 154 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:21892977 original size:24 final size:26
Alignment explanation
Indices: 21892931--21892978 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
21892921 TATGAATTTG
21892931 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAATAATAATTATTACA
*
21892957 TATAATTTAATA-AATAA-TATTA
1 TATAATTTAAAATAATAATTATTA
21892979 AATTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TATAATTTAAAATAATAATTATTACA
Found at i:21892982 original size:92 final size:92
Alignment explanation
Indices: 21892886--21893114 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
21892876 TGATTTAATA
* * *
21892886 AAATTT-AAAATAATT-GTAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCGTAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
21892948 ATTATTACATATAATTTAATAAATAATATT
64 A-TATTAAATATAATTTAATAAATAATATT
* * * * *
21892978 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCGTAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
21893043 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAAATAATATT
* * *
21893068 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCGTAATAAT-AAAT-TATATTATATGAATTTA
21893115 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCGTAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAAATAATATT
Found at i:21896743 original size:48 final size:47
Alignment explanation
Indices: 21896709--21896891 Score: 303
Period size: 48 Copynumber: 3.8 Consensus size: 47
21896699 ATTTCTTGAT
*
21896709 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
* *
21896757 TTTTAATAAAATATTAAAGTCCTTAATTTAATTATTGATTAGTCTTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
21896805 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
*
21896853 TTTTAATGAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
21896892 GTAATTATTT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (47 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTATCCTTA
Found at i:21896749 original size:25 final size:25
Alignment explanation
Indices: 21896721--21896891 Score: 146
Period size: 25 Copynumber: 7.1 Consensus size: 25
21896711 TTAATAAAAT
21896721 ATTAAAGTCCTTATTTTAAATATTG
1 ATTAAAGTCCTTATTTTAAATATTG
* *
21896746 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAA-ATATTG
* *
21896769 ATTAAAGTCCTTAATTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
* * *
21896794 ATT--AGTCTTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAA-ATATTG
*
21896817 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
*
21896842 ATT--AGTCCTTATTTT-AATGAAAT-
1 ATTAAAGTCCTTATTTTAAAT--ATTG
*
21896865 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
21896890 AT
1 AT
21896892 GTAATTATTT
Statistics
Matches: 113, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
22 2 0.02
23 47 0.42
24 13 0.12
25 49 0.43
26 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.50
Consensus pattern (25 bp):
ATTAAAGTCCTTATTTTAAATATTG
Found at i:21896756 original size:23 final size:23
Alignment explanation
Indices: 21896726--21896858 Score: 126
Period size: 23 Copynumber: 5.6 Consensus size: 23
21896716 AAAATATTAA
21896726 AGTCCTTATTTTAAATATTGATT
1 AGTCCTTATTTTAAATATTGATT
* *
21896749 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
* *
21896772 AAAGTCCTTAATTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
* * *
21896797 AGTCTTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
*
21896820 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
21896845 AGTCCTTATTTTAA
1 AGTCCTTATTTTAA
21896859 TGAAATATTA
Statistics
Matches: 87, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
23 46 0.53
24 9 0.10
25 32 0.37
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (23 bp):
AGTCCTTATTTTAAATATTGATT
Found at i:21896873 original size:96 final size:96
Alignment explanation
Indices: 21896709--21896891 Score: 339
Period size: 96 Copynumber: 1.9 Consensus size: 96
21896699 ATTTCTTGAT
21896709 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
