Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 82 of 198
Found at i:26024646 original size:32 final size:33
Alignment explanation
Indices: 26024562--26024647 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 33
26024552 TCTGTAAAAT
* * *
26024562 GATTTACTGGAAAATATTTTCTGGTGTTTGATTA
1 GATTT-CTTGAAAATATTTTCTGCTGTTTGATCA
*
26024596 -A-ATCTGTGTAAAATATTTTCTGCTGTTTGA-CA
1 GATTTCT-TG-AAAATATTTTCTGCTGTTTGATCA
26024628 GATTTCTTGAAAATATTTTC
1 GATTTCTTGAAAATATTTTC
26024648 CGAAAAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
31 2 0.05
32 14 0.33
33 24 0.56
34 3 0.07
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (33 bp):
GATTTCTTGAAAATATTTTCTGCTGTTTGATCA
Found at i:26035004 original size:285 final size:285
Alignment explanation
Indices: 26034494--26035044 Score: 1048
Period size: 285 Copynumber: 1.9 Consensus size: 285
26034484 AACCATATCT
*
26034494 TTTGCAGGATTATGCCTCAGATCATCCCTCTACTACTTTTTAATCCAATAAGTAAGTTGTGCGAA
1 TTTGCAGGATTATGCCTCAGATCATCCCTCTACTACTTTTTAATCCAATAAGTAAGTTATGCGAA
26034559 ATGTGTTCACGTGTAAGTTGTGTTAGGCAAATTGTGTTCACAAGTCTATCTGTTAAATTATGGAT
66 ATGTGTTCACGTGTAAGTTGTGTTAGGCAAATTGTGTTCACAAGTCTATCTGTTAAATTATGGAT
26034624 ACCCAGTTACATGTGTTTGAAGTCTTAACTAAGTCAGTATCTCATGTACATTTAGACTGAGCAAG
131 ACCCAGTTACATGTGTTTGAAGTCTTAACTAAGTCAGTATCTCATGTACATTTAGACTGAGCAAG
* *
26034689 AATGCCTCTTCGTAAAGTGAATGCGAACTGTGTGAATGAAGCTGCTAACCCTTCAAAAGGTAATC
196 AATGCCTCATCGTAAAGTGAATGCGAACTGTGTGAATGAAGCTGCTAACCCCTCAAAAGGTAATC
26034754 GGGCTTATGCCTCAGATTACGTGTG
261 GGGCTTATGCCTCAGATTACGTGTG
*
26034779 TTTGCAGGATTATGCCTCAGATCATCCCTCTACTACTTTTTGATCCAATAAGTAAGTTATGCGAA
1 TTTGCAGGATTATGCCTCAGATCATCCCTCTACTACTTTTTAATCCAATAAGTAAGTTATGCGAA
26034844 ATGTGTTCACGTGTAAGTTGTGTTAGGCAAATTGTGTTCACAAGTCTATCTGTTAAATTATGGAT
66 ATGTGTTCACGTGTAAGTTGTGTTAGGCAAATTGTGTTCACAAGTCTATCTGTTAAATTATGGAT
* *
26034909 ACCCAGTTACGTGTGTTTGAAGTCTTAACTATGTCAGTATCTCATGTACATTTAGACTGAGCAAG
131 ACCCAGTTACATGTGTTTGAAGTCTTAACTAAGTCAGTATCTCATGTACATTTAGACTGAGCAAG
26034974 AATGCCTCATCGTAAAGTGAATGCGAACTGTGTGAATGAAGCTGCTAACCCCTCAAAAGGTAATC
196 AATGCCTCATCGTAAAGTGAATGCGAACTGTGTGAATGAAGCTGCTAACCCCTCAAAAGGTAATC
26035039 GGGCTT
261 GGGCTT
26035045 TAGCTACGCA
Statistics
Matches: 260, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
285 260 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (285 bp):
TTTGCAGGATTATGCCTCAGATCATCCCTCTACTACTTTTTAATCCAATAAGTAAGTTATGCGAA
ATGTGTTCACGTGTAAGTTGTGTTAGGCAAATTGTGTTCACAAGTCTATCTGTTAAATTATGGAT
ACCCAGTTACATGTGTTTGAAGTCTTAACTAAGTCAGTATCTCATGTACATTTAGACTGAGCAAG
AATGCCTCATCGTAAAGTGAATGCGAACTGTGTGAATGAAGCTGCTAACCCCTCAAAAGGTAATC
GGGCTTATGCCTCAGATTACGTGTG
Found at i:26044742 original size:16 final size:16
Alignment explanation
Indices: 26044721--26044755 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
26044711 AAAACCAATA
*
26044721 TTTTTATAATATTCAT
1 TTTTTAAAATATTCAT
*
26044737 TTTTTAAAATTTTCAT
1 TTTTTAAAATATTCAT
26044753 TTT
1 TTT
26044756 AAGTTACTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAAAATATTCAT
Found at i:26047623 original size:15 final size:15
Alignment explanation
Indices: 26047599--26047635 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
26047589 GTATAGAAAC
*
26047599 ATAATATTTTAACCT
1 ATAATTTTTTAACCT
*
26047614 ATAATTTTTTATCCT
1 ATAATTTTTTAACCT
26047629 ATAATTT
1 ATAATTT
26047636 AACACAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (15 bp):
ATAATTTTTTAACCT
Found at i:26052775 original size:20 final size:20
Alignment explanation
Indices: 26052750--26052787 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26052740 AAGTACATTT
26052750 TTTAT-ATTTTAAATAAAAAA
1 TTTATAATTTTAAA-AAAAAA
26052770 TTTATAATTTTAAAAAAA
1 TTTATAATTTTAAAAAAA
26052788 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTATAATTTTAAAAAAAAA
Found at i:26052822 original size:19 final size:18
Alignment explanation
Indices: 26052775--26052822 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
26052765 AAAAATTTAT
26052775 AATTTTAAAAAAATAAAA
1 AATTTTAAAAAAATAAAA
*
26052793 AATTATGAAAAAAATAAAA
1 AATT-TTAAAAAAATAAAA
*
26052812 ACTCTTTAAAA
1 AAT-TTTAAAA
26052823 TTCAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
AATTTTAAAAAAATAAAA
Found at i:26054163 original size:21 final size:21
Alignment explanation
Indices: 26054137--26054179 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
26054127 ATTCTCAGCA
26054137 TCATGTAAGCTATGTGATATG
1 TCATGTAAGCTATGTGATATG
26054158 TCATGTAAGCTATGTGATATG
1 TCATGTAAGCTATGTGATATG
26054179 T
1 T
26054180 TATGGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (21 bp):
TCATGTAAGCTATGTGATATG
Found at i:26061892 original size:25 final size:25
Alignment explanation
Indices: 26061813--26061939 Score: 98
Period size: 25 Copynumber: 5.1 Consensus size: 25
26061803 GTATGCTTAT
* *
26061813 ACGAGCTGT-GAATCAGTATGCTCAC
1 ACGAGCTGTAG-ATCGGTATGCTCTC
* * * *
26061838 TCAAGCTGT-GAATCGGTATTCTCAC
1 ACGAGCTGTAG-ATCGGTATGCTCTC
* *
26061863 TCGAGCTGTAGATCAGTATGCTCTC
1 ACGAGCTGTAGATCGGTATGCTCTC
* * *
26061888 ACGAGCTATAAATTGGTATGCT-TAC
1 ACGAGCTGTAGATCGGTATGCTCT-C
*
26061913 ACGAGCTATAGATCGGTATGCTCTC
1 ACGAGCTGTAGATCGGTATGCTCTC
26061938 AC
1 AC
26061940 TAGTTATGGG
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.01
25 81 0.96
26 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
ACGAGCTGTAGATCGGTATGCTCTC
Found at i:26061906 original size:50 final size:50
Alignment explanation
Indices: 26061803--26061939 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 50
26061793 TGATGTACAT
* * * * * *
26061803 GTATGCTTATACGAGCTGT-GAATCAGTATGCTCACTCAAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTAG-ATCAGTATGCTCTCACAAGCTATAAATCG
* * * *
26061853 GTATTCTCACTCGAGCTGTAGATCAGTATGCTCTCACGAGCTATAAATTG
1 GTATGCTCACACGAGCTGTAGATCAGTATGCTCTCACAAGCTATAAATCG
* * *
26061903 GTATGCTTACACGAGCTATAGATCGGTATGCTCTCAC
1 GTATGCTCACACGAGCTGTAGATCAGTATGCTCTCAC
26061940 TAGTTATGGG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 70 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
GTATGCTCACACGAGCTGTAGATCAGTATGCTCTCACAAGCTATAAATCG
Found at i:26071418 original size:14 final size:15
Alignment explanation
Indices: 26071401--26071430 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26071391 GTTTTTTCAC
26071401 TCTAT-TTTTCTTTT
1 TCTATCTTTTCTTTT
26071415 TCTATCTTTTCTTTT
1 TCTATCTTTTCTTTT
26071430 T
1 T
26071431 GTTCATTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (15 bp):
TCTATCTTTTCTTTT
Found at i:26079544 original size:17 final size:17
Alignment explanation
Indices: 26079522--26079556 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
26079512 CAATCAAATT
26079522 GATAGCTCTCTATTGAA
1 GATAGCTCTCTATTGAA
26079539 GATAGCTCTCTATTGAA
1 GATAGCTCTCTATTGAA
26079556 G
1 G
26079557 CACATTAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (17 bp):
GATAGCTCTCTATTGAA
Found at i:26087958 original size:8 final size:9
Alignment explanation
Indices: 26087947--26088064 Score: 53
Period size: 9 Copynumber: 12.4 Consensus size: 9
26087937 TGTTTTTTCC
26087947 TTTTATAAT
1 TTTTATAAT
26087956 TTTCTATAAT
1 TTT-TATAAT
*
26087966 TTTCA-AACT
1 TTTTATAA-T
* *
26087975 TTTAAATATT
1 TTT-TATAAT
*
26087985 TTTTATATT
1 TTTTATAAT
26087994 TTTTGA-AAT
1 TTTT-ATAAT
*
26088003 TTTTAAATAAC
1 TTTT--ATAAT
*
26088014 TTTAATAAT
1 TTTTATAAT
26088023 TTTCTAT-AT
1 TTT-TATAAT
*
26088032 TTTTAAAAT
1 TTTTATAAT
* *
26088041 TTTTAGAGT
1 TTTTATAAT
26088050 TTTTAATCAAT
1 TTTT-AT-AAT
26088061 TTTT
1 TTTT
26088065 TAAATAATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
8 4 0.05
9 48 0.58
10 19 0.23
11 12 0.14
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:26088025 original size:29 final size:28
Alignment explanation
Indices: 26087961--26088038 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
26087951 ATAATTTTCT
* * ** *
26087961 ATAATTTTCAAACTTTTAAATATTTTTT
1 ATAATTTTTAAATTTTTAAATAACTTTA
*
26087989 ATATTTTTTGAAATTTTTAAATAACTTTA
1 ATAATTTTT-AAATTTTTAAATAACTTTA
*
26088018 ATAATTTTCTATATTTTTAAA
1 ATAATTTT-TAAATTTTTAAA
26088039 ATTTTTAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 7 0.17
29 32 0.80
30 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.56
Consensus pattern (28 bp):
ATAATTTTTAAATTTTTAAATAACTTTA
Found at i:26090271 original size:20 final size:20
Alignment explanation
Indices: 26090246--26090285 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
26090236 CGAAAAATGA
26090246 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
26090266 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
26090286 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:26090361 original size:32 final size:32
Alignment explanation
Indices: 26090276--26090362 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 32
26090266 TTTCTGGAAA
*
26090276 ATGATTTACTGAAAATATTTTCTGTTGTTTGG
1 ATGATTTCCTGAAAATATTTTCTGTTGTTTGG
* *
26090308 ATGA-ATCTGTGTAAAATATTTTCTGTTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTCTGTTGTTTGG
26090341 CA-GATTTCCTGAAAATATTTTC
1 -ATGATTTCCTGAAAATATTTTC
26090363 CGGAAAAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
31 1 0.02
32 17 0.37
33 25 0.54
34 3 0.07
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.47
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTCTGTTGTTTGG
Found at i:26090406 original size:20 final size:20
Alignment explanation
Indices: 26090383--26090421 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26090373 ATTTTTACAT
26090383 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
26090403 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
26090422 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:26099183 original size:21 final size:23
Alignment explanation
Indices: 26099159--26099206 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
26099149 TTTAAATAAT
26099159 ATTTACTATTAAA-AA-AATTTA
1 ATTTACTATTAAACAAGAATTTA
*
26099180 ATTTATTATTAAACAAGTAATTTA
1 ATTTACTATTAAACAAG-AATTTA
26099204 ATT
1 ATT
26099207 AATTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.52
22 2 0.09
24 9 0.39
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTTACTATTAAACAAGAATTTA
Found at i:26099205 original size:24 final size:21
Alignment explanation
Indices: 26099159--26099211 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
26099149 TTTAAATAAT
*
26099159 ATTTACTATTAAAAAAATTTA
1 ATTTATTATTAAAAAAATTTA
26099180 ATTTATTATTAAACAAGTAATTTA
1 ATTTATTATTAAA-AA--AATTTA
*
26099204 ATTAATTA
1 ATTTATTA
26099212 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 2 0.07
24 13 0.48
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTATTATTAAAAAAATTTA
Found at i:26103019 original size:19 final size:21
Alignment explanation
Indices: 26102986--26103033 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
26102976 AGGAAGACAC
26102986 AAAAAGA-AATCAAAAA-AG-
1 AAAAAGAGAATCAAAAAGAGA
*
26103004 AAAAAGAGAATGAAAAAGAGA
1 AAAAAGAGAATCAAAAAGAGA
26103025 AAAAAGAGA
1 AAAAAGAGA
26103034 TTGAGAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 2 0.08
21 9 0.35
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAAAGAGAATCAAAAAGAGA
Found at i:26114267 original size:178 final size:178
Alignment explanation
Indices: 26113968--26114323 Score: 712
Period size: 178 Copynumber: 2.0 Consensus size: 178
26113958 ACATATAGTG
26113968 CCCTAGGTGTGGTAACTCAAGGTTTAGCTTTCGAAAGAAACAGACCACAATAGAATTATTTCGAG
1 CCCTAGGTGTGGTAACTCAAGGTTTAGCTTTCGAAAGAAACAGACCACAATAGAATTATTTCGAG
26114033 TAGTAGAATAAGATTGATCTTGCCGAGACATTATTGGTTAATAAGGGTAGAATATTAGTAATCCC
66 TAGTAGAATAAGATTGATCTTGCCGAGACATTATTGGTTAATAAGGGTAGAATATTAGTAATCCC
26114098 AGCTTTTCAAATCAACATTGTAGGTCTTTTAATCCTTTTCGTAGCATA
131 AGCTTTTCAAATCAACATTGTAGGTCTTTTAATCCTTTTCGTAGCATA
26114146 CCCTAGGTGTGGTAACTCAAGGTTTAGCTTTCGAAAGAAACAGACCACAATAGAATTATTTCGAG
1 CCCTAGGTGTGGTAACTCAAGGTTTAGCTTTCGAAAGAAACAGACCACAATAGAATTATTTCGAG
26114211 TAGTAGAATAAGATTGATCTTGCCGAGACATTATTGGTTAATAAGGGTAGAATATTAGTAATCCC
66 TAGTAGAATAAGATTGATCTTGCCGAGACATTATTGGTTAATAAGGGTAGAATATTAGTAATCCC
26114276 AGCTTTTCAAATCAACATTGTAGGTCTTTTAATCCTTTTCGTAGCATA
131 AGCTTTTCAAATCAACATTGTAGGTCTTTTAATCCTTTTCGTAGCATA
26114324 TTTATTTTCA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 178 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (178 bp):
CCCTAGGTGTGGTAACTCAAGGTTTAGCTTTCGAAAGAAACAGACCACAATAGAATTATTTCGAG
TAGTAGAATAAGATTGATCTTGCCGAGACATTATTGGTTAATAAGGGTAGAATATTAGTAATCCC
AGCTTTTCAAATCAACATTGTAGGTCTTTTAATCCTTTTCGTAGCATA
Found at i:26117068 original size:25 final size:25
Alignment explanation
Indices: 26117040--26117092 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
26117030 TAAGGACATA
26117040 CATTCAAAATGACTAAGTCACTATG
1 CATTCAAAATGACTAAGTCACTATG
*
26117065 CATTCAAAATGACTAAGTCCCTATG
1 CATTCAAAATGACTAAGTCACTATG
26117090 CAT
1 CAT
26117093 GCCATAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (25 bp):
CATTCAAAATGACTAAGTCACTATG
Found at i:26117680 original size:50 final size:49
Alignment explanation
Indices: 26117556--26117699 Score: 171
Period size: 50 Copynumber: 2.9 Consensus size: 49
26117546 GATAATAACA
** * * *
26117556 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTTCTTGTAC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
* ** *
26117605 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AC
* * *
26117655 TGCCAACGCCATGTCCTAGACATGGTATTACATGGGACCTCTCAT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
26117700 AATCTCAATG
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 39 0.49
50 41 0.51
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
Found at i:26117716 original size:56 final size:49
Alignment explanation
Indices: 26117556--26117754 Score: 179
Period size: 49 Copynumber: 3.9 Consensus size: 49
26117546 GATAATAACA
* ** * * * *
26117556 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTTCTTGT-AC
1 TGCCAATGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCAG
**
26117605 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
26117655 TGCCAACGCCATGTCCTAGACATGGTATTACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCC-AGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G
*
26117710 ATGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA--TCTCATC
1 -TGCCAATGCCATG-TCCAGACATGGTCTTACATGGGACCTCTCATC
26117755 ACCCAAATGT
Statistics
Matches: 125, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
49 41 0.33
50 37 0.30
51 3 0.02
53 5 0.04
54 5 0.04
55 1 0.01
56 30 0.24
57 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:26121183 original size:19 final size:19
Alignment explanation
Indices: 26121159--26121196 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26121149 TGTCAACCTA
26121159 AGAGGCTCAATGAATAAGC
1 AGAGGCTCAATGAATAAGC
26121178 AGAGGCTCAATGAATAAGC
1 AGAGGCTCAATGAATAAGC
26121197 TTTCTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (19 bp):
AGAGGCTCAATGAATAAGC
Found at i:26121761 original size:36 final size:36
Alignment explanation
Indices: 26121714--26121790 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
26121704 GCCTAGCACA
26121714 AGTCGAACGAATCAACAAATTATTGCGCCCAACACT
1 AGTCGAACGAATCAACAAATTATTGCGCCCAACACT
* * * *
26121750 AGTCGAACGAATCGACAAATTATTGTGCTCAGCACT
1 AGTCGAACGAATCAACAAATTATTGCGCCCAACACT
26121786 AGTCG
1 AGTCG
26121791 GATAACTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (36 bp):
AGTCGAACGAATCAACAAATTATTGCGCCCAACACT
Found at i:26152453 original size:17 final size:17
Alignment explanation
Indices: 26152417--26152464 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
26152407 CATTGTCCCC
* *
26152417 AATGCACTGAC-ATGAA
1 AATGCAATGACAATAAA
*
26152433 AATGTAATGACAATAAA
1 AATGCAATGACAATAAA
26152450 AATGCAATGACAATA
1 AATGCAATGACAATA
26152465 TATATTTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (17 bp):
AATGCAATGACAATAAA
Found at i:26152943 original size:21 final size:21
Alignment explanation
Indices: 26152913--26152969 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
26152903 TTCTCATTTT
*
26152913 CAGCAACTTCTTCTTCTTCAG
1 CAGCAACTTCTTCTTCTACAG
*
26152934 CAAG-AACTTCCTCTTCTACAG
1 C-AGCAACTTCTTCTTCTACAG
26152955 CAGCAACTTCCTTCT
1 CAGCAACTT-CTTCT
26152970 CAACAACACT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.07
21 22 0.73
22 6 0.20
ACGTcount: A:0.23, C:0.35, G:0.09, T:0.33
Consensus pattern (21 bp):
CAGCAACTTCTTCTTCTACAG
Found at i:26156533 original size:73 final size:73
Alignment explanation
Indices: 26156414--26156559 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
26156404 GTTAGTAAAA
26156414 GCTAATGACTTTTTTCTACTAACGGCTAACGGTAACCCTTGGTAACTATCTAGATTTTCAGCCAT
1 GCTAATGACTTTTTTCTACTAACGGCTAACGGTAACCCTTGGTAACTATCTAGATTTTCAGCCAT
26156479 ACGCATTC
66 ACGCATTC
26156487 GCTAATGACTTTTTTCTACTAACGGCTAACGGTAACCCTTGGTAACTATCTAGATTTTCAGCCAT
1 GCTAATGACTTTTTTCTACTAACGGCTAACGGTAACCCTTGGTAACTATCTAGATTTTCAGCCAT
26156552 ACGCATTC
66 ACGCATTC
26156560 CGAGCATAGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (73 bp):
GCTAATGACTTTTTTCTACTAACGGCTAACGGTAACCCTTGGTAACTATCTAGATTTTCAGCCAT
ACGCATTC
Found at i:26160597 original size:8 final size:8
Alignment explanation
Indices: 26160574--26160622 Score: 71
Period size: 8 Copynumber: 6.0 Consensus size: 8
26160564 AATAAATAAG
26160574 TATTATAT
1 TATTATAT
26160582 TAATTATAT
1 T-ATTATAT
*
26160591 TATTATAA
1 TATTATAT
*
26160599 TATTATAA
1 TATTATAT
26160607 TATTATAT
1 TATTATAT
26160615 TATTATAT
1 TATTATAT
26160623 ATATAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 30 0.79
9 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTATAT
Found at i:26165736 original size:19 final size:19
Alignment explanation
Indices: 26165712--26165749 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
26165702 GTCGAAAGCA
26165712 AAGACTACAGCAAGTAATT
1 AAGACTACAGCAAGTAATT
*
26165731 AAGACTACAGCCAGTAATT
1 AAGACTACAGCAAGTAATT
26165750 CTTTCTCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (19 bp):
AAGACTACAGCAAGTAATT
Found at i:26173701 original size:39 final size:38
Alignment explanation
Indices: 26173651--26173752 Score: 141
Period size: 39 Copynumber: 2.7 Consensus size: 38
26173641 TTAATATAAT
* * * *
26173651 AATTATAATTACCATAATTATAATAATGTTTGATTGAAA
1 AATTATAATTACAATAATTATAATAATATTCGATCG-AA
* *
26173690 AATTACAATTACAATAATTATAATAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCGAA
26173728 AATTATAATTACAATAATTATAATA
1 AATTATAATTACAATAATTATAATA
26173753 GGGATTTCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
38 25 0.45
39 31 0.55
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCGAA
Found at i:26183197 original size:9 final size:9
Alignment explanation
Indices: 26183180--26183216 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26183170 TGAGTTTTCG
26183180 AATTCGAAT
1 AATTCGAAT
*
26183189 AACTCGAAT
1 AATTCGAAT
26183198 AATTCGAAT
1 AATTCGAAT
*
26183207 TATTCGAAT
1 AATTCGAAT
26183216 A
1 A
26183217 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26183469 original size:30 final size:31
Alignment explanation
Indices: 26183435--26183494 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26183425 AAACCTTTTA
*
26183435 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
26183465 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
26183495 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:26184144 original size:5 final size:5
Alignment explanation
Indices: 26184134--26184164 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
26184124 GAACAAATAT
26184134 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
26184165 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:26189249 original size:14 final size:12
Alignment explanation
Indices: 26189215--26189249 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
26189205 GCCCAAGGAG
26189215 CCATTAAAAGTC
1 CCATTAAAAGTC
26189227 CCATTAAAAGTC
1 CCATTAAAAGTC
26189239 CACACTTAAAA
1 C-CA-TTAAAA
26189250 TTATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.62
13 2 0.10
14 6 0.29
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.23
Consensus pattern (12 bp):
CCATTAAAAGTC
Found at i:26193297 original size:56 final size:50
Alignment explanation
Indices: 26193231--26193399 Score: 194
Period size: 50 Copynumber: 3.3 Consensus size: 50
26193221 AAAGAGATCT
*
26193231 CATGTAAGACCATGTATGGGGCATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTATGGGGCATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
*
26193287 CATGTAAGACCATGTATGGGGCATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTATGGGGCATGGCATTGGCACCGAGATGAGAGGTCC
* * ** * * **
26193337 CCTGTAAGACCATGTCTGGGATATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTATGGGGCATGGCATTGGCACCGAGATGAGAGGTCC
26193387 CATGTAAGACCAT
1 CATGTAAGACCAT
26193400 ATCTGGGATA
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 64 0.63
53 3 0.03
55 1 0.01
56 33 0.33
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTATGGGGCATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:26198013 original size:20 final size:20
Alignment explanation
Indices: 26197976--26198013 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26197966 GGTGAGAAGT
*
26197976 AAAAGTTTAGