Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 125 of 313
Found at i:40357054 original size:28 final size:26
Alignment explanation
Indices: 40356991--40357055 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
40356981 GTTAAAAATA
* *
40356991 ATAATAATAATAATAATAAACAAACG
1 ATAATAATAATGATAATAAAAAAACG
* *
40357017 A-CATATTAATGATAATAGAAAATAACG
1 ATAATAATAATGATAATA-AAAA-AACG
40357044 ATAATAATAATG
1 ATAATAATAATG
40357056 GAAGTAATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
25 13 0.43
26 4 0.13
27 5 0.17
28 8 0.27
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (26 bp):
ATAATAATAATGATAATAAAAAAACG
Found at i:40357163 original size:59 final size:59
Alignment explanation
Indices: 40357099--40357235 Score: 145
Period size: 59 Copynumber: 2.3 Consensus size: 59
40357089 GTAATAAAAG
* *
40357099 TAATAATAAAATAAAAAATAACAATGAC-ACATTAATAATAATAAT-ATACGT-GCTAATAA
1 TAATAATAATATAAAAAA-AACAAT-ACTACATTAATAAAAATAATAATA-GTAGCTAATAA
* * * *
40357158 TAATAACAATATATAAAAAAATAATACTATATTAATAAAAATAATAATAGTAGGTTAATAA
1 TAATAATAATATA-AAAAAAACAATACTACATTAATAAAAATAATAATAGTA-GCTAATAA
*
40357219 TAATAGTAATATAAAAA
1 TAATAATAATATAAAAA
40357236 GGTAAAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
58 2 0.03
59 33 0.51
60 12 0.18
61 18 0.28
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (59 bp):
TAATAATAATATAAAAAAAACAATACTACATTAATAAAAATAATAATAGTAGCTAATAA
Found at i:40357197 original size:20 final size:19
Alignment explanation
Indices: 40357152--40357263 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 19
40357142 ATATACGTGC
* *
40357152 TAATAATAATAACAATATA
1 TAATAAAAATAATAATATA
*
40357171 TAA-AAAAATAATACTATA
1 TAATAAAAATAATAATATA
40357189 TTAATAAAAATAATAATAGTA
1 -TAATAAAAATAATAATA-TA
* *
40357210 GGTTAATAATAATAGTAATATAA
1 ---TAATAAAAATAATAATAT-A
* *
40357233 AAAGGTAAAAATAATAATAAAA
1 TAA--TAAAAATAATAAT-ATA
40357255 TAATAAAAA
1 TAATAAAAA
40357264 CACTATTACG
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
18 12 0.16
19 6 0.08
20 20 0.27
21 2 0.03
22 15 0.21
23 18 0.25
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
TAATAAAAATAATAATATA
Found at i:40357203 original size:23 final size:23
Alignment explanation
Indices: 40357153--40357229 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
40357143 TATACGTGCT
*
40357153 AATAATAATAACAATA-T-ATAAA
1 AATAATAAT-ACTATATTAATAAA
40357175 AA-AATAATACTATATTAATAAA
1 AATAATAATACTATATTAATAAA
* ** *
40357197 AATAATAATAGTAGGTTAATAAT
1 AATAATAATACTATATTAATAAA
*
40357220 AATAGTAATA
1 AATAATAATA
40357230 TAAAAAGGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
20 5 0.11
21 7 0.15
22 9 0.20
23 25 0.54
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (23 bp):
AATAATAATACTATATTAATAAA
Found at i:40357572 original size:21 final size:22
Alignment explanation
Indices: 40357546--40357604 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
40357536 GTTTTAAGAA
*
40357546 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
40357567 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
40357589 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
40357605 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:40357619 original size:26 final size:24
Alignment explanation
Indices: 40357575--40357622 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
40357565 ATTTGTTTTA
*
40357575 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
40357599 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
40357623 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:40363009 original size:24 final size:26
Alignment explanation
Indices: 40362982--40363034 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
40362972 ATCTTGTGTA
*
40362982 TTTCTTGTA-TTGAAAGTCTCT-CTT
1 TTTCTTGTATTTGAAACTCTCTCCTT
*
40363006 TTTCTTGTATTTGAATCTCTCTCCTT
1 TTTCTTGTATTTGAAACTCTCTCCTT
40363032 TTT
1 TTT
40363035 TCTCCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 10 0.40
26 6 0.24
ACGTcount: A:0.13, C:0.19, G:0.09, T:0.58
Consensus pattern (26 bp):
TTTCTTGTATTTGAAACTCTCTCCTT
Found at i:40363521 original size:20 final size:20
Alignment explanation
Indices: 40363484--40363522 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40363474 ATTTAATAAA
**
40363484 TAAAAATAAAAACCTAAAAC
1 TAAAAATAAAAAAATAAAAC
40363504 TAAAAATAAAAAAATAAAA
1 TAAAAATAAAAAAATAAAA
40363523 AATATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (20 bp):
TAAAAATAAAAAAATAAAAC
Found at i:40363561 original size:9 final size:9
Alignment explanation
Indices: 40363543--40363601 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
40363533 TTTATACAAA
*
40363543 TAATTTGGT
1 TAATTCGGT
40363552 TAATTCGGT
1 TAATTCGGT
* *
40363561 TAATTTGGG
1 TAATTCGGT
*
40363570 TAATTCGGG
1 TAATTCGGT
*
40363579 TAATTCGAT
1 TAATTCGGT
*
40363588 AAATTCGGT
1 TAATTCGGT
40363597 TAATT
1 TAATT
40363602 TTATACTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:40363566 original size:18 final size:18
Alignment explanation
Indices: 40363543--40363602 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
40363533 TTTATACAAA
40363543 TAATTTGGTTAATTCGGT
1 TAATTTGGTTAATTCGGT
* *
40363561 TAATTTGGGTAATTCGGG
1 TAATTTGGTTAATTCGGT
* * *
40363579 TAATTCGATAAATTCGGT
1 TAATTTGGTTAATTCGGT
40363597 TAATTT
1 TAATTT
40363603 TATACTTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.45
Consensus pattern (18 bp):
TAATTTGGTTAATTCGGT
Found at i:40363796 original size:24 final size:24
Alignment explanation
Indices: 40363757--40363806 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
40363747 TGAACACCCC
*
40363757 TAGTGGCACGTAGGGTGATGAAGT
1 TAGTGGCAAGTAGGGTGATGAAGT
* *
40363781 TAGTGGCAAGTGGGGTGATGGAGT
1 TAGTGGCAAGTAGGGTGATGAAGT
40363805 TA
1 TA
40363807 ATGGTTGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.44, T:0.26
Consensus pattern (24 bp):
TAGTGGCAAGTAGGGTGATGAAGT
Found at i:40373775 original size:22 final size:22
Alignment explanation
Indices: 40373750--40373793 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
40373740 GTGTAATGAC
* *
40373750 TAATTTGAGTAAAGAGAGCAAA
1 TAATTTGAATAAAGAGAACAAA
*
40373772 TAATTTGAATAGAGAGAACAAA
1 TAATTTGAATAAAGAGAACAAA
40373794 ATACAATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.20, T:0.23
Consensus pattern (22 bp):
TAATTTGAATAAAGAGAACAAA
Found at i:40378438 original size:31 final size:31
Alignment explanation
Indices: 40378401--40378464 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
40378391 TTACAAAATG
* *
40378401 GTCACTAAATTATTCAAAAGTTTTCATTTAA
1 GTCACTAAATTATCCAAAAGTTCTCATTTAA
40378432 GTCACTAAATTATCCAAAAGTTCTCATTTAA
1 GTCACTAAATTATCCAAAAGTTCTCATTTAA
40378463 GT
1 GT
40378465 TAATGTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (31 bp):
GTCACTAAATTATCCAAAAGTTCTCATTTAA
Found at i:40380656 original size:19 final size:19
Alignment explanation
Indices: 40380632--40380668 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
40380622 TATGTAATTG
40380632 AATTAAA-TATAATTTAAAA
1 AATTAAATTA-AATTTAAAA
40380651 AATTAAATTAAATTTAAA
1 AATTAAATTAAATTTAAA
40380669 TAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAATTAAATTTAAAA
Found at i:40384099 original size:19 final size:19
Alignment explanation
Indices: 40384054--40384100 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
40384044 AGTAAAGTTT
* *
40384054 ATATTAAAATCCTTGAAGG
1 ATATTAAAATCCTAGAAGC
*
40384073 AT-TTAAAATGCTAGAAGC
1 ATATTAAAATCCTAGAAGC
40384091 ATATTAAAAT
1 ATATTAAAAT
40384101 TCTCGGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.32
Consensus pattern (19 bp):
ATATTAAAATCCTAGAAGC
Found at i:40385252 original size:54 final size:54
Alignment explanation
Indices: 40385178--40385291 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
40385168 GTGACGAAGT
* * *
40385178 CACCAGATATAGATATTGTGGCTGAGCCACTAAATCAGATAATCGTGGCATAGC
1 CACCAGATACAGATATTGTGGCAGAGCCACCAAATCAGATAATCGTGGCATAGC
* *
40385232 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATACAGATAT-TGTGGCAGAGCCACCAAATCAGATAATCGTGGCATAGC
40385286 CACCAG
1 CACCAG
40385292 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 7 0.13
54 47 0.87
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (54 bp):
CACCAGATACAGATATTGTGGCAGAGCCACCAAATCAGATAATCGTGGCATAGC
Found at i:40385291 original size:27 final size:26
Alignment explanation
Indices: 40385160--40385291 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 26
40385150 GCGAGGCTGC
* *
40385160 CAGATATTGTGACGA-AGTCACCAGAT
1 CAGATATTGTGGC-ATAGCCACCAGAT
* * *
40385186 ATAGATATTGTGGC-TGAGCCACTAAAT
1 -CAGATATTGTGGCAT-AGCCACCAGAT
* *
40385213 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCATAGCCACCAGAT
*
40385240 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCATAGCCACCAGAT
40385267 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCATAGCCACCAG
40385292 GACGCTTCCT
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
26 6 0.07
27 76 0.89
28 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCATAGCCACCAGAT
Found at i:40387531 original size:87 final size:87
Alignment explanation
Indices: 40387440--40388025 Score: 345
Period size: 87 Copynumber: 6.8 Consensus size: 87
40387430 TCAACTTGGG
* *
40387440 CCACTGCAACTTCAGGGGGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
* * *
40387505 AGATCTCTTATTTTAATCCGCT
66 AGATCTCTGACTTCAATCCGCT
*
40387527 CCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
* *
40387592 AGATCTCTGGCTTCAATCTGCT
66 AGATCTCTGACTTCAATCCGCT
* * * * * *
40387614 CCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGA
1 CCACTGTAACTTCAGGGAGATAAGATAGTG----TCTTCGATCTGCTCCGCTGTAATCTCAGGGA
* **
40387678 GATAAGA-C-CTGA-TGT-GATCTTCT
62 GATAAGATCTCTGACT-TCAATCCGCT
* * * ** * ** *
40387701 CTACTGTAACTTCAGAGAGATAAG--A-T-CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATA
1 CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
* ** *
40387762 GGAT-TACT-ATCTTTGATCTGCT
66 AGATCT-CTGA-CTTCAATCCGCT
* ** * * * *
40387784 CCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
1 CCACTGTAACT-TCAGGGAGATAAGAT-AGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGA
*** *** * *
40387848 TAAGATCTGAAATTCTTTGGTCTGTT
64 TAAGATCTCTGA--CTTCAATCCGCT
