Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 49 of 175
Found at i:14332823 original size:111 final size:111
Alignment explanation
Indices: 14332684--14332913 Score: 370
Period size: 111 Copynumber: 2.1 Consensus size: 111
14332674 GTGTTGTGAT
* *
14332684 TATCTTCACTTTATAATATTAGAAGGTAAGTATTCTTACTCTTTAAAGGATGATCAGTGTATCTA
1 TATCTTTACTTTATAATATTAGAAGGTAAGTATTCTTACTCTTTAAAGAATGATCAGTGTATCTA
*
14332749 TGTGTGAATAATGATTGTTTATCCAAAGTTATTAGTCTGAGTTATG
66 TGTGTGAATAATGATTGTCTATCCAAAGTTATTAGTCTGAGTTATG
* * * *
14332795 TATCTTTACTTTATAATATTATAAGGTAAGTATTCTTACTCTTTAAATAATGATCAGTGTATGTG
1 TATCTTTACTTTATAATATTAGAAGGTAAGTATTCTTACTCTTTAAAGAATGATCAGTGTATCTA
* *
14332860 TGTGTGAATAATGATTGTCTGTCCAAAGTTATTAGTCTGAGTTCTG
66 TGTGTGAATAATGATTGTCTATCCAAAGTTATTAGTCTGAGTTATG
*
14332906 TATGTTTA
1 TATCTTTA
14332914 GGAAAAGAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.44
Consensus pattern (111 bp):
TATCTTTACTTTATAATATTAGAAGGTAAGTATTCTTACTCTTTAAAGAATGATCAGTGTATCTA
TGTGTGAATAATGATTGTCTATCCAAAGTTATTAGTCTGAGTTATG
Found at i:14338064 original size:48 final size:48
Alignment explanation
Indices: 14337964--14338168 Score: 241
Period size: 48 Copynumber: 4.2 Consensus size: 48
14337954 TCGGAATAAA
* * * * * *
14337964 AACAGATTTCTCGGTGGCCTACACACAGTTCGTACCACCTTTGTGTAAT
1 AACAGA-TTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAT
* * * * * *
14338013 AACAGATTCTCGGTGACCTGCACATAGTCCGTGTCACCCTTGTATCTT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAT
* *
14338061 AACA-AGTTATTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAC
1 AACAGA-TTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAT
* *
14338109 AACAGAATATCGGTGGCCTGCACACAGTCTGTGCCACCCTTGTGTCAT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAT
14338157 AACAGATTATCG
1 AACAGATTATCG
14338169 ATAAGCATAG
Statistics
Matches: 131, Mismatches: 23, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 123 0.94
49 7 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAT
Found at i:14342640 original size:46 final size:46
Alignment explanation
Indices: 14342622--14342815 Score: 151
Period size: 46 Copynumber: 4.3 Consensus size: 46
14342612 TGACAAGTGG
* * *
14342622 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
14342668 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
14342714 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
14342766 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
14342803 AAAGTGATAAGTG
1 AAAGTGATAAGTG
14342816 GCTACACTTA
Statistics
Matches: 135, Mismatches: 5, Indels: 23
0.83 0.03 0.14
Matches are distributed among these distances:
37 33 0.24
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 54 0.40
52 44 0.33
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:14342641 original size:52 final size:51
Alignment explanation
Indices: 14342570--14342778 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
14342560 ATCAAGTGAC
* **
14342570 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
14342622 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
14342668 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
14342719 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
14342772 ATAAGTG
1 A-AAGTG
14342779 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:14342676 original size:98 final size:98
Alignment explanation
Indices: 14342556--14342779 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
14342546 TTTGAGTACT
*
14342556 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
14342621 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
14342654 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
14342719 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
14342752 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
14342780 CTACACTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:14342788 original size:37 final size:37
Alignment explanation
Indices: 14342741--14342924 Score: 309
Period size: 37 Copynumber: 5.0 Consensus size: 37
14342731 TGATAGCTTC
*
14342741 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
14342778 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
14342815 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
14342852 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
14342889 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
14342924 G
1 G
14342925 ATCATACGTA
Statistics
Matches: 141, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 126 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:14348632 original size:48 final size:48
Alignment explanation
Indices: 14348557--14348699 Score: 153
Period size: 48 Copynumber: 3.0 Consensus size: 48
14348547 ATAGATTTCT
* ** * * * *
14348557 CGGTGGCCTACACACAGTTTGTACCACCTTTGTGTAATAACAGATTCC
1 CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTAC
* * * *
14348605 CGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACA-AGTTAT
1 CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA-TTAC
* *
14348653 TGGTGGCCTGCACACAGTCCGTGCCACCCTCGTGTCATAACAGATTA
1 CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
14348700 TCGATACGCA
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 75 0.97
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
CGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTAC
Found at i:14358178 original size:18 final size:18
Alignment explanation
Indices: 14358155--14358192 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
14358145 AATAAATTTA
14358155 ATTTCACATTTCTCTATT
1 ATTTCACATTTCTCTATT
14358173 ATTTCACATTTCTCTATT
1 ATTTCACATTTCTCTATT
14358191 AT
1 AT
14358193 ATCTTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTCACATTTCTCTATT
Found at i:14360671 original size:50 final size:50
Alignment explanation
Indices: 14360479--14360721 Score: 215
Period size: 50 Copynumber: 4.8 Consensus size: 50
14360469 GAATTTAACA
* * * *
14360479 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTCTCATCT-CGG
* * * * * * *
14360528 TGCCAATTCCATATCCGAGATATGGTCTTACATGAGA-GTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATG-TCTCATCTCGG
* * **
14360578 TGCCCATGCCATGTCCTAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGATGTCTCATCTCGG
* *
14360628 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTCTCATAATCTCAAAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTCTC---ATCTC---GG
*
14360684 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
14360722 CTCATTCCCT
Statistics
Matches: 156, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
48 2 0.01
49 37 0.24
50 74 0.47
51 1 0.01
53 5 0.03
56 37 0.24
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTCTCATCTCGG
Found at i:14368256 original size:50 final size:50
Alignment explanation
Indices: 14368187--14368378 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
14368177 TTTCCTGTAC
* * * **
14368187 TGCCAATGCCATATTCCAGATATGGTCTTACATGGGAATTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
14368237 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
14368287 TGCCAACGCTATGTCCCAGACATGATCTTACATGGGACCTCTCATAATCTCAAAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
14368343 TGCCAATGCC-TGTCCCAGACATGGTCTTATATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
14368379 TCTCATTCCC
Statistics
Matches: 115, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 80 0.70
53 2 0.02
55 24 0.21
56 9 0.08
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:14369768 original size:13 final size:13
Alignment explanation
Indices: 14369750--14369776 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14369740 GTTCAACTAG
14369750 AGAATTTAATTAA
1 AGAATTTAATTAA
14369763 AGAATTTAATTAA
1 AGAATTTAATTAA
14369776 A
1 A
14369777 AATGAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
AGAATTTAATTAA
Found at i:14370404 original size:59 final size:62
Alignment explanation
Indices: 14370289--14370406 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 62
14370279 GGTCTAATAG
* * * *
14370289 TTTAATATTAAATTTACTTTAATGTTTATCTTATAGATAAACTTTATATTATTTTAATAAGA
1 TTTAATATTAAATTTAATCTAATATTTATCTTATAGATAAACTTTATATTAATTTAATAAGA
*
14370351 TTTAGTATTAAATTTAATCTAATATTTATC-T-T-GATAAA-TATTATATTAATTTAATA
1 TTTAATATTAAATTTAATCTAATATTTATCTTATAGATAAACT-TTATATTAATTTAATA
14370407 TTAAAGTGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
58 1 0.02
59 21 0.42
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (62 bp):
TTTAATATTAAATTTAATCTAATATTTATCTTATAGATAAACTTTATATTAATTTAATAAGA
Found at i:14380712 original size:26 final size:26
Alignment explanation
Indices: 14380677--14380726 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
14380667 CCCACACACC
* *
14380677 AATATTGCAGCATAGCTGCCAGTAAT
1 AATATCGCAGCAAAGCTGCCAGTAAT
14380703 AATATCGCAGCAAAGCTGCCAGTA
1 AATATCGCAGCAAAGCTGCCAGTA
14380727 CAGTATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (26 bp):
AATATCGCAGCAAAGCTGCCAGTAAT
Found at i:14380756 original size:27 final size:27
Alignment explanation
Indices: 14380712--14380785 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
14380702 TAATATCGCA
**
14380712 GCAAAGCTGCCAGT-ACAGT-ATATGTG
1 GCAAAGCCACCAGTAACAGTAAT-TGTG
14380738 GCAAAGCCACCAGTAACAGTAATTGTG
1 GCAAAGCCACCAGTAACAGTAATTGTG
*
14380765 GCAGAGCCACCAGTAACAGTA
1 GCAAAGCCACCAGTAACAGTA
14380786 CTTCCTCCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.28
27 29 0.67
28 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAATTGTG
Found at i:14380985 original size:26 final size:26
Alignment explanation
Indices: 14380966--14381060 Score: 154
Period size: 26 Copynumber: 3.7 Consensus size: 26
14380956 ACCCTTCGGA
14380966 GGTATTTCGATAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
14380992 GGTATTTCGGTAATTTACCCATCGAA
1 GGTATTTCGATAATTTACCCATCGAG
* *
14381018 GGTATTTCGGTAATCTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
14381044 GGTATTTCGATAATTTA
1 GGTATTTCGATAATTTA
14381061 GGCCCATTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (26 bp):
GGTATTTCGATAATTTACCCATCGAG
Found at i:14381021 original size:52 final size:52
Alignment explanation
Indices: 14380955--14381060 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
14380945 ACAGCCATTC
* * * *
14380955 TACCCTTCGGAGGTATTTCGATAATTTACCCATCGAGGGTATTTCGGTAATT
1 TACCCATCGAAGGTATTTCGATAATCTACCCATCGAGGGTATTTCGATAATT
*
14381007 TACCCATCGAAGGTATTTCGGTAATCTACCCATCGAGGGTATTTCGATAATT
1 TACCCATCGAAGGTATTTCGATAATCTACCCATCGAGGGTATTTCGATAATT
14381059 TA
1 TA
14381061 GGCCCATTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (52 bp):
TACCCATCGAAGGTATTTCGATAATCTACCCATCGAGGGTATTTCGATAATT
Found at i:14386957 original size:16 final size:16
Alignment explanation
Indices: 14386938--14386982 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
14386928 CTATCTATCA
* *
14386938 TTTTCACAATCTAGAG
1 TTTTCACAGTCTACAG
14386954 TTTTCACAGTCTACAG
1 TTTTCACAGTCTACAG
14386970 TTTTCACAGTCTA
1 TTTTCACAGTCTA
14386983 TAGCTTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (16 bp):
TTTTCACAGTCTACAG
Found at i:14395213 original size:50 final size:50
Alignment explanation
Indices: 14395159--14395274 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
14395149 TATCGCAAAT
** * * **
14395159 ATGGTCTTACATGGGAATTCTCATATTGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGAACACTCATATCGGTGCCAACACCATGTCCCAGAC
* * *
14395209 ATGGTCTTACAGGGGACCACTCATCTCGGTGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATGGGAACACTCATATCGGTGCCAACACCATGTCCCAGAC
14395259 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