21896774 AGTCCTTAATTTAATTATTGATTAGTCTTTA
66 AGTCCTTAATTTAATTATTGATTAGTCTTTA
* *
21896805 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATGAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
*
21896870 AGTCCTTATTTTAATTATTGAT
66 AGTCCTTAATTTAATTATTGAT
21896892 GTAATTATTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (96 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
AGTCCTTAATTTAATTATTGATTAGTCTTTA
Found at i:21898133 original size:23 final size:23
Alignment explanation
Indices: 21898078--21898150 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
21898068 TAAACAAATT
* *
21898078 CAATTTCCAACAGACAATCATAA
1 CAATTTCCAGCAGACAATCAAAA
*
21898101 CAATTTCCAGCAGACAATTAAAA
1 CAATTTCCAGCAGACAATCAAAA
21898124 CAATTTCCAG-A-ACAAATCAAGAA
1 CAATTTCCAGCAGAC-AATCAA-AA
21898147 CAAT
1 CAAT
21898151 ATCAAAACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.05
22 6 0.14
23 36 0.82
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (23 bp):
CAATTTCCAGCAGACAATCAAAA
Found at i:21898915 original size:17 final size:17
Alignment explanation
Indices: 21898893--21898928 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21898883 ACTCAAAGGG
21898893 AAATAAACAGCAATAGA
1 AAATAAACAGCAATAGA
21898910 AAATAAACAGCAATAGA
1 AAATAAACAGCAATAGA
21898927 AA
1 AA
21898929 CATGCAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAACAGCAATAGA
Found at i:21899164 original size:5 final size:5
Alignment explanation
Indices: 21899154--21899179 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21899144 AAAGAGAGTT
21899154 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
21899180 AAGAGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:21901314 original size:19 final size:20
Alignment explanation
Indices: 21901288--21901333 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
21901278 AAAAAAAGAA
*
21901288 TCAAAATAATTATTAAAATT
1 TCAAAATAATTATAAAAATT
*
21901308 T-AAAATATTTATAAAAATT
1 TCAAAATAATTATAAAAATT
21901327 TCAAAAT
1 TCAAAAT
21901334 TCATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (20 bp):
TCAAAATAATTATAAAAATT
Found at i:21901361 original size:9 final size:10
Alignment explanation
Indices: 21901347--21901391 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
21901337 TATTTTTAAG
21901347 AAAAATTAT-
1 AAAAATTATA
*
21901356 AAAAATTTTA
1 AAAAATTATA
*
21901366 AAAAATTCTA
1 AAAAATTATA
21901376 AAAAATATATA
1 AAAAAT-TATA
21901387 AAAAA
1 AAAAA
21901392 GTTAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 8 0.26
10 15 0.48
11 8 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:21901407 original size:9 final size:9
Alignment explanation
Indices: 21901347--21901411 Score: 51
Period size: 10 Copynumber: 7.0 Consensus size: 9
21901337 TATTTTTAAG
*
21901347 AAAAATTAT
1 AAAAATTTT
21901356 AAAAATTTT
1 AAAAATTTT
*
21901365 AAAAAATTCTA
1 -AAAAATT-TT
*
21901376 AAAAATATAT
1 AAAAAT-TTT
**
21901386 AAAAAAGTT
1 AAAAATTTT
21901395 -AAAATTTT
1 AAAAATTTT
21901403 AAAAATTTT
1 AAAAATTTT
21901412 CTAAAATAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
8 6 0.14
9 17 0.40
10 18 0.42
11 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTTT
Found at i:21902257 original size:6 final size:6
Alignment explanation
Indices: 21902198--21902238 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
21902188 ATTTTTCAAG
* *
21902198 AAAACG AAAACG AAAACA AAAACA AAAACA AAAACA AAAAC
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAAC
21902239 GACTATTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.78, C:0.17, G:0.05, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:21913654 original size:16 final size:18
Alignment explanation
Indices: 21913633--21913676 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
21913623 TTTAATATGT
21913633 TATAAAT-T-ACATAATA
1 TATAAATATAACATAATA
*
21913649 TATAAATATAATATAATA
1 TATAAATATAACATAATA
*
21913667 TATTAATATA
1 TATAAATATA
21913677 TTATAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.29