** * * ** *
40387874 CCACTGTAA-TCTCAGGGAGATAAGA-CCTGAT-GT-GATCTTCTCTACTGTAA-CTTCAGAGAG
1 CCACTGTAACT-TCAGGGAGATAAGATAGTG-TCTTCGATCTGCTCCGCTGTAATC-TCAGGGAG
40387934 ATAAGATC-CT---TT-AATCCGCT
63 ATAAGATCTCTGACTTCAATCCGCT
* * * * * *
40387954 CCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGA
1 CCACTGTAACT-TCAGGGAGATAAGA-TAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGA
40388018 TAAGATCT
64 TAAGATCT
40388026 GTGTAATAAA
Statistics
Matches: 401, Mismatches: 69, Indels: 61
0.76 0.13 0.11
Matches are distributed among these distances:
80 56 0.14
81 4 0.01
82 7 0.02
83 56 0.14
84 1 0.00
85 1 0.00
86 3 0.01
87 161 0.40
88 40 0.10
89 3 0.01
90 69 0.17
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (87 bp):
CCACTGTAACTTCAGGGAGATAAGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATA
AGATCTCTGACTTCAATCCGCT
Found at i:40387542 original size:44 final size:44
Alignment explanation
Indices: 40387475--40388025 Score: 378
Period size: 44 Copynumber: 12.8 Consensus size: 44
40387465 TAGTGTCTTC
* *
40387475 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGATTTT
* * * ** *
40387519 AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTG-TCTTC
1 GATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGAT-TTT
* ** *
40387562 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGATTTT
* * ***
40387606 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGA-T-TTT
* * *
40387652 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CTGA-TGT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGATTTT
* * *
40387693 GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-C----TTT
1 GATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGATTTT
* * * * *
40387732 AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CTGAT-TTT
* ** *
40387776 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGATTTT
* * ***
40387820 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGA-T-TTT
* * *
40387866 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CTGA-TGT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGATTTT
* * *
40387907 GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-C----TTT
1 GATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGATTTT
* * * * *
40387946 AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CTGAT-TTT
*
40387990 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
40388026 GTGTAATAAA
Statistics
Matches: 385, Mismatches: 92, Indels: 59
0.72 0.17 0.11
Matches are distributed among these distances:
39 52 0.14
40 6 0.02
41 56 0.15
42 5 0.01
43 32 0.08
44 168 0.44
45 4 0.01
46 62 0.16
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (44 bp):
GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGATTTT
Found at i:40387804 original size:214 final size:214
Alignment explanation
Indices: 40387516--40388025 Score: 952
Period size: 214 Copynumber: 2.4 Consensus size: 214
40387506 GATCTCTTAT
* * * * *
40387516 TTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGTAA
1 TTTAATCCGCTCCATTGTAATC-TCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAA
40387579 TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
65 TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
40387644 AATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTA
130 AATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTA
40387709 ACTTCAGAGAGATAAGATCC
195 ACTTCAGAGAGATAAGATCC
40387729 TTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAAT
1 TTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAAT
40387794 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
66 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
40387859 ATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAA
131 ATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAA
40387924 CTTCAGAGAGATAAGATCC
196 CTTCAGAGAGATAAGATCC
40387943 TTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAAT
1 TTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAAT
40388008 CTCAGGGAGATAAGATCT
66 CTCAGGGAGATAAGATCT
40388026 GTGTAATAAA
Statistics
Matches: 290, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
213 32 0.11
214 258 0.89
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (214 bp):
TTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAAT
CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
ATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAA
CTTCAGAGAGATAAGATCC
Found at i:40396748 original size:38 final size:38
Alignment explanation
Indices: 40396692--40396767 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
40396682 AAACTTAATA
*
40396692 GATCAGCCTGAACTGCTAGAGTTTGCAGATGATCAGCT
1 GATCAGCCTGAACCGCTAGAGTTTGCAGATGATCAGCT
40396730 GATCAGCCTGAACCGCTAGAGTTTGCAGATGATCAGCT
1 GATCAGCCTGAACCGCTAGAGTTTGCAGATGATCAGCT
40396768 ACTTCGCGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (38 bp):
GATCAGCCTGAACCGCTAGAGTTTGCAGATGATCAGCT
Found at i:40399776 original size:44 final size:44
Alignment explanation
Indices: 40399728--40399956 Score: 128
Period size: 44 Copynumber: 5.2 Consensus size: 44
40399718 CTGTAACCTG
* *
40399728 AGGGAGGTAAAATCTTCCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAAATCTTCCATCTTCAATCTACTCCACTACTGCCT
* * * * *
40399772 AGGGAGATAAGATCTGT-AATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAAATCT-TCCATCTTCAATCTACTCCACTACTGCCT
* * * * * *
40399816 AGGGAGATAGAATTATTGGC-T-TT-AATGTACTCCACT-GTAACCT
1 AGGGAGATA-AAATCTT-CCATCTTCAATCTACTCCACTACT-GCCT
* * * * *
40399859 CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAAATCTTCCATCTTCAATCTACTCCACTACTGCCT
* * * * * ** *
40399904 TGGGAGATAAGATCTGT-AACCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAAATCT-TCCATCTTCAATCTACTCCACTACTGCCT
40399948 AGGGAGATA
1 AGGGAGATA
40399957 GAATTACTGG
Statistics
Matches: 133, Mismatches: 41, Indels: 22
0.68 0.21 0.11
Matches are distributed among these distances:
42 2 0.02
43 18 0.14
44 95 0.71
45 17 0.13
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAAATCTTCCATCTTCAATCTACTCCACTACTGCCT
Found at i:40399805 original size:132 final size:132
Alignment explanation
Indices: 40399659--40400012 Score: 546
Period size: 132 Copynumber: 2.7 Consensus size: 132
40399649 AGATCTGCTT
* * * * * * *
40399659 TCTTCGATCGATTCCACTGCCGACCAGGGAGATAAAATTACTGGCTTCAATATACTCTACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
40399724 CCTGAGGGAGGTAAAATCTTCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
40399789 AA
131 AA
* *
40399791 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTTAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * *
40399856 CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
40399921 AA
131 AA
* *
40399923 CCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
40399988 CCTTAGGGAGGTAAAATCCGCCATC
66 CCTCAGGGAGGTAAAATCTGCCATC
40400013 AACCTGCTCC
Statistics
Matches: 202, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 202 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
AA
Found at i:40401038 original size:69 final size:68
Alignment explanation
Indices: 40400925--40401056 Score: 212
Period size: 69 Copynumber: 1.9 Consensus size: 68
40400915 CCAGATATCG
* * *
40400925 CAGCTTGAACTTTGTTGTACAGACTTTCTGAAGACCATTCTGAGTTTAACATGTGTTTAGGAGAT
1 CAGCTTGAACTTTGCTGTACAAACTTTCTGAAAACCATTCTGAGTTTAACATGTGTTTAGGAGAT
40400990 CTA
66 CTA
40400993 CANGCTTGAACTTCT-CTGTACAAACTTTCTGAAAACCATTCTGAGTTTAACATGTGTTTAGGAG
1 CA-GCTTGAACTT-TGCTGTACAAACTTTCTGAAAACCATTCTGAGTTTAACATGTGTTTAGGAG
40401057 TACTTTGTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
68 2 0.03
69 56 0.95
70 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (68 bp):
CAGCTTGAACTTTGCTGTACAAACTTTCTGAAAACCATTCTGAGTTTAACATGTGTTTAGGAGAT
CTA
Found at i:40402297 original size:20 final size:20
Alignment explanation
Indices: 40402272--40402312 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
40402262 AATTTGGCAG
40402272 AAAAAATC-TGAAAGAATGAA
1 AAAAAATCGT-AAAGAATGAA
40402292 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
40402312 A
1 A
40402313 GAACATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:40405618 original size:9 final size:9
Alignment explanation
Indices: 40405600--40405663 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
40405590 GCGTATGTAC
40405600 AAAT-ATAA
1 AAATAATAA
40405608 AAATAATAA
1 AAATAATAA
40405617 AAATAATAA
1 AAATAATAA
** *
40405626 TGATGATAA
1 AAATAATAA
40405635 TAAATAATATA
1 -AAATAATA-A
40405646 ACAATAATAA
1 A-AATAATAA
40405656 TAAATAAT
1 -AAATAAT
40405664 GGGAGAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 4 0.09
9 19 0.42
10 13 0.29
11 9 0.20
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (9 bp):
AAATAATAA
Found at i:40405624 original size:3 final size:3
Alignment explanation
Indices: 40405604--40405663 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
40405594 ATGTACAAAT
* * * * *
40405604 ATA AAA ATA ATA AAA ATA ATA ATG ATG ATA ATAA ATA AT- ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
40405649 ATA ATA ATAA ATA AT
1 ATA ATA AT-A ATA AT
40405664 GGGAGAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:40405646 original size:24 final size:21
Alignment explanation
Indices: 40405601--40405663 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
40405591 CGTATGTACA
*
40405601 AATATAAAAATAATAA-AAAT
1 AATATAACAATAATAATAAAT
** *
40405621 -A-ATAATGATGATAATAAAT
1 AATATAACAATAATAATAAAT
40405640 AATATAACAATAATAATAAAT
1 AATATAACAATAATAATAAAT
40405661 AAT
1 AAT
40405664 GGGAGAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 1 0.03
21 18 0.53
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
AATATAACAATAATAATAAAT
Found at i:40406297 original size:29 final size:30
Alignment explanation
Indices: 40406254--40406315 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
40406244 TGTTTTAGGT
** *
40406254 AAAATAAAATGGAAAAAAATAAA-TAAAAG
1 AAAATAAAAAAGAAAAAAATAAACAAAAAG
* *
40406283 AAAATAAAAAAGAAATATATAAACAAAAAG
1 AAAATAAAAAAGAAAAAAATAAACAAAAAG
40406313 AAA
1 AAA
40406316 CAATATACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (30 bp):
AAAATAAAAAAGAAAAAAATAAACAAAAAG
Found at i:40407099 original size:89 final size:89
Alignment explanation
Indices: 40406937--40407424 Score: 845