14395275 TCTCGTTCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGGGAACACTCATATCGGTGCCAACACCATGTCCCAGAC
Found at i:14401081 original size:50 final size:50
Alignment explanation
Indices: 14400984--14401269 Score: 281
Period size: 50 Copynumber: 5.6 Consensus size: 50
14400974 TGTGAGCCAG
*
14400984 TGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCA
* * * *
14401040 TGTAAGACCATGTCTGGGACTTGGCATTGGCATCGACAT--GAGGTCCAA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* *** *
14401088 CGTAAGACCATGTCTGGGACATGATGTTGGCACCGAGATGAGAGGTCCCG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * * * *
14401138 TGTAAGACAATATTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTC-
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * * ** *
14401187 TCGTAAGACCATGTCTGGGATATGGCATGGGCACCGATATGAGAACTCCTA
1 T-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* *
14401238 TGTAAGACCATATCTGGGATATGGCATTGGCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA
14401270 GTACATAAAA
Statistics
Matches: 192, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
48 40 0.21
49 1 0.01
50 117 0.61
51 1 0.01
53 2 0.01
56 31 0.16
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
Found at i:14403624 original size:9 final size:9
Alignment explanation
Indices: 14403610--14403697 Score: 95
Period size: 9 Copynumber: 9.8 Consensus size: 9
14403600 TTTGGTTAAA
14403610 AATTAACCG
1 AATTAACCG
*
14403619 AATTAACAG
1 AATTAACCG
*
14403628 AATTACCCG
1 AATTAACCG
*
14403637 AATTAACAG
1 AATTAACCG
*
14403646 AACTAACCG
1 AATTAACCG
* * *
14403655 GATTACCCA
1 AATTAACCG
14403664 AATTAACCG
1 AATTAACCG
*
14403673 AATTACCCG
1 AATTAACCG
*
14403682 AATTAACTG
1 AATTAACCG
14403691 AATTAAC
1 AATTAAC
14403698 ATAATTGAAT
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:14403754 original size:6 final size:6
Alignment explanation
Indices: 14403723--14403771 Score: 62
Period size: 6 Copynumber: 7.7 Consensus size: 6
14403713 CATAATTAAA
*
14403723 TTAGTT TTAGACTT TTAGACT TTAGTT TTAGTT TTAGTT TTAGTT TTAG
1 TTAGTT TTAG--TT TTAG-TT TTAGTT TTAGTT TTAGTT TTAGTT TTAG
14403772 AAATTTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 27 0.71
7 5 0.13
8 6 0.16
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.59
Consensus pattern (6 bp):
TTAGTT
Found at i:14410275 original size:12 final size:12
Alignment explanation
Indices: 14410250--14410288 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14410240 ACTCACTTCT
* *
14410250 TTACTTACTCAC
1 TTACTTGCTTAC
*
14410262 TTACTTGTTTAC
1 TTACTTGCTTAC
14410274 TTACTTGCTTAC
1 TTACTTGCTTAC
14410286 TTA
1 TTA
14410289 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:14410640 original size:50 final size:53
Alignment explanation
Indices: 14410586--14410721 Score: 134
Period size: 50 Copynumber: 2.6 Consensus size: 53
14410576 TCTTATATCA
* * * *
14410586 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGAC-CTC-TCATCT-TG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAGACGCTCATAATCTATG
* * ** *
14410636 GTGCCAACGCCATTTCTGAGACATGGTCTTACATGAGACGTCTCATAATCTCAATG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAGACG-CTCATAATCT--ATG
*
14410692 ATGCCAATGCCATGTCCCAGACATGGTCTT
1 GTGCCAATGCCATGTCCCAGACATGGTCTT
14410722 TCATGGGATC
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
50 31 0.47
52 3 0.05
53 5 0.08
56 27 0.41
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (53 bp):
GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGAGACGCTCATAATCTATG
Found at i:14413087 original size:22 final size:23
Alignment explanation
Indices: 14413054--14413097 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14413044 TCTGTTGAAA
14413054 ATTATCAAAATTAATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
14413077 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATCAAAATT
14413098 CAACATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:14429150 original size:20 final size:20
Alignment explanation
Indices: 14429105--14429158 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
14429095 AGGGACATCA
14429105 AAGTGCAAATAAGGGAACAG
1 AAGTGCAAATAAGGGAACAG
* * *
14429125 ATGTGCGAAT-AGGAGAACCG
1 AAGTGCAAATAAGG-GAACAG
*
14429145 AAGTGCAAACAAGG
1 AAGTGCAAATAAGG
14429159 ACACCGAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 3 0.12
20 20 0.77
21 3 0.12
ACGTcount: A:0.44, C:0.13, G:0.31, T:0.11
Consensus pattern (20 bp):
AAGTGCAAATAAGGGAACAG
Found at i:14431046 original size:27 final size:27
Alignment explanation
Indices: 14431016--14431218 Score: 178
Period size: 27 Copynumber: 7.5 Consensus size: 27
14431006 GCTTGGGCCA
* * *
14431016 AAAATTACCTAAATACCCTTGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
14431043 AAAATTATCGAAATACCCTCAAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
14431070 AAAATTACTGAAATGCCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
14431097 AAAATCACCGAAATACCC-CTGATGGGT
1 AAAATTACCGAAATACCCTC-GAAGGGT
* *
14431124 AAAGTTACTGAAATACCCTCGATA-GGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
* *
14431151 AAAATTATCGAAATGCCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
14431178 AAAATGACCAAAATACCC-CTATAAGGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
*
14431205 AAAATAACCGAAAT
1 AAAATTACCGAAAT
14431219 GCCCCTAAAG
Statistics
Matches: 140, Mismatches: 31, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.03
27 135 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:14431152 original size:81 final size:81
Alignment explanation
Indices: 14431016--14431197 Score: 235
Period size: 81 Copynumber: 2.2 Consensus size: 81
14431006 GCTTGGGCCA
* * *
14431016 AAAATTACCTAAATACCCTTGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTA-CTG
1 AAAATCACCAAAATACCCCTGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATC-G
14431080 AAATGCCCTCAAAAGGT
65 AAATGCCCTCAAAAGGT
* * *
14431097 AAAATCACCGAAATACCCCTGATGGGTAAAGTTA-CTGAAATACCCTCGATA-GGTAAAATTATC
1 AAAATCACCAAAATACCCCTGATGGGTAAAATTATC-GAAATACCCTC-AAAGGGTAAAATTATC
* *
14431160 GAAATGCCCTCGAAGGGT
64 GAAATGCCCTCAAAAGGT
*
14431178 AAAATGACCAAAATACCCCT
1 AAAATCACCAAAATACCCCT
14431198 ATAAGGTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
80 1 0.01
81 85 0.96
82 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.23
Consensus pattern (81 bp):
AAAATCACCAAAATACCCCTGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATCGA
AATGCCCTCAAAAGGT
Found at i:14431218 original size:81 final size:81
Alignment explanation
Indices: 14431016--14431218 Score: 232
Period size: 81 Copynumber: 2.5 Consensus size: 81
14431006 GCTTGGGCCA
* * * * *
14431016 AAAATTACCTAAATACCCTTGATGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGA
1 AAAATCACCAAAATACCCCTGATAGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACTGA
14431081 AATGCCCTCAAAAGGT
66 AATGCCCTCAAAAGGT
* * * * *
14431097 AAAATCACCGAAATACCCCTGATGGGTAAAGTTACTGAAATACCCTCGATA-GGTAAAATTA-TC
1 AAAATCACCAAAATACCCCTGATAGGTAAAATTACCGAAATACCCTC-AAAGGGTAAAATTACT-
* *
14431160 GAAATGCCCTCGAAGGGT
64 GAAATGCCCTCAAAAGGT
* *
14431178 AAAATGACCAAAATACCCCT-ATAAGGTAAAATAACCGAAAT
1 AAAATCACCAAAATACCCCTGAT-AGGTAAAATTACCGAAAT
14431219 GCCCCTAAAG
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
80 3 0.03
81 99 0.95
82 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (81 bp):
AAAATCACCAAAATACCCCTGATAGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACTGA
AATGCCCTCAAAAGGT
Found at i:14432226 original size:17 final size:17
Alignment explanation
Indices: 14432193--14432238 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
14432183 TTTCAGGAAG
* *
14432193 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-AAAAACAC
14432211 GGTTTTCAAAAAAACAC
1 GGTTTTCAAAAAAACAC
*
14432228 GATTTTCAAAA
1 GGTTTTCAAAA
14432239 GACACTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAAAAAACAC
Found at i:14435609 original size:27 final size:27
Alignment explanation
Indices: 14435516--14435650 Score: 112
Period size: 27 Copynumber: 5.0 Consensus size: 27
14435506 CTTGGGCCAA
*** *
14435516 AAAATTACC-AAATACCCTTTATGGGT
1 AAAATTACCGAAATACCCCCAAAGGGT
* * *
14435542 AAAATTATCGAAATACCCTCAAAGTGT
1 AAAATTACCGAAATACCCCCAAAGGGT
*
14435569 AAAATTATCGAAATACCCCCAAAGGGT
1 AAAATTACCGAAATACCCCCAAAGGGT
* * *
14435596 AAAATGACCAAAATACCCCTATAA-GGT
1 AAAATTACCGAAATACCCCCA-AAGGGT
* * * *
14435623 AAAATAACCGAAATGCCCCTAGAGGGT
1 AAAATTACCGAAATACCCCCAAAGGGT
14435650 A
1 A
14435651 GATGACTGAT
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
26 9 0.10
27 80 0.88
28 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCCAAAGGGT
Found at i:14446618 original size:27 final size:27
Alignment explanation
Indices: 14446588--14446764 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
14446578 AAATTGTACA
* *
14446588 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
14446615 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
14446642 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * *
14446669 GCACTAAGAGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
14446697 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
14446724 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
14446751 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
14446765 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:14446701 original size:82 final size:81
Alignment explanation
Indices: 14446588--14446743 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
14446578 AAATTGTACA
* * * *
14446588 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
14446652 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
14446669 GCACTAAGAGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGAGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
14446734 TGCGAGTTGA
65 TGCGAATTGA
14446744 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:14454654 original size:27 final size:27
Alignment explanation
Indices: 14454624--14454798 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
14454614 AAATTGTACA
* *
14454624 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
14454651 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
14454678 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
14454705 GCACTAAG-GTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
14454732 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
14454759 GCACTAAGTGTGC-AGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
14454785 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
14454799 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 27 0.22
27 87 0.72
28 7 0.06
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:14454684 original size:54 final size:55
Alignment explanation
Indices: 14454623--14454798 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 55
14454613 TAAATTGTAC
* *
14454623 AGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGAATGAATATGT
* * * ** *
14454676 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAG-GTGCGAGTCTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGAATGAATATGT
* * * * *
14454731 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGC-AG-TTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGAATGAATATGT
*
14454784 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
14454799 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
53 28 0.27
54 69 0.68
55 5 0.05
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGAATGAATATGT
Found at i:14454798 original size:81 final size:80