17 1 0.04
18 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAATATAACATAATA
Found at i:21913666 original size:18 final size:18
Alignment explanation
Indices: 21913643--21913682 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21913633 TATAAATTAC
21913643 ATAATATATAAATATAAT
1 ATAATATATAAATATAAT
* *
21913661 ATAATATATTAATATATT
1 ATAATATATAAATATAAT
21913679 ATAA
1 ATAA
21913683 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATATAAATATAAT
Found at i:21915637 original size:32 final size:32
Alignment explanation
Indices: 21915598--21915665 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
21915588 TTATATAAAT
* * *
21915598 GTTACATTTTTGTCACTTATCTATTAACTTCC
1 GTTACATTTTGGCCACTTATCCATTAACTTCC
*
21915630 GTTACATTTTGGCCACTTATCCGTTAACTTCC
1 GTTACATTTTGGCCACTTATCCATTAACTTCC
21915662 GTTA
1 GTTA
21915666 AGATGGTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.46
Consensus pattern (32 bp):
GTTACATTTTGGCCACTTATCCATTAACTTCC
Found at i:21928164 original size:20 final size:20
Alignment explanation
Indices: 21928139--21928178 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21928129 CCCCTATAGA
*
21928139 ACACTTGTCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
21928159 ACACTTGCCAACTCTTTACT
1 ACACTTGCCAACTCTTTACT
21928179 CTGCTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (20 bp):
ACACTTGCCAACTCTTTACT
Found at i:21932855 original size:27 final size:26
Alignment explanation
Indices: 21932814--21932876 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
21932804 ATTTTCTTTA
* *
21932814 TATATTTTTTAAAAAATTA-AAATTTT
1 TATAATTTTTAAAAAAATATAAA-TTT
21932840 TATAATTTTTAAAAAAATATAAATTT
1 TATAATTTTTAAAAAAATATAAATTT
*
21932866 TAGAATTTTTA
1 TATAATTTTTA
21932877 TAAATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 30 0.91
27 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TATAATTTTTAAAAAAATATAAATTT
Found at i:21932878 original size:18 final size:18
Alignment explanation
Indices: 21932857--21932900 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
21932847 TTTAAAAAAA
21932857 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAG-ATTTT
*
21932875 TATAAATATTTTGATTTT
1 TATAAATATTTAGATTTT
21932893 TA-AAATAT
1 TATAAATAT
21932901 ATTTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 14 0.58
19 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTAGATTTT
Found at i:21932902 original size:19 final size:20
Alignment explanation
Indices: 21932862--21932933 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
21932852 AAAAATATAA
*
21932862 ATTTTAGAATTTTTATAA-AT
1 ATTTT-GAATTTTTAAAATAT
21932882 ATTTTG-ATTTTTAAAATAT
1 ATTTTGAATTTTTAAAATAT
*
21932901 ATTTTGAAATTTTAAAATAT
1 ATTTTGAATTTTTAAAATAT
*
21932921 ATTTTAAATTTTT
1 ATTTTGAATTTTT
21932934 TTTATAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.20
19 9 0.20
20 28 0.61
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAATAT
Found at i:21936806 original size:19 final size:19
Alignment explanation
Indices: 21936782--21936824 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21936772 TTTTATATTT
21936782 AAAATTAATA-AAAATGT-TA
1 AAAATT-ATAGAAAAT-TATA
21936801 AAAATTATAGAAAATTATA
1 AAAATTATAGAAAATTATA
21936820 AAAAT
1 AAAAT
21936825 ATTTAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATTATAGAAAATTATA
Found at i:21936814 original size:10 final size:9
Alignment explanation
Indices: 21936782--21936841 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
21936772 TTTTATATTT
21936782 AAAATTAATA
1 AAAATT-ATA
21936792 AAAATGT-TA
1 AAAAT-TATA
21936801 AAAATTATA
1 AAAATTATA
21936810 GAAAATTATA
1 -AAAATTATA
*
21936820 AAAATATTTA
1 AAAAT-TATA
*
21936830 AAGATTATA
1 AAAATTATA
21936839 AAA
1 AAA
21936842 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
8 1 0.02
9 19 0.45
10 21 0.50
11 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:21936814 original size:29 final size:29
Alignment explanation
Indices: 21936782--21936838 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
21936772 TTTTATATTT
21936782 AAAATTAATAAAAAT-GTTAAAAATTATAG
1 AAAATT-ATAAAAATAGTTAAAAATTATAG
* *
21936811 AAAATTATAAAAATATTTAAAGATTATA
1 AAAATTATAAAAATAGTTAAAAATTATA
21936839 AAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTATAAAAATAGTTAAAAATTATAG
Found at i:21936822 original size:18 final size:19
Alignment explanation
Indices: 21936801--21936847 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
21936791 AAAAATGTTA
21936801 AAAATTATAGAAA-ATTAT
1 AAAATTATAGAAAGATTAT
* **
21936819 AAAAATATTTAAAGATTAT
1 AAAATTATAGAAAGATTAT
21936838 AAAATATATA
1 AAAAT-TATA
21936848 TATATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAATTATAGAAAGATTAT
Found at i:21937015 original size:30 final size:28
Alignment explanation
Indices: 21936981--21937047 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
21936971 TATAATTATG
*
21936981 AAAAAATTGTAAAATT-TGTGAAAATATATT
1 AAAAAATTG-AAAATTAT-TAAAAATAT-TT
*
21937011 AAAAATATAGAAAATTATTAAAAATATTT
1 AAAAA-ATTGAAAATTATTAAAAATATTT
21937040 AAAAAATT
1 AAAAAATT
21937048 AAGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
28 2 0.06
29 7 0.22
30 19 0.59
31 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (28 bp):
AAAAAATTGAAAATTATTAAAAATATTT
Found at i:21937018 original size:9 final size:9
Alignment explanation
Indices: 21937001--21937076 Score: 59
Period size: 10 Copynumber: 8.1 Consensus size: 9
21936991 AAAATTTGTG
21937001 AAAATATATT
1 AAAA-ATATT
21937011 AAAAATA-T
1 AAAAATATT
21937019 AGAAAATTATT
1 A-AAAA-TATT
21937030 AAAAATATTT
1 AAAAATA-TT
21937040 AAAAA-ATT
1 AAAAATATT
*
21937048 AAGTTAAT-TT
1 AA--AAATATT
*
21937058 AAAATTATT
1 AAAAATATT
21937067 AAAAATATT
1 AAAAATATT
21937076 A
1 A
21937077 TTAAAAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
8 8 0.15
9 21 0.39
10 23 0.43
11 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
AAAAATATT
Found at i:21937031 original size:19 final size:20
Alignment explanation
Indices: 21937000--21937037 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21936990 TAAAATTTGT
21937000 GAAAATATATTAAAAATATA
1 GAAAATATATTAAAAATATA
21937020 GAAAAT-TATTAAAAATAT
1 GAAAATATATTAAAAATAT
21937038 TTAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
GAAAATATATTAAAAATATA
Found at i:21937078 original size:12 final size:11
Alignment explanation
Indices: 21937001--21937085 Score: 54
Period size: 11 Copynumber: 7.5 Consensus size: 11
21936991 AAAATTTGTG
21937001 AAAATATATT-A
1 AAAAT-TATTAA
*
21937012 AAAA-TA-TAG
1 AAAATTATTAA
21937021 AAAATTATT-A
1 AAAATTATTAA
21937031 AAAA-TATTTAA
1 AAAATTA-TTAA
21937042 AAAATTAAGTTAA
1 AAAATT-A-TTAA
21937055 TTTAAAATTATTAA
1 ---AAAATTATTAA
21937069 AAATATTATTAA
1 AAA-ATTATTAA
21937081 AAAAT
1 AAAAT
21937086 AAAAATCATA
Statistics
Matches: 60, Mismatches: 3, Indels: 22
0.71 0.04 0.26
Matches are distributed among these distances:
8 1 0.02
9 8 0.13
10 8 0.13
11 15 0.25
12 12 0.20
13 5 0.08
14 4 0.07
15 1 0.02
16 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAATTATTAA
Found at i:21937098 original size:37 final size:36
Alignment explanation
Indices: 21937008--21937098 Score: 89
Period size: 37 Copynumber: 2.4 Consensus size: 36
21936998 GTGAAAATAT
21937008 ATTAA-AAATATAGAAAATTATTAAAAATATTTAAAAA
1 ATTAAGAAATAT--AAAATTATTAAAAATATTTAAAAA
* *
21937045 ATTAAGTTAATTTAAAATTATTAAAAATATTATTAAAAA
1 ATTAAG-AAATATAAAATTATTAAAAATA-T-TTAAAAA
21937084 A-TAA-AAATCATAAAA
1 ATTAAGAAAT-ATAAAA
21937099 ACCAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
36 3 0.07
37 26 0.58
38 4 0.09
39 12 0.27
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (36 bp):
ATTAAGAAATATAAAATTATTAAAAATATTTAAAAA
Found at i:21937259 original size:41 final size:38
Alignment explanation
Indices: 21937185--21937263 Score: 95
Period size: 41 Copynumber: 2.0 Consensus size: 38
21937175 ATATTTTTAT
*
21937185 AATTTTATATATATTTATAATTTCTGCACTTTAAAATA
1 AATTTTATATATATTTATAATTTCTACACTTTAAAATA
* * *
21937223 AATTTTATAATATTTTTAATAAATTTCTATATTTTAAAATA
1 AATTTTAT-ATATATTT-AT-AATTTCTACACTTTAAAATA
21937264 TTTTTAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 8 0.24
39 7 0.21
40 2 0.06
41 17 0.50
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (38 bp):
AATTTTATATATATTTATAATTTCTACACTTTAAAATA
Found at i:21957263 original size:29 final size:26
Alignment explanation
Indices: 21957231--21957283 Score: 70
Period size: 29 Copynumber: 1.9 Consensus size: 26
21957221 TCTGAAAGTA
*
21957231 TTTATTTATTTTTGAATTAATTTTTTATT
1 TTTATATATTTTT-AATT--TTTTTTATT
21957260 TTTATATATTTTTAATTTTTTTTA
1 TTTATATATTTTTAATTTTTTTTA
21957284 GAATTAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
28 4 0.17
29 12 0.52
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTATATATTTTTAATTTTTTTTATT
Found at i:21958992 original size:13 final size:13
Alignment explanation
Indices: 21958976--21959030 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
21958966 TTACTTTTGG
21958976 GAAGTGCTTTTCA
1 GAAGTGCTTTTCA
*
21958989 GAAGCGCTTTTCA
1 GAAGTGCTTTTCA
* *
21959002 AAAGTGCTTTTGA
1 GAAGTGCTTTTCA
* *
21959015 GAAGTACTTTTGA
1 GAAGTGCTTTTCA
21959028 GAA
1 GAA
21959031 ATTTGAGTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.35
Consensus pattern (13 bp):
GAAGTGCTTTTCA
Found at i:21961901 original size:20 final size:20
Alignment explanation
Indices: 21961878--21961916 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21961868 ATTATAATTT
21961878 TTTTTAAAAATAGTGAATAC
1 TTTTTAAAAATAGTGAATAC
** *
21961898 TTTTTGTAGATAGTGAATA
1 TTTTTAAAAATAGTGAATA
21961917 ACAAGTTCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTTTAAAAATAGTGAATAC
Found at i:21963913 original size:45 final size:45
Alignment explanation
Indices: 21963844--21964064 Score: 309
Period size: 45 Copynumber: 4.9 Consensus size: 45
21963834 TATGAAACGA
* *
21963844 TATAAACGAAAAGGAAAAGGCCATAGTTGAAAGATACTATGGCAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
21963889 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
* *
21963934 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGAAACTATGACAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
* * * *
21963979 TGTAATCAAAAAGGAAAAGATCATAGTTGAAAGATAATATGGCAT
1 TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
** * * *
21964024 TA-AATAAAAAATGAAAAAAACAATAGTTGAAAGATACTATG
1 TATAATCGAAAA-GGAAAAGACCATAGTTGAAAGATACTATG
21964065 ACATCGTTTG
Statistics
Matches: 158, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 8 0.05
45 150 0.95
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.22
Consensus pattern (45 bp):
TATAATCGAAAAGGAAAAGACCATAGTTGAAAGATACTATGGCAT
Found at i:21966148 original size:21 final size:20
Alignment explanation
Indices: 21966084--21966148 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
21966074 TCGTCTATCA
21966084 ATTATTTATG-TGTTTATTTT
1 ATTATTTATGTTGTTTA-TTT
*
21966104 ATTTATTTATAATCTGTTTA-TT
1 A-TTATTTAT-GT-TGTTTATTT
21966126 ATTATTTATGTTTGTTTATTT
1 ATTATTTATG-TTGTTTATTT
21966147 AT
1 AT
21966149 ATCTTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
20 7 0.19
21 21 0.57
22 3 0.08
24 6 0.16
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.68
Consensus pattern (20 bp):
ATTATTTATGTTGTTTATTT
Found at i:21987467 original size:24 final size:22
Alignment explanation
Indices: 21987440--21987499 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
21987430 TTTTTAAAAT
* *
21987440 TTTAAAAATAAAATGATTAGATTC
1 TTTAAAAATAAAAAGATTA-A-AC
21987464 TTTAAATAA-AAAAAGATTAAAC
1 TTTAAA-AATAAAAAGATTAAAC
*
21987486 TTTAAATATAAAAA
1 TTTAAAAATAAAAA
21987500 AATATAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 12 0.39
23 1 0.03
24 15 0.48
25 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (22 bp):
TTTAAAAATAAAAAGATTAAAC
Found at i:21995095 original size:14 final size:14
Alignment explanation
Indices: 21995078--21995130 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
21995068 CTCCACCGGA
