Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 65 of 240
Found at i:21170012 original size:21 final size:20
Alignment explanation
Indices: 21169966--21170017 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
21169956 CACTAACTTT
* *
21169966 TAACCTCTAATCCCTAATCC
1 TAACCTCTAACCCCTAATAC
21169986 TAAACCTCTAACCCCTAATTAC
1 T-AACCTCTAACCCCTAA-TAC
*
21170008 TAACCCCTAA
1 TAACCTCTAA
21170018 ACATTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (20 bp):
TAACCTCTAACCCCTAATAC
Found at i:21170051 original size:21 final size:21
Alignment explanation
Indices: 21170025--21170085 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
21170015 TAAACATTAT
*
21170025 TTAGCCTCTAAACCTTAAACC
1 TTAGCCTCTAAACCATAAACC
*
21170046 TTAGCCTTTAAACCATAAACC
1 TTAGCCTCTAAACCATAAACC
* * *
21170067 ATAACCCCTAAACCCATAA
1 TTAGCCTCTAAA-CCATAA
21170086 TCCATAAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.39, C:0.33, G:0.03, T:0.25
Consensus pattern (21 bp):
TTAGCCTCTAAACCATAAACC
Found at i:21170085 original size:15 final size:15
Alignment explanation
Indices: 21170058--21170095 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21170048 AGCCTTTAAA
21170058 CCATAAA-CCATAAC
1 CCATAAACCCATAAC
* *
21170072 CCCTAAACCCATAAT
1 CCATAAACCCATAAC
21170087 CCATAAACC
1 CCATAAACC
21170096 TTAAAATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
CCATAAACCCATAAC
Found at i:21170100 original size:22 final size:21
Alignment explanation
Indices: 21170053--21170152 Score: 69
Period size: 22 Copynumber: 4.7 Consensus size: 21
21170043 ACCTTAGCCT
*
21170053 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
21170074 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
***
21170096 TTAAAATGGTAACACC-TAAACC
1 TT-AAACCATAA-ACCATAAACC
*
21170118 TTAAACTC-TAAACCATATACC
1 TTAAAC-CATAAACCATAAACC
* *
21170139 CTAAACCAAAAACC
1 TTAAACCATAAACC
21170153 CTAACTATAG
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
20 4 0.07
21 25 0.42
22 26 0.43
23 5 0.08
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:21170130 original size:14 final size:14
Alignment explanation
Indices: 21170110--21170156 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
21170100 AATGGTAACA
*
21170110 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
21170124 TCTAAACCATATAC
1 CCTAAACCATAAAC
*
21170138 CCTAAACCAAAAAC
1 CCTAAACCATAAAC
21170152 CCTAA
1 CCTAA
21170157 CTATAGTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:21170498 original size:114 final size:114
Alignment explanation
Indices: 21170367--21170705 Score: 529
Period size: 114 Copynumber: 3.0 Consensus size: 114
21170357 CCCCGAAAGC
** *
21170367 GCTTAGGTTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCC
21170432 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTT-G
66 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTC-TTTTCG
* *
21170481 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGTTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCC
* * * * *
21170546 TTAAAAACGCTGCTAAATCCTCAAAAGCTCAAAAAACAGCGTCTTTTCG
66 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCTTTTCG
* * *
21170595 GCTTAAGTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCTTGAGCATTAGCGGCGCTTCC
1 GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCC
21170660 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACCGGCG-CTTT
66 TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAA-CGGCGTCTTT
21170706 CCCAAAAACG
Statistics
Matches: 203, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
113 4 0.02
114 195 0.96
115 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (114 bp):
GCTTAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCC
TTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCTTTTCG
Found at i:21170760 original size:88 final size:87
Alignment explanation
Indices: 21170609--21170793 Score: 282
Period size: 88 Copynumber: 2.1 Consensus size: 87
21170599 AAGTTTTTTG
* * *
21170609 CGGCGCTTTCCCAAAAACGTCGCTAAAGCCTTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCT
1 CGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAAAAACGCCGCT
*
21170674 AAATCCCCGAAAGCTCACAAAA
66 AAATCCCCAAAAGCTCACAAAA
* *
21170696 CCGGCGCTTTCCCAAAAACG-CTGCTAAAGCCCTGAGCAGTAGCGACGCTTCTTTAAAAATGCCG
1 -CGGCGCTTTCCCAAAAACGTC-GCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAAAAACGCCG
21170760 CTAAATCCCCAAAAGCTCACAAAA
64 CTAAATCCCCAAAAGCTCACAAAA
21170784 CGGCGTCTTT
1 CGGCG-CTTT
21170794 TTGGCTTAGA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
87 6 0.07
88 83 0.93
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.19
Consensus pattern (87 bp):
CGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAAAAACGCCGCT
AAATCCCCAAAAGCTCACAAAA
Found at i:21170833 original size:73 final size:73
Alignment explanation
Indices: 21170750--21170910 Score: 277
Period size: 73 Copynumber: 2.2 Consensus size: 73
21170740 ACGCTTCTTT
*
21170750 AAAAATGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGATTATTTGCGGC
1 AAAAATGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTTTGGCTTAGATTATTTGCGGC
*
21170815 GCTTTCTC
66 GCTTTCCC
* * *
21170823 AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTTTGGCTTAGGTTTTTTGCGGC
1 AAAAATGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTTTGGCTTAGATTATTTGCGGC
21170888 GCTTTCCC
66 GCTTTCCC
21170896 AAAAATGCCGCTAAA
1 AAAAATGCCGCTAAA
21170911 GCCCTGAGCA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 82 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (73 bp):
AAAAATGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTTTGGCTTAGATTATTTGCGGC
GCTTTCCC
Found at i:21171012 original size:187 final size:186
Alignment explanation
Indices: 21170697--21171067 Score: 553
Period size: 187 Copynumber: 2.0 Consensus size: 186
21170687 CTCACAAAAC
* * *
21170697 CGGCGCTTTCCCAAAAACGCTGCTAAAGCCCTGAGCAGTAGCGACGCTTCTTTAAAAATGCCGCT
1 CGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAAAAACGCCGCT
* * *
21170762 AAATCCCCAAAAGCTCACAAAACGGCGTCTTTTTGGCTTAGATTATTTGCGGCGCTTTCTCAAAA
66 AAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTATTTGCGACGCTTTCTCAAAA
* * *
21170827 ACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTTTGGCTTAGGTTTTTTG
131 ACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTC-GTTGGGCTTAGGTTTTTTG
* * * * *
21170884 CGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTGAAAACGCTGCT
1 CGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAAAAACGCCGCT
* * * * *
21170949 AAATTCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTTAGGTTTTTTGCGACTCTTTCTCAAAA
66 AAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTATTTGCGACGCTTTCTCAAAA
*
21171014 ACACCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
131 ACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTT
21171068 GTGGTGCTTT
Statistics
Matches: 164, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
186 15 0.09
187 149 0.91
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (186 bp):
CGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGACGCTTCCTTAAAAACGCCGCT
AAATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTATTTGCGACGCTTTCTCAAAA
ACACCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
Found at i:21171013 original size:114 final size:114
Alignment explanation
Indices: 21170810--21171024 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
21170800 TAGATTATTT
* *
21170810 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCATTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCATTTTGGCTTA
* **
21170875 GGTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTA
66 GGTTTTTTGCGACGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCATTA
** * * * *
21170924 GCGGCGCTTCCTTGAAAACGCTGCTAAATTCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCATTTTGGCTTA
* *
21170989 GGTTTTTTGCGACTCTTTCTCAAAAACACCGCTAAA
66 GGTTTTTTGCGACGCTTTCCCAAAAACACCGCTAAA
21171025 TCCCCAAAAG
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 88 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCATTTTGGCTTA
GGTTTTTTGCGACGCTTTCCCAAAAACACCGCTAAAGCCCTGAGCATTA
Found at i:21173431 original size:50 final size:50
Alignment explanation
Indices: 21173248--21173432 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
21173238 GATAATAACA
* * * ** * *
21173248 TGCCAAAGACATGTCCCAGACATTGTCTTACATGGGATGTTCTCATATCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
21173299 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
21173349 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
21173399 TGCCAACGCCATGTCCCAGGCATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
21173433 AGATCTCTTT
Statistics
Matches: 113, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
50 83 0.73
51 30 0.27
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:21178066 original size:34 final size:35
Alignment explanation
Indices: 21178028--21178115 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
21178018 TACATGTTTA
* *
21178028 ACCATCCAACACACCAGATGCTTATAAGAGCTA-T
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
* * * *