Alignment explanation
Indices: 14454620--14454771 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 80
14454610 GATTAAATTG
* * *
14454620 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAA-GGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
14454685 GTGTGCGAATTGACCA
65 GTGTGCGAATTGACCA
* * ** *
14454701 TGCGGCACTAAGGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTA
1 TACAGCACTAAGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
14454765 AGTGTGC
64 AGTGTGC
14454772 AGTTGATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 8 0.13
81 53 0.87
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (80 bp):
TACAGCACTAAGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:14456575 original size:43 final size:42
Alignment explanation
Indices: 14456509--14456658 Score: 176
Period size: 43 Copynumber: 3.5 Consensus size: 42
14456499 CCAGACATGG
* ** *
14456509 TCTTACATGGAAATCTCGTATCGATTCCAATAGCCTAGTTATAT
1 TCTTACA-CGAAATCTCAAATCGATTCCAATAGCCTAGCTAT-T
* * *
14456553 TCTTACACGAGATCTCAAATCGATGCCAATAGCCCAGCTATT
1 TCTTACACGAAATCTCAAATCGATTCCAATAGCCTAGCTATT
*
14456595 GTCTTACACGAAATCTCAAATCGATGT-CAATAGCCTAGCTATGG
1 -TCTTACACGAAATCTCAAATCGAT-TCCAATAGCCTAGCTAT-T
14456639 TCTTACACGAAATCTCAAAT
1 TCTTACACGAAATCTCAAAT
14456659 TGATATTGGA
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 84 0.91
44 7 0.08
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (42 bp):
TCTTACACGAAATCTCAAATCGATTCCAATAGCCTAGCTATT
Found at i:14457452 original size:21 final size:19
Alignment explanation
Indices: 14457424--14457464 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14457414 AAGATGATAC
14457424 TTTGCTTTATTTTACTAAAT
1 TTTGCTTTA-TTTACTAAAT
*
14457444 TTTGTCTTTATTTACTTAAT
1 TTTG-CTTTATTTACTAAAT
14457464 T
1 T
14457465 ACTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTGCTTTATTTACTAAAT
Found at i:14464317 original size:18 final size:18
Alignment explanation
Indices: 14464282--14464327 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
14464272 GTTTTATGTG
*
14464282 TGTTTATTTTAGTTTTTA
1 TGTTTATTTTAGTGTTTA
14464300 TGTTTATTTGT-GTGTTTA
1 TGTTTATTT-TAGTGTTTA
14464318 T-TTTAGTTTT
1 TGTTTA-TTTT
14464328 TATGCAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.20
18 19 0.76
19 1 0.04
ACGTcount: A:0.13, C:0.00, G:0.15, T:0.72
Consensus pattern (18 bp):
TGTTTATTTTAGTGTTTA
Found at i:14474134 original size:20 final size:21
Alignment explanation
Indices: 14474109--14474184 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 21
14474099 TCCATGCGGT
*
14474109 TCAGCTCACTT-TAGCTCAAG
1 TCAGCTCACTTCGAGCTCAAG
14474129 TCAGCTCA-TTCGAGCTCAAG
1 TCAGCTCACTTCGAGCTCAAG
* * *
14474149 TTAGCTCAC-ACGAGCTCAAT
1 TCAGCTCACTTCGAGCTCAAG
*
14474169 TCAGATCA-TT-GAGCTC
1 TCAGCTCACTTCGAGCTC
14474185 GTTATTAGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
19 8 0.17
20 38 0.83
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (21 bp):
TCAGCTCACTTCGAGCTCAAG
Found at i:14485693 original size:16 final size:16
Alignment explanation
Indices: 14485659--14485695 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14485649 ATTATAGATT
*
14485659 TATTCCATTACAGCCC
1 TATTCCATTACAACCC
*
14485675 TATTCCATTACAACTC
1 TATTCCATTACAACCC
14485691 TATTC
1 TATTC
14485696 TTTTGTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.32, G:0.03, T:0.38
Consensus pattern (16 bp):
TATTCCATTACAACCC
Found at i:14489107 original size:6 final size:6
Alignment explanation
Indices: 14489098--14489124 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14489088 CAGCAGCAGC
14489098 GAGGGA GAGGGA GAGGGA GAGGGA GAG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAG
14489125 TGACGGGGGA
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:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:14489191 original size:25 final size:25
Alignment explanation
Indices: 14489140--14489191 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
14489130 GGGGAGGGAT
* *
14489140 TTTTTATTTAATATTAATATAATTA
1 TTTTTATTTAATATTAATAGAAATA
14489165 TTTTTATTTAATATTAATAGAAATA
1 TTTTTATTTAATATTAATAGAAATA
14489190 TT
1 TT
14489192 AAAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTTATTTAATATTAATAGAAATA
Found at i:14489834 original size:13 final size:13
Alignment explanation
Indices: 14489816--14489843 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14489806 GCAGTGGCTG
14489816 TGAGATTAAATAC
1 TGAGATTAAATAC
14489829 TGAGATTAAATAC
1 TGAGATTAAATAC
14489842 TG
1 TG
14489844 TAGCGATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (13 bp):
TGAGATTAAATAC
Found at i:14490176 original size:12 final size:12
Alignment explanation
Indices: 14490161--14490204 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
14490151 TATAATTTGG
14490161 TTTTTTATTTTA
1 TTTTTTATTTTA
14490173 TTTTTTATTTTA
1 TTTTTTATTTTA
* *
14490185 ATTTTTGTTTTA
1 TTTTTTATTTTA
14490197 GTTTTTTA
1 -TTTTTTA
14490205 AATTTACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:14491221 original size:9 final size:9
Alignment explanation
Indices: 14491207--14491238 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
14491197 AATTATAAGA
*
14491207 AAAATATTT
1 AAAATAATT
14491216 AAAATAATT
1 AAAATAATT
14491225 AAAATAATT
1 AAAATAATT
14491234 AAAAT
1 AAAAT
14491239 TTTAAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATAATT
Found at i:14491246 original size:18 final size:19
Alignment explanation
Indices: 14491206--14491247 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14491196 AAATTATAAG
*
14491206 AAAAATATTTAAAATAATT
1 AAAAATAATTAAAATAATT
*
14491225 -AAAATAATTAAAAT-TTT
1 AAAAATAATTAAAATAATT
14491242 AAAAAT
1 AAAAAT
14491248 CATAAAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATAATTAAAATAATT
Found at i:14491269 original size:17 final size:17
Alignment explanation
Indices: 14491226--14491271 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
14491216 AAAATAATTA
**
14491226 AAATAATTA-AAATTTT
1 AAATAATTATAAAACTT
*
14491242 AAA-AATCATAAAACTT
1 AAATAATTATAAAACTT
14491258 AAATAATTATAAAA
1 AAATAATTATAAAA
14491272 ATCATTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 4 0.17
16 11 0.46
17 9 0.38
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAATTATAAAACTT
Found at i:14491678 original size:12 final size:12
Alignment explanation
Indices: 14491661--14491687 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14491651 TCGTAATTGG
14491661 GTCCACCATTTT
1 GTCCACCATTTT
14491673 GTCCACCATTTT
1 GTCCACCATTTT
14491685 GTC
1 GTC
14491688 TCAGTCTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.11, T:0.41
Consensus pattern (12 bp):
GTCCACCATTTT
Found at i:14494586 original size:58 final size:58
Alignment explanation
Indices: 14494490--14494608 Score: 168
Period size: 58 Copynumber: 2.1 Consensus size: 58
14494480 GAGCTGTCTG
* *
14494490 ATACTTAGAGATTTTTCTCGAAATTATAAGCTAAGAATATAAATTCGTC-ATCTATTTT
1 ATACTTAGAGATTTTTCTCAAAATTATAAGCTAAGAATATAAATTCG-CGATCTATTCT
* ** *
14494548 ATACTTAGATATTTTTCTCAAAATTATAAGCTGGGAATATGAATTCGCGATCTATTCT
1 ATACTTAGAGATTTTTCTCAAAATTATAAGCTAAGAATATAAATTCGCGATCTATTCT
14494606 ATA
1 ATA
14494609 TTGATACTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 1 0.02
58 53 0.98
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (58 bp):
ATACTTAGAGATTTTTCTCAAAATTATAAGCTAAGAATATAAATTCGCGATCTATTCT
Found at i:14494727 original size:69 final size:69
Alignment explanation
Indices: 14494654--14494969 Score: 375
Period size: 69 Copynumber: 4.6 Consensus size: 69
14494644 ACACCTAGTT
* * * * ***
14494654 GCTTTGCTCGT-GCTAACTATTTTGGAGGCCGCGGCTCTTTGCTTGTGAGCTTTGATATTACTGC
1 GCTTTGCTC-TCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCCTGTGAGCCTTGATATTACAAT
*
14494718 TGGAA
65 TGGGA
* * * * * *
14494723 GCTTTGTTCTCGCTAACTGTTTTGGAGGCTGTGGCTCTTCGCCTATGAGCCTCGATCTTACAATT
1 GCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCCTGTGAGCCTTGATATTACAATT
*
14494788 AGGA
66 GGGA
* * *
14494792 GCTTTGCTCTCGCTAACTATTTTGGAGGTTGCGGCTCTTCG-CTTTGGAGCCTTGATATTACAGT
1 GCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCCTGT-GAGCCTTGATATTACAAT
14494856 TGGGA
65 TGGGA
* * * *
14494861 GCTTTGCTTTCGCTAACTGTTTTGGAGGCTGCGACTCTTCACCTGTGAGCCTTGATATTACAATT
1 GCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCCTGTGAGCCTTGATATTACAATT
14494926 GGGA
66 GGGA
* * *
14494930 GCTTTGCTTTCACTAACTATTTTGGAGGCTACGGCTCTTC
1 GCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTC
14494970 AACTAGGAGC
Statistics
Matches: 209, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
68 4 0.02
69 202 0.97
70 3 0.01
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (69 bp):
GCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCCTGTGAGCCTTGATATTACAATT
GGGA
Found at i:14494883 original size:138 final size:138
Alignment explanation
Indices: 14494635--14494969 Score: 433
Period size: 138 Copynumber: 2.4 Consensus size: 138
14494625 GAGCTTTGCT
** ** * *
14494635 CTCGATATTACACCTAGTTGCTTTGCTCGT-GCTAACTATTTTGGAGGCCGCGGCTCTTTGCTTG
1 CTCGATATTACAATTAGGAGCTTTGCTC-TCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCTTG
* * * * *
14494699 TGAGCTTTGATATTACTGCTGGAAGCTTTGTTCTCGCTAACTGTTTTGGAGGCTGTGGCTCTTCG
65 TGAGCCTTGATATTACAGCTGGAAGCTTTGTTCTCGCTAACTGTTTTGGAGGCTGCGACTCTTCA
14494764 CCTATGAGC
130 CCTATGAGC
* *
14494773 CTCGATCTTACAATTAGGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTGCGGCTCTTCGCTT-T
1 CTCGATATTACAATTAGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCTTGT
* *
14494837 GGAGCCTTGATATTACAGTTGGGAGCTTTGCTT-TCGCTAACTGTTTTGGAGGCTGCGACTCTTC
66 -GAGCCTTGATATTACAGCTGGAAGCTTTG-TTCTCGCTAACTGTTTTGGAGGCTGCGACTCTTC
*
14494901 ACCTGTGAGC
129 ACCTATGAGC
* * * * *
14494911 CTTGATATTACAATTGGGAGCTTTGCTTTCACTAACTATTTTGGAGGCTACGGCTCTTC
1 CTCGATATTACAATTAGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTC
14494970 AACTAGGAGC
Statistics
Matches: 171, Mismatches: 23, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
137 2 0.01
138 167 0.98
139 2 0.01
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.37
Consensus pattern (138 bp):
CTCGATATTACAATTAGGAGCTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCGCTTGT
GAGCCTTGATATTACAGCTGGAAGCTTTGTTCTCGCTAACTGTTTTGGAGGCTGCGACTCTTCAC
CTATGAGC
Found at i:14497049 original size:15 final size:16
Alignment explanation
Indices: 14497020--14497049 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14497010 CAAACATATT
14497020 TTAACACATTATCAAA
1 TTAACACATTATCAAA
14497036 TTAACACA-TATCAA
1 TTAACACATTATCAA
14497050 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:14497535 original size:15 final size:16
Alignment explanation
Indices: 14497515--14497545 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14497505 TTTTCATTTG
14497515 CATTTCA-TTACTTTC
1 CATTTCATTTACTTTC
14497530 CATTTCATTTACTTTC
1 CATTTCATTTACTTTC
14497546 TTTAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (16 bp):
CATTTCATTTACTTTC
Found at i:14498331 original size:18 final size:18
Alignment explanation
Indices: 14498291--14498325 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14498281 CCATGATGTT
14498291 CACCCGTGTGGGCCCACA
1 CACCCGTGTGGGCCCACA
14498309 CACCCGTGT-GGCCCACA
1 CACCCGTGTGGGCCCACA
14498326 TGACCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.46, G:0.26, T:0.11
Consensus pattern (18 bp):
CACCCGTGTGGGCCCACA
Found at i:14499994 original size:25 final size:25
Alignment explanation
Indices: 14499927--14499996 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
14499917 GGCGTTACAT
*