Period size: 89 Copynumber: 5.5 Consensus size: 89
40406927 CCGGGGAGAT
* * * * * * * *
40406937 AAGA-CTGATATCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC-TCTGAC
1 AAGATCTGCTATCTTTGATCTACTTCAC-GCCAGTACATGAAGACAATATCCGTTTTCTTC-GAT
*
40407000 CTACTTCGCCATCAGTATGGGAAGAC
64 CTACTTCGCCACCAGTATGGGAAGAC
**
40407026 AAGATCTATTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
40407091 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
40407115 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
40407180 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
40407204 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
40407269 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
40407293 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
40407358 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
40407382 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGA
1 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGA
40407425 TAAGATCTAC
Statistics
Matches: 385, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
89 362 0.94
90 23 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (89 bp):
AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCCGTTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGAC
Found at i:40421329 original size:30 final size:30
Alignment explanation
Indices: 40421273--40421330 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
40421263 CAGGGACAGG
* * *
40421273 CACATGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGCCCAGCCCGTGTGGCT
*
40421303 CACACGGGCATGTGCCCAGCCTGTGTGG
1 CACACGGGCATGTGCCCAGCCCGTGTGG
40421331 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.31, G:0.38, T:0.19
Consensus pattern (30 bp):
CACACGGGCATGTGCCCAGCCCGTGTGGCT
Found at i:40422803 original size:3 final size:3
Alignment explanation
Indices: 40422793--40422831 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
40422783 TATAAAATGT
40422793 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
40422832 AAGAAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:40425177 original size:16 final size:16
Alignment explanation
Indices: 40425156--40425191 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
40425146 TTTGGTTCGT
40425156 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
40425172 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
40425188 TGTA
1 TGTA
40425192 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:40425256 original size:44 final size:45
Alignment explanation
Indices: 40425172--40425262 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
40425162 GGATTAGAGG
* * *
40425172 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
40425217 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
40425261 TG
1 TG
40425263 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:40425448 original size:18 final size:17
Alignment explanation
Indices: 40425427--40425461 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
40425417 TTATTATTAA
*
40425427 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
40425445 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
40425462 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:40429669 original size:13 final size:13
Alignment explanation
Indices: 40429651--40429677 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40429641 TAATAACAAC
40429651 TATATTGTTTAAA
1 TATATTGTTTAAA
40429664 TATATTGTTTAAA
1 TATATTGTTTAAA
40429677 T
1 T
40429678 TAAACCGAAA
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:40433192 original size:104 final size:104
Alignment explanation
Indices: 40433012--40433220 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
40433002 AAAATAAAAT
*
40433012 TGAAATATTTAGGTGAAATTTTTGAAAAGAAAATGGGTTAAATTTTTTTCTTAGATCCTTATACT
1 TGAAATAATTAGGTGAAATTTTTGAAAAGAAAATGGGTTAAATTTTTTTCTTAGATCCTTATACT
40433077 CTTTACAAATTTGGATTTTAGTCTCTATACTTCTATTTC
66 CTTTACAAATTTGGATTTTAGTCTCTATACTTCTATTTC
40433116 TGAAATAATTAGGTGAAATTTTTGAAAAGAAAATGGGTTAAATTTTTTTCTTAGATCCTTATACT
1 TGAAATAATTAGGTGAAATTTTTGAAAAGAAAATGGGTTAAATTTTTTTCTTAGATCCTTATACT
40433181 CTTTACAAATTTGGATTTTAGTCTCTATACTTCTATTTC
66 CTTTACAAATTTGGATTTTAGTCTCTATACTTCTATTTC
40433220 T
1 T
40433221 CATAATTTAG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (104 bp):
TGAAATAATTAGGTGAAATTTTTGAAAAGAAAATGGGTTAAATTTTTTTCTTAGATCCTTATACT
CTTTACAAATTTGGATTTTAGTCTCTATACTTCTATTTC
Found at i:40442347 original size:264 final size:264
Alignment explanation
Indices: 40441876--40442536 Score: 1008
Period size: 264 Copynumber: 2.5 Consensus size: 264
40441866 ATTTCTTCTG
* * *
40441876 TCTATTCCACTGTTGCCCTGGAAGATAGAATTGCTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* *
40441941 GAGGTAAAATCTACCATCTTCGATCTGCT-TCACTA-T-CTATGCAGGAAGGCAAGATCTGAAAT
66 GAGGTAAAATCCACCATCTTCGATCTGCTCT-ACTACTGCT-T--AGGGAGGCAAGATCTGAAAT
*
40442003 CTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
127 CTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGTAAC
* *
40442068 CACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGA
192 CACAGGGAGGTAAAATCT-ACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
*
40442132 AATCTTTAA
256 AATCTTCAA
* * * * *
40442141 TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGG
1 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* *
40442206 GAGGTAAAATCCGCCATCTTCGACCTGCTCTACTACTGCTTAGGGAGGCAAGATCTGAAATCTTC
66 GAGGTAAAATCCACCATCTTCGATCTGCTCTACTACTGCTTAGGGAGGCAAGATCTGAAATCTTC
*
40442271 AATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGTAACCACA
131 AATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGTAACCACA
* * *
40442336 GGGAGGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCT
196 GGGAGGTAAAATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCT
40442401 TCAA
261 TCAA
*
40442405 TCTATTCCACTGTTGCCCAGGGAGATAGAATTAGTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
* * **
40442470 GAGGTAAAATCCACCATTTTCAATCTGCTCTACTACTGCTTAGGGAGATAAGATCT-ATAATCTT
66 GAGGTAAAATCCACCATCTTCGATCTGCTCTACTACTGCTTAGGGAGGCAAGATCTGA-AATCTT
40442534 CAA
130 CAA
40442537 ACTGCTCCCC
Statistics
Matches: 359, Mismatches: 32, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
263 1 0.00
264 265 0.74
265 88 0.25
266 3 0.01
267 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (264 bp):
TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
GAGGTAAAATCCACCATCTTCGATCTGCTCTACTACTGCTTAGGGAGGCAAGATCTGAAATCTTC
AATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGTAACCACA
GGGAGGTAAAATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCT
TCAA
Found at i:40442592 original size:132 final size:132
Alignment explanation
Indices: 40441876--40442536 Score: 880
Period size: 132 Copynumber: 5.0 Consensus size: 132
40441866 ATTTCTTCTG
* * * * * * *
40441876 TCTATTCCACTGTTGCCCTGGAAGATAGAATTGCTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* * * * * *
40441941 GAGGTAAAATCTACCATCTTCGATCTGCTTCACTA-T-CTATGCAGGAAGGCAAGATCTGAAATC
66 GAGGTAAAATCCACCATCTTTGACCTGCTCCACTACTGCT-T--AGGGAGACAAGATCTGAAATC
40442004 TTCAA
128 TTCAA
*
40442009 TCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
1 TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* * * *
40442074 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAATCTTT
66 GAGGTAAAATCCACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
40442139 AA
131 AA
* **
40442141 TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGG
1 TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* * * *
40442206 GAGGTAAAATCCGCCATCTTCGACCTGCTCTACTACTGCTTAGGGAGGCAAGATCTGAAATCTTC
66 GAGGTAAAATCCACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
40442271 AA
131 AA
* * *
40442273 TCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGTAACCACAGG
1 TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
** * *
40442338 GAGGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
66 GAGGTAAAATCCACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
40442403 AA
131 AA
* * * * *
40442405 TCTATTCCACTGTTGCCCAGGGAGATAGAATTAGTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* * * *
40442470 GAGGTAAAATCCACCAT-TTTCAATCTGCTCTACTACTGCTTAGGGAGATAAGATCT-ATAATCT
66 GAGGTAAAATCCACCATCTTT-GACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA-AATCT
40442533 TCAA
129 TCAA
40442537 ACTGCTCCCC
Statistics
Matches: 470, Mismatches: 54, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.01
132 375 0.80
133 88 0.19
134 2 0.00
135 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (132 bp):
TCTATTCCGCTGCTGCCCAGGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
GAGGTAAAATCCACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
AA
Found at i:40446751 original size:22 final size:22
Alignment explanation
Indices: 40446723--40446773 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
40446713 TCAGGAATCC
40446723 CCTAGGGTTTGGTATAGCTCTA
1 CCTAGGGTTTGGTATAGCTCTA
40446745 CCTAGGGTTTGGTATAGCTCTA
1 CCTAGGGTTTGGTATAGCTCTA
40446767 CCTAGGG
1 CCTAGGG
40446774 CAAGTTCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (22 bp):
CCTAGGGTTTGGTATAGCTCTA
Found at i:40447492 original size:132 final size:132
Alignment explanation
Indices: 40447255--40447512 Score: 489
Period size: 132 Copynumber: 2.0 Consensus size: 132
40447245 AAAATTTAGT
*
40447255 TGTCGACTTTTAAAAATAAAACTGGAGTCGCCACCGATCCTTTATTAGGGTGTGATCGGCTCACC
1 TGTCGACTTTTAAAAATAAAACTGGAGTCGCCACCGATCCTTTATTAGGGTGTGATCGGCACACC
* *
40447320 TTAAAAATTATTTTGGCCTACGAATTTTGAGAAAACGAGTTCGGGAGTCAGTTACGCACGAGGAA
66 TCAAAAATTATTTTGGCCTAAGAATTTTGAGAAAACGAGTTCGGGAGTCAGTTACGCACGAGGAA
40447385 GG
131 GG
40447387 TGTCGACTTTTAAAAATAAAACTGGAGTCGCCACCGATCCTTTATTAGGGTGTGATCGGCACACC
1 TGTCGACTTTTAAAAATAAAACTGGAGTCGCCACCGATCCTTTATTAGGGTGTGATCGGCACACC
40447452 TCAAAAATTATTTTGGCCTAAGAATTTTGAGAAAACGAGTTCGGGAGTCAGTTACGCACGA
66 TCAAAAATTATTTTGGCCTAAGAATTTTGAGAAAACGAGTTCGGGAGTCAGTTACGCACGA
40447513 AAAAGCGTTA
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (132 bp):
TGTCGACTTTTAAAAATAAAACTGGAGTCGCCACCGATCCTTTATTAGGGTGTGATCGGCACACC
TCAAAAATTATTTTGGCCTAAGAATTTTGAGAAAACGAGTTCGGGAGTCAGTTACGCACGAGGAA
GG
Found at i:40448568 original size:20 final size:19
Alignment explanation