21178062 ACCATCTAGCACACCAAATGCTCATAATAGCCAGT
1 ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
* *
21178097 ACCAACCATCACACCAGAT
1 ACCATCCAACACACCAGAT
21178116 AACACTGTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
34 27 0.63
35 16 0.37
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (35 bp):
ACCATCCAACACACCAGATGCTCATAAGAGCCAGT
Found at i:21178617 original size:31 final size:31
Alignment explanation
Indices: 21178575--21178641 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
21178565 TCCATGGCTC
*
21178575 AATTTTCAACCCATTCTTGATTTAGAATAAT
1 AATTTTCAACCCATTCTTGATCTAGAATAAT
*
21178606 AATTTTTAACCCATTCTTGATCTAGAATAAT
1 AATTTTCAACCCATTCTTGATCTAGAATAAT
21178637 AATTT
1 AATTT
21178642 CATTCAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (31 bp):
AATTTTCAACCCATTCTTGATCTAGAATAAT
Found at i:21183085 original size:29 final size:28
Alignment explanation
Indices: 21183051--21183149 Score: 72
Period size: 29 Copynumber: 3.4 Consensus size: 28
21183041 AATTGAATAA
*
21183051 TTGGTGACCATTTTATAACTTTTCATAG
1 TTGGTGACCATTTTATAAATTTTCATAG
* **** *
21183079 TTAGGTGACTAAAAAATAAATTTACTAATAG
1 TT-GGTGACCATTTTATAAATTT--TCATAG
* *
21183110 TTGGATAACCATTTTATAATTTTTCATAG
1 TTGG-TGACCATTTTATAAATTTTCATAG
21183139 TTGGGTGACCA
1 TT-GGTGACCA
21183150 AAAATGAAAA
Statistics
Matches: 50, Mismatches: 16, Indels: 9
0.67 0.21 0.12
Matches are distributed among these distances:
28 2 0.04
29 26 0.52
30 4 0.08
31 18 0.36
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (28 bp):
TTGGTGACCATTTTATAAATTTTCATAG
Found at i:21183170 original size:60 final size:59
Alignment explanation
Indices: 21183057--21183172 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 59
21183047 ATAATTGGTG
* * ***
21183057 ACCATTTTATAACTTTTCATAGTTAGGTGACTAAAAAATAAATTTACTAATAGTTGGATA
1 ACCATTTTATAACTTTTCATAGTTAGGTGACCAAAAAAAAAAAAAAC-AATAGTTGGATA
* *
21183117 ACCATTTTATAATTTTTCATAGTTGGGTGACCAAAAATGAAAAAAAAAC-ATAGTTG
1 ACCATTTTATAACTTTTCATAGTTAGGTGACCAAAAA--AAAAAAAAACAATAGTTG
21183173 AATGACTTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 41 0.87
62 6 0.13
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (59 bp):
ACCATTTTATAACTTTTCATAGTTAGGTGACCAAAAAAAAAAAAAACAATAGTTGGATA
Found at i:21188377 original size:16 final size:16
Alignment explanation
Indices: 21188356--21188386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21188346 AAATAAAGTA
21188356 TAATAAAACAAATAGG
1 TAATAAAACAAATAGG
*
21188372 TAATAAAAGAAATAG
1 TAATAAAACAAATAG
21188387 AAATCCATGC
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:0.65, C:0.03, G:0.13, T:0.19
Consensus pattern (16 bp):
TAATAAAACAAATAGG
Found at i:21195512 original size:52 final size:52
Alignment explanation
Indices: 21195338--21195526 Score: 220
Period size: 52 Copynumber: 3.6 Consensus size: 52
21195328 TGTACCGGAA
* * * * *
21195338 TAGCAGGCCTTGAGCC-AGTGTTTACTTAGCAAGCCTTAAGCCAGTGTTTATT
1 TAGCAGGCTTTGAGCCGA-TGATTACTTAGCAGGCCTTGAGCCGGTGTTTATT
* * *
21195390 TAGCAGGCTTTGAGCTGATGTTTACTTAGCAGGCCTTGAGCCGATGTTTATT
1 TAGCAGGCTTTGAGCCGATGATTACTTAGCAGGCCTTGAGCCGGTGTTTATT
* * *
21195442 TAGTAGGTTTTGAGCCGATGATTACTTAGTAGG-CTATGAGCCGGTGTTTATT
1 TAGCAGGCTTTGAGCCGATGATTACTTAGCAGGCCT-TGAGCCGGTGTTTATT
* * *
21195494 TAGCAGGCTTTGAACCGATGAATAGTTAGCAGG
1 TAGCAGGCTTTGAGCCGATGATTACTTAGCAGG
21195527 TATTATGTAC
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
51 2 0.02
52 114 0.97
53 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (52 bp):
TAGCAGGCTTTGAGCCGATGATTACTTAGCAGGCCTTGAGCCGGTGTTTATT
Found at i:21195526 original size:26 final size:26
Alignment explanation
Indices: 21195338--21195513 Score: 176
Period size: 26 Copynumber: 6.8 Consensus size: 26
21195328 TGTACCGGAA
*
21195338 TAGCAGGCCTTGAGCC-AGTGTTTACT
1 TAGCAGGCTTTGAGCCGA-TGTTTACT
* * * *
21195364 TAGCAAGCCTTAAGCC-AGTGTTTATT
1 TAGCAGGCTTTGAGCCGA-TGTTTACT
*
21195390 TAGCAGGCTTTGAGCTGATGTTTACT
1 TAGCAGGCTTTGAGCCGATGTTTACT
* *
21195416 TAGCAGGCCTTGAGCCGATGTTTATT
1 TAGCAGGCTTTGAGCCGATGTTTACT
* * *
21195442 TAGTAGGTTTTGAGCCGATGATTACT
1 TAGCAGGCTTTGAGCCGATGTTTACT
* * * *
21195468 TAGTAGGCTATGAGCCGGTGTTTATT
1 TAGCAGGCTTTGAGCCGATGTTTACT
*
21195494 TAGCAGGCTTTGAACCGATG
1 TAGCAGGCTTTGAGCCGATG
21195514 AATAGTTAGC
Statistics
Matches: 124, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 123 0.99
27 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCCGATGTTTACT
Found at i:21196137 original size:12 final size:13
Alignment explanation
Indices: 21196122--21196156 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21196112 TAAAAATAGA
*
21196122 TATATGAATTG-T
1 TATATGAAGTGTT
21196134 TATATGAAGTGTT
1 TATATGAAGTGTT
21196147 TATATGAAGT
1 TATATGAAGT
21196157 ATTTGTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (13 bp):
TATATGAAGTGTT
Found at i:21198190 original size:42 final size:42
Alignment explanation
Indices: 21198129--21198245 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
21198119 GATATGTGTT
*
21198129 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGA
1 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACATGTGA
21198171 TTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGACATGTGA
1 TTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACATGTGA
* * *
21198213 TTACATGTAAGACCACGTTTGTGACGTTGGCAT
1 TT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
21198246 TGTACGGAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 40 0.61
43 24 0.36
44 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (42 bp):
TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACATGTGA
Found at i:21201324 original size:36 final size:36
Alignment explanation
Indices: 21201277--21201351 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
21201267 GAGGAAAACA
21201277 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
1 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
21201313 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
1 TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
21201349 TAT
1 TAT
21201352 GGAGAGCTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (36 bp):
TATCTACTAGTATTAATCGAGGGAACTGTTCCTTTC
Found at i:21202065 original size:9 final size:9
Alignment explanation
Indices: 21202051--21202087 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
21202041 TGAGTTTTCG
21202051 AATTCGAAT
1 AATTCGAAT
21202060 AATTCGAAT
1 AATTCGAAT
21202069 AATTCGAAT
1 AATTCGAAT
21202078 AATTCGAAT
1 AATTCGAAT
21202087 A
1 A
21202088 TCAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21202170 original size:30 final size:30
Alignment explanation
Indices: 21202136--21202192 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
21202126 AAACCTTTTT
* *
21202136 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTTCCC
21202166 ACTTTCCCCCCAAAACTTTTACTCCTT
1 ACTTTCCCCCCAAAACTTTTACTCCTT
21202193 TCCCCTCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.39
Consensus pattern (30 bp):
ACTTTCCCCCCAAAACTTTTACTCCTTCCC
Found at i:21202338 original size:30 final size:31
Alignment explanation
Indices: 21202302--21202361 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21202292 AAACCTTTTA
*
21202302 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
21202332 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
21202362 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:21202480 original size:19 final size:17
Alignment explanation
Indices: 21202430--21202486 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 17
21202420 CTATTTACTT
21202430 TCCCTCAAACTTTTATTC
1 TCCCT-AAACTTTTATTC
*
21202448 T-CCAAAACTTTTTATTTTC
1 TCCCTAAAC-TTTTA--TTC
21202467 TCCCTAAACTTTTACTTC
1 TCCCTAAACTTTTA-TTC
21202485 TC
1 TC
21202487 ACCATTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 4 0.12
17 7 0.22
18 6 0.19
19 9 0.28
20 6 0.19
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (17 bp):
TCCCTAAACTTTTATTC
Found at i:21204462 original size:3 final size:3
Alignment explanation
Indices: 21204454--21204481 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21204444 ACTGATATTG
21204454 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
21204482 TGTATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21205930 original size:17 final size:17
Alignment explanation
Indices: 21205908--21205958 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
21205898 TTTTATTTTT
21205908 ATATAAAAAATTAAAAA
1 ATATAAAAAATTAAAAA
* * *
21205925 ATATAATACA-TCAAAA
1 ATATAAAAAATTAAAAA
21205941 ATACTAAAAACATTAAAA
1 ATA-TAAAAA-ATTAAAA
21205959 TAAATGTTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 8 0.32
17 12 0.48
18 1 0.04
19 4 0.16
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.24
Consensus pattern (17 bp):
ATATAAAAAATTAAAAA
Found at i:21206159 original size:22 final size:22
Alignment explanation
Indices: 21206131--21206196 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
21206121 TAGTGAAATG
*
21206131 ACAACAATACAGTGGGAAAACA
1 ACAACAAAACAGTGGGAAAACA
* * *
21206153 ACAACAAAATAGTGAGAAAGCA
1 ACAACAAAACAGTGGGAAAACA
* * *
21206175 ACAGCAAAAGAGAGGGAAAACA
1 ACAACAAAACAGTGGGAAAACA
21206197 TCAATTTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.58, C:0.15, G:0.21, T:0.06
Consensus pattern (22 bp):
ACAACAAAACAGTGGGAAAACA
Found at i:21207528 original size:24 final size:24
Alignment explanation
Indices: 21207499--21207570 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 24
21207489 GAAAAAAAAA
21207499 ACTTAAACATAGAATTTTATAAAT
1 ACTTAAACATAGAATTTTATAAAT
* *
21207523 AGTT-AACATGAAGTGTTATTTTATAAAT
1 ACTTAAACAT--A--G-AATTTTATAAAT
21207551 ACTTAAACATAGAATTTTAT
1 ACTTAAACATAGAATTTTAT
21207571 TGTTGCCTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
23 5 0.13
24 10 0.26
25 2 0.05
27 2 0.05
28 14 0.37
29 5 0.13
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.40
Consensus pattern (24 bp):
ACTTAAACATAGAATTTTATAAAT
Found at i:21209242 original size:23 final size:23
Alignment explanation
Indices: 21209211--21209263 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
21209201 TGATTTAAAC
* *
21209211 AAATGTTCATA-TTTATATTATTA
1 AAATATTCATATTTTATACTA-TA
21209234 AAATATTCATATTTTATACTATA
1 AAATATTCATATTTTATACTATA
21209257 AAATATT
1 AAATATT
21209264 TTTACTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATATTCATATTTTATACTATA
Found at i:21209309 original size:22 final size:23
Alignment explanation
Indices: 21209284--21209339 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
21209274 TTATAAATTG
*
21209284 TAATATATTTTT-ATTAAAATAT
1 TAATATATTTTTCAATAAAATAT
21209306 TAATATGATTTTTCAATAAAATAT
1 TAATAT-ATTTTTCAATAAAATAT
21209330 TAATAATATT
1 TAAT-ATATT
21209340 ACTTCAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 6 0.20
23 6 0.20
24 16 0.53
25 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TAATATATTTTTCAATAAAATAT
Found at i:21214051 original size:13 final size:13
Alignment explanation
Indices: 21214027--21214051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21214017 ATTTTTTTAA
21214027 TGAATAATTTTTT
1 TGAATAATTTTTT
21214040 TGAATAATTTTT
1 TGAATAATTTTT
21214052 ATTTTAATTA
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:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TGAATAATTTTTT
Found at i:21222979 original size:84 final size:85
Alignment explanation
Indices: 21222857--21223043 Score: 349
Period size: 84 Copynumber: 2.2 Consensus size: 85
21222847 TAGCAACAAA
21222857 AAAATATATAAAATAAAAAATAAAAAAATCCAACAAACTTTAAAAAGAAAAAATCTTCTCCTTCC
1 AAAA-ATATAAAATAAAAAATAAAAAAATCCAACAAACTTTAAAAAGAAAAAATCTTCTCCTTCC
21222922 TTTATTATTATTCTTCTATCC
65 TTTATTATTATTCTTCTATCC
21222943 AAAAATATAAAATAAAAAAT-AAAAAATCCAACAAACTTTAAAAAGAAAAAATCTTCTCCTTCCT
1 AAAAATATAAAATAAAAAATAAAAAAATCCAACAAACTTTAAAAAGAAAAAATCTTCTCCTTCCT
21223007 TTATTATTATTCTTCTATCC
66 TTATTATTATTCTTCTATCC
*
21223027 AAAAATATAAAAGAAAA
1 AAAAATATAAAATAAAA
21223044 TAAATTCCTT
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
84 80 0.80
85 16 0.16
86 4 0.04
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (85 bp):
AAAAATATAAAATAAAAAATAAAAAAATCCAACAAACTTTAAAAAGAAAAAATCTTCTCCTTCCT
TTATTATTATTCTTCTATCC
Found at i:21225477 original size:16 final size:15
Alignment explanation
Indices: 21225456--21225485 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21225446 AAGTTTTAAA
21225456 AAAACTTTAACAAAAT
1 AAAACTTTAA-AAAAT
21225472 AAAACTTTAAAAAA
1 AAAACTTTAAAAAA
21225486 GTTTAAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAACTTTAAAAAAT
Found at i:21230588 original size:18 final size:18
Alignment explanation
Indices: 21230544--21230579 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21230534 TTTCTTATAG
* *
21230544 AATTTAGTTTTTTTAATA
1 AATTTAATTCTTTTAATA
21230562 AATTTAATTCTTTTAATA
1 AATTTAATTCTTTTAATA
21230580 TTTTTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
AATTTAATTCTTTTAATA
Found at i:21232831 original size:13 final size:14
Alignment explanation
Indices: 21232794--21232837 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
21232784 GAAAAAAATT
21232794 ATATATATTTAATA
1 ATATATATTTAATA
21232808 ATATTATTATTTAA-A
1 ATA-TA-TATTTAATA
*
21232823 TTATATATTTAATA
1 ATATATATTTAATA
21232837 A
1 A
21232838 AATTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 5 0.20
16 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATATATTTAATA
Found at i:21232838 original size:16 final size:16
Alignment explanation
Indices: 21232795--21232838 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
21232785 AAAAAAATTA
21232795 TATATATTTAATAATAT
1 TATATATTTAATAA-AT
21232812 TAT-TA-TT--TAAAT
1 TATATATTTAATAAAT
21232824 TATATATTTAATAAA
1 TATATATTTAATAAA
21232839 ATTTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 2 0.09
15 2 0.09
16 6 0.26
17 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATATTTAATAAAT
Found at i:21232840 original size:17 final size:17
Alignment explanation
Indices: 21232795--21232845 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
21232785 AAAAAAATTA
*
21232795 TATATATTTAATAATAT
1 TATATATTTAATAAAAT
21232812 TAT-TA-TT--T-AAAT
1 TATATATTTAATAAAAT
21232824 TATATATTTAATAAAAT
1 TATATATTTAATAAAAT
21232841 T-TATA
1 TATATA
21232846 AATGTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 11
0.70 0.03 0.28
Matches are distributed among these distances:
12 6 0.21
13 3 0.11
14 2 0.07
15 2 0.07
16 7 0.25
17 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATTTAATAAAAT
Found at i:21232854 original size:31 final size:29
Alignment explanation
Indices: 21232795--21232856 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
21232785 AAAAAAATTA
* * *
21232795 TATATATTTAATAATATTATTATTTAAAT
1 TATATATTTAATAAAATTATAATGTAAAT
21232824 TATATATTTAATAAAATTTATAAATGTAAAT
1 TATATATTTAATAAAA-TTAT-AATGTAAAT
21232855 TA
1 TA
21232857 AGATTAGTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 4 0.14
31 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TATATATTTAATAAAATTATAATGTAAAT
Found at i:21233679 original size:14 final size:15
Alignment explanation
Indices: 21233662--21233691 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
21233652 TTGATTAAAT
21233662 TAATAAAG-TTAAGA
1 TAATAAAGATTAAGA
21233676 TAATAAAGATTAAGA
1 TAATAAAGATTAAGA
21233691 T
1 T
21233692 GTTTTGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
TAATAAAGATTAAGA
Found at i:21238638 original size:21 final size:21
Alignment explanation
Indices: 21238593--21238638 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
21238583 AGTTGACAAT
* *
21238593 GAAACAATCGATTGAAAATAA
1 GAAACAATCAATTGAAAAGAA
* *
21238614 GAAACAATCAATTGAACAGAG
1 GAAACAATCAATTGAAAAGAA
21238635 GAAA
1 GAAA
21238639 GAATGAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.15
Consensus pattern (21 bp):
GAAACAATCAATTGAAAAGAA
Found at i:21240357 original size:2 final size:2
Alignment explanation
Indices: 21240350--21240378 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21240340 CTCCAAACTC
21240350 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
21240379 GGTCCAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:21246084 original size:25 final size:25
Alignment explanation
Indices: 21246020--21246105 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
21246010 GCGGGCACAG
*
21246020 CACAGCTTGTACT-AGCTTACCGATT
1 CACAGCTCGTA-TGAGCTTACCGATT
*
21246045 -TCAGCTCGTGA-GAGCTTACCGATT
1 CACAGCTCGT-ATGAGCTTACCGATT
*
21246069 CACAGCTTGTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCGATT
*
21246094 TACAGCTCGTAT
1 CACAGCTCGTAT
21246106 AAGCATACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
24 20 0.39
25 31 0.61
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:21250989 original size:27 final size:27
Alignment explanation
Indices: 21250940--21250994 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
21250930 GTATAGCAAC
* *
21250940 CAAGGTAGTCCACTGGGATAGTAAACA
1 CAAGGTAGTCCACTGGCACAGTAAACA
* *
21250967 CAAGGTAGTCTACTGTCACAGTAAACA
1 CAAGGTAGTCCACTGGCACAGTAAACA
21250994 C
1 C
21250995 GATGATTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CAAGGTAGTCCACTGGCACAGTAAACA
Found at i:21255644 original size:26 final size:26
Alignment explanation
Indices: 21255602--21255688 Score: 102
Period size: 26 Copynumber: 3.3 Consensus size: 26
21255592 ATTACTGGCG
*
21255602 AACCCTATGGTAGACACACTCTAGCA
1 AACCCTATGGTAAACACACTCTAGCA
* **
21255628 AACCCTATGGCAAACACACTCTAGTG
1 AACCCTATGGTAAACACACTCTAGCA
* * * *
21255654 AACCCTATAGTGAACTCACTCTAACA
1 AACCCTATGGTAAACACACTCTAGCA
21255680 AACCCTATG
1 AACCCTATG
21255689 CCTGGAGAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.21
Consensus pattern (26 bp):
AACCCTATGGTAAACACACTCTAGCA
Found at i:21258386 original size:47 final size:47
Alignment explanation
Indices: 21258321--21258866 Score: 786
Period size: 47 Copynumber: 11.4 Consensus size: 47
21258311 CAGCCAAGAG
* *
21258321 AGTGTATATGTGTGATAAGGCCTAATTGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
21258368 AGTGTATATATATAATAAGGCCTAATGGCCGATGTGATAAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
21258415 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21258464 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
21258515 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