14499927 ATGCTCACACGAGCTGTAAATCTGA
1 ATGCTCACACGAGCTGTGAATCTGA
*
14499952 ATGCACACACGAGCTGTGAAT-TAGA
1 ATGCTCACACGAGCTGTGAATCT-GA
14499977 ATGCTCACACGAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
14499997 AATAGGCCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCTGA
Found at i:14501014 original size:2 final size:2
Alignment explanation
Indices: 14501007--14501035 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14500997 ATGATAAAGC
14501007 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
14501036 TTATATATCA
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14501862 original size:25 final size:25
Alignment explanation
Indices: 14501686--14501862 Score: 107
Period size: 25 Copynumber: 7.1 Consensus size: 25
14501676 CTCTCTTTTA
* **
14501686 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATATCGGGAAGCTCATAAG
* * * *
14501711 AGCCATGTAACAGGAAGCTCATAAA
1 AGCCATATATCGGGAAGCTCATAAG
* * *
14501736 AGCCATA-ATCGAGAAGTTCA-AGCG
1 AGCCATATATCGGGAAGCTCATA-AG
*
14501760 AGCCA-ATATCAGGAAGCTC-TAGAG
1 AGCCATATATCGGGAAGCTCATA-AG
14501784 AGCCAT-TAATCGGGAAGCTCATGAAAG
1 AGCCATAT-ATCGGGAAGCTCAT--AAG
* * *
14501811 AGTC-TTTAATCGGGAAGCTCCA-GAG
1 AGCCATAT-ATCGGGAAGCT-CATAAG
*
14501836 AGCCATATATCGGGATGCTCATAAG
1 AGCCATATATCGGGAAGCTCATAAG
14501861 AG
1 AG
14501863 TTGTGGTGTG
Statistics
Matches: 117, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
23 2 0.02
24 34 0.29
25 56 0.48
26 4 0.03
27 18 0.15
28 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (25 bp):
AGCCATATATCGGGAAGCTCATAAG
Found at i:14503823 original size:16 final size:16
Alignment explanation
Indices: 14503793--14503825 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14503783 ATCCTTCGAC
14503793 ATTGATTTTCATTTCA
1 ATTGATTTTCATTTCA
14503809 ATTGAGTTTTC-TTTCA
1 ATTGA-TTTTCATTTCA
14503825 A
1 A
14503826 ATCTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (16 bp):
ATTGATTTTCATTTCA
Found at i:14509294 original size:8 final size:9
Alignment explanation
Indices: 14509276--14509339 Score: 51
Period size: 9 Copynumber: 6.7 Consensus size: 9
14509266 GATCCAATCC
14509276 AAAAATAAA
1 AAAAATAAA
14509285 AAAAATAAA
1 AAAAATAAA
14509294 AAAAATCAAA
1 AAAAAT-AAA
14509304 ATGAAAATCAAA
1 A--AAAAT-AAA
14509316 ATAAAA-AGAA
1 A-AAAATA-AA
*
14509326 AAAAA-AAG
1 AAAAATAAA
14509334 AAAAAT
1 AAAAAT
14509340 CAAAGTCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
8 6 0.12
9 21 0.44
10 7 0.15
11 4 0.08
12 10 0.21
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:14509310 original size:12 final size:12
Alignment explanation
Indices: 14509295--14509362 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
14509285 AAAAATAAAA
*
14509295 AAAATCAAAATG
1 AAAATCAAAATC
14509307 AAAATCAAAAT-
1 AAAATCAAAATC
** *
14509318 AAAAAGAAAA-A
1 AAAATCAAAATC
**
14509329 AAAAGAAAAATC
1 AAAATCAAAATC
*
14509341 AAAGTCAAAATC
1 AAAATCAAAATC
14509353 AAAATCAAAA
1 AAAATCAAAA
14509363 AAAGGAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
11 16 0.36
12 29 0.64
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAATCAAAATC
Found at i:14509329 original size:34 final size:34
Alignment explanation
Indices: 14509277--14509384 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
14509267 ATCCAATCCA
*
14509277 AAAATAAAAAAAATAAAAAAA-ATCAAAATGAAAATC
1 AAAATAAAAAAAA-AAAAAAAGA--AAAATCAAAATC
* *
14509313 AAAATAAAAAGAAAAAAAAAGAAAAATCAAAGTC
1 AAAATAAAAAAAAAAAAAAAGAAAAATCAAAATC
* ** * *
14509347 AAAATCAAAATCAAAAAAAGGAAAAATCAAAATA
1 AAAATAAAAAAAAAAAAAAAGAAAAATCAAAATC
14509381 AAAA
1 AAAA
14509385 AGGAGAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 42 0.68
35 7 0.11
36 13 0.21
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (34 bp):
AAAATAAAAAAAAAAAAAAAGAAAAATCAAAATC
Found at i:14509331 original size:27 final size:28
Alignment explanation
Indices: 14509286--14509385 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 28
14509276 AAAAATAAAA
* *
14509286 AAAATAAAAAAAATCAAAATG-AAAATC
1 AAAATAAAAAAAATAAAAAAGAAAAATC
14509313 AAAATAAAAAGAAA-AAAAAAGAAAAATC
1 AAAATAAAAA-AAATAAAAAAGAAAAATC
*
14509341 AAAGTCAAAATCAAAATCAAAAAAAGGAAAAATC
1 AAAAT-AAAA--AAAAT--AAAAAA-GAAAAATC
14509375 AAAATAAAAAA
1 AAAATAAAAAA
14509386 GGAGAAAAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
27 15 0.25
28 13 0.22
29 4 0.07
30 3 0.05
31 3 0.05
33 10 0.17
34 12 0.20
ACGTcount: A:0.76, C:0.07, G:0.06, T:0.11
Consensus pattern (28 bp):
AAAATAAAAAAAATAAAAAAGAAAAATC
Found at i:14509339 original size:40 final size:42
Alignment explanation
Indices: 14509283--14509363 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 42
14509273 TCCAAAAATA
*
14509283 AAAAAAATAAAAAAAATCAAAATGAAAATCAAAAT-AAAAAG
1 AAAAAAATAAAAAAAATCAAAATCAAAATCAAAATCAAAAAG
* *
14509324 AAAAAAA-AAGAAAAATCAAAGTCAAAATCAAAATCAAAAA
1 AAAAAAATAAAAAAAATCAAAATCAAAATCAAAATCAAAAA
14509364 AAGGAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 24 0.67
41 12 0.33
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (42 bp):
AAAAAAATAAAAAAAATCAAAATCAAAATCAAAATCAAAAAG
Found at i:14509366 original size:22 final size:21
Alignment explanation
Indices: 14509347--14509394 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
14509337 AATCAAAGTC
14509347 AAAATCAAAATCAAAAAAAGGA
1 AAAATCAAAAT-AAAAAAAGGA
*
14509369 AAAATCAAAATAAAAAAGGAGA
1 AAAATCAAAATAAAAAAAG-GA
14509391 AAAA
1 AAAA
14509395 GAAAAGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.75, C:0.06, G:0.10, T:0.08
Consensus pattern (21 bp):
AAAATCAAAATAAAAAAAGGA
Found at i:14510278 original size:13 final size:13
Alignment explanation
Indices: 14510262--14510288 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14510252 AAAATGGGGG
14510262 ATGAAAAATGAAA
1 ATGAAAAATGAAA
14510275 ATGAAAAATGAAA
1 ATGAAAAATGAAA
14510288 A
1 A
14510289 AAAGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:14510290 original size:22 final size:22
Alignment explanation
Indices: 14510265--14510306 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14510255 ATGGGGGATG
* *
14510265 AAAAATGAAAATG-AAAAATGA
1 AAAAAAGAAAAAGTAAAAATGA
14510286 AAAAAAGAAAAAGTAAAAATG
1 AAAAAAGAAAAAGTAAAAATG
14510307 GAGAGGCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAAAAGAAAAAGTAAAAATGA
Found at i:14511747 original size:100 final size:100
Alignment explanation
Indices: 14511570--14512181 Score: 787
Period size: 100 Copynumber: 6.1 Consensus size: 100
14511560 GTGAAATCAA
* * *
14511570 GAATCTTACTTCTCTGGAGATGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
1 GAATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
14511635 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * * *
14511670 GAATCTTACCTCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT
1 GAATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
* * * *
14511735 GACATTGTAGTTAAAAAGATTAAAGCCACAGCGGT
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
14511770 GAATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
1 GAATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
* * *
14511835 GACATTGCAGTTAAAAAGATTAAAGCTATAACGGC
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * * * * * * * *
14511870 AAATCTTA-TTCCCCAGGTGGTACAGTGGAACAAATTAAAGCCACATCGTTAAATCTTGCTTCCC
1 GAATCTTACTTCTCTA-GCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCC
* *
14511934 CGACATTGCAGTTAAAAAGATTGAAGCCACAACAGT
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * *
14511970 GAATCTTACATCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACGAT-GGCGAACCTTGCTTCCT
1 GAATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTCGCTTCCC
14512034 CGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * * * * * *
14512070 GAATCTTACCTCTCAAGCGGTGCAATGAAACAGATTAACGCCACAACGGCGAATCTCGCTTCCCC
1 GAATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
* *
14512135 GATATTGCAGTTAGAAAGATTAAAGCTACAACAGT
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
14512170 GAATCTTACTTC
1 GAATCTTACTTC
14512182 CCAGGCAGTG
Statistics
Matches: 440, Mismatches: 68, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
99 6 0.01
100 428 0.97
101 6 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (100 bp):
GAATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
Found at i:14512205 original size:50 final size:50
Alignment explanation
Indices: 14511570--14512232 Score: 300
Period size: 50 Copynumber: 13.3 Consensus size: 50
14511560 GTGAAATCAA
* * * * *
14511570 GAATCTTACTTCTCTGG-AGATGCAGTAGAGCAGATTAAAGCCACATCGGT
1 GAATCTTACTTCCCAGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGT
** * * * ** * * *
14511620 GAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
1 GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* * ** *
14511670 GAATCTTACCTCCCTGGC-GATGCAGTGGAGTAGATTAAAGCCACATCGGT
1 GAATCTTACTTCCCAGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGT
* * * * * ** * *
14511720 GAATCTTGCTTCCCTGACATTGTAGTTAAAAAGATTAAAGCCACAGCGGT
1 GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* * *
14511770 GAATCTTACTTCTCTA-GC-GATGCAGTGGAGCAGATTAAAGCCACATCGGT
1 GAATCTTACTTC-CCAGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGT
** * * * ** * * * *
14511820 GAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTATAACGGC
1 GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* ** * * * *
14511870 AAATCTTA-TTCCCCAGGTGGTACAGTGGAACAAATTAAAGCCACATCGTT
1 GAATCTTACTT-CCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* * * * * ** * * *
14511920 AAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCCACAACAGT
1 GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* * * * * *
14511970 GAATCTTACATCTCTA-GC-GATGCAGTGGAGCAGATTAAAGCCACGATGGC
1 GAATCTTACTTC-CCAGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGT
* * * * ** * * *
14512020 GAACCTTGCTTCCTC-GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
1 GAATCTTACTTCC-CAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* * * * * * * *
14512070 GAATCTTACCTCTCAAGCGGTGCAATGAAACAGATTAACGCCACAACGGC
1 GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
** * ** * * * *
14512120 GAATCTCGCTTCCCCGATATTGCAGTTAGAA-AGATTAAAGCTACAACAGT
1 GAATCTTACTTCCCAGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGT
* * * * *
14512170 GAATCTTACTTCCCAGGCAGTGTAGTGGAACAGATTGAAGCCATAATGGC
1 GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
*
14512220 GAACCTTACTTCC
1 GAATCTTACTTCC
14512233 TCGACATCAC
Statistics
Matches: 424, Mismatches: 172, Indels: 34
0.67 0.27 0.05
Matches are distributed among these distances:
49 9 0.02
50 407 0.96
51 8 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
GAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
Found at i:14512221 original size:100 final size:100
Alignment explanation
Indices: 14511570--14512259 Score: 744
Period size: 100 Copynumber: 6.9 Consensus size: 100
14511560 GTGAAATCAA
* * * * * *
14511570 GAATCTTACTTCTCTGGAGATGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCC
1 GAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTCGCTTCCCC
14511635 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * ** * * *
14511670 GAATCTTACCTCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT
1 GAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTCGCTTCCCC
* * * *
14511735 GACATTGTAGTTAAAAAGATTAAAGCCACAGCGGT
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * *
14511770 GAATCTTACTTCTCTA-GCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCC
1 GAATCTTACTTC-CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTCGCTTCCC
* * *
14511834 CGACATTGCAGTTAAAAAGATTAAAGCTATAACGGC
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * * *** *
14511870 AAATCTTA-TTCCCCAGGTGGTACAGTGGAACAAATTAAAGCCACATCGTTAAATCTTGCTTCCC
1 GAATCTTACTT-CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTCGCTTCCC
* *
14511934 CGACATTGCAGTTAAAAAGATTGAAGCCACAACAGT
65 CGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * *
14511970 GAATCTTACATCTCTA-GCGATGCAGTGGAGCAGATTAAAGCCACGAT-GGCGAACCTTGCTTCC
1 GAATCTTACTTC-CCAGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCGGCGAATCTCGCTTCC
*
14512033 TCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
64 CCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * * * * *
14512070 GAATCTTACCTCTCAAGCGGTGCAATGAAACAGATTAACGCCACAACGGCGAATCTCGCTTCCCC
1 GAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTCGCTTCCCC
* *
14512135 GATATTGCAGTTAGAAAGATTAAAGCTACAACAGT
66 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
* * * * **
14512170 GAATCTTACTTCCCAGGC-AGTGTAGTGGAACAGATTGAAGCCATAAT-GGCGAACCTTACTTCC
1 GAATCTTACTTCCCAGGCGA-TGCAGTGGAACAGATTAAAGCCA-CATCGGCGAATCTCGCTTCC
* ** *
14512233 TCGACATCACAGTTAAACAGATTAAAG
64 CCGACATTGCAGTTAAAAAGATTAAAG
14512260 TTACGAGTTA
Statistics
Matches: 494, Mismatches: 86, Indels: 20
0.82 0.14 0.03
Matches are distributed among these distances:
99 6 0.01
100 481 0.97
101 7 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
GAATCTTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGCGAATCTCGCTTCCCC
GACATTGCAGTTAAAAAGATTAAAGCTACAACAGT
Found at i:14512389 original size:150 final size:151
Alignment explanation
Indices: 14512130--14512443 Score: 398
Period size: 150 Copynumber: 2.1 Consensus size: 151
14512120 GAATCTCGCT
* * * * *
14512130 TCCCCGATATTGCAGTTAGAAAGATTAAAGCTACAACAGTGAATCTTACTTCCCAGGCAGTGTAG
1 TCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGCAG
* ** * * *
14512195 TGGAACAGATTGAAGCCATAATGGCGAACCTTACTTCCTCGACATCACAGTTAAACAGATTAAAG
66 TGGAACAGATTGAAGCCACAACAGCAAACCTTACTTCCTCGACATCACAGTCAAACAGACTAAAG
* * **
14512260 TTACGAGTTACAAATCCTATC
131 CTACAAGGCACAAATCCTATC
14512281 TCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA-AGCGAATCTTACTTCCCAAGCAGTGCAG
1 TCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGCAG
* * ** * *
14512345 TGGAACAGATTGAAGCCACAACAGCAAATCTTGCTT-CTCTGACATTGCAGTCAAATAGACTGAA
66 TGGAACAGATTGAAGCCACAACAGCAAACCTTACTTCCTC-GACATCACAGTCAAACAGACTAAA
*
14512409 GCTACAAGGCACGAATCCTATC
130 GCTACAAGGCACAAATCCTATC
*
14512431 TCCCCGACGTTGC
1 TCCCCGACATTGC
14512444 GGTGGAGTGG
Statistics
Matches: 139, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
149 3 0.02
150 102 0.73
151 34 0.24
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (151 bp):
TCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGCAG
TGGAACAGATTGAAGCCACAACAGCAAACCTTACTTCCTCGACATCACAGTCAAACAGACTAAAG
CTACAAGGCACAAATCCTATC
Found at i:14527758 original size:13 final size:12
Alignment explanation
Indices: 14527742--14527805 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
14527732 TTCACATTTT
14527742 CATTTCAAGTATC
1 CATTTCAA-TATC
*
14527755 CATTTCAAATGTC
1 CATTTC-AATATC
14527768 CATTTCATATATC
1 CATTTCA-ATATC
* *
14527781 CATTTCGTATAAC
1 CATTTC-AATATC
14527794 CATTTCATATAT
1 CATTTCA-ATAT
14527806 ATCCATTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
12 1 0.02
13 38 0.93
14 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (12 bp):
CATTTCAATATC
Found at i:14527761 original size:26 final size:26
Alignment explanation
Indices: 14527742--14527814 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
14527732 TTCACATTTT
14527742 CATTTCA-AGTATCCATTTCAAATGTC
1 CATTTCATA-TATCCATTTCAAATGTC
** **
14527768 CATTTCATATATCCATTTCGTATAAC
1 CATTTCATATATCCATTTCAAATGTC
14527794 CATTTCATATATATCCATTTC
1 CATTTC--ATATATCCATTTC
14527815 CACCTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 26 0.65
27 1 0.03
28 13 0.32
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.42
Consensus pattern (26 bp):
CATTTCATATATCCATTTCAAATGTC
Found at i:14529845 original size:27 final size:26
Alignment explanation
Indices: 14529759--14529856 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 26
14529749 TTGTATTGGC
* * *
14529759 GAACTCTCTCGTGTTTACTGTCCCGGT
1 GAACTATCT-GTGTTTATTGTCCCGAT
** *
14529786 GGGCTCTCTTGTGTTTATTGTCCCGAT
1 GAACTATC-TGTGTTTATTGTCCCGAT
14529813 GAACTATCCTGTGTTTATTGTCCCAGA-
1 GAACTAT-CTGTGTTTATTGTCCC-GAT
*
14529840 GGACTATCTGTTGTTTA
1 GAACTATCTG-TGTTTA
14529857 CTGAATTCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.05
27 52 0.88
28 4 0.07
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (26 bp):
GAACTATCTGTGTTTATTGTCCCGAT
Found at i:14536687 original size:47 final size:48
Alignment explanation
Indices: 14536613--14536706 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 48
14536603 CTTCCAACCC
* * *
14536613 GAACGAGCTTCTGATTCACTATCAAACATG-AAAAATAAAACAGAGTT
1 GAACAAGCTTCTGATTCACTATAAAACACGAAAAAATAAAACAGAGTT
* *
14536660 GAACAAGCTTCTGATTCGCTATAAAACACGAAAAAATAACACAGAGT
1 GAACAAGCTTCTGATTCACTATAAAACACGAAAAAATAAAACAGAGT
14536707 AAGCATCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 26 0.63
48 15 0.37
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (48 bp):
GAACAAGCTTCTGATTCACTATAAAACACGAAAAAATAAAACAGAGTT
Found at i:14537224 original size:27 final size:25
Alignment explanation
Indices: 14537112--14537208 Score: 176
Period size: 25 Copynumber: 3.9 Consensus size: 25
14537102 TCTTGTACAT
*
14537112 GTATACTCACACGAGCTGTAAATCA
1 GTATGCTCACACGAGCTGTAAATCA
14537137 GTATGCTCACACGAGCTGTAAATCA
1 GTATGCTCACACGAGCTGTAAATCA
14537162 GTATGCTCACACGAGCTGTAAATCA
1 GTATGCTCACACGAGCTGTAAATCA
*
14537187 GTATGCTCACACGAGTTGTAAA
1 GTATGCTCACACGAGCTGTAAA
14537209 AATAGGACTG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCA
Found at i:14541846 original size:50 final size:50
Alignment explanation
Indices: 14541676--14541852 Score: 138
Period size: 50 Copynumber: 3.4 Consensus size: 50
14541666 AGGAATGAGA
* ** **
14541676 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGC---ACCGA-G--ATGAGAAC
* ** * * * * **
14541732 TCTCACATAAGACCATGTCTAGGACATGGCGTTGGCACCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
14541782 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
14541832 TCCCATGTATGACCATATCTG
1 TCCCATGTAAGACCATGTCTG
14541853 CGATATGACA
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
50 65 0.66
52 1 0.01
53 2 0.02
56 31 0.31
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:14545742 original size:44 final size:42
Alignment explanation
Indices: 14545657--14545742 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 42
14545647 GACACAACCA
* *
14545657 TGTGACCTTATTTTGAATGACACAAGGTTTGGCGACATGGCCG
1 TGTGACCTTATTTTAAATGACACAA-GTTTGGCCACATGGCCG
14545700 TGTGACCTTATTTTTAAACTGTACACAA-TTTGGCCACATGGCC
1 TGTGACCTTA-TTTTAAA-TG-ACACAAGTTTGGCCACATGGCC
14545743 ATGTCTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
43 10 0.26
44 20 0.53
45 2 0.05
46 6 0.16
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
TGTGACCTTATTTTAAATGACACAAGTTTGGCCACATGGCCG
Found at i:14552061 original size:20 final size:20
Alignment explanation
Indices: 14552036--14552073 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14552026 TTGTATAGTA
*
14552036 TTGCACTTCGATGCCTCTAT
1 TTGCACTACGATGCCTCTAT
*
14552056 TTGCACTACGGTGCCTCT
1 TTGCACTACGATGCCTCT
14552074 GAATAGCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGCACTACGATGCCTCTAT
Found at i:14554173 original size:85 final size:85
Alignment explanation
Indices: 14554030--14554203 Score: 278
Period size: 85 Copynumber: 2.0 Consensus size: 85
14554020 CCTCGACCCA
* *
14554030 TCTCCTATTACTCCAATATCTTCATTATATCCTGATCTTCTCTTGGATGGACCACCATCAGTAGT
1 TCTCCTATTACTCCAATATCTTCAGTATATCCTGATCTGCTCTTGGATGGACCACCATCAGTAGT
14554095 TACTACCGCTG-CCTTGTTCT
66 TACTACCGCTGTCCTT-TTCT
*
14554115 TCTCCTATTACTCTAATATCTTCAGTATATCCTGATCTGCTCTTGGATGGACCACCATCAGTAGT
1 TCTCCTATTACTCCAATATCTTCAGTATATCCTGATCTGCTCTTGGATGGACCACCATCAGTAGT
* * *
14554180 TATTACTGCTGTCGTTTTCT
66 TACTACCGCTGTCCTTTTCT
14554200 TCTC
1 TCTC
14554204 AGGTTTAGGT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
85 79 0.96
86 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.40
Consensus pattern (85 bp):
TCTCCTATTACTCCAATATCTTCAGTATATCCTGATCTGCTCTTGGATGGACCACCATCAGTAGT
TACTACCGCTGTCCTTTTCT
Found at i:14555578 original size:98 final size:98
Alignment explanation
Indices: 14555409--14555605 Score: 394
Period size: 98 Copynumber: 2.0 Consensus size: 98
14555399 GTACAATATA
14555409 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
14555474 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
14555507 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
14555572 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
14555605 A
1 A
14555606 TTATTTTTAA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:14556123 original size:28 final size:27
Alignment explanation
Indices: 14556087--14556147 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
14556077 AAAGGCACAT
* *
14556087 AATATATACATTAATATGAATATAAAAAA
1 AATATATACACT--TATGAACATAAAAAA
*
14556116 AATA-ATACACTTATGAACATAAGAAA
1 AATATATACACTTATGAACATAAAAAA
14556142 AATATA
1 AATATA
14556148 AAAATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 17 0.61
27 1 0.04
28 6 0.21
29 4 0.14
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.28
Consensus pattern (27 bp):
AATATATACACTTATGAACATAAAAAA
Found at i:14556377 original size:3 final size:3
Alignment explanation
Indices: 14556364--14556409 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
14556354 GCGCATGAAT
* * *
14556364 ATA AAA ATA ATA ATA ATA ATA AAA ATA ATA ATA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14556410 CAATTTTCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:14557929 original size:84 final size:85
Alignment explanation
Indices: 14557824--14558317 Score: 244
Period size: 84 Copynumber: 5.7 Consensus size: 85
14557814 CAGTCTGCCT
14557824 CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGA-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* *
14557889 AGACTA-GATGCGATCTTCT-
65 AGACTACGATGCAATCTGCTC
* * * * *
14557908 CTCTGCAACTTCAGAGAGATAAGATCTGAGGTT--TTAATCCGCTCCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCAG-GAGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * **
14557971 TAGGATTATCGGCTTTAATCTGCTC
63 TAAGACTA-C-GATGCAATCTGCTC
* * *
14557996 CACTGCAACTTCAGGGAGATAAGACTTGC-CATCTTCAGTCTGCCCCACTACAACTTCA-GGAGG
1 CACTGCAACTTCA-GGAGATAAGACTTGCTTA-CTT-AGTCTGCTCCACTGCAACTTCAGGGA-G
* * * * *
14558059 ATAAGACTTGCTTACT-TAGTCTACTC
62 ATAAGAC-TAC-GA-TGCAATCTGCTC
* * * * * * * *
14558085 TACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTCTGAGAGATA
1 CACTGCAACTTCA-GGAGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * ** *
14558146 AGATTTGAGGTTTTAATCCGCTC
65 AGA-CT-ACGATGCAATCTGCTC
* * * *
14558169 CACTGGAACTTCAGGGAGATAGGATTATCGGC-T--TTAATCTGCTCCACTGCAACTTCAGGGAG
1 CACTGCAACTTCA-GGAGATAAGACT-T--GCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAG
* * * * *
14558231 ATAAGACTTGCCATCTTCAGTCTGCCC
62 ATAAGAC-TACGA--TGCAATCTGCTC
* *
14558258 CACTGCAACTTCAGGAGGATAAGACTTGC-TATCTTCAGTCTGCCCCACTACAACTTCAGG
1 CACTGCAACTTCAGGA-GATAAGACTTGCTTA-CTT-AGTCTGCTCCACTGCAACTTCAGG
14558318 AGGATGGGAT
Statistics
Matches: 305, Mismatches: 70, Indels: 64
0.69 0.16 0.15
Matches are distributed among these distances:
83 1 0.00
84 101 0.33