Indices: 40448533--40448570 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
40448523 TTAGTAATAG
*
40448533 TAATAGACAATAATAGTAA
1 TAATAAACAATAATAGTAA
40448552 TAATAAACAAGTAATAGTA
1 TAATAAACAA-TAATAGTA
40448571 CCATAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (19 bp):
TAATAAACAATAATAGTAA
Found at i:40449463 original size:22 final size:22
Alignment explanation
Indices: 40449438--40449482 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
40449428 CGGCGCGCGC
*
40449438 GGAGCAGCAAGCGCGATGTGCG
1 GGAGCAACAAGCGCGATGTGCG
**
40449460 GGAGCAACTGGCGCGATGTGCG
1 GGAGCAACAAGCGCGATGTGCG
40449482 G
1 G
40449483 CGGTTGCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.22, G:0.47, T:0.11
Consensus pattern (22 bp):
GGAGCAACAAGCGCGATGTGCG
Found at i:40450823 original size:84 final size:84
Alignment explanation
Indices: 40450678--40450847 Score: 286
Period size: 84 Copynumber: 2.0 Consensus size: 84
40450668 TAGGTTTAGG
* * *
40450678 GTTTATTGATCCCGATGTCTGATAAGCCATAAAAGTAGCATGTTTTTAATCCCATTTTTGATGCG
1 GTTTATTGATCCCGATGTCCGACAAGCCATAAAAGTAGCATGTTTTTAATCCCATTCTTGATGCG
*
40450743 TTTTTGGATGATTTATTAT
66 TTTTTGGAAGATTTATTAT
**
40450762 GTTTATTGATCCCGATGTCCGACAAGCCATAAAAGTTTCATGTTTTTAATCCCATTCTTGATGCG
1 GTTTATTGATCCCGATGTCCGACAAGCCATAAAAGTAGCATGTTTTTAATCCCATTCTTGATGCG
40450827 TTTTTGGAAGATTTATTAT
66 TTTTTGGAAGATTTATTAT
40450846 GT
1 GT
40450848 AAATTAGTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (84 bp):
GTTTATTGATCCCGATGTCCGACAAGCCATAAAAGTAGCATGTTTTTAATCCCATTCTTGATGCG
TTTTTGGAAGATTTATTAT
Found at i:40451312 original size:19 final size:17
Alignment explanation
Indices: 40451290--40451325 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
40451280 ATGTGTTGTA
40451290 GTTTTTTTTACTTCGAGAT
1 GTTTTTTTT-CTTC-AGAT
40451309 GTTTTTTTTCTTCAGAT
1 GTTTTTTTTCTTCAGAT
40451326 TATGAGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.61
Consensus pattern (17 bp):
GTTTTTTTTCTTCAGAT
Found at i:40451315 original size:18 final size:17
Alignment explanation
Indices: 40451292--40451325 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
40451282 GTGTTGTAGT
40451292 TTTTTTTACTTCGAGATG
1 TTTTTTTACTTC-AGATG
*
40451310 TTTTTTTTCTTCAGAT
1 TTTTTTTACTTCAGAT
40451326 TATGAGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTTTTTACTTCAGATG
Found at i:40452905 original size:27 final size:29
Alignment explanation
Indices: 40452856--40452915 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
40452846 TATAAATAGA
*
40452856 AATATAATAATAATAGTACAAAACTAAT-
1 AATATAATAATAATAATACAAAACTAATG
* * *
40452884 AATATAA-CATAATAATATAAAAGTAATG
1 AATATAATAATAATAATACAAAACTAATG
40452912 AATA
1 AATA
40452916 AGTAAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (29 bp):
AATATAATAATAATAATACAAAACTAATG
Found at i:40453609 original size:9 final size:9
Alignment explanation
Indices: 40453595--40453620 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
40453585 TTTAAAAAAC
40453595 GAAAATAAA
1 GAAAATAAA
40453604 GAAAATAAA
1 GAAAATAAA
40453613 GAAAATAA
1 GAAAATAA
40453621 CATTTCGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
GAAAATAAA
Found at i:40454916 original size:62 final size:62
Alignment explanation
Indices: 40454809--40454931 Score: 219
Period size: 62 Copynumber: 2.0 Consensus size: 62
40454799 AACTTTCCTC
* *
40454809 AAGTTAGCTTCCACTATTTCAAGAGCTTGCTGAGCTTTTTGTGGATCAATGTCACTACCCTA
1 AAGTTAGCTTCCACTATTTCAAGAGCTTGCTGAGCTTCTTATGGATCAATGTCACTACCCTA
*
40454871 AAGTTAGCTTCCACTATTTCAAGAGCTTGCTGAGGTTCTTATGGATCAATGTCACTACCCT
1 AAGTTAGCTTCCACTATTTCAAGAGCTTGCTGAGCTTCTTATGGATCAATGTCACTACCCT
40454932 TCTCCACATC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (62 bp):
AAGTTAGCTTCCACTATTTCAAGAGCTTGCTGAGCTTCTTATGGATCAATGTCACTACCCTA
Found at i:40455035 original size:17 final size:16
Alignment explanation
Indices: 40455007--40455038 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
40454997 GAAACTTCTA
40455007 TTAAATTATAATTATT
1 TTAAATTATAATTATT
40455023 TTAAATATATAATTAT
1 TTAAAT-TATAATTAT
40455039 CATAATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAATTATAATTATT
Found at i:40459527 original size:44 final size:45
Alignment explanation
Indices: 40459440--40459528 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
40459430 AGGTATCGAA
40459440 GTTTTGAAGTCCAGGGATTTCTTCCAAGAACCAAAATGGTATTGG
1 GTTTTGAAGTCCAGGGATTTCTTCCAAGAACCAAAATGGTATTGG
40459485 GTTTTGAAGTCCAGGGATTTCTT-CAAGAACCAAAATGGTATTGG
1 GTTTTGAAGTCCAGGGATTTCTTCCAAGAACCAAAATGGTATTGG
40459529 ATAGGAGCAG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 21 0.48
45 23 0.52
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (45 bp):
GTTTTGAAGTCCAGGGATTTCTTCCAAGAACCAAAATGGTATTGG
Found at i:40464758 original size:25 final size:24
Alignment explanation
Indices: 40464730--40464785 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
40464720 AAAAATTAAG
40464730 TAAATAT-TAGGCAAAACATTTAAAA
1 TAAATATATAGGCAAAAC--TTAAAA
* *
40464755 TAAATAATATATGTAAAACTTAAAA
1 TAAAT-ATATAGGCAAAACTTAAAA
40464780 TAAATA
1 TAAATA
40464786 ATAATAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 16 0.59
26 2 0.07
27 8 0.30
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (24 bp):
TAAATATATAGGCAAAACTTAAAA
Found at i:40466413 original size:15 final size:15
Alignment explanation
Indices: 40466393--40466422 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40466383 TTTTATTTCG
40466393 TTACTATTATTACTA
1 TTACTATTATTACTA
*
40466408 TTACTATTTTTACTA
1 TTACTATTATTACTA
40466423 CTATTATTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (15 bp):
TTACTATTATTACTA
Found at i:40471903 original size:16 final size:17
Alignment explanation
Indices: 40471882--40471914 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
40471872 GTTTAGATAA
*
40471882 TTTATTTGAAT-ATTTT
1 TTTATTTAAATAATTTT
40471898 TTTATTTAAATAATTTT
1 TTTATTTAAATAATTTT
40471915 GGAGTTTGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTATTTAAATAATTTT
Found at i:40472534 original size:3 final size:3
Alignment explanation
Indices: 40472503--40472573 Score: 106
Period size: 3 Copynumber: 23.7 Consensus size: 3
40472493 AGTATATCAA
* * * *
40472503 ATG ATG ATT ATG ATG TTG ATA ACG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
40472551 ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG AT
40472574 AATAAAATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.01, G:0.30, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:40472987 original size:15 final size:17
Alignment explanation
Indices: 40472948--40472992 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
40472938 GTTTCATATA
40472948 GGAAGAGAAAAAACCAGT
1 GGAAGAGAAAAAA-CAGT
*
40472966 TGAAGAGAAAAAA-A-T
1 GGAAGAGAAAAAACAGT
40472981 GGAAGAGAAAAA
1 GGAAGAGAAAAA
40472993 GGTTGAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.48
16 1 0.04
18 12 0.48
ACGTcount: A:0.62, C:0.04, G:0.27, T:0.07
Consensus pattern (17 bp):
GGAAGAGAAAAAACAGT
Found at i:40473000 original size:15 final size:15
Alignment explanation
Indices: 40472949--40473001 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
40472939 TTTCATATAG
40472949 GAAGAGAAAAAACCAGTT
1 GAAGAG-AAAAA--AGTT
* *
40472967 GAAGAGAAAAAAATG
1 GAAGAGAAAAAAGTT
*
40472982 GAAGAGAAAAAGGTT
1 GAAGAGAAAAAAGTT
40472997 GAAGA
1 GAAGA
40473002 TGATGGAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 19 0.63
17 5 0.17
18 6 0.20
ACGTcount: A:0.58, C:0.04, G:0.28, T:0.09
Consensus pattern (15 bp):
GAAGAGAAAAAAGTT
Found at i:40486281 original size:18 final size:18
Alignment explanation
Indices: 40486240--40486274 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
40486230 GCCAGGTGCG
*
40486240 TATCCTAACCCTTTTATA
1 TATCCTAACCCTTATATA
40486258 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
40486275 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:40486756 original size:49 final size:49
Alignment explanation
Indices: 40486694--40486822 Score: 240
Period size: 49 Copynumber: 2.6 Consensus size: 49
40486684 ACAATTTAGT
40486694 TTATATTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTAT-TTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
*
40486744 TTATTTGATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
1 TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
40486793 TTATTTAATGTAATAAAATACAAAATAGTT
1 TTATTTAATGTAATAAAATACAAAATAGTT
40486823 AATACTCTTA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 73 0.95
50 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (49 bp):
TTATTTAATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATA
Found at i:40489004 original size:20 final size:21
Alignment explanation
Indices: 40488960--40489004 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
40488950 TTAAATTTTA
*
40488960 AATTTTTATAGTTCTTCAAAT
1 AATTTTTATAATTCTTCAAAT
*
40488981 -ATTTTTATAATT-TTTAAAT
1 AATTTTTATAATTCTTCAAAT
40489000 AATTT
1 AATTT
40489005 ACAAGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTTTATAATTCTTCAAAT
Found at i:40489396 original size:10 final size:12
Alignment explanation
Indices: 40489352--40489392 Score: 73
Period size: 12 Copynumber: 3.3 Consensus size: 12
40489342 ACAAAAGATT
40489352 ATATATTTTATA
1 ATATATTTTATA
40489364 ATATATTTTATA
1 ATATATTTTATA
40489376 ATATATTTTTATA
1 ATATA-TTTTATA
40489389 ATAT
1 ATAT
40489393 TTTACTACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATATATTTTATA
Found at i:40492532 original size:28 final size:28
Alignment explanation
Indices: 40492501--40492559 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
40492491 AAGCCCTTTC
*
40492501 TTTT-AAAATTTACCGAAATGGGCCGATT
1 TTTTGAAAATTTACCGAAATGAGCC-ATT
** *
40492529 TTTTGATTATTTACCGGAATGAGCCATT
1 TTTTGAAAATTTACCGAAATGAGCCATT
40492557 TTT
1 TTT
40492560 CGCGAAATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (28 bp):
TTTTGAAAATTTACCGAAATGAGCCATT
Found at i:40492600 original size:25 final size:25
Alignment explanation
Indices: 40492566--40492634 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
40492556 TTTTCGCGAA
40492566 ATCGCGTTCATGTCAGCGCCATGAC
1 ATCGCGTTCATGTCAGCGCCATGAC
40492591 ATCGCGTTCATGTCAGCGCCATGAC
1 ATCGCGTTCATGTCAGCGCCATGAC
* *
40492616 ATCGCGTCCACGTCAGCGC
1 ATCGCGTTCATGTCAGCGC