21258566 AGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
21258613 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21258660 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
21258707 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21258754 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
21258801 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
21258848 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
21258867 TCCCGAAAGG
Statistics
Matches: 458, Mismatches: 35, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
47 325 0.71
49 39 0.09
51 90 0.20
53 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:21259041 original size:37 final size:37
Alignment explanation
Indices: 21258985--21259063 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21258975 CCGAGCTCTA
* * *
21258985 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21259022 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21259059 AAGAC
1 AAGAC
21259064 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21261748 original size:21 final size:23
Alignment explanation
Indices: 21261709--21261750 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
21261699 TTCGTAACTC
21261709 AATATTTTAATTCTAATTATTTT
1 AATATTTTAATTCTAATTATTTT
21261732 AATATTTT-ATT-TAATTATT
1 AATATTTTAATTCTAATTATT
21261751 CCTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
AATATTTTAATTCTAATTATTTT
Found at i:21261758 original size:10 final size:8
Alignment explanation
Indices: 21261738--21261771 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
21261728 TTTTAATATT
21261738 TTATTTAA
1 TTATTTAA
21261746 TTATTCCTAA
1 TTATT--TAA
21261756 TTATTTAA
1 TTATTTAA
21261764 TTATTTAA
1 TTATTTAA
21261772 CCTAAATACG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTTAA
Found at i:21261760 original size:23 final size:23
Alignment explanation
Indices: 21261709--21261765 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
21261699 TTCGTAACTC
*
21261709 AATATTTTAATTCTAATTATTTT
1 AATATTTTAATTCTAATTATTCT
21261732 AATATTTT-ATT-TAATTATTCCT
1 AATATTTTAATTCTAATTATT-CT
21261754 AAT-TATTTAATT
1 AATAT-TTTAATT
21261766 ATTTAACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.30
22 10 0.33
23 11 0.37
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTTTAATTCTAATTATTCT
Found at i:21263004 original size:25 final size:26
Alignment explanation
Indices: 21262956--21263006 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
21262946 ATTTTTCAAA
* *
21262956 AGTATGAATTTTGGACTGAATTGAAT
1 AGTATGAATATTGAACTGAATTGAAT
*
21262982 AGTATGAATATT-AACTGGATTGAAT
1 AGTATGAATATTGAACTGAATTGAAT
21263007 TTACTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (26 bp):
AGTATGAATATTGAACTGAATTGAAT
Found at i:21267236 original size:32 final size:31
Alignment explanation
Indices: 21267189--21267264 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 31
21267179 ATTTTGCTTC
21267189 AATAAAAAAATATATATGTAGTGTATTTTAAA
1 AATAAAAAAA-ATATATGTAGTGTATTTTAAA
21267221 AATAATAAAAAATATATGTAGTGTATTTTAAA
1 AATAA-AAAAAATATATGTAGTGTATTTTAAA
21267253 AATAAAAAAAAT
1 AATAAAAAAAAT
21267265 TTAATCTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
31 7 0.16
32 31 0.72
33 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (31 bp):
AATAAAAAAAATATATGTAGTGTATTTTAAA
Found at i:21267376 original size:21 final size:22
Alignment explanation
Indices: 21267352--21267405 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
21267342 TACCATTGTT
21267352 TCTAATCTCACCGCTACAGT-A
1 TCTAATCTCACCGCTACAGTAA
*
21267373 TCTAATCTTACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGTAA
21267395 T-TAATCTCACC
1 TCTAATCTCACC
21267406 ACCACCGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (22 bp):
TCTAATCTCACCGCTACAGTAA
Found at i:21268710 original size:31 final size:31
Alignment explanation
Indices: 21268675--21268751 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
21268665 TGTATGATTA
*
21268675 AATCAAAATTAAAGTTTCATGTATACATTTG
1 AATCAAAATTAAAATTTCATGTATACATTTG
* * * * *
21268706 AATCATAATCAAAATTTCTTGTGTATATTTG
1 AATCAAAATTAAAATTTCATGTATACATTTG
*
21268737 CATC-AAATTAAAATT
1 AATCAAAATTAAAATT
21268752 CAGGTATCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 9 0.24
31 28 0.76
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (31 bp):
AATCAAAATTAAAATTTCATGTATACATTTG
Found at i:21270547 original size:24 final size:24
Alignment explanation
Indices: 21270520--21270566 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
21270510 AAATTTAGCA
21270520 AGTGACTAAAATA-AAAATAAATTC
1 AGTGACTAAAATACAAAA-AAATTC
* *
21270544 AGTGCCTAAATTACAAAAAAATT
1 AGTGACTAAAATACAAAAAAATT
21270567 AAATTAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.26
Consensus pattern (24 bp):
AGTGACTAAAATACAAAAAAATTC
Found at i:21274954 original size:6 final size:6
Alignment explanation
Indices: 21274943--21274971 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21274933 TAAAGCAAAT
21274943 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
21274972 TTAAGTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:21275142 original size:17 final size:17
Alignment explanation
Indices: 21275106--21275156 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
21275096 ATTTACTTTG
*
21275106 AAATTTAAT-TAATTTAT
1 AAATTTAATGTTATTT-T
21275123 AAATTTAATGTTATTTT
1 AAATTTAATGTTATTTT
*
21275140 AAAATT-ATGTT-TTTT
1 AAATTTAATGTTATTTT
21275155 AA
1 AA
21275157 TTTCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 15 0.48
18 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
AAATTTAATGTTATTTT
Found at i:21278145 original size:49 final size:46
Alignment explanation
Indices: 21278092--21278196 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 46
21278082 TAGTATAATT
*
21278092 ATGGTCTTGCACAT-AATCACATATCACAAACCAAAGCCATAGCCCAGCC
1 ATGGTCTT--ACATGAAGCACATATCAC--ACCAAAGCCATAGCCCAGCC
* * *
21278141 ATGGTCTTACATGGAAGCACATATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTACAT-GAAGCACATATCACACCAAAGCCATAGCCCAGCC
21278188 ATGGTCTTA
1 ATGGTCTTA
21278197 TACGGAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 30 0.60
49 20 0.40
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (46 bp):
ATGGTCTTACATGAAGCACATATCACACCAAAGCCATAGCCCAGCC
Found at i:21289287 original size:33 final size:33
Alignment explanation
Indices: 21289203--21289288 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
21289193 CATGGTTTAA
* * **
21289203 CTATGGTCTTACGTTCAAGGTGCCATAACCCAG
1 CTATGGTCTTACATTTAAAATGCCATAACCCAG
* * *
21289236 TTATGGTCTTTTCA-TTAAAATGCCATAGCCCAG
1 CTATGGTC-TTACATTTAAAATGCCATAACCCAG
21289269 CTATGGTCTTACATTTAAAA
1 CTATGGTCTTACATTTAAAA
21289289 ATTGCCATGG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
32 4 0.10
33 35 0.83
34 3 0.07
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (33 bp):
CTATGGTCTTACATTTAAAATGCCATAACCCAG
Found at i:21291791 original size:23 final size:23
Alignment explanation
Indices: 21291764--21291862 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
21291754 AGTGTTATTG
21291764 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
21291787 TTCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21291810 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
21291833 TTCAGTGGTAGCTTCGCCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21291856 ATCAGTG
1 ATCAGTG
21291863 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21291817 original size:46 final size:46
Alignment explanation
Indices: 21291764--21291862 Score: 180
Period size: 46 Copynumber: 2.2 Consensus size: 46
21291754 AGTGTTATTG
*
21291764 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGCCTACAT
*
21291810 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGCCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGCCTACAT
21291856 ATCAGTG
1 ATCAGTG
21291863 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGCCTACAT
Found at i:21292819 original size:2 final size:2
Alignment explanation
Indices: 21292814--21292881 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
21292804 CATATATATA
21292814 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21292856 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
21292882 ATAATAATGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21296526 original size:23 final size:23
Alignment explanation
Indices: 21296491--21296546 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
21296481 ATTATTTTAA
*
21296491 TAATATTTAATATTAAATTTAATC
1 TAATA-TTAATATTAAATTAAATC
* * *
21296515 TAATATTGATATTAGATTAAATT
1 TAATATTAATATTAAATTAAATC
21296538 TAATATTAA
1 TAATATTAA
21296547 AGTGATTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
TAATATTAATATTAAATTAAATC
Found at i:21305288 original size:21 final size:23
Alignment explanation
Indices: 21305255--21305302 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
21305245 TGATGAGAAT
*
21305255 AAAATCTCTTTTTC-CTTATTTA
1 AAAATATCTTTTTCTCTTATTTA
*
21305277 AAAATATC-TTTTCTTTTATTTA
1 AAAATATCTTTTTCTCTTATTTA
21305299 AAAA
1 AAAA
21305303 GGAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATATCTTTTTCTCTTATTTA
Found at i:21319370 original size:13 final size:13
Alignment explanation
Indices: 21319354--21319386 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
21319344 AAGTGCAGCG
21319354 GAAAAGTATTTTT
1 GAAAAGTATTTTT
*
21319367 GAAAAGTGTTTTT
1 GAAAAGTATTTTT
21319380 GAAAAGT
1 GAAAAGT
21319387 TTAGTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
GAAAAGTATTTTT
Found at i:21326720 original size:20 final size:20
Alignment explanation
Indices: 21326686--21326727 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21326676 AACTAATTAA
** *
21326686 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
21326706 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
21326726 AT
1 AT
21326728 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:21326851 original size:21 final size:21
Alignment explanation
Indices: 21326825--21326869 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
21326815 ATGAGATTTC
*
21326825 ATTTGGAAACCATACCAACAA
1 ATTTGGAAACCACACCAACAA
21326846 ATTTGGAAACCACACCAACAA
1 ATTTGGAAACCACACCAACAA
21326867 ATT
1 ATT
21326870 CTAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (21 bp):
ATTTGGAAACCACACCAACAA
Found at i:21326890 original size:30 final size:30
Alignment explanation
Indices: 21326845--21326905 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
21326835 CATACCAACA
*
21326845 AATTTGGAAACCACACCAACAAATTCTAAT
1 AATTTAGAAACCACACCAACAAATTCTAAT
*
21326875 AATTTAGAAATCACACCAACAAATTCTAAT
1 AATTTAGAAACCACACCAACAAATTCTAAT
21326905 A
1 A
21326906 TTCTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (30 bp):
AATTTAGAAACCACACCAACAAATTCTAAT
Found at i:21333348 original size:23 final size:23
Alignment explanation
Indices: 21333321--21333365 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21333311 ATGTATTCAA
*
21333321 ATTAAAT-TTTATAAATAATTAAT
1 ATTAAATATTTA-AAAAAATTAAT
*
21333344 ATTAATTATTTAAAAAAATTAA
1 ATTAAATATTTAAAAAAATTAA
21333366 AATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTAAATATTTAAAAAAATTAAT
Found at i:21345408 original size:31 final size:31
Alignment explanation
Indices: 21345373--21345433 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
21345363 TAATAGAATC
*
21345373 ATTAAACTATT-TAAAATTTTTTATTTAAGTT
1 ATTAAACTATTCGAAAA-TTTTTATTTAAGTT
*
21345404 ATTAAATTATTCGAAAATTTTTATTTAAGT
1 ATTAAACTATTCGAAAATTTTTATTTAAGT
21345434 CATTGGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (31 bp):
ATTAAACTATTCGAAAATTTTTATTTAAGTT
Found at i:21354156 original size:17 final size:17
Alignment explanation
Indices: 21354129--21354171 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
21354119 TATTTCATTG
21354129 TTTATTTTTCTTTATTTA
1 TTTA-TTTTCTTTATTTA
*
21354147 TTTCTTTTCTTTATTTA
1 TTTATTTTCTTTATTTA
21354164 TTTATTTT
1 TTTATTTT
21354172 TATCCCTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTCTTTATTTA
Found at i:21359007 original size:103 final size:103
Alignment explanation
Indices: 21358824--21359029 Score: 394
Period size: 103 Copynumber: 2.0 Consensus size: 103
21358814 AATATAAGTA
21358824 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
1 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
*
21358889 CCTTAAGACTGGGGATTACCTGTAAGAAAAACAGAGGG
66 CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
*
21358927 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCCACCTCCGAGTCTCTCGCAGCACCGGT
1 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
21358992 CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
66 CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
21359030 GGTGAGTTTA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (103 bp):
AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
Found at i:21376454 original size:14 final size:15
Alignment explanation
Indices: 21376435--21376468 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21376425 ATGTAGCAGA
*
21376435 TTTTGT-TGTTTCTG
1 TTTTGTATGGTTCTG
21376449 TTTTGTATGGTTCTG
1 TTTTGTATGGTTCTG
21376464 TTTTG
1 TTTTG
21376469 GATGAACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.03, C:0.06, G:0.24, T:0.68
Consensus pattern (15 bp):
TTTTGTATGGTTCTG
Found at i:21378137 original size:6 final size:6
Alignment explanation
Indices: 21378126--21378150 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21378116 ACGAAATTAT
21378126 ATTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA A
21378151 ATGTTCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:21378231 original size:98 final size:98
Alignment explanation
Indices: 21378059--21378236 Score: 218
Period size: 98 Copynumber: 1.8 Consensus size: 98
21378049 ATCAATACAA
*** * **
21378059 AAACTAATCAATGATCAAACTTTGAACATGCTTTATTAAATCTTCGCATTTCATTATACGAAATT
1 AAACTAATCAATGATCAAACTTTGAACATGCTTTATTAAATCTAAACATATCATTATACGAAAAG
* *
21378124 ATATTTAAATTTAAATTTAAATTTAAAATGTTC
66 AAATGTAAATTTAAATTTAAATTTAAAATGTTC
* *
21378157 AAACTAATCCATGTTCAAACTTTGAACATGCTTTAATT-AA-CTAAACAATAT-ATTAATACGAA
1 AAACTAATCAATGATCAAACTTTGAACATGCTTT-ATTAAATCTAAAC-ATATCATT-ATACGAA
21378219 AAGAAATGTAAATTTAAA
63 AAGAAATGTAAATTTAAA
21378237 ATGTTATAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
97 6 0.09
98 58 0.87
99 3 0.04
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (98 bp):
AAACTAATCAATGATCAAACTTTGAACATGCTTTATTAAATCTAAACATATCATTATACGAAAAG
AAATGTAAATTTAAATTTAAATTTAAAATGTTC
Found at i:21381615 original size:90 final size:90
Alignment explanation
Indices: 21381488--21381694 Score: 290
Period size: 90 Copynumber: 2.3 Consensus size: 90
21381478 TTGATTTTAG
*
21381488 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-A-TTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
21381553 ATTTAAT-ATTAATTATTTTAAATTGTA
64 ATGTAATAATT-ATTATTTTAAATTATA
* * *
21381580 TAAATTCATATAAGAAATTTATTATCACGAATTTTATGAAATTATATATTATTATTAAATTATAT
1 TAAATTCATATAAGAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATAT
21381645 GTAATAATTATTATTTTAAATTATA
66 GTAATAATTATTATTTTAAATTATA
* * *
21381670 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGA-AATTTATTA
21381695 GTTATAATTA
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
90 75 0.72
91 13 0.12
92 16 0.15
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (90 bp):
TAAATTCATATAAGAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATAT
GTAATAATTATTATTTTAAATTATA
Found at i:21381787 original size:59 final size:57
Alignment explanation
Indices: 21381699--21382119 Score: 179
Period size: 54 Copynumber: 7.1 Consensus size: 57
21381689 TTATTAGTTA
* *
21381699 TAATTATTTTAAATT-TTATTAA--ATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTAAAATTATTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * * **
21381753 TAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTTAAAATTAT-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
21381818 T
57 T
* * * *
21381819 TAATTA-TTAAGAATT-TTATTAA--ATTATATATTTTAATTATAATATATTTAATAG
1 TAATTATTTAA-AATTATTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * * * * **
21381873 TAATTATTTTAATTTATATTTTACGGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTTAAAATTAT-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
21381938 T
57 T
* * * *
21381939 TAATTA-TTAAGAATT-TTATTAA--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-AATTATTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * * * **
21381993 TAATTATTTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTTAAAATTAT-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
21382058 T
57 T
* * * *
21382059 TAATTA-TTAAGAATT-TTATTAA--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-AATTATTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
21382113 TAATTAT
1 TAATTAT
21382120 GTTTAAATAT
Statistics
Matches: 268, Mismatches: 57, Indels: 83
0.66 0.14 0.20
Matches are distributed among these distances:
54 50 0.19
55 21 0.08
56 15 0.06
57 8 0.03
59 31 0.12
60 24 0.09
61 30 0.11
63 9 0.03
64 15 0.06
65 24 0.09
66 41 0.15
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (57 bp):
TAATTATTTAAAATTATTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:21381819 original size:66 final size:64
Alignment explanation
Indices: 21381748--21382066 Score: 232
Period size: 66 Copynumber: 5.2 Consensus size: 64
21381738 AAATATATTT
*
21381748 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTAAAATTAT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
21381813 G
64 G
* * * * **
21381814 AATATTAATTA-TTAAGAATT-TTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTAA-AATTATTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * * *
21381868 AATAGTAATTATTTTAATTTATATTTTACGGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTAAAATTAT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
21381933 G
64 G
* * * * **
21381934 AATATTAATTA-TTAAGAATT-TTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTAA-AATTATTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * *
21381988 AATAATAATTATTTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTAAAATTAT-TTTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