21995078 CCACCACCACCAAT
1 CCACCACCACCAAT
* *
21995092 CCACCTCCACCGGA-
1 CCACCACCACC-AAT
21995106 CCACCACCACCAAT
1 CCACCACCACCAAT
*
21995120 CCACCTCCACC
1 CCACCACCACC
21995131 TCCGGTCCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.28, C:0.60, G:0.04, T:0.08
Consensus pattern (14 bp):
CCACCACCACCAAT
Found at i:21995098 original size:28 final size:28
Alignment explanation
Indices: 21995066--21995130 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
21995056 CAATTCGAAG
21995066 ACCTCCACCGGACCACCACCACCAATCC
1 ACCTCCACCGGACCACCACCACCAATCC
21995094 ACCTCCACCGGACCACCACCACCAATCC
1 ACCTCCACCGGACCACCACCACCAATCC
21995122 ACCTCCACC
1 ACCTCCACC
21995131 TCCGGTCCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.58, G:0.06, T:0.08
Consensus pattern (28 bp):
ACCTCCACCGGACCACCACCACCAATCC
Found at i:21996700 original size:14 final size:14
Alignment explanation
Indices: 21996681--21996707 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21996671 TTAAAAAAAT
21996681 TTAAGTTTGATTTA
1 TTAAGTTTGATTTA
21996695 TTAAGTTTGATTT
1 TTAAGTTTGATTT
21996708 TAAACCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TTAAGTTTGATTTA
Found at i:21998021 original size:45 final size:45
Alignment explanation
Indices: 21997957--21998045 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
21997947 ATTGGGAAAT
*
21997957 TGTTCGAAGAATTATAAAAGTATTAGAGCCTTTTTATCATCTTAA
1 TGTTCGAAGAATTATAAAAGTATTAGAGCATTTTTATCATCTTAA
21998002 TGTTCGAAGAATTATAAAAGTATTAGAGCATTTTTATCATCTTA
1 TGTTCGAAGAATTATAAAAGTATTAGAGCATTTTTATCATCTTA
21998046 CATTGAAGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (45 bp):
TGTTCGAAGAATTATAAAAGTATTAGAGCATTTTTATCATCTTAA
Found at i:21998940 original size:15 final size:14
Alignment explanation
Indices: 21998922--21998951 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21998912 AATTCAATAC
21998922 ATATATA-TTAAAT
1 ATATATATTTAAAT
21998935 ATATATATTTAAAT
1 ATATATATTTAAAT
21998949 ATA
1 ATA
21998952 ATAAGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTTAAAT
Found at i:22000155 original size:41 final size:41
Alignment explanation
Indices: 22000099--22000201 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
22000089 TGATTCGATA
* * * *
22000099 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * * *
22000140 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
22000181 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
22000202 GCACATAGCC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:22000215 original size:41 final size:41
Alignment explanation
Indices: 22000139--22000216 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
22000129 CCGAAATGTA
** *
22000139 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
* *
22000180 TCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAAT
22000217 AACTCAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
Found at i:22001775 original size:13 final size:13
Alignment explanation
Indices: 22001757--22001781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22001747 TCAAACTATC
22001757 AAATTTTCACACG
1 AAATTTTCACACG
22001770 AAATTTTCACAC
1 AAATTTTCACAC
22001782 ATATAACTTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:22002938 original size:16 final size:19
Alignment explanation
Indices: 22002912--22002949 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
22002902 TTAATTTAAA
22002912 TAAATTATTTTT-TCAA-T
1 TAAATTATTTTTCTCAACT
22002929 TAAA-TATTTTTCTCAACT
1 TAAATTATTTTTCTCAACT
22002947 TAA
1 TAA
22002950 TTCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATTATTTTTCTCAACT
Found at i:22007525 original size:21 final size:21
Alignment explanation
Indices: 22007501--22007543 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22007491 ATGAATTATT
*
22007501 TATGTTATATATGTATTAATG
1 TATGTAATATATGTATTAATG
* *
22007522 TATGTAATGTATGTTTTAATG
1 TATGTAATATATGTATTAATG
22007543 T
1 T
22007544 TTCGTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
TATGTAATATATGTATTAATG
Done.