85 11 0.04
86 9 0.03
87 18 0.06
88 53 0.17
89 89 0.29
90 23 0.08
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (85 bp):
CACTGCAACTTCAGGAGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
GACTACGATGCAATCTGCTC
Found at i:14558032 original size:217 final size:217
Alignment explanation
Indices: 14557772--14558456 Score: 1018
Period size: 217 Copynumber: 3.2 Consensus size: 217
14557762 ACCATCTTCG
* ** ** *
14557772 ATCTGCTCCACTACTGCTT-AGGGAGATAAGA-TCTGAAATCTTCAGTCTGCCTCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTCAGTCTGCCCCACTGCAACTT
14557835 CAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
65 CAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
*
14557900 GATCTTCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCA
130 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCA
14557965 GGGAGATAGGATTATCGGCTTTA
195 GGGAGATAGGATTATCGGCTTTA
*
14557988 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTACAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
* *
14558053 AGGAGGATAAGACTTGCTTACTTAGTCTACTCTACTGCAACTTCAGGGAGATAAGACTAGATGCG
66 AGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* * *
14558118 ATCTGCTCTCTGCAACTTCTGAGAGATAAGATTTGAGGTTTTAATCCGCTCCACTGGAACTTCAG
131 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAG
14558183 GGAGATAGGATTATCGGCTTTA
196 GGAGATAGGATTATCGGCTTTA
14558205 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
* *
14558270 AGGAGGATAAGACTTGC-TATCTTCAGTCTGCCCCACTACAACTTCA-GGAG----GA-T-G--G
66 AGGAGGATAAGACTTGCTTA-CTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATG
* ** * * * *
14558325 -GATCTGCTCTCTGCAACTTCAAAGAGATAAGATCCAATGTTGTGATCTGCTCCACTGCAACTTC
129 CGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTC
*
14558389 AGGGGGATAGGATTATCGGCTTTA
194 AGGGAGATAGGATTATCGGCTTTA
* * *
14558413 ATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTC
14558457 GATTTGCTCC
Statistics
Matches: 433, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
208 118 0.27
209 1 0.00
211 1 0.00
212 1 0.00
213 2 0.00
216 18 0.04
217 273 0.63
218 19 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (217 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
AGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAG
GGAGATAGGATTATCGGCTTTA
Found at i:14558322 original size:45 final size:45
Alignment explanation
Indices: 14557791--14558317 Score: 295
Period size: 44 Copynumber: 12.1 Consensus size: 45
14557781 ACTACTGCTT
** *
14557791 AGGGAGATAAGA-TCTGAAATCTTCAGTCTGCCTCACTGCAACTTC
1 AGGGAGATAAGACT-TGCTATCTTCAGTCTGCCCCACTGCAACTTC
*
14557836 A-GGAGGATAAGACTTGCT-TACTT-AGTCTGCTCCACTGCAACTTC
1 AGGGA-GATAAGACTTGCTAT-CTTCAGTCTGCCCCACTGCAACTTC
*
14557880 AGGGAGATAAGACTAGATGCGATCTTC--TCT------CTGCAACTTC
1 AGGGAGATAAGACT---TGCTATCTTCAGTCTGCCCCACTGCAACTTC
* * * * * *
14557920 AGAGAGATAAGATCTGAGGT-T-TT-AATCCGCTCCACTGCAACTTC
1 AGGGAGATAAGA-CT-TGCTATCTTCAGTCTGCCCCACTGCAACTTC
* * ** * * *
14557964 AGGGAGATAGGA-TT-ATCGGCTTTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAGACTTGCT-ATCTTCAGTCTGCCCCACTGCAACTTC
* *
14558008 AGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTACAACTTC
1 AGGGAGATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTTC
* * *
14558053 A-GGAGGATAAGACTTGCT-TACTT-AGTCTACTCTACTGCAACTTC
1 AGGGA-GATAAGACTTGCTAT-CTTCAGTCTGCCCCACTGCAACTTC
* * * *
14558097 AGGGAGATAAGACTAG--A--TGC-GATCTG-CTCTCTGCAACTTC
1 AGGGAGATAAGACTTGCTATCTTCAG-TCTGCCCCACTGCAACTTC
* * * *** * * * * *
14558137 TGAGAGATAAGATTTGAGGT-TTTAATCCGCTCCACTGGAACTTC
1 AGGGAGATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTTC
* * ** * * *
14558181 AGGGAGATAGGA-TT-ATCGGCTTTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAGACTTGCT-ATCTTCAGTCTGCCCCACTGCAACTTC
*
14558225 AGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTC
1 AGGGAGATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTTC
*
14558270 A-GGAGGATAAGACTTGCTATCTTCAGTCTGCCCCACTACAACTTC
1 AGGGA-GATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTTC
14558315 AGG
1 AGG
14558318 AGGATGGGAT
Statistics
Matches: 373, Mismatches: 68, Indels: 81
0.71 0.13 0.16
Matches are distributed among these distances:
37 2 0.01
38 3 0.01
39 1 0.00
40 46 0.12
41 5 0.01
42 2 0.01
43 9 0.02
44 171 0.46
45 122 0.33
46 5 0.01
47 6 0.02
48 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
AGGGAGATAAGACTTGCTATCTTCAGTCTGCCCCACTGCAACTTC
Found at i:14559420 original size:54 final size:54
Alignment explanation
Indices: 14559338--14559450 Score: 217
Period size: 54 Copynumber: 2.1 Consensus size: 54
14559328 GATAACAAAG
14559338 AAATTGATTGGGAATGTATATCTTGGAAAAGAATGAGGTATTCCAAAAAATAAA
1 AAATTGATTGGGAATGTATATCTTGGAAAAGAATGAGGTATTCCAAAAAATAAA
*
14559392 AAATTGATTGGGAATGTATATCTTGGAAAAGAATGAGGTATTCCAAAAAATAAC
1 AAATTGATTGGGAATGTATATCTTGGAAAAGAATGAGGTATTCCAAAAAATAAA
14559446 AAATT
1 AAATT
14559451 CAAAAAAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.28
Consensus pattern (54 bp):
AAATTGATTGGGAATGTATATCTTGGAAAAGAATGAGGTATTCCAAAAAATAAA
Found at i:14563981 original size:98 final size:98
Alignment explanation
Indices: 14563812--14564008 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
14563802 GTACAATAAA
14563812 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
14563877 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
*
14563910 ACTTTAAAAGAACATCCACTTATCCAAGATTTAGGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
14563975 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
14564008 A
1 A
14564009 TTATTTTTAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:14564294 original size:15 final size:15
Alignment explanation
Indices: 14564285--14564317 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14564275 CAAATGCTAT
14564285 AATAATAAATACAAC
1 AATAATAAATACAAC
*
14564300 AATAATAAATACATC
1 AATAATAAATACAAC
14564315 AAT
1 AAT
14564318 GACATATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:14564783 original size:3 final size:3
Alignment explanation
Indices: 14564764--14564806 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
14564754 GCGCATGAAT
* * * *
14564764 ATA AAA ATA AAA ATA ATA ATA AAA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14564807 ATAACAATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:14564806 original size:12 final size:12
Alignment explanation
Indices: 14564764--14564797 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
14564754 GCGCATGAAT
*
14564764 ATAAAAATAAAA
1 ATAATAATAAAA
14564776 ATAATAATAAAA
1 ATAATAATAAAA
14564788 ATAATAATAA
1 ATAATAATAA
14564798 TGATAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAATAAAA
Found at i:14568516 original size:18 final size:18
Alignment explanation
Indices: 14568493--14568534 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14568483 GCCAGGTGCA
*
14568493 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
*
14568511 TATCCTAACCTTTATATG
1 TATCCTAACCCTTATATG
*
14568529 TTTCCT
1 TATCCT
14568535 TTTCCCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:14571022 original size:40 final size:40
Alignment explanation
Indices: 14570971--14571054 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
14570961 AGTTTTGACA
* * *
14570971 AAAAATGCCGCTATAGCTCGGGCATTAGTGGCGCT-TGTTG
1 AAAAACGCCGCTATAGCTCGAGCATTAGCGGCGCTCT-TTG
*
14571011 AAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTCTTTG
1 AAAAACGCCGCTATAGCTCGAGCATTAGCGGCGCTCTTTG
14571051 AAAA
1 AAAA
14571055 GCGCAGCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
AAAAACGCCGCTATAGCTCGAGCATTAGCGGCGCTCTTTG
Found at i:14571168 original size:40 final size:39
Alignment explanation
Indices: 14571106--14571211 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 39
14571096 AGCTTTAGTG
* * * **
14571106 GCATTAGCGGCGCTTGTTGAAAAGTGCCTCTATAGGTTGA
1 GCATTAGCGGCGCTT-TTGAAAAGCGCCGCTATAGCTCAA
*
14571146 GCATTAGCGGCGCTTTTCGAAAAGCGTCGCTATAGCTCAA
1 GCATTAGCGGCGCTTTT-GAAAAGCGCCGCTATAGCTCAA
*
14571186 GCATTATCGGCGCTCTTTGAAAAGCG
1 GCATTAGCGGCGCT-TTTGAAAAGCG
14571212 GCGCAAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.04
40 52 0.91
41 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
GCATTAGCGGCGCTTTTGAAAAGCGCCGCTATAGCTCAA
Found at i:14571266 original size:154 final size:154
Alignment explanation
Indices: 14570971--14571323 Score: 469
Period size: 154 Copynumber: 2.3 Consensus size: 154
14570961 AGTTTTGACA
* * * * * * *
14570971 AAAAATGCCGCTATAGCTCGGGCATTAGTGGCGCTTGTTGAAAAACGCCGCTATAGGTCGAGCAT
1 AAAAACGCCACTATAGGTCGAGCATTAGCGGCGCTTGTTGAAAAACGCCGCTATAGCTCAAGCAT
*
14571036 TAGCGGCGCTCTTTGAAAAGCGCAGCAAAAAATTAAGCACAATGCTGTCGTTTTATGTTGAGCTT
66 TAGCGGCGCTCTTTGAAAAGCGCAGCAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTT
*
14571101 TAGTGGCATTAGCGGCGCTTGTTG
131 TAGTGGAATTAGCGGCGCTTGTTG
** * * * *
14571125 AAAAGTGCCTCTATAGGTTGAGCATTAGCGGCGCTT-TTCGAAAAGCGTCGCTATAGCTCAAGCA
1 AAAAACGCCACTATAGGTCGAGCATTAGCGGCGCTTGTT-GAAAAACGCCGCTATAGCTCAAGCA
* *
14571189 TTATCGGCGCTCTTTGAAAAGCGGC-GCAAAAAATTAAGCACAACT-CCGTTGTTTTATGTTGAG
65 TTAGCGGCGCTCTTTGAAAAGC-GCAGCAAAAAATTAAGCACAA-TGCCGTCGTTTTATGTTGAG
*
14571252 CTTTAGTGGAATTAGCGGCGCTTTTTG
128 CTTTAGTGGAATTAGCGGCGCTTGTTG
* **
14571279 AAAAACGCCACTATAGGTCGAACATTAGCGGCGCTCATTGAAAAA
1 AAAAACGCCACTATAGGTCGAGCATTAGCGGCGCTTGTTGAAAAA
14571324 TATCGCAAAA
Statistics
Matches: 173, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
153 2 0.01
154 166 0.96
155 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (154 bp):
AAAAACGCCACTATAGGTCGAGCATTAGCGGCGCTTGTTGAAAAACGCCGCTATAGCTCAAGCAT
TAGCGGCGCTCTTTGAAAAGCGCAGCAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTT
TAGTGGAATTAGCGGCGCTTGTTG
Found at i:14571357 original size:114 final size:115
Alignment explanation
Indices: 14571148--14571392 Score: 325
Period size: 114 Copynumber: 2.1 Consensus size: 115
14571138 TAGGTTGAGC
* * * * * * * *
14571148 ATTAGCGGCGCTTTTCGAAAAGCGTCGCTATAGCTCAAGCATTATCGGCGCTCTTTGAAAAGCGG
1 ATTAGCGGCGCTTTTTGAAAAACGCCACTATAGCTCAAGCATTAGCGGCGCTCATTGAAAAACAG
* *
14571213 CGCAAAAAATTAAGCACAACTCCGTTGTTTTATGTTGAGC-TTTAGTGGA
66 CGCAAAAAATTAAGCACAACACCGTCGTTTTATGTTGAGCTTTTAGTGGA
* *
14571262 ATTAGCGGCGCTTTTTGAAAAACGCCACTATAGGTCGAA-CATTAGCGGCGCTCATTGAAAAATA
1 ATTAGCGGCGCTTTTTGAAAAACGCCACTATAGCTC-AAGCATTAGCGGCGCTCATTGAAAAACA
* *
14571326 TCGCAAAAAATT-AGCCACAACACCGTCGTTTTATGTTGAGCTTTTAGTGGC
65 GCGCAAAAAATTAAG-CACAACACCGTCGTTTTATGTTGAGCTTTTAGTGGA
14571377 ATTAGCGGCGCTTTTT
1 ATTAGCGGCGCTTTTT
14571393 ATAGGTCGAC
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
113 2 0.02
114 86 0.75
115 26 0.23
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (115 bp):
ATTAGCGGCGCTTTTTGAAAAACGCCACTATAGCTCAAGCATTAGCGGCGCTCATTGAAAAACAG
CGCAAAAAATTAAGCACAACACCGTCGTTTTATGTTGAGCTTTTAGTGGA
Found at i:14571911 original size:8 final size:7
Alignment explanation
Indices: 14571708--14571941 Score: 123
Period size: 7 Copynumber: 32.9 Consensus size: 7
14571698 TATCATTATA
14571708 GTTTAGG
1 GTTTAGG
*
14571715 GTTTATG
1 GTTTAGG
14571722 GTTTAGG
1 GTTTAGG
* *
14571729 GTATATG
1 GTTTAGG
*
14571736 GTTTATG
1 GTTTAGG
* *
14571743 TTTTAAG
1 GTTTAGG
*
14571750 ATTTAGG
1 GTTTAGG
14571757 GTTTAGG
1 GTTTAGG
* *
14571764 GATTATG
1 GTTTAGG
*
14571771 GTTTATG
1 GTTTAGG
*
14571778 GTTTATG
1 GTTTAGG
*
14571785 GTTTAAG
1 GTTTAGG
*
14571792 GTTTATGA
1 GTTTA-GG
**
14571800 G-TTACT
1 GTTTAGG
* *
14571806 ATTTAAG
1 GTTTAGG
*
14571813 GTTTATG
1 GTTTAGG
*
14571820 GATTATGG
1 GTTTA-GG
14571828 GTTTAGG
1 GTTTAGG
* **
14571835 GATTCTG
1 GTTTAGG
*