40492635 GATTTGCTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.22
Consensus pattern (25 bp):
ATCGCGTTCATGTCAGCGCCATGAC
Found at i:40502255 original size:6 final size:6
Alignment explanation
Indices: 40502244--40502268 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
40502234 CTCTCAAAAA
40502244 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
40502269 TAGAGACGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:40502861 original size:18 final size:18
Alignment explanation
Indices: 40502838--40502876 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
40502828 CTGTGTTAGA
40502838 CTTGATATAATTTGTTCG
1 CTTGATATAATTTGTTCG
40502856 CTTGATATAATTTGTTCG
1 CTTGATATAATTTGTTCG
40502874 CTT
1 CTT
40502877 TACTTTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (18 bp):
CTTGATATAATTTGTTCG
Found at i:40507964 original size:96 final size:96
Alignment explanation
Indices: 40507809--40508117 Score: 408
Period size: 96 Copynumber: 3.2 Consensus size: 96
40507799 TTTTATTTGA
* * * *
40507809 TTTTCCTTAAAAACCTTAAATACTAAACCCCAATCTAATTTTTTTTTAAATTTATAATTAATTTA
1 TTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA--TTTTTTAAAATTTATAATTAATTTA
40507874 CTCAAGTAACCCTAAACCCTAATTTATTTAATTT
64 CTCAAGTAACCCTAAACCCTAATTTATTTAA-TT
*
40507908 TTTTCCTT-AAAACCCTAAACACTAAACCCTAATTTAATTTTTTAAAATTTATAATTAATTTACT
1 TTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACT
*
40507972 CAAGTAACCCTAAACTCTAATTTATTTAATT
66 CAAGTAACCCTAAACCCTAATTTATTTAATT
* * * * *
40508003 TTTTCTTTAAAAACCATAAACACTGAACCCTGATCT-ATTTTTTAAAAATTTATAATTAATTTAA
1 TTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTT-AAAATTTATAATTAATTTAC
* ** * *
40508067 TTAAAAAACCCTAAATCCTTATTTATTTAATT
65 TCAAGTAACCCTAAACCCTAATTTATTTAATT
*
40508099 TTTTCCTT-AAATCCCTAAA
1 TTTTCCTTAAAAACCCTAAA
40508118 ATCTAAAAAC
Statistics
Matches: 187, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
95 25 0.13
96 129 0.69
98 25 0.13
99 8 0.04
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.43
Consensus pattern (96 bp):
TTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACT
CAAGTAACCCTAAACCCTAATTTATTTAATT
Found at i:40518204 original size:20 final size:23
Alignment explanation
Indices: 40518174--40518223 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
40518164 TATTCACTAA
40518174 TTAATTTCCTTAAT-A-AATATT
1 TTAATTTCCTTAATAATAATATT
*
40518195 TTAA-TTCCTTAGTAATAATATT
1 TTAATTTCCTTAATAATAATATT
40518217 TT-ATTTC
1 TTAATTTC
40518224 AATAATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.32
21 6 0.24
22 11 0.44
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (23 bp):
TTAATTTCCTTAATAATAATATT
Found at i:40518455 original size:21 final size:22
Alignment explanation
Indices: 40518431--40518480 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
40518421 TACAAATGTT
* *
40518431 TATAAATTTAGT-GAAATAAAA
1 TATAAATTTACTAAAAATAAAA
*
40518452 TATAAAATTACTAAAAATAAAA
1 TATAAATTTACTAAAAATAAAA
*
40518474 TAAAAAT
1 TATAAAT
40518481 AATATATACT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
TATAAATTTACTAAAAATAAAA
Found at i:40521924 original size:24 final size:23
Alignment explanation
Indices: 40521892--40521940 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
40521882 TTAAGTAGGG
*
40521892 TTAGGTTTAGGGTTTTGTAGATT
1 TTAGGTTTAGGGTTGTGTAGATT
*
40521915 TTAGGATTTAGGGTTGTGTAGGTT
1 TTAGG-TTTAGGGTTGTGTAGATT
40521939 TT
1 TT
40521941 TTTATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (23 bp):
TTAGGTTTAGGGTTGTGTAGATT
Found at i:40523570 original size:18 final size:18
Alignment explanation
Indices: 40523547--40523585 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
40523537 ACACAATCCA
**
40523547 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
40523565 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
40523583 AAC
1 AAC
40523586 TCAATAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.44, G:0.03, T:0.13
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:40523710 original size:9 final size:9
Alignment explanation
Indices: 40523693--40523732 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
40523683 GTAGAGATTC
*
40523693 AATTTGGTT
1 AATTCGGTT
40523702 AATTCGGTT
1 AATTCGGTT
*
40523711 AATTCGGGT
1 AATTCGGTT
*
40523720 AATTCAGTT
1 AATTCGGTT
40523729 AATT
1 AATT
40523733 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:40531104 original size:62 final size:62
Alignment explanation
Indices: 40531028--40531151 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
40531018 TATCTTTTCT
* *
40531028 GCAGGAAAAACAAAAGGCGAGAGTAAGAGAAAAAATTGACAAATGTGTTAAAGAAAAATTGG
1 GCAGGAAAAACAAAAAGCGAAAGTAAGAGAAAAAATTGACAAATGTGTTAAAGAAAAATTGG
*
40531090 GCAGGAAAAACAAAAAGCGAAAGTAAGGGAAAAAATTGACAAATGTGTTAAAGAAAAATTGG
1 GCAGGAAAAACAAAAAGCGAAAGTAAGAGAAAAAATTGACAAATGTGTTAAAGAAAAATTGG
40531152 TTGATTTCTG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.54, C:0.06, G:0.25, T:0.15
Consensus pattern (62 bp):
GCAGGAAAAACAAAAAGCGAAAGTAAGAGAAAAAATTGACAAATGTGTTAAAGAAAAATTGG
Found at i:40531847 original size:48 final size:48
Alignment explanation
Indices: 40531795--40531951 Score: 111
Period size: 48 Copynumber: 3.1 Consensus size: 48
40531785 ACAAATGATA
40531795 TATGTTTTGGTGCTGAAGTTTTGTTTTTATTTCTAAGGTTCTTTATAC
1 TATGTTTTGGTGCTGAAGTTTTGTTTTTATTTCTAAGGTTCTTTATAC
* * * ** * * ** * *
40531843 TATGTTGGTTGAATGTGTTAAATTTTTGGCCTTCATTAGCCTAA-GAACAAATGATA-
1 TATGTT--TTG---GTGCTGAAGTTTT-GTTTTTATT--TCTAAGGTTC--TTTATAC
40531899 TATGTTTTGGTGCTGAAGTTTTGTTTTTATTTCTAAGGTTCTTTATAC
1 TATGTTTTGGTGCTGAAGTTTTGTTTTTATTTCTAAGGTTCTTTATAC
40531947 TATGT
1 TATGT
40531952 GGGTTGAATG
Statistics
Matches: 75, Mismatches: 22, Indels: 24
0.62 0.18 0.20
Matches are distributed among these distances:
47 4 0.05
48 15 0.20
49 2 0.03
50 9 0.12
51 10 0.13
53 10 0.13
54 9 0.12
55 2 0.03
56 10 0.13
57 4 0.05
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.50
Consensus pattern (48 bp):
TATGTTTTGGTGCTGAAGTTTTGTTTTTATTTCTAAGGTTCTTTATAC
Found at i:40531881 original size:104 final size:104
Alignment explanation
Indices: 40531755--40531972 Score: 411
Period size: 104 Copynumber: 2.1 Consensus size: 104
40531745 ATCAGAGTGA
40531755 TGTT-AATTTTTGGCCTTCATTAGCCTAAGAACAAATGATATATGTTTTGGTGCTGAAGTTTTGT
1 TGTTAAATTTTTGGCCTTCATTAGCCTAAGAACAAATGATATATGTTTTGGTGCTGAAGTTTTGT
*
40531819 TTTTATTTCTAAGGTTCTTTATACTATGTTGGTTGAATG
66 TTTTATTTCTAAGGTTCTTTATACTATGTGGGTTGAATG
40531858 TGTTAAATTTTTGGCCTTCATTAGCCTAAGAACAAATGATATATGTTTTGGTGCTGAAGTTTTGT
1 TGTTAAATTTTTGGCCTTCATTAGCCTAAGAACAAATGATATATGTTTTGGTGCTGAAGTTTTGT
40531923 TTTTATTTCTAAGGTTCTTTATACTATGTGGGTTGAATG
66 TTTTATTTCTAAGGTTCTTTATACTATGTGGGTTGAATG
40531962 TGTTATAATTT
1 TGTTA-AATTT
40531973 GACTTATCAT
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 4 0.04
104 103 0.92
105 5 0.04
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.48
Consensus pattern (104 bp):
TGTTAAATTTTTGGCCTTCATTAGCCTAAGAACAAATGATATATGTTTTGGTGCTGAAGTTTTGT
TTTTATTTCTAAGGTTCTTTATACTATGTGGGTTGAATG
Found at i:40535351 original size:23 final size:22
Alignment explanation
Indices: 40535305--40535351 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
40535295 AAAGTTCTAA
* *
40535305 TTATTTTATATATTTTGTAAAT
1 TTATATTATATATTTTATAAAT
*
40535327 TTATATTATAATATTTTATATAT
1 TTATATTAT-ATATTTTATAAAT
40535350 TT
1 TT
40535352 TTCAAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATATTATATATTTTATAAAT
Found at i:40545207 original size:25 final size:26
Alignment explanation
Indices: 40545179--40545227 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
40545169 AGAGGAAAGT
40545179 TTAAAGAACATAAAA-GAAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAAA
** *
40545204 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
40545228 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (26 bp):
TTAAAGAACATAAAACGAAAAAAAAA
Found at i:40545376 original size:15 final size:15
Alignment explanation
Indices: 40545356--40545406 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
40545346 ACAACATGAT
40545356 AACGTAAATGATTAA
1 AACGTAAATGATTAA
*
40545371 AACGTAACAT--TTCA
1 AACGTAA-ATGATTAA
* *
40545385 AACATAAATGACTAA
1 AACGTAAATGATTAA
40545400 AACGTAA
1 AACGTAA
40545407 CCTAAGGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.24
Consensus pattern (15 bp):
AACGTAAATGATTAA
Found at i:40552702 original size:16 final size:17
Alignment explanation
Indices: 40552680--40552723 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
40552670 AAATGACTCA
40552680 AAAAAATAAT-TAA-TT
1 AAAAAATAATCTAAGTT
40552695 ACAAAAATAATCTAAGTT
1 A-AAAAATAATCTAAGTT
*
40552713 AAAAAACAATC
1 AAAAAATAATC
40552724 ATCTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 12 0.48
18 3 0.12
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAAATAATCTAAGTT
Found at i:40553197 original size:55 final size:54
Alignment explanation
Indices: 40553105--40553236 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
40553095 TTTCATGTGT
* ** * *
40553105 TGGGACACTGATGGCTGGCATTCTTGTACCAGATTTGAGAAAAAAAATTGGGTGC
1 TGGGACACTGATGGCCGGCACCCTTATACCAGATTTGA-AAAAAAAATTGAGTGC
* * *
40553160 TGGGATACTGGTGGCCGGCACCCTTATACCAGATTTGAAAAAAAAATTGAGTGT
1 TGGGACACTGATGGCCGGCACCCTTATACCAGATTTGAAAAAAAAATTGAGTGC
*
40553214 TGGGACACTGATGGCCGGTACCC
1 TGGGACACTGATGGCCGGCACCC
40553237 ACTTAGTTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 34 0.52
55 32 0.48
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (54 bp):
TGGGACACTGATGGCCGGCACCCTTATACCAGATTTGAAAAAAAAATTGAGTGC
Found at i:40553229 original size:54 final size:55
Alignment explanation
Indices: 40553101--40553236 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 55
40553091 TTTTTTTCAT
* ** * *
40553101 GTGTTGGGACACTGATGGCTGGCATTCTTGTACCAGATTTGAGAAAAAAAATTGG
1 GTGTTGGGACACTGATGGCCGGCACCCTTATACCAGATTTGAGAAAAAAAATTGA
* * *
40553156 GTGCTGGGATACTGGTGGCCGGCACCCTTATACCAGATTTGA-AAAAAAAATTGA
1 GTGTTGGGACACTGATGGCCGGCACCCTTATACCAGATTTGAGAAAAAAAATTGA
*
40553210 GTGTTGGGACACTGATGGCCGGTACCC
1 GTGTTGGGACACTGATGGCCGGCACCC
40553237 ACTTAGTTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 34 0.49
55 35 0.51
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (55 bp):
GTGTTGGGACACTGATGGCCGGCACCCTTATACCAGATTTGAGAAAAAAAATTGA
Found at i:40553817 original size:21 final size:21
Alignment explanation
Indices: 40553792--40553851 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
40553782 TGTTGGTCGG
*
40553792 ATTTTATATTTTCGTATATAA
1 ATTTTATATTTTCGTACATAA
**
40553813 ATTTTATATTTTAATACATAA
1 ATTTTATATTTTCGTACATAA
*
40553834 ATTATAAATATTTTCGTA
1 ATT-T-TATATTTTCGTA
40553852 AATTAGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 21 0.68
22 1 0.03
23 9 0.29
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTATATTTTCGTACATAA
Found at i:40559034 original size:30 final size:30
Alignment explanation
Indices: 40558998--40559054 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
40558988 ACACACGCCC
40558998 GTATACATCAAAACTACTCCATTACATTTT
1 GTATACATCAAAACTACTCCATTACATTTT
40559028 GTATACATCAAAACTACTCCATTACAT
1 GTATACATCAAAACTACTCCATTACAT
40559055 ACAATGACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.33
Consensus pattern (30 bp):
GTATACATCAAAACTACTCCATTACATTTT
Found at i:40560441 original size:15 final size:15
Alignment explanation
Indices: 40560421--40560450 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40560411 AATAATAATT
40560421 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
40560436 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
40560451 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:40563308 original size:46 final size:45
Alignment explanation
Indices: 40563239--40563469 Score: 214
Period size: 36 Copynumber: 5.5 Consensus size: 45
40563229 TTTGAGTACT
* *
40563239 TCTGATCAAGAGATAAAGTGATAAATGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAATGGTAGC-TTAGCTACACTTA
* *
40563285 TTTGATCAAGTGAAAAAGTGAT--A----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAATGGTAGCTTAGCTACACTTA
* * * *
40563321 TCTGATCAAGAGGCAAAGTGATAAGTGGTAGCTTTAGTTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAATGGTAGC-TTAGCTACACTTA
*
40563367 TCTGATCAAGTGAAAAAGTGAT-AA--GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAATGGTAGCTTAGCTACACTTA
*
40563403 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAATGGTAGCTTAGCTACACTTA
40563448 TCTGATCAAG-GACAAA-TGATAA
1 TCTGATCAAGTGACAAAGTGATAA
40563470 GTGATCATAC
Statistics
Matches: 151, Mismatches: 15, Indels: 41
0.73 0.07 0.20
Matches are distributed among these distances:
36 54 0.36
37 2 0.01
38 1 0.01
39 2 0.01
40 6 0.04
41 2 0.01
42 4 0.03
43 9 0.06
44 7 0.05
45 17 0.11
46 47 0.31
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAATGGTAGCTTAGCTACACTTA
Found at i:40563376 original size:82 final size:82
Alignment explanation
Indices: 40563239--40563472 Score: 375
Period size: 82 Copynumber: 2.9 Consensus size: 82
40563229 TTTGAGTACT
* * *
40563239 TCTGATCAAGAGATAAAGTGATAAATGGTAGCTTTAGCTACACTTATTTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
40563304 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
40563321 TCTGATCAAGAGGCAAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
40563386 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* *
40563403 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GACAAA-T
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
40563465 GATAAGTG
66 GATAAGTG
40563473 ATCATACGTA
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 9 0.06
80 5 0.04
81 22 0.15
82 106 0.75
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:40563666 original size:35 final size:35
Alignment explanation
Indices: 40563620--40563691 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
40563610 AGTGAGTTTA
*
40563620 TACCAAGGAACTCACCAAAGATTGTGGTTGACAGG
1 TACCAAGGAACTCACCAAAGATAGTGGTTGACAGG
40563655 TACCAAGGAACTCACCAAAGATAGTGGTTGACAGG
1 TACCAAGGAACTCACCAAAGATAGTGGTTGACAGG
40563690 TA
1 TA
40563692 AACTTAGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (35 bp):
TACCAAGGAACTCACCAAAGATAGTGGTTGACAGG
Found at i:40565065 original size:58 final size:58
Alignment explanation
Indices: 40564998--40565114 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
40564988 AGTGTAAAAA
40564998 TTTCATTAAGAAATTTTACCGTTTAAATACTTAATTTAATTAAAAGAATTTAATCGCG
1 TTTCATTAAGAAATTTTACCGTTTAAATACTTAATTTAATTAAAAGAATTTAATCGCG
*
40565056 TTTCATTAAGAAATTTTATCGTTTAAATACTTAATTTAATTAAAAGAATTTAATCGCG
1 TTTCATTAAGAAATTTTACCGTTTAAATACTTAATTTAATTAAAAGAATTTAATCGCG
40565114 T
1 T
40565115 CAAATGCAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (58 bp):
TTTCATTAAGAAATTTTACCGTTTAAATACTTAATTTAATTAAAAGAATTTAATCGCG
Found at i:40565425 original size:68 final size:68
Alignment explanation
Indices: 40565316--40565449 Score: 259
Period size: 68 Copynumber: 2.0 Consensus size: 68
40565306 AACAAAACAT
40565316 GAAAAATCAATGATCCATTCTTCTATACTGTCGAATTAACAAAGGAAAGAAAGCTTATGAGAAAA
1 GAAAAATCAATGATCCATTCTTCTATACTGTCGAATTAACAAAGGAAAGAAAGCTTATGAGAAAA
40565381 GAA
66 GAA
*
40565384 GAAAAATCAATGATCCATTCTTCTATACTGTCGAATTAACAAAGGAAAGAAAGCTTATGAGCAAA
1 GAAAAATCAATGATCCATTCTTCTATACTGTCGAATTAACAAAGGAAAGAAAGCTTATGAGAAAA
40565449 G
66 G
40565450 TAGGGTTCGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (68 bp):
GAAAAATCAATGATCCATTCTTCTATACTGTCGAATTAACAAAGGAAAGAAAGCTTATGAGAAAA
GAA
Found at i:40566472 original size:23 final size:23
Alignment explanation
Indices: 40566446--40566537 Score: 80
Period size: 23 Copynumber: 3.9 Consensus size: 23
40566436 GGACTCACCA
40566446 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
40566469 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
40566492 CAGCTCG-ATAGAGCTTACCGTTTAT
1 CAGCTTGTAT-GAGCTTACCG-TT-T
* *
40566517 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
40566538 ATCATGGCTC
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.05
23 32 0.57
24 2 0.04
25 6 0.11
26 11 0.20
27 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:40567315 original size:58 final size:58
Alignment explanation
Indices: 40567245--40567359 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
40567235 TGGTTGAAAT
40567245 ACTGGAATTGAGTTGGTTATATTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGC
1 ACTGGAATTGAGTTGGTTATATTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGC
*
40567303 ACTGGAATTGAGTTGGTTATATTTGAAATTTTGCAGGGGGTTTATTGTAAAAATAAG
1 ACTGGAATTGAGTTGGTTATATTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAG
40567360 TCGAAATGCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.37
Consensus pattern (58 bp):
ACTGGAATTGAGTTGGTTATATTTGAAATTTTGCAGGGGGTTTAATGTAAAAATAAGC
Found at i:40576397 original size:15 final size:16
Alignment explanation
Indices: 40576377--40576411 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
40576367 ATCCTGCTAC
*
40576377 AATAATAACA-ATGTA
1 AATAATAAAAGATGTA
40576392 AATAATAAAAGATGTA
1 AATAATAAAAGATGTA
40576408 AATA
1 AATA
40576412 TTATTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.26
Consensus pattern (16 bp):
AATAATAAAAGATGTA
Found at i:40576611 original size:60 final size:57
Alignment explanation
Indices: 40576511--40576628 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 57
40576501 CTATGTTTTA
* * * * * * *
40576511 TCACTTAATTATGAAAAGTTATAATATTATCATCCTATTATGGTTTTTATTCTTTTTTGG
1 TCACTCAACTATGAAAAGTTACAAAATGATCATCCAATTAT--TATTT-TTCTTTTTTGG
*
40576571 TCACTCAACTATGAAAAGTTACAAAATGATCATTCAATTATTATTTTTCTTTTTTGG
1 TCACTCAACTATGAAAAGTTACAAAATGATCATCCAATTATTATTTTTCTTTTTTGG
40576628 T
1 T
40576629 TACCCAACCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 12 0.24
58 4 0.08
60 34 0.68
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (57 bp):
TCACTCAACTATGAAAAGTTACAAAATGATCATCCAATTATTATTTTTCTTTTTTGG
Found at i:40577541 original size:18 final size:17
Alignment explanation
Indices: 40577520--40577584 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
40577510 TAAAAAAATT
*
40577520 TAAAAATTATTTTAAAAA
1 TAAAAAATA-TTTAAAAA
40577538 TAAAAAATATTTAAAATA
1 TAAAAAATATTTAAAA-A
*
40577556 TTTAAAAATA--TAAAACA
1 -TAAAAAATATTTAAAA-A
40577573 TAAAAAATATTT
1 TAAAAAATATTT
40577585 TGTAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 8 0.21
17 13 0.33
18 10 0.26
19 8 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAAATATTTAAAAA
Found at i:40577559 original size:26 final size:25
Alignment explanation
Indices: 40577496--40577584 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 25
40577486 GCAATTAGTT
40577496 AAAT-TTTAAAATTATAAAAAAATTTAA
1 AAATATTTAAAA--ATAAAAAAATTT-A
40577523 AAATTATTTTAAAAATAAAAAATATTTA
1 AAA-TA-TTTAAAAATAAAAAA-ATTTA
* **
40577551 AAATATTTAAAAATATAAAACATAAA
1 AAATATTTAAAAATA-AAAAAATTTA
40577577 AAATATTT
1 AAATATTT
40577585 TGTAAAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
26 21 0.39
27 9 0.17
28 13 0.24
29 4 0.07
30 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATTTAAAAATAAAAAAATTTA
Found at i:40577611 original size:10 final size:10
Alignment explanation
Indices: 40577581--40577610 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
40577571 CATAAAAAAT
40577581 ATTTTGTAAA
1 ATTTTGTAAA
40577591 ATTTTGTAAA
1 ATTTTGTAAA
40577601 ATTTT-TAAA
1 ATTTTGTAAA
40577610 A
1 A
40577611 AATAGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (10 bp):
ATTTTGTAAA
Found at i:40578399 original size:18 final size:18
Alignment explanation
Indices: 40578376--40578412 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
40578366 TCTTAGTCAA
40578376 CAAGAAAGTTTAGTTCTG
1 CAAGAAAGTTTAGTTCTG
40578394 CAAGAAAGTTTAGTTCTG
1 CAAGAAAGTTTAGTTCTG
40578412 C
1 C
40578413 TAAAACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (18 bp):
CAAGAAAGTTTAGTTCTG
Found at i:40580244 original size:28 final size:30
Alignment explanation
Indices: 40580213--40580274 Score: 92
Period size: 28 Copynumber: 2.1 Consensus size: 30
40580203 TATTTTTTGT
*
40580213 AAAAATTATAAATATATT-TAA-TAAATAA
1 AAAAATTAAAAATATATTATAATTAAATAA
*
40580241 AAAATTTAAAAATATATTATAATTAAATAA
1 AAAAATTAAAAATATATTATAATTAAATAA
40580271 AAAA
1 AAAA
40580275 TAATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 16 0.53
29 3 0.10
30 11 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAATTAAAAATATATTATAATTAAATAA
Found at i:40580573 original size:22 final size:22
Alignment explanation
Indices: 40580548--40580593 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
40580538 AATTGGATTT
*
40580548 AAAATTTAAAATTTAAAAAATA
1 AAAAATTAAAATTTAAAAAATA
*
40580570 AAAAATTAAAATTTTAAAAATA
1 AAAAATTAAAATTTAAAAAATA
40580592 AA
1 AA
40580594 TAAAAGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAATTAAAATTTAAAAAATA
Found at i:40583088 original size:54 final size:53
Alignment explanation
Indices: 40583004--40583107 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 53
40582994 TAAAATTCGA
* ** * *
40583004 TGGCTAGTACTAGTCGGGGTATGAACATAACCCTAATCTTGATATTTGGGCNGG
1 TGGCTAGTACCAGTCAAGGTATGAACATAACCCTAATATCGATATTTGGGC-GG
* *
40583058 TGGCTAGTACCAGTCAAGGTTTGAGCATAACCCTAATATCGATATTTGGG
1 TGGCTAGTACCAGTCAAGGTATGAACATAACCCTAATATCGATATTTGGG
40583108 GTCGGCATTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (53 bp):
TGGCTAGTACCAGTCAAGGTATGAACATAACCCTAATATCGATATTTGGGCGG
Found at i:40587502 original size:76 final size:76
Alignment explanation
Indices: 40587384--40587527 Score: 288
Period size: 76 Copynumber: 1.9 Consensus size: 76
40587374 CACTTGTGAC
40587384 AAAAAAAAAAAAAAAGGTTTAGGTGCAACCTTGGGAAAATGGGTATAGTTTAGGTCCATTTTTGT
1 AAAAAAAAAAAAAAAGGTTTAGGTGCAACCTTGGGAAAATGGGTATAGTTTAGGTCCATTTTTGT
40587449 GATTTGTGAAA
66 GATTTGTGAAA
40587460 AAAAAAAAAAAAAAAGGTTTAGGTGCAACCTTGGGAAAATGGGTATAGTTTAGGTCCATTTTTGT
1 AAAAAAAAAAAAAAAGGTTTAGGTGCAACCTTGGGAAAATGGGTATAGTTTAGGTCCATTTTTGT
40587525 GAT
66 GAT
40587528 CTAAGCCATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.30
Consensus pattern (76 bp):
AAAAAAAAAAAAAAAGGTTTAGGTGCAACCTTGGGAAAATGGGTATAGTTTAGGTCCATTTTTGT
GATTTGTGAAA
Found at i:40594636 original size:17 final size:17
Alignment explanation
Indices: 40594614--40594653 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
40594604 TTATATCTTA
40594614 TTTTGAGTAAATGTTTC
1 TTTTGAGTAAATGTTTC
* *
40594631 TTTTGAGTATATTTTTC
1 TTTTGAGTAAATGTTTC
*
40594648 CTTTGA
1 TTTTGA
40594654 CTCCTCTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.57
Consensus pattern (17 bp):
TTTTGAGTAAATGTTTC
Found at i:40597997 original size:15 final size:16
Alignment explanation
Indices: 40597977--40598008 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
40597967 ATTTTTAAGT
40597977 TTATAATA-TTTTATA
1 TTATAATATTTTTATA
40597992 TTATAATATTTTTATA
1 TTATAATATTTTTATA
40598008 T
1 T
40598009 ATTATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATAATATTTTTATA
Found at i:40598156 original size:16 final size:15
Alignment explanation
Indices: 40598121--40598162 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
40598111 ATAAACAAAA
* *
40598121 AAATATAAAATTATT
1 AAATATAAAAATAAT
40598136 AAATATAAAAATAAT
1 AAATATAAAAATAAT
40598151 ATAATATAAAAA
1 A-AATATAAAAA
40598163 AATTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATAAAAATAAT
Found at i:40603999 original size:79 final size:79
Alignment explanation
Indices: 40603880--40604061 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 79
40603870 GAACATATCG
* * * * *
40603880 ACCTCTT-GTCCTTCCTAAT-AATATGAAACTCACATTATTTT-TCGATTCTATTGTACATAAAA
1 ACCTCTTCGCCCTTCCTAATCAATATGAAACTCACATAATTTTCT-GACTCCATTATACATAAAA
40603942 CATAT-TAATTCCAAA
65 CATATCT-ATTCCAAA
* * * * * *
40603957 ATCTTTTTGCCCTTCCTAATCAATATGGAATTCACATAATTTTCTGACTCCATTATACATAGAAC
1 ACCTCTTCGCCCTTCCTAATCAATATGAAACTCACATAATTTTCTGACTCCATTATACATAAAAC
*
40604022 ATATCTATTCCAAG
66 ATATCTATTCCAAA
* *
40604036 ACCTCTTCGTCCTTCCTAACCAATAT
1 ACCTCTTCGCCCTTCCTAATCAATAT
40604062 AGAACCAACG
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
77 5 0.06
78 11 0.13
79 67 0.79
80 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (79 bp):
ACCTCTTCGCCCTTCCTAATCAATATGAAACTCACATAATTTTCTGACTCCATTATACATAAAAC
ATATCTATTCCAAA
Found at i:40604164 original size:146 final size:146
Alignment explanation
Indices: 40603988--40604272 Score: 398
Period size: 146 Copynumber: 2.0 Consensus size: 146
40603978 AATATGGAAT
*
40603988 TCACATAATTTTCTGACTCCATTATACATAGAACATATCTAT-TCCAAGACCTCTTCGTC-CTTC
1 TCACATAATTTTCTGACTCCATGATACATAGAACATATC-ATGTCCAAGACCTCTTCG-CACTTC
* * * *
40604051 CTAACCAATATAGAACC-AACGTTGCTTTCCGACTCCATTAAACATATCAACTAAGACCTCTTTG
64 CTAACCAATATAG-ACCTAACATCGCTTTCCGACTCCAATAAACATATCAACCAAGACCTCTTTG
40604115 CCTTCCAAATCAATATTTG
128 CCTTCCAAATCAATATTTG
* * *
40604134 TCACATCATTTTTTGACTCCACTGA-ACATAGAACATATCATGTCCAATACCTCTTCGCACTTCC
1 TCACATAATTTTCTGACTCCA-TGATACATAGAACATATCATGTCCAAGACCTCTTCGCACTTCC
* * *
40604198 TAACCAATATAGACCTTACATCGCTTTCCGACTCCAATGAACATATCAACCAAGGCCTCTTTGCC
65 TAACCAATATAGACCTAACATCGCTTTCCGACTCCAATAAACATATCAACCAAGACCTCTTTGCC
*
40604263 TTCCTAATCA
130 TTCCAAATCA
40604273 TTATGGAACT
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
145 6 0.05
146 115 0.93
147 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.32
Consensus pattern (146 bp):
TCACATAATTTTCTGACTCCATGATACATAGAACATATCATGTCCAAGACCTCTTCGCACTTCCT
AACCAATATAGACCTAACATCGCTTTCCGACTCCAATAAACATATCAACCAAGACCTCTTTGCCT
TCCAAATCAATATTTG
Found at i:40604432 original size:78 final size:77
Alignment explanation
Indices: 40604237--40604460 Score: 240
Period size: 78 Copynumber: 2.9 Consensus size: 77
40604227 GACTCCAATG
* * * * *
40604237 AACATATCAACCAAGGCCTC-TTTGCCTTCCTAATCATTATGGAACTCAAATCATTTTTCGATTC
1 AACATATCAACCAAGACCTCTTTTCCCTTCCTAATCAATATGGAACTCACATCATTTTTCGACTC
*
40604301 CATTCTATGTAG
66 CATTCTATGTAA
* * * * *
40604313 AACATATAAATTCCAATACCTCTTTGCCCTTCCTAACCAATAT-GAGACTCGCATCATTTTTCGA
1 AACATATCAA--CCAAGACCTCTTTTCCCTTCCTAATCAATATGGA-ACTCACATCATTTTTCGA
*
40604377 CTCCATTGTAT-TAAAA
63 CTCCATTCTATGT--AA
* *
40604393 AACATTTCAACCAAGACCTCTTTTCCCTTCCTAATCAATATGGAACTCACATC-GTTTTCTGACT
1 AACATATCAACCAAGACCTCTTTTCCCTTCCTAATCAATATGGAACTCACATCATTTTTC-GACT
40604457 CCAT
65 CCAT
40604461 AGAACATATC
Statistics
Matches: 121, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
76 9 0.07
77 5 0.04
78 55 0.45
79 43 0.36
80 9 0.07
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (77 bp):
AACATATCAACCAAGACCTCTTTTCCCTTCCTAATCAATATGGAACTCACATCATTTTTCGACTC
CATTCTATGTAA
Found at i:40607476 original size:26 final size:26
Alignment explanation
Indices: 40607437--40607489 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
40607427 GACTCAAATA
*
40607437 TATCAATTCCAATACCTCTTTTCCCT
1 TATCAATTCCAATACCTCTTTGCCCT
*
40607463 TATCAATTCTAATACCTCTTTGCCCT
1 TATCAATTCCAATACCTCTTTGCCCT
40607489 T
1 T
40607490 CCTAACCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.32, G:0.02, T:0.43
Consensus pattern (26 bp):
TATCAATTCCAATACCTCTTTGCCCT
Found at i:40607572 original size:78 final size:79
Alignment explanation
Indices: 40607467--40607690 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 79
40607457 TTCCCTTATC
* * * *
40607467 AATTCTAATACCTCTTTGCCCTTCCTAACCAATATGGGACTCGCATCGTTTTCCAACTCTACTAT
1 AATTCCAAGACCTCTTTGCCCTTCCTAACCAATATGGGACTCGCATCGTTTTCCGACTCCACTAT
40607532 AT-TA-AAGA-ACA
66 ATGTAGAAGATACA
* * * * * *
40607543 TATTGACCAAGACCTCTTTGCCCTCCCTAATCAATATGGAACTCACAATCGTTTTCCGACTCCAT
1 AATT--CCAAGACCTCTTTGCCCTTCCTAACCAATATGGGACTCGC-ATCGTTTTCCGACTCCAC
* *
40607608 TGTATGTAGAAGATATA
63 TATATGTAGAAGATACA
* * * * *
40607625 AATTCCAATACCTCTTTACCCTTCCTAACTAATATGGGACTTGCATCATTTTCCGACTCCACTAT
1 AATTCCAAGACCTCTTTGCCCTTCCTAACCAATATGGGACTCGCATCGTTTTCCGACTCCACTAT
40607690 A
66 A
40607691 CAAAAAACCA
Statistics
Matches: 118, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
76 3 0.03
78 34 0.29
79 38 0.32
80 34 0.29
81 4 0.03
82 5 0.04
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (79 bp):
AATTCCAAGACCTCTTTGCCCTTCCTAACCAATATGGGACTCGCATCGTTTTCCGACTCCACTAT
ATGTAGAAGATACA
Found at i:40610179 original size:4 final size:4
Alignment explanation
Indices: 40610170--40610199 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
40610160 ATTTTTTATG
*
40610170 ATTA ATTA ATTA ATTA ATTA ATTA ACTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
40610200 GTTGGTGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:40627077 original size:21 final size:21
Alignment explanation
Indices: 40627053--40627093 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
40627043 TAATTAATTT
40627053 TAAAT-TTTTATGATATAAAAA
1 TAAATATTTTAT-ATATAAAAA
*
40627074 TAAATATTTTATATTTAAAA
1 TAAATATTTTATATATAAAA
40627094 TGGCGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATATTTTATATATAAAAA
Found at i:40627245 original size:26 final size:26
Alignment explanation
Indices: 40627214--40627270 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
40627204 ATATTTTATC
40627214 AAAATAAGTCTGAAAATTCAAAATAA
1 AAAATAAGTCTGAAAATTCAAAATAA
* *
40627240 AAAATAAGTTTGAAATTTCAAAATAA
1 AAAATAAGTCTGAAAATTCAAAATAA
40627266 AAAAT
1 AAAAT
40627271 TAATATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.26
Consensus pattern (26 bp):
AAAATAAGTCTGAAAATTCAAAATAA
Found at i:40627279 original size:26 final size:26
Alignment explanation
Indices: 40627214--40627281 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
40627204 ATATTTTATC
*
40627214 AAAATAAGTCTGAAAATTCAAAATAA
1 AAAATAAGTATGAAAATTCAAAATAA
* *
40627240 AAAATAAGTTTGAAATTTCAAAATAA
1 AAAATAAGTATGAAAATTCAAAATAA
40627266 AAAATTAA-TATGAAAA
1 AAAA-TAAGTATGAAAA
40627282 AATTGAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 34 0.92
27 3 0.08
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.26
Consensus pattern (26 bp):
AAAATAAGTATGAAAATTCAAAATAA
Found at i:40629814 original size:122 final size:122
Alignment explanation
Indices: 40629317--40630698 Score: 1738
Period size: 122 Copynumber: 11.3 Consensus size: 122
40629307 TGCCTATTCT
* * * ** * * *
40629317 GTATCGATAGGTTAGAAGTA-ACAGATTCATATTCGTTTGGA-TTATAGAAACATAAGACCTATT
1 GTATCGGTAGGTTAGAAGTAGCCA-ATTCATATTTGTTCAGAGCTACAGAAACATAAAACCTATT
* * * * * *
40629380 TACTTCGA-TTTCAGCTCATAGAAATTAACATTTAGCTGCCTCATTGAGTTCCATTTT
65 CACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* * *
40629437 GTATGGGTAGGTTAGAGGTAGCCAATTCATATTAGTTCAGAGCTACAGAAACATAAAACCCTATT
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAA-CCTATT
*
40629502 CACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTT
65 CACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* * * *
40629560 GTATCAGTAGCTTAGAAGTAGCCAATTCATATTTGTCCAGAGCTGCAGAAACATAAAAACCTATT
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACAT-AAAACCTATT
* *
40629625 CACTTTGATTTTTAGCTCATAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
65 CACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* * * *
40629683 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCACAACTACAGAAACATGAAATCTATTC
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAACCTATTC
* * * * ** *
40629748 A-TTTCGATTTTCAGCTCACAGGAATGAACATTTAGCTGGCTTATTGAGGGCTGTTTT
66 ACTTT-GATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* ** *
40629805 GTATTGGTAGGTTAGAAGTAGGAAATTCATATTTGTTGAGAGCTACAGAAACATAAAACCTATTC
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAACCTATTC
* * * * * *
40629870 ACTTCGATTTTCATCTCACAGAAATGAACGTTTTGCTGCCTCATTTAGGTCTATTTC
66 ACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* * *
40629927 ATATCGGTTGGTTAGAAGTAGCCAATTCATTATTAGTTCAGAGCTACAGAAAACATAAAAACCTA
1 GTATCGGTAGGTTAGAAGTAGCCAATTCA-TATTTGTTCAGAGCTACAG-AAACAT-AAAACCTA
* * * *
40629992 TTCGCTTTTGATTTTCAGCTCACAGAAATGAACATTTAGCCGCTTCATTGAGGTACATTTC
63 TTCAC-TTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* * * * * *
40630053 GTATCGGTAGGTCAGAAGTAGCCAATACATATTTGTTCAGGGTTACTGAAACATAAAATCTA-T-
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAACCTATTC
* ** * *
40630116 --TTTGGTTTTCAGCTCATGGAAGTGAACATTTAGCTGCCTCATTGAGGTCCATTTT
66 ACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* *
40630171 GTATCAGTAGGTTAGAAGTAGGCAATTCATATTTGTTCAGAGCTACAGAAACATAAAAACCTATT
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACAT-AAAACCTATT
*
40630236 CACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTACATTTC
65 CACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* * * * * *
40630294 GTATCGATAGGTCAGAAGTAGCCAATTCATATTTGTTCAGGGTTACGGAAACATAAAATCTATTC
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAACCTATTC
** * *
40630359 ACTTTGATTTTCAGCTCATGGAAATGAACATTTAGCTGACTCATTGAGGTCCATTTT
66 ACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* *
40630416 GTATCGGTAGGTTAGAAGTAGGCAATTCATATTTGTTCAGAGCTACATAAACATAAAACCTATTC
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAACCTATTC
* * *
40630481 ACTTTGGTTTTCAGCTCACAGAAACGAACATTTAGCTGCCTCTTTGAGGTCCATTTC
66 ACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
* * *
40630538 GTATTGGTAGGTTAGAACTAGCCAATTCATATTTGTTCAGAGCTACAGAAACAAAAAAACCTATT
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAAC-ATAAAACCTATT
* * * * **
40630603 CACTCTCGATTTTCAACTCAAAGAAATGAACATTTAGCTGCCACATCAAGGT-CAGTTTC
65 CACT-TTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCA-TTTC
* * * * *
40630662 GTAGCAGTAGGTTAAAAGTAGTCAACTCATATTTGTT
1 GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTT
40630699 TCAATTTTCA
Statistics
Matches: 1085, Mismatches: 158, Indels: 34
0.85 0.12 0.03
Matches are distributed among these distances:
118 94 0.09
119 7 0.01
120 32 0.03
121 18 0.02
122 407 0.38
123 341 0.31
124 88 0.08
125 27 0.02
126 71 0.07
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (122 bp):
GTATCGGTAGGTTAGAAGTAGCCAATTCATATTTGTTCAGAGCTACAGAAACATAAAACCTATTC
ACTTTGATTTTCAGCTCACAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTC
Found at i:40630772 original size:91 final size:91
Alignment explanation
Indices: 40630611--40631111 Score: 637
Period size: 91 Copynumber: 5.5 Consensus size: 91
40630601 TTCACTCTCG
* * ** ***
40630611 ATTTTCAACTCAAAGAAATGAACATTTAGCTGCCACATCAAGGT-CAGTTTCGTAGCAGTAGGTT
1 ATTTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATTGAGGTCCA-TTTCGTATTGGTAGGTT
* *
40630675 AAAAGTAGTCAACTCATATTTGTTTCA
65 AGAAGTAGCCAACTCATATTTGTTTCA
* * * * *
40630702 ATTTTCAGCTCACAGAATTGAATATGTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGCTTA
1 ATTTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGGTTA
* * *
40630767 GAAGTAGCCGACTCATATTTGCTTCC
66 GAAGTAGCCAACTCATATTTGTTTCA
* * * *
40630793 ATTTTCAGCTCAAAGAAATGAACATTTAGCTGCGTCGTTGAGATCCATTTCGTATTGGTAGCTTA
1 ATTTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGGTTA
** * *
40630858 GAAGTAGCTGACGCATATTTGCTTC-
66 GAAGTAGCCAACTCATATTTGTTTCA
* * * ** *
40630883 GTCTTTCAGCTCAAAGAAATGAACATTTAGCTGACTCATTGAGATATATTTCGTAGTGGTAGGTT
1 AT-TTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGGTT
40630948 AGAAGTAGCCAACTCATATTTGTTTCA
65 AGAAGTAGCCAACTCATATTTGTTTCA
* * **
40630975 ATTTTCAGCTCATAGAAATGAACATTTAGCTGTCTCATTGAGGTCCATTTCGTATCAGTAGGTTA
1 ATTTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGGTTA
40631040 GAAGTAGCCAACTCATATTTGTTTCA
66 GAAGTAGCCAACTCATATTTGTTTCA
* *
40631066 ATTTTCAGCTCATAGAAATGAACATTTAGCTGCCTCGTTGAGGTCC
1 ATTTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATTGAGGTCC
40631112 TACAGCGATG
Statistics
Matches: 358, Mismatches: 49, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
90 1 0.00
91 354 0.99
92 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (91 bp):
ATTTTCAGCTCAAAGAAATGAACATTTAGCTGCCTCATTGAGGTCCATTTCGTATTGGTAGGTTA
GAAGTAGCCAACTCATATTTGTTTCA
Found at i:40631106 original size:273 final size:273
Alignment explanation
Indices: 40630613--40631107 Score: 758
Period size: 273 Copynumber: 1.8 Consensus size: 273
40630603 CACTCTCGAT
* * *
40630613 TTTCAACTCAAAGAAATGAACATTTAGCTGCCACATCAAGGTCAGTTTCGTAGCAGTAGGTTAAA
1 TTTCAACTCAAAGAAATGAACATTTAGCTGACACATCAAGATCAATTTCGTAGCAGTAGGTTAAA
* * *
40630678 AGTAGTCAACTCATATTTGTTTCAATTTTCAGCTCACAGAATTGAATATGTAGCTGCCTCATTGA
66 AGTAGCCAACTCATATTTGTTTCAATTTTCAGCTCACAGAAATGAACATGTAGCTGCCTCATTGA
** * *
40630743 GGTCCATTTCGTATTGGTAGCTTAGAAGTAGCCGACTCATATTTGCTTCCATTTTCAGCTCAAAG
131 GGTCCATTTCGTATCAGTAGCTTAGAAGTAGCCAACTCATATTTGCTTCAATTTTCAGCTCAAAG
*
40630808 AAATGAACATTTAGCTGCGTCGTTGAGATCCATTTCGTATTGGTAGCTTAGAAGTAGCTGACGCA
196 AAATGAACATTTAGCTGCCTCGTTGAGATCCATTTCGTATTGGTAGCTTAGAAGTAGCTGACGCA
40630873 TATTTGCTTCGTC
261 TATTTGCTTCGTC
* * ** ** *
40630886 TTTCAGCTCAAAGAAATGAACATTTAGCTGACTCATTGAGAT-ATATTTCGTAGTGGTAGGTTAG
1 TTTCAACTCAAAGAAATGAACATTTAGCTGACACATCAAGATCA-ATTTCGTAGCAGTAGGTTAA
* * *
40630950 AAGTAGCCAACTCATATTTGTTTCAATTTTCAGCTCATAGAAATGAACATTTAGCTGTCTCATTG
65 AAGTAGCCAACTCATATTTGTTTCAATTTTCAGCTCACAGAAATGAACATGTAGCTGCCTCATTG
* * *
40631015 AGGTCCATTTCGTATCAGTAGGTTAGAAGTAGCCAACTCATATTTGTTTCAATTTTCAGCTCATA
130 AGGTCCATTTCGTATCAGTAGCTTAGAAGTAGCCAACTCATATTTGCTTCAATTTTCAGCTCAAA
40631080 GAAATGAACATTTAGCTGCCTCGTTGAG
195 GAAATGAACATTTAGCTGCCTCGTTGAG
40631108 GTCCTACAGC
Statistics
Matches: 197, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
272 1 0.01
273 196 0.99
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (273 bp):
TTTCAACTCAAAGAAATGAACATTTAGCTGACACATCAAGATCAATTTCGTAGCAGTAGGTTAAA
AGTAGCCAACTCATATTTGTTTCAATTTTCAGCTCACAGAAATGAACATGTAGCTGCCTCATTGA
GGTCCATTTCGTATCAGTAGCTTAGAAGTAGCCAACTCATATTTGCTTCAATTTTCAGCTCAAAG
AAATGAACATTTAGCTGCCTCGTTGAGATCCATTTCGTATTGGTAGCTTAGAAGTAGCTGACGCA
TATTTGCTTCGTC
Found at i:40631962 original size:172 final size:170
Alignment explanation
Indices: 40631667--40631999 Score: 522
Period size: 172 Copynumber: 1.9 Consensus size: 170
40631657 TTTTTAATGT
*
40631667 TGGTCTACAATTTTACTCAAGGTAATTAATATTGTACTAGTGAATGCATCATTTTTCTATTGAAA
1 TGGTCTACAATTTTACTCAAAGTAATTAATATTGTACTAGTGAATGCATCATTTTTCTATTGAAA
* *
40631732 CTGATGTGTATTGGTATTGGTCTAATTCGGTGTATCATTTTGGATTTAGTCATATTTTTGGGAAA
66 CTGATGTGTATTAGTATTGGTCCAATTCGGTGTATCATTTTGGATTTAGTCATATTTTTGGGAAA
* *
40631797 AAAATTTTTAATGTATGCATATAAAAATATTTAAGGTTGATG
131 AAAA--ATTAATATATGCATATAAAAATATTTAAGGTTGATG
* * * * *
40631839 TGGTTTACAATTTTACTCAAAGTAATTCATATTGTACTAGTGGATGCATCATTTTTTTATTGGAA
1 TGGTCTACAATTTTACTCAAAGTAATTAATATTGTACTAGTGAATGCATCATTTTTCTATTGAAA
** * *
40631904 CTGATGTGTATTAGTATTGGTCCGTTTTGGTGTATCATTTTGGATTTAGTCGTATTTTTGGGAAA
66 CTGATGTGTATTAGTATTGGTCCAATTCGGTGTATCATTTTGGATTTAGTCATATTTTTGGGAAA
40631969 AAAAATTAATATATGCATATAAAAATATTTA
131 AAAAATTAATATATGCATATAAAAATATTTA
40632000 GAAATAACCA
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
170 25 0.17
172 122 0.83
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (170 bp):
TGGTCTACAATTTTACTCAAAGTAATTAATATTGTACTAGTGAATGCATCATTTTTCTATTGAAA
CTGATGTGTATTAGTATTGGTCCAATTCGGTGTATCATTTTGGATTTAGTCATATTTTTGGGAAA
AAAAATTAATATATGCATATAAAAATATTTAAGGTTGATG
Found at i:40657911 original size:30 final size:30
Alignment explanation
Indices: 40657854--40657911 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
40657844 AATTATAGGC
*
40657854 ATGAAACTTTGATTATGATTTAATTGTATT
1 ATGAAACTTTGATTATGATTCAATTGTATT
* * *
40657884 ATGAGACTTTGATTTTGATTCAGTTGTA
1 ATGAAACTTTGATTATGATTCAATTGTA
40657912 CACATCTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.48
Consensus pattern (30 bp):
ATGAAACTTTGATTATGATTCAATTGTATT
Found at i:40658820 original size:99 final size:99
Alignment explanation
Indices: 40658644--40658842 Score: 299
Period size: 99 Copynumber: 2.0 Consensus size: 99
40658634 CCTCTAATTT
* * * * * *
40658644 AATCCCACAAGATTAAAGCTCATGTAGTGCACATTGGTCCAAAGTTAATATATAGTTATGATATT
1 AATCCCACAAGATTAAAACTCATGTAGCGCACATTGGTCCAAAGTTAACATATAATAATGATATC
*
40658709 TATCTCAAGTTCACACTTAAAATTTGTAGTTTTA
66 TATCTCAAGTTCACACTTAAAATTTGTAATTTTA
* * *
40658743 AATCGCACAAGATTAAAATTCATGTAGCGCACATTGGTCCAAAGTTAACGTATAATAATGATATC
1 AATCCCACAAGATTAAAACTCATGTAGCGCACATTGGTCCAAAGTTAACATATAATAATGATATC
*
40658808 TATCTCAAGTTCACACTTAAAATTTTTAATTTTA
66 TATCTCAAGTTCACACTTAAAATTTGTAATTTTA
40658842 A
1 A
40658843 CGGTAATTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (99 bp):
AATCCCACAAGATTAAAACTCATGTAGCGCACATTGGTCCAAAGTTAACATATAATAATGATATC
TATCTCAAGTTCACACTTAAAATTTGTAATTTTA
Found at i:40659931 original size:11 final size:11
Alignment explanation
Indices: 40659915--40659954 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
40659905 CTTCAATCAC
40659915 AACTCATGTTT
1 AACTCATGTTT
* *
40659926 AACTCAAGCATT
1 AACTCATG-TTT
40659938 AACTCATGTTT
1 AACTCATGTTT
40659949 AACTCA
1 AACTCA
40659955 AGCATTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (11 bp):
AACTCATGTTT
Found at i:40659941 original size:12 final size:12
Alignment explanation
Indices: 40659924--40659962 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
40659914 CAACTCATGT
40659924 TTAACTCAAGCA
1 TTAACTCAAGCA
* *
40659936 TTAACTCATG-T
1 TTAACTCAAGCA
40659947 TTAACTCAAGCA
1 TTAACTCAAGCA
40659959 TTAA
1 TTAA
40659963 TATGTTGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (12 bp):
TTAACTCAAGCA
Done.