21382053 G
64 G
21382054 AATATTAATTATT
1 AATATTAATTATT
21382067 AAGAATTTTA
Statistics
Matches: 188, Mismatches: 37, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
54 26 0.14
55 16 0.09
56 10 0.05
57 5 0.03
58 2 0.01
59 20 0.11
60 16 0.09
61 20 0.11
62 2 0.01
63 5 0.03
64 10 0.05
65 16 0.09
66 40 0.21
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAAATTATTTTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:21381834 original size:120 final size:120
Alignment explanation
Indices: 21381710--21382125 Score: 742
Period size: 120 Copynumber: 3.5 Consensus size: 120
21381700 AATTATTTTA
* * * * * *
21381710 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTAATTTATATTTT
*
21381775 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
21381830 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAGTAATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTAATTTATATTTT
*
21381895 ACGGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
21381950 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTAATTTATATTTT
21382015 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
21382070 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT-TTTAA
21382126 ATATGATTAA
Statistics
Matches: 285, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
120 280 0.98
121 5 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATTTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:21381850 original size:61 final size:61
Alignment explanation
Indices: 21381783--21382090 Score: 253
Period size: 61 Copynumber: 5.1 Consensus size: 61
21381773 TTATAGTATC
21381783 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * **** *
21381844 ATATATTTTAATTAT-AATATATTTA-AT-AGTAATTATT--TTAATTTA-TATTTTACGGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAG-AA-TATTAATT-ATTAAGAATTTTATTAAATT
21381903 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
21381964 ATATATTTTAATTAT-AATATATTTA-ATAATAATTATT--TTAATTTA-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TATTAATT-ATTAAGAATTTTATTA-AATT
21382023 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
21382084 ATATATT
1 ATATATT
21382091 TTAATTATAA
Statistics
Matches: 181, Mismatches: 46, Indels: 40
0.68 0.17 0.15
Matches are distributed among these distances:
58 3 0.02
59 66 0.36
60 36 0.20
61 73 0.40
62 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:21381990 original size:15 final size:15
Alignment explanation
Indices: 21381955--21382006 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21381945 TTAAGAATTT
*
21381955 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21381969 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21381983 TATTTAATAATAAT-
1 TATTTAATTATAATA
21381997 TATTTTAATT
1 TA-TTTAATT
21382007 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 7 0.22
15 17 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21382105 original size:16 final size:16
Alignment explanation
Indices: 21382084--21382125 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21382074 TTATTAAATT
*
21382084 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21382100 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21382115 AT-TATGTTTAA
1 ATATAT-TTTAA
21382126 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21382110 original size:15 final size:15
Alignment explanation
Indices: 21382075--21382116 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21382065 TTAAGAATTT
*
21382075 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21382089 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21382103 TATTTAATAATAAT
1 TATTTAATTATAAT
21382117 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21382237 original size:157 final size:157
Alignment explanation
Indices: 21382059--21382375 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
21382049 ATAAGAATAT
*
21382059 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
21382124 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
21382189 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
21382216 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
21382281 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
21382346 TAATTATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
21382373 TAA
1 TAA
21382376 GGGTATTCTA
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:21382256 original size:18 final size:17
Alignment explanation
Indices: 21382228--21382262 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21382218 ATTATTAAGA
*
21382228 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21382245 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21382263 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21382296 original size:75 final size:75
Alignment explanation
Indices: 21382060--21382298 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
21382050 TAAGAATATT
*
21382060 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
21382125 AATATGATTA
66 AATATGATTA
* ** * * * * *
21382135 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
21382197 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
21382217 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
21382282 AATATGATTA
66 AATATGATTA
21382292 AATTATT
1 AATTATT
21382299 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:21382453 original size:39 final size:40
Alignment explanation
Indices: 21382410--21382514 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
21382400 TTCCATTATG
21382410 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
21382449 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
21382494 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
21382515 ACAGCGAACC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:21382525 original size:45 final size:42
Alignment explanation
Indices: 21382408--21382528 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 42
21382398 TTTTCCATTA
21382408 TGCTATTACACCTCTATTCCATT---CAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
* * ***
21382447 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACA--CAACCAAACACAAGA-T
21382492 TGCTATTACACCTCTATTCCATTACAGCGAACCAAAC
1 TGCTATTACACCTCTATTCCATTACA-C-AACCAAAC
21382529 GTGGTGTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
39 21 0.31
44 13 0.19
45 33 0.49
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.31
Consensus pattern (42 bp):
TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
Found at i:21390213 original size:18 final size:19
Alignment explanation
Indices: 21390186--21390225 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21390176 TGAAAATATC
*
21390186 ACAAAGAAAAG-CAAAATT
1 ACAAAAAAAAGACAAAATT
*
21390204 ACAAAAAAAAGACCAAATT
1 ACAAAAAAAAGACAAAATT
21390223 ACA
1 ACA
21390226 CAATGTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.68, C:0.15, G:0.07, T:0.10
Consensus pattern (19 bp):
ACAAAAAAAAGACAAAATT
Found at i:21391135 original size:24 final size:22
Alignment explanation
Indices: 21391080--21391138 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
21391070 TATCTATCAC
21391080 TTAAATTAGTTAA-TTAATTAT
1 TTAAATTAGTTAATTTAATTAT
*
21391101 TTTAATT--TTAATTTAATTTAT
1 TTAAATTAGTTAATTTAA-TTAT
21391122 TTAAATATAGTTAATTT
1 TTAAAT-TAGTTAATTT
21391139 TAACGAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 15 0.48
22 1 0.03
24 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (22 bp):
TTAAATTAGTTAATTTAATTAT
Found at i:21391266 original size:31 final size:31
Alignment explanation
Indices: 21391228--21391298 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
21391218 CATTTTCAAC
*
21391228 TTAGTCACTAACATTTTAGATAATTTCTATT
1 TTAGTCACTAACATTTTAAATAATTTCTATT
* * **
21391259 TTAGTCACTCACGTTTTAAATTGTTTCTATT
1 TTAGTCACTAACATTTTAAATAATTTCTATT
*
21391290 TTGGTCACT
1 TTAGTCACT
21391299 CTCCATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (31 bp):
TTAGTCACTAACATTTTAAATAATTTCTATT
Found at i:21395508 original size:16 final size:16
Alignment explanation
Indices: 21395487--21395554 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
21395477 GATTTGCTAT
21395487 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21395503 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
21395519 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
21395535 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
21395551 TACA
1 TACA
21395555 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21398459 original size:16 final size:16
Alignment explanation
Indices: 21398410--21398460 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
21398400 CAGGGTGACT
*
21398410 AAATAAAAATAATTTA
1 AAATAAAAATAATCTA
* * *
21398426 AAATATAAGTGA-CTA
1 AAATAAAAATAATCTA
*
21398441 AAATACAAATAATCTA
1 AAATAAAAATAATCTA
21398457 AAAT
1 AAAT
21398461 GTTAGTAGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (16 bp):
AAATAAAAATAATCTA
Found at i:21405756 original size:39 final size:39
Alignment explanation
Indices: 21405699--21405894 Score: 284
Period size: 39 Copynumber: 5.0 Consensus size: 39
21405689 CCAAGGCACC
* *
21405699 GTGATTTTCAGGGAAGAGATTCAAGTTCTGCGGGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCGAGGGGCA
* *
21405738 GTGATTTTCATGGCAGAGATTCAAGTTCTGCTAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCGAGGGGCA
* * *
21405777 GTGATTTTCAGGGCAAAGATTCAAGTTCAGCTAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCGAGGGGCA
21405816 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCGAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCGAGGGGCA
* * * * *
21405855 GTGACTTCCTGGGCAGAGATTCAAGTTTTGCTAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCGAGGGGCA
21405894 G
1 G
21405895 GTCCTCATCG
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 142 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.27
Consensus pattern (39 bp):
GTGATTTTCAGGGCAGAGATTCAAGTTCTGCGAGGGGCA
Found at i:21406806 original size:87 final size:87
Alignment explanation
Indices: 21406701--21406875 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
21406691 CTTGTTACTC
21406701 AAGTAATATATAAATCTTAATTTTTTAGAATGAAATAATCAGCCAATTTTTTCAATTAAGAAAAA
1 AAGTAATATATAAATCTTAATTTTTTAGAATGAAATAATCAGCCAATTTTTTCAATTAAGAAAAA
21406766 TAGATATTTAATACACAAATTG
66 TAGATATTTAATACACAAATTG
21406788 AAGTAATATATAAATCTTAATTTTTTAGAATGAAATAATCAGCCAATTTTTTCAATTAAGAAAAA
1 AAGTAATATATAAATCTTAATTTTTTAGAATGAAATAATCAGCCAATTTTTTCAATTAAGAAAAA
21406853 TAGATATTTAATACACAAATTG
66 TAGATATTTAATACACAAATTG
21406875 A
1 A
21406876 TTGATTTTAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (87 bp):
AAGTAATATATAAATCTTAATTTTTTAGAATGAAATAATCAGCCAATTTTTTCAATTAAGAAAAA
TAGATATTTAATACACAAATTG
Found at i:21409107 original size:23 final size:23
Alignment explanation
Indices: 21409058--21409108 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
21409048 TCTCTTCCAC
* *
21409058 AATCCTTCAAGAATTGAAGCAAA
1 AATCCTTCAAGAATAGAAACAAA
*
21409081 AATCCTATCAAGAA-AGAAACAAG
1 AATCCT-TCAAGAATAGAAACAAA
21409104 AATCC
1 AATCC
21409109 AGTCTCTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.18
Consensus pattern (23 bp):
AATCCTTCAAGAATAGAAACAAA
Found at i:21410233 original size:13 final size:14
Alignment explanation
Indices: 21410212--21410249 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
21410202 ATATTTGAAT
21410212 TAAATATTTAATA-A
1 TAAA-ATTTAATAGA
21410226 TAAAATTTAATAGA
1 TAAAATTTAATAGA
21410240 TAAAATTTAA
1 TAAAATTTAA
21410250 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TAAAATTTAATAGA
Found at i:21414787 original size:21 final size:21
Alignment explanation
Indices: 21414763--21414802 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21414753 TATGATTTAA
*
21414763 GTCTAAAATGTTGTTATAGGT
1 GTCTAAAATGTTATTATAGGT
**
21414784 GTCTTGAATGTTATTATAG
1 GTCTAAAATGTTATTATAG
21414803 ATATATATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (21 bp):
GTCTAAAATGTTATTATAGGT
Found at i:21416923 original size:11 final size:11
Alignment explanation
Indices: 21416907--21416948 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
21416897 TGTAAAGCAA
21416907 AAAAGAATAGT
1 AAAAGAATAGT
**
21416918 AAAAGAATAAA
1 AAAAGAATAGT
21416929 AAAAGAATAGT
1 AAAAGAATAGT
21416940 AAAAGAATA
1 AAAAGAATA
21416949 TCCTATCCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (11 bp):
AAAAGAATAGT
Found at i:21416933 original size:22 final size:22
Alignment explanation
Indices: 21416905--21416948 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21416895 TGTGTAAAGC
21416905 AAAAAAGAATAGTAAAAGAATA
1 AAAAAAGAATAGTAAAAGAATA
21416927 AAAAAAGAATAGTAAAAGAATA
1 AAAAAAGAATAGTAAAAGAATA
21416949 TCCTATCCCT
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:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAAGAATAGTAAAAGAATA
Found at i:21417978 original size:15 final size:14
Alignment explanation
Indices: 21417957--21417992 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21417947 ATAATCCTTA
*
21417957 ATAATTATCTTAAT
1 ATAATTATCCTAAT
21417971 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
21417986 ATAATTA
1 ATAATTA
21417993 AAATAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:21423303 original size:34 final size:33
Alignment explanation
Indices: 21423260--21423346 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 33
21423250 TCCAATGCTC
*
21423260 AAATCAATTCAGCAATATATATGTATAC-ATATAA
1 AAATCAATTCAG-AATATATATATAT-CTATATAA
* * **
21423294 AAATCAATTC-GAAAATGTATATATCTATATTT
1 AAATCAATTCAGAATATATATATATCTATATAA
21423326 AAATCAATTCAGAA-ATATATA
1 AAATCAATTCAGAATATATATA
21423347 AACATATACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
31 1 0.02
32 30 0.67
33 4 0.09
34 10 0.22
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.34
Consensus pattern (33 bp):
AAATCAATTCAGAATATATATATATCTATATAA
Found at i:21425358 original size:29 final size:27
Alignment explanation
Indices: 21425299--21425361 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
21425289 ATTTATTATG
*
21425299 TTTTTAAGAATTAAAGCAACCACAGGG
1 TTTTTAAGAATTAAAGCAACCACAGGA
* * *
21425326 TTTTTAAGTAAATTAAAGCAGCGATAGGA
1 TTTTTAAG--AATTAAAGCAACCACAGGA
21425355 TTTTTAA
1 TTTTTAA
21425362 AAATGTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 8 0.27
29 22 0.73
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (27 bp):
TTTTTAAGAATTAAAGCAACCACAGGA
Found at i:21427315 original size:49 final size:50
Alignment explanation
Indices: 21427224--21427341 Score: 132
Period size: 49 Copynumber: 2.3 Consensus size: 50
21427214 AAACATGTTC
* * * * *
21427224 AACAGAAAAAAGAAGAGAAAAGGAAATTGGGAAGAAGAAACATCACTAGGA
1 AACAGAAAAAA-AAAAGAAAAGAAAATAGGGAAGAAGAAACATCACCAAGA
21427275 AACAGAAAAAAAAAAG-AAAGAAAATAGGGAAGGAA-AAACATCACCAAGA
1 AACAGAAAAAAAAAAGAAAAGAAAATAGGGAA-GAAGAAACATCACCAAGA
*
21427324 AAAAGAAAGACAAAAAAG
1 AACAGAAA-A-AAAAAAG
21427342 GAAATAGTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 32 0.55
50 8 0.14
51 18 0.31
ACGTcount: A:0.65, C:0.08, G:0.21, T:0.05
Consensus pattern (50 bp):
AACAGAAAAAAAAAAGAAAAGAAAATAGGGAAGAAGAAACATCACCAAGA
Found at i:21439606 original size:47 final size:47
Alignment explanation
Indices: 21439555--21439644 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
21439545 AAAATTGGAG
*
21439555 AAAAATAATTAGTGGTTAAAATTTACATGTTTAAATTATTAATGAGA
1 AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAATGAGA
21439602 AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAAT
1 AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAAT
21439645 CAGTCTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (47 bp):
AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAATGAGA
Found at i:21442576 original size:45 final size:45
Alignment explanation
Indices: 21442520--21442669 Score: 161
Period size: 45 Copynumber: 3.7 Consensus size: 45
21442510 TCATGTTTTG
*
21442520 GTTTATGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
*
21442565 GTTTCTGTTAAGTTCATGTTTTGG-TT-TCTG-T-TAA-GTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
*
21442605 G----T-TT-AG-----GTTTAGGTTTATGTGTTATAATGTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
21442639 GTTTCTGTTAAGTTCATGTTTTGGTTTATGT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGT
21442670 TTTGGTTCAT
Statistics
Matches: 84, Mismatches: 5, Indels: 32
0.69 0.04 0.26
Matches are distributed among these distances:
29 6 0.07
30 2 0.02
31 3 0.04
32 1 0.01
33 3 0.04
34 9 0.11
35 2 0.02
36 1 0.01
38 1 0.01
39 2 0.02
40 9 0.11
41 3 0.04
42 1 0.01
43 3 0.04
44 2 0.02
45 36 0.43
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.55
Consensus pattern (45 bp):
GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
Found at i:21442635 original size:51 final size:47
Alignment explanation
Indices: 21442580--21442706 Score: 157
Period size: 51 Copynumber: 2.6 Consensus size: 47
21442570 TGTTAAGTTC
21442580 ATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTATGTGTTATA
1 ATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTT-TG-G-T-TA
* * * *
21442631 ATGTTCAT-GTTTCTGTTAAGTTCATGTTTTGGTTTATGTTTTGGTTC
1 ATGTT-TTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTTGGTTA
*
21442678 ATGTTTTGGTTTCTGTTAAGTTGATGTTT
1 ATGTTTTGGTTTCTGTTAAGTTCATGTTT
21442707 TCTGTTTCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 1 0.01
47 26 0.38
48 1 0.01
49 1 0.01
50 2 0.03
51 36 0.53
52 1 0.01
ACGTcount: A:0.15, C:0.06, G:0.23, T:0.57
Consensus pattern (47 bp):
ATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTTGGTTA
Found at i:21442636 original size:74 final size:72
Alignment explanation
Indices: 21442508--21442689 Score: 273
Period size: 74 Copynumber: 2.5 Consensus size: 72
21442498 GTGTTATAAT
21442508 GTTCATGTTTTGGTTTATGTTAAGTTCATG--T--TTTGGTTTATGTGTTATAATGTTCATGTTT
1 GTTCATGTTTTGGTTTATGTTAAGTTCATGTTTGGTTTGGTTTATGTGTTATAATGTTCATGTTT
21442569 CTGTTAA
66 CTGTTAA
*
21442576 GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTATGTGTTATAATGTTCATGT
1 GTTCATGTTTTGGTTTATGTTAAGTTCATGTTT-GGTTT-GGTTTATGTGTTATAATGTTCATGT
21442641 TTCTGTTAA
64 TTCTGTTAA
**
21442650 GTTCATGTTTTGGTTTATGTTTTGGTTCATGTTTTGGTTT
1 GTTCATGTTTTGGTTTATG-TTAAGTTCATG-TTTGGTTT
21442690 CTGTTAAGTT
Statistics
Matches: 102, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
68 29 0.28
70 1 0.01
73 3 0.03
74 52 0.51
75 14 0.14
76 3 0.03
ACGTcount: A:0.15, C:0.06, G:0.22, T:0.57
Consensus pattern (72 bp):
GTTCATGTTTTGGTTTATGTTAAGTTCATGTTTGGTTTGGTTTATGTGTTATAATGTTCATGTTT
CTGTTAA
Found at i:21442671 original size:12 final size:12
Alignment explanation
Indices: 21442654--21442694 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
21442644 TGTTAAGTTC
21442654 ATGTTTTGGTTT
1 ATGTTTTGGTTT
*
21442666 ATGTTTTGGTTC
1 ATGTTTTGGTTT
21442678 ATGTTTTGGTTT
1 ATGTTTTGGTTT
*
21442690 CTGTT
1 ATGTT
21442695 AAGTTGATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.07, C:0.05, G:0.24, T:0.63
Consensus pattern (12 bp):
ATGTTTTGGTTT
Found at i:21442713 original size:24 final size:23
Alignment explanation
Indices: 21442508--21442718 Score: 160
Period size: 23 Copynumber: 8.9 Consensus size: 23
21442498 GTGTTATAAT
*
21442508 GTTCATGTTTTGGTTTATGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
21442531 GTTCATGTTTTGGTTTATGTGTTA
1 GTTCATGTTTTGGTTTCTGT-TAA
* *
21442555 --TAATGTTCAT-GTTTCTGTTAA
1 GTTCATGTT-TTGGTTTCTGTTAA
21442576 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* ** *
21442599 GTTCATGTTTAGGTTTAGGTTTATGT
1 GTTCATGTTTTGGTTTCTG-TTA--A
* *
21442625 GTTATAATGTTCAT-GTTTCTGTTAA
1 G-T-TCATGTT-TTGGTTTCTGTTAA
* **
21442650 GTTCATGTTTTGGTTTATGTTTTG
1 GTTCATGTTTTGGTTTCTG-TTAA
21442674 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
21442697 GTTGATGTTTTCTGTTTCTGTT
1 GTTCATGTTTT-GGTTTCTGTT
21442719 TATGGATTAT
Statistics
Matches: 147, Mismatches: 27, Indels: 27
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.01
22 15 0.10
23 78 0.53
24 35 0.24
25 1 0.01
26 1 0.01
27 4 0.03
28 11 0.07
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.57
Consensus pattern (23 bp):
GTTCATGTTTTGGTTTCTGTTAA
Found at i:21443672 original size:116 final size:115
Alignment explanation
Indices: 21443545--21443795 Score: 450
Period size: 116 Copynumber: 2.2 Consensus size: 115
21443535 TAAAGTTTGG
*
21443545 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
*
21443610 TGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTATATTA
66 TGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTAAATTA
*
21443660 TATATTTTTTATTTTTAATATTCTAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAA
1 -ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAA
*
21443725 ATGCATAAAACTAATTAAATTATATATTTACAAATTAATTAAATTAAATTA
65 ATGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTAAATTA
21443776 A-ATTTTTTATTTTTAATATT
1 ATATTTTTTATTTTTAATATT
21443796 TTTTATTTTT
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
114 19 0.15
115 1 0.01
116 111 0.85
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (115 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
TGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTAAATTA
Found at i:21443798 original size:16 final size:16
Alignment explanation
Indices: 21443773--21443811 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
21443763 TTAAATTAAA
21443773 TTAA-ATTTTTTATTT
1 TTAATATTTTTTATTT
21443788 TTAATATTTTTTATTT
1 TTAATATTTTTTATTT
21443804 TTAATATT
1 TTAATATT
21443812 CCAATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTAATATTTTTTATTT
Found at i:21443799 original size:130 final size:132
Alignment explanation
Indices: 21443661--21443956 Score: 524
Period size: 130 Copynumber: 2.3 Consensus size: 132
21443651 ATTATATTAT
*
21443661 ATATTTTTTATTTTTAATATTCTAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
*
21443726 TGCATAAAACTAATTAAATTATATATTTACAAATTAATTAAATTAAATT-AAA-TTTTTTATTTT
66 TGCATAAAACTAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
21443789 TA
131 TA
* * *
21443791 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATTTTTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
*
21443856 TGCATAAAACTAATTAAATTATGTATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
66 TGCATAAAACTAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
21443921 TA
131 TA
21443923 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
21443957 ATAAAAATAA
Statistics
Matches: 158, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
130 108 0.68
131 3 0.02
132 47 0.30
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (132 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
TGCATAAAACTAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
TA
Found at i:21443929 original size:16 final size:16
Alignment explanation
Indices: 21443910--21443943 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21443900 AAATTAAAAT
21443910 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
21443926 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
21443942 TT
1 TT
21443944 CCAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:21446231 original size:49 final size:49
Alignment explanation
Indices: 21446174--21446277 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
21446164 TCATGTGTTA
* * * *
21446174 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
21446223 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
21446272 TAATTT
1 TAATTT
21446278 GTTTTTTCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:21447791 original size:120 final size:120
Alignment explanation
Indices: 21447664--21448742 Score: 1807
Period size: 120 Copynumber: 9.0 Consensus size: 120
21447654 AAGTAGATTA
** *
21447664 TAAATTATATTTTATAGTACCATATATTAAGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
21447729 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
* *
21447784 TAGATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * *
21447849 AAGAATTTTATTAAATTATATACTTTTAATAAATTATACTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
21447904 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * *
21447969 AAGAATTTTATTAAATTATATCTTTTTATTAAATTATATTTAAAAATAATTAATT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
21448024 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * *
21448086 AAGAATTTTATTAAATTATATA-TTTTACTAATTTATATTTTTAATAATTATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTT
* * *
21448142 TAAATTATATTTTATAGTGTTATATATTGTGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* * *
21448207 AAGAATTTTATTAAATTATATA-TTTTATTAACTTATATTTAAAAATAATTAATT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
21448261 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21448323 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTT
*
21448380 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21448445 AAGAATTTTATTAAATTATATATTTTTATTAAATTTTATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
*
21448500 TAAATTATATTTTATAGTATTATATATTATGA-TTTATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21448564 AAGAATTTTATTAAATTATATGTTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
* *
21448619 TAAATTATATTTTATAGTATTATATATTATGATTTAAGAAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21448684 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
21448739 TAAA
1 TAAA
21448743 ATATGATTAA
Statistics
Matches: 901, Mismatches: 46, Indels: 24
0.93 0.05 0.02
Matches are distributed among these distances:
116 52 0.06
117 51 0.06
118 57 0.06
119 232 0.26
120 404 0.45
121 52 0.06
122 53 0.06
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
Found at i:21448124 original size:15 final size:13
Alignment explanation
Indices: 21448104--21448157 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 13
21448094 TATTAAATTA
21448104 TATATTTTACTAATT
1 TATATTTTA-TAA-T
21448119 TATATTTTTAATAAT
1 TATA-TTTT-ATAAT
21448134 TATTATTTTA-AAT
1 TA-TATTTTATAAT
21448147 TATATTTTATA
1 TATATTTTATA
21448158 GTGTTATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 7 0.20
13 6 0.17
14 1 0.03
15 11 0.31
16 9 0.26
17 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATTTTATAAT
Found at i:21448127 original size:16 final size:17
Alignment explanation
Indices: 21448090--21448144 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
21448080 AATATTAAGA
* *
21448090 ATTTTATTAAATTATAT
1 ATTTTAATAATTTATAT
*
21448107 ATTTTACTAATTTATAT
1 ATTTTAATAATTTATAT
21448124 -TTTTAATAA-TTAT-T
1 ATTTTAATAATTTATAT
21448138 ATTTTAA
1 ATTTTAA
21448145 ATTATATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 8 0.24
17 15 0.44
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTAATAATTTATAT
Found at i:21448231 original size:17 final size:17
Alignment explanation
Indices: 21448211--21448244 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21448201 AATATTAAGA
21448211 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
21448228 ATTTTATTAACTTATAT
1 ATTTTATTAAATTATAT
21448245 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:21448349 original size:18 final size:17
Alignment explanation
Indices: 21448328--21448365 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
21448318 ATATTAAGAA
*
21448328 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
21448346 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
21448363 TTT
1 TTT
21448366 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Done.