14571842 GTTTACG
1 GTTTAGG
14571849 GTTTAGG
1 GTTTAGG
*
14571856 GTTTAAG
1 GTTTAGG
14571863 GTTTA-G
1 GTTTAGG
*
14571869 GTGTTGGG
1 GT-TTAGG
*
14571877 GTTTAAG
1 GTTTAGG
14571884 GTTTAGGG
1 GTTTA-GG
*
14571892 GTTAAGG
1 GTTTAGG
14571899 G-TTAGG
1 GTTTAGG
14571905 AGTTTAGG
1 -GTTTAGG
14571913 GTTTAGAG
1 GTTTAG-G
**
14571921 AATTAGGG
1 GTTTA-GG
14571929 GTTTAGG
1 GTTTAGG
14571936 GTTTAG
1 GTTTAG
14571942 ATTAATTAGT
Statistics
Matches: 173, Mismatches: 44, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
6 7 0.04
7 138 0.80
8 27 0.16
9 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:14574624 original size:13 final size:13
Alignment explanation
Indices: 14574590--14574632 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
14574580 TTTTGTATGG
*
14574590 TTATATTTTAGCT
1 TTATATTTTAGTT
14574603 TTATATTTTAGTT
1 TTATATTTTAGTT
14574616 ATTAT-TTTTGAGTT
1 -TTATATTTT-AGTT
14574630 TTA
1 TTA
14574633 AAAGGGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 19 0.70
14 8 0.30
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.65
Consensus pattern (13 bp):
TTATATTTTAGTT
Found at i:14575260 original size:78 final size:72
Alignment explanation
Indices: 14575103--14575265 Score: 218
Period size: 78 Copynumber: 2.2 Consensus size: 72
14575093 ATTATTTTGC
* *
14575103 CAAATATATTTATTTTGTAATGCCAACTCCAAGTCTTTTTTTTTTTAATTTAACTTATTTTGATA
1 CAAAT-TATTTATCTTGTAATGCCAACTCAAAGTCTTTTTTTTTTTAATTTAACTTATTTTGATA
14575168 AATATAGA
65 AATATAGA
* *
14575176 CAAATTATTGTATCTTGTAATGCTAACTCAAAGTCTTTTTTTTTATATATATATTTTACTTATTT
1 CAAATTATT-TATCTTGTAATGCCAACTCAAAGTC-TTTTTTTT-T-T-TA-ATTTAACTTATTT
14575241 TGATAAATATAGA
60 TGATAAATATAGA
*
14575254 CAAATTAATTAT
1 CAAATTATTTAT
14575266 ATTTCAATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
72 4 0.05
73 27 0.34
74 8 0.10
75 1 0.01
76 1 0.01
77 5 0.06
78 33 0.42
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (72 bp):
CAAATTATTTATCTTGTAATGCCAACTCAAAGTCTTTTTTTTTTTAATTTAACTTATTTTGATAA
ATATAGA
Found at i:14575619 original size:9 final size:9
Alignment explanation
Indices: 14575588--14575632 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
14575578 TATATCATAT
14575588 CATAACTTA
1 CATAACTTA
* * *
14575597 CGTAAGTCA
1 CATAACTTA
14575606 CATAACTTA
1 CATAACTTA
14575615 CATAACTTA
1 CATAACTTA
14575624 CATAACTTA
1 CATAACTTA
14575633 ATTATACTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:14577940 original size:21 final size:21
Alignment explanation
Indices: 14577902--14577972 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
14577892 CTACAACTTA
* *
14577902 AAGCAGATGCAGTAGCGAGGG
1 AAGCAGAGGCAATAGCGAGGG
* *
14577923 AAGTAGAGGCAATAGCGAGAG
1 AAGCAGAGGCAATAGCGAGGG
* **
14577944 AAGCAAAGGCAGCAGCGAGGG
1 AAGCAGAGGCAATAGCGAGGG
14577965 AAGCAGAG
1 AAGCAGAG
14577973 CAGAAAGCAC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.39, C:0.14, G:0.41, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAATAGCGAGGG
Found at i:14578368 original size:43 final size:43
Alignment explanation
Indices: 14578316--14578517 Score: 201
Period size: 43 Copynumber: 4.7 Consensus size: 43
14578306 TAAAAAGAGT
* * *
14578316 CGCTAATGAACATGACCTTTAGCGGGGTTTGCTATAGAAGTGC
1 CGCTAAAGAACATGACCTTTAGCGGCGTTTGCTATAGAAGCGC
* * * *
14578359 CACTAATGAACATGACCTTTAGCAGCGTTTGCTATAGAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGTTTGCTATAGAAGCGC
* * * *
14578402 CGCTAAAGAACATGACTTTTAGTGACGTTTGCTATAAAAGCGC
1 CGCTAAAGAACATGACCTTTAGCGGCGTTTGCTATAGAAGCGC
* * * * *
14578445 TGCTAAACAACATGACCCTTAGCGGTGTAT-CTTATA-AAGGCGC
1 CGCTAAAGAACATGACCTTTAGCGGCGTTTGC-TATAGAA-GCGC
** *
14578488 CGCTAAAGGTCATGATCTTTAGCGGCGTTT
1 CGCTAAAGAACATGACCTTTAGCGGCGTTT
14578518 ATGCGAGAAA
Statistics
Matches: 128, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
42 3 0.02
43 125 0.98
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
CGCTAAAGAACATGACCTTTAGCGGCGTTTGCTATAGAAGCGC
Found at i:14578626 original size:22 final size:22
Alignment explanation
Indices: 14578585--14578626 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14578575 AAGCGTTGCT
* *
14578585 AAAAATGCCGCTATAGGCCTAA
1 AAAAATGCCGCTAAAAGCCTAA
14578607 AAAAATGCCGCTAAAAGCCT
1 AAAAATGCCGCTAAAAGCCT
14578627 GTTCTGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.17
Consensus pattern (22 bp):
AAAAATGCCGCTAAAAGCCTAA
Found at i:14585930 original size:21 final size:21
Alignment explanation
Indices: 14585906--14585952 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14585896 ATTAAAGAGC
*
14585906 TTTTTTTCTAGCA-ATTTAGT
1 TTTTTTTATAGCATATTTAGT
*
14585926 ATTTTTTTATTGCATATTTAGT
1 -TTTTTTTATAGCATATTTAGT
14585948 TTTTT
1 TTTTT
14585953 AACTGGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (21 bp):
TTTTTTTATAGCATATTTAGT
Found at i:14594977 original size:30 final size:31
Alignment explanation
Indices: 14594922--14594989 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
14594912 ACCCGTAAAA
** * **
14594922 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
14594953 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
14594983 TATTTAC
1 TATTTAC
14594990 TCTTGGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:14598263 original size:14 final size:15
Alignment explanation
Indices: 14598244--14598274 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
14598234 ATATTTTCTA
14598244 TTATTTTTA-TTTAT
1 TTATTTTTATTTTAT
14598258 TTATTTTTATTTTAT
1 TTATTTTTATTTTAT
14598273 TT
1 TT
14598275 TTATTTGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTTATTTTAT
Found at i:14608178 original size:21 final size:21
Alignment explanation
Indices: 14608152--14608192 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14608142 CTAGCGTTGC
*
14608152 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
* *
14608173 AGTGGAGCGGATTAAAGCTG
1 AGTGGAACAGATTAAAGCTG
14608193 TGGGCAGCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:14608550 original size:259 final size:259
Alignment explanation
Indices: 14608079--14609362 Score: 1616
Period size: 259 Copynumber: 4.9 Consensus size: 259
14608069 TGAAGACACT
* * * *
14608079 AGTCTTACTTCCCTGGCGTTGTAGTGGAACAGATTAAAGTTAAAGGTAGCGAATCTTGTTTCCC-
1 AGTCTTACTTCCCTGACGTTGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCG
* *
14608143 TAGCGTTGCAGTGGAATAGATTAA-AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCC
66 GA-CGTTGCAGTGGAAT-GA--AATAGCTGAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCC
* ** *
14608207 TATCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTAATTTCCCTGGTCT
127 TATCTCTTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGT
* * ** * ** *
14608272 TGCAGCGAAGCAGATTAAAGTTGAGGATAGCGAATCTTATCTCATTGGT-GTTAAGACTGAGAGT
192 TGCAGCGAAGCAAATTAAAGCTGAGGGCAGCGAATCTTACCTCCCT-GTCGTTAAGACTGAAAGT
*
14608336 AATC
256 AACC
* * *
14608340 AGTCTTATTTCTCTGACGTCGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCG
1 AGTCTTACTTCCCTGACGTTGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCG
* *
14608405 GACGTTGTAGTGGAATGAAATAGCTGAAGTGGAGCGGATTACAGCTGTAGGCAGCGAATCCTATC
66 GACGTTGCAGTGGAATGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATC
* *
14608470 TCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAACCTGGTTTCCCTGGTGTTGCA
131 TCTTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGCA
* * *
14608535 GCGAAACAAATTAAAGCTGAGGGCAGTGAATCATACCTCCCTGTCGTTAAGACTGAAAGTAACC
196 GCGAAGCAAATTAAAGCTGAGGGCAGCGAATCTTACCTCCCTGTCGTTAAGACTGAAAGTAACC
** * * * *
14608599 AGTCTTACTTCCCTGGTGTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTATTTCCTT
1 AGTCTTACTTCCCTGACGTTGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCC-C
* *
14608664 GG-CGCTGCAGTGGAATAGATTAA-AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCC
65 GGACGTTGCAGTGGAAT-GA--AATAGCTGAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCC
* * * *
14608727 TATCTCTTTGGCATTACAGTGGAATAGATTAAACCTAAAGGTAGCGAATTTGATTTCCCTGGTGT
127 TATCTCTTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGT
* * * * * * *
14608792 TGCAGCGGAGCAGATTAAAGCTGAGGGCAACGAATCTTATCTCCCTGGT-TTTAAGATTGAGAGT
192 TGCAGCGAAGCAAATTAAAGCTGAGGGCAGCGAATCTTACCTCCCT-GTCGTTAAGACTGAAAGT
14608856 AACC
256 AACC
* * *
14608860 AGTCTTACTTCTCTGACGTTGCAAGGGAACAGATTAAAGCTAAAGGTATCGAATCTTGTTTCCCG
1 AGTCTTACTTCCCTGACGTTGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCG
* * * * *
14608925 GGCGTTGTAGTGGAATGAAATAGCTGAAGTGGAGTGGATTACAGCTGTAGGCAGCAAATCCTATC
66 GACGTTGCAGTGGAATGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATC
* * *
14608990 TCTTTGGTATTTCAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGCA
131 TCTTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGCA
* * *
14609055 ACGGAGCAAATTAAAGCTGAGGGTAGCGAATCTTACCTCCCTGTCGTTAAGACTGAAAGTAACC
196 GCGAAGCAAATTAAAGCTGAGGGCAGCGAATCTTACCTCCCTGTCGTTAAGACTGAAAGTAACC
** * * *
14609119 AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAATCTTGTTTCCCT
1 AGTCTTACTTCCCTGACGTTGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCG
* * * * *
14609184 GAC-TTGCAGTGGAATGGAATAGTTGAAGTGGAGTGGATTAAAGCT-AAGGGCAGCGAATCCAAT
66 GACGTTGCAGTGGAATGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTA-GGCAGCGAATCCTAT
* * * * * *** *
14609247 CTCTTTGGCATTATAGTGGAACGGATTAAGGCTAAAGATAGCGAATCTGGTTTCCCTAGCACTGT
130 CTCTTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGC
* * * *
14609312 AGC-AGAGCAGATTAAAGCTTAAGGCAGCGAATCTTATCTCCCTAG-CGTTAA
195 AGCGA-AGCAAATTAAAGCTGAGGGCAGCGAATCTTACCTCCCT-GTCGTTAA
14609363 AATTGAAGAA
Statistics
Matches: 886, Mismatches: 123, Indels: 31
0.85 0.12 0.03
Matches are distributed among these distances:
257 1 0.00
258 153 0.17
259 428 0.48
260 10 0.01
261 289 0.33
262 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (259 bp):
AGTCTTACTTCCCTGACGTTGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCG
GACGTTGCAGTGGAATGAAATAGCTGAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATC
TCTTTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGCA
GCGAAGCAAATTAAAGCTGAGGGCAGCGAATCTTACCTCCCTGTCGTTAAGACTGAAAGTAACC
Found at i:14608696 original size:21 final size:21
Alignment explanation
Indices: 14608667--14608712 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
14608657 TTTCCTTGGC
* *
14608667 GCTGCAGTGGAATAGATTAAA
1 GCTGAAGTGGAACAGATTAAA
* *
14608688 GCTGAAGTGGAGCGGATTAAA
1 GCTGAAGTGGAACAGATTAAA
14608709 GCTG
1 GCTG
14608713 TGGGCAGCGA
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:0.33, C:0.11, G:0.35, T:0.22
Consensus pattern (21 bp):
GCTGAAGTGGAACAGATTAAA
Found at i:14609067 original size:520 final size:520
Alignment explanation
Indices: 14608079--14609354 Score: 1991
Period size: 520 Copynumber: 2.5 Consensus size: 520
14608069 TGAAGACACT
* *
14608079 AGTCTTACTTCCCTGGCGTTGTAGTGGAACAGATTAAAGTTAAAGGTAGCGAATCTTGTTTCCCT
1 AGTCTTACTTCCCTGGTGTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
*
14608144 AGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
66 GGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
* *
14608209 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTAATTTCCCTGGTCTTG
131 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTATTG
* * ** ** *
14608274 CAGCGAAGCAGATTAAAGTTGAGGATAGCGAATCTTATCTCATTGGTGTTAAGACTGAGAGTAAT
196 CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGACTGAGAGTAAC
* *
14608339 CAGTCTTATTTCTCTGACGTCGCAGGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
261 CAGTCTTACTTCTCTGACGTCGCAAGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
*
14608404 GGACGTTGTAGTGGAATGAAATAGCTGAAGTGGAGCGGATTACAGCTGTAGGCAGCGAATCCTAT
326 GGACGTTGTAGTGGAATGAAATAGCTGAAGTGGAGCGGATTACAGCTGTAGGCAGCAAATCCTAT
14608469 CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAACCTGGTTTCCCTGGTGTTGC
391 CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAACCTGGTTTCCCTGGTGTTGC
* *
14608534 AGCGAAACAAATTAAAGCTGAGGGCAGTGAATCATACCTCCCTGTCGTTAAGACTGAAAGTAACC
456 AACGAAACAAATTAAAGCTGAGGGCAGCGAATCATACCTCCCTGTCGTTAAGACTGAAAGTAACC
* *
14608599 AGTCTTACTTCCCTGGTGTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTATTTCCTT
1 AGTCTTACTTCCCTGGTGTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
*
14608664 GGCGCTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
66 GGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
* * *
14608729 TCTCTTTGGCATTACAGTGGAATAGATTAAACCTAAAGGTAGCGAATTTGATTTCCCTGGTGTTG
131 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTATTG
* * *
14608794 CAGCGGAGCAGATTAAAGCTGAGGGCAACGAATCTTATCTCCCTGGTTTTAAGATTGAGAGTAAC
196 CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGACTGAGAGTAAC
* *
14608859 CAGTCTTACTTCTCTGACGTTGCAAGGGAACAGATTAAAGCTAAAGGTATCGAATCTTGTTTCCC
261 CAGTCTTACTTCTCTGACGTCGCAAGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
* *
14608924 GGGCGTTGTAGTGGAATGAAATAGCTGAAGTGGAGTGGATTACAGCTGTAGGCAGCAAATCCTAT
326 GGACGTTGTAGTGGAATGAAATAGCTGAAGTGGAGCGGATTACAGCTGTAGGCAGCAAATCCTAT
* * *
14608989 CTCTTTGGTATTTCAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGC
391 CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAACCTGGTTTCCCTGGTGTTGC
* * * *
14609054 AACGGAGCAAATTAAAGCTGAGGGTAGCGAATCTTACCTCCCTGTCGTTAAGACTGAAAGTAACC
456 AACGAAACAAATTAAAGCTGAGGGCAGCGAATCATACCTCCCTGTCGTTAAGACTGAAAGTAACC
* *
14609119 AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAATCTTGTTTCCCT
1 AGTCTTACTTCCCTGGTGTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
* * * * * ** *
14609184 GAC-TTGCAGTGGAATGGA--ATAGTTGAAGTGGAGTGGATTAAAGCTAAGGGCAGCGAATCCAA
66 GGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
* ** * * * * * *
14609246 TCTCTTTGGCATTATAGTGGAACGGATTAAGGCTAAAGATAGCGAATCTGGTTTCCCTAGCACTG
131 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTATTG
* * * *
14609311 TAGCAGAGCAGATTAAAGCTTAAGGCAGCGAATCTTATCTCCCT
196 CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
14609355 AGCGTTAAAA
Statistics
Matches: 690, Mismatches: 66, Indels: 3
0.91 0.09 0.00
Matches are distributed among these distances:
517 130 0.19
519 13 0.02
520 547 0.79
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (520 bp):
AGTCTTACTTCCCTGGTGTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
GGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTATTG
CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGACTGAGAGTAAC
CAGTCTTACTTCTCTGACGTCGCAAGGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
GGACGTTGTAGTGGAATGAAATAGCTGAAGTGGAGCGGATTACAGCTGTAGGCAGCAAATCCTAT
CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAACCTGGTTTCCCTGGTGTTGC
AACGAAACAAATTAAAGCTGAGGGCAGCGAATCATACCTCCCTGTCGTTAAGACTGAAAGTAACC
Found at i:14609473 original size:45 final size:45
Alignment explanation
Indices: 14609384--14609586 Score: 239
Period size: 45 Copynumber: 4.5 Consensus size: 45
14609374 GCAAGTCTTA
* * * * *
14609384 TCCCTGAAGTTACAG-TGGGCAGACTAAAGATGGCGAA-CCTTATC
1 TCCCTGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCC-TATC
14609428 TCCCTGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCCTATC
1 TCCCTGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCCTATC
* *
14609473 TTCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATCCTATC
1 TCCCTGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCCTATC
** * * * * *
14609518 TCCCTGAAGTTACAGTGGAGCGGATTGACGATAGCAAGTCTTATC
1 TCCCTGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCCTATC
* *
14609563 TCTCTGAAGTTACAGTAGAGCAGA
1 TCCCTGAAGTTACAGCAGAGCAGA
14609587 TCGCATCTAG
Statistics
Matches: 138, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
44 15 0.11
45 121 0.88
46 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (45 bp):
TCCCTGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCCTATC
Found at i:14609655 original size:44 final size:44
Alignment explanation
Indices: 14609384--14609797 Score: 187
Period size: 45 Copynumber: 9.5 Consensus size: 44
14609374 GCAAGTCTTA
* **
14609384 TCCCTGAAGTTACAGTGG-GCAGACTA-AAGATGGCGAA-CCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGAC-AGAAGA-AACGAATCC-TATC
* ** * * *
14609428 TCCCTGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGA-AACGAATCCTATC
* ** * * *
14609473 TTCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGA-AACGAATCCTATC
* * ** * * *
14609518 TCCCTGAAGTTACAGTGGAGCGGATTGACGATA-GCAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACG-AA-TCCTATC
* * * * * * * *
14609563 TCTCTGAAGTTACAGT--AG-AG-CAGATCGCATCTAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACGAATCCTATC
*
14609604 TGCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACGAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACGAATCCTATC
* *
14609648 TCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ACCACAGATAT--TATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGA-AAC-GA-ATCCTATC
** * * * * * *
14609692 TCTTTGAAGTTGCAGT--AG-AG-CAGATCGCATCTAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACGAATCCTATC
* *
14609733 TCCCTGAAGTTGCAGTGGAGCATACAAAAGAAATC-AATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAA-CGAATCCTATC
*
14609777 TCCCTAAAGTTGCAGTGGAGC
1 TCCCTGAAGTTGCAGTGGAGC
14609798 GGATTAAAAT
Statistics
Matches: 287, Mismatches: 58, Indels: 50
0.73 0.15 0.13
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 43 0.15
42 6 0.02
43 7 0.02
44 105 0.37
45 118 0.41
46 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACGAATCCTATC
Found at i:14609719 original size:129 final size:127
Alignment explanation
Indices: 14609469--14609850 Score: 471
Period size: 129 Copynumber: 3.0 Consensus size: 127
14609459 TAGCAAATCC
* ** * * *
14609469 TATCTTCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATCCTATCTCCCTGAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGA-AAC-AATCCTATCTCCCTGAAGTTGCAGT
* * * *
14609534 GGAGCGGATTGACGATAGCAAG-TCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCTAGT
64 GGAGCGGATT-A--AAACCAAGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATCGCATCTAGT
14609598 CT
126 CT
*
14609600 TATCTGCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACGAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC-AATCCTATCTCCCTGAAGTTGCAGTG
* * *
14609665 GAGCAGATTAAAACCACAGATATTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCT
65 GAGCGGATTAAAACCA-AGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATCGCATCTAGTCT
* * *
14609729 TATCTCCCTGAAGTTGCAGTGGAGCATACAAAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAA-CAATCCTATCTCCCTGAAGTTGCAGTG
* * * * *
14609794 GAGCGGATTAAAATCATAAATCTCATCTCTATGAA-TTGCCGTATAGCAGATCGCATC
65 GAGCGGATTAAAACCA-AGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATCGCATC
14609851 AAACCTCAGT
Statistics
Matches: 222, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
127 4 0.02
128 22 0.10
129 129 0.58
130 36 0.16
131 31 0.14
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAATCCTATCTCCCTGAAGTTGCAGTGG
AGCGGATTAAAACCAAGATCTTATCTCTATGAAGTTGCAGTAGAGCAGATCGCATCTAGTCT
Found at i:14610542 original size:11 final size:10
Alignment explanation
Indices: 14610497--14610553 Score: 66
Period size: 11 Copynumber: 5.7 Consensus size: 10
14610487 GACAAAGAGA
14610497 TATTTTCTA-T
1 TATTTT-TATT
14610507 TATTTTTATT
1 TATTTTTATT
14610517 TA--TTTATT
1 TATTTTTATT
14610525 TATTTTTATT
1 TATTTTTATT
14610535 TGATTTTTATT
1 T-ATTTTTATT
14610546 TGATTTTT
1 T-ATTTTT
14610554 TGCACATTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.19
9 2 0.05
10 16 0.37
11 17 0.40
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (10 bp):
TATTTTTATT
Found at i:14611354 original size:9 final size:9
Alignment explanation
Indices: 14611340--14611380 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
14611330 TTTCGTTCGA
14611340 TTATTTATT
1 TTATTTATT
14611349 TTATTTATT
1 TTATTTATT
14611358 TTATTT-TT
1 TTATTTATT
*
14611366 CTT-TTAATT
1 -TTATTTATT
14611375 TTATTT
1 TTATTT
14611381 CAATTTTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTATT
Found at i:14611376 original size:11 final size:11
Alignment explanation
Indices: 14611343--14611388 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
14611333 CGTTCGATTA
14611343 TTTATTTT-A-
1 TTTATTTTAAT
*
14611352 TTTATTTTATT
1 TTTATTTTAAT
*
14611363 TTTCTTTTAAT
1 TTTATTTTAAT
*
14611374 TTTATTTCAAT
1 TTTATTTTAAT
14611385 TTTA
1 TTTA
14611389 GCTAAGCTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
11 22 0.73
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTAAT
Found at i:14611717 original size:17 final size:16
Alignment explanation
Indices: 14611663--14611719 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
14611653 ATCCTTTGTA
*
14611663 TATTTTTTATATATAT
1 TATTTTTCATATATAT
*
14611679 TATATTTCCATGATA-A-
1 TAT-TTTTCAT-ATATAT
14611695 TATTTTTCATATAATAT
1 TATTTTTCATAT-ATAT
14611712 TATTTTTC
1 TATTTTTC
14611720 TTTTGTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.06
15 7 0.21
16 7 0.21
17 14 0.42
18 3 0.09
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTTTCATATATAT
Found at i:14613875 original size:38 final size:38
Alignment explanation
Indices: 14613824--14613897 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
14613814 GAAGATGGGA
14613824 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAAT
1 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAAT
14613862 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAA
1 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAA
14613898 GTCTCATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (38 bp):
GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAAT
Found at i:14616248 original size:61 final size:59
Alignment explanation
Indices: 14616120--14616240 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 59
14616110 CTTTAATATT
* * * ** * *
14616120 AAATTAATATAATATTTATCAAGATAAAATATTAGATTAAATTTAATATTAATCTGATG
1 AAATTAATAGAATATTTATCAAGATAAAACATTAAATTAAATTTAATATTAAAATAATC
14616179 AAATTAATAGAATATTTATCTATA-ATATAAACATTAAATTAAATTTAATATTAAAATAATC
1 AAATTAATAGAATATTTATC-A-AGATA-AAACATTAAATTAAATTTAATATTAAAATAATC
14616240 A
1 A
14616241 CTTTAATATT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 19 0.37
60 4 0.08
61 29 0.56
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (59 bp):
AAATTAATAGAATATTTATCAAGATAAAACATTAAATTAAATTTAATATTAAAATAATC
Found at i:14625500 original size:30 final size:30
Alignment explanation
Indices: 14625466--14625528 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
14625456 ACTTATTTTA
14625466 TTGTTAATCTTGTTATTATTTTAAAGGCAT
1 TTGTTAATCTTGTTATTATTTTAAAGGCAT
* *
14625496 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATCTTGTTATTATTTTAAAGGCAT
14625526 TTG
1 TTG
14625529 CTTGTTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATCTTGTTATTATTTTAAAGGCAT
Found at i:14625646 original size:18 final size:18
Alignment explanation
Indices: 14625611--14625650 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
14625601 GAAATATTTA
*
14625611 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
14625629 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
14625649 TT
1 TT
14625651 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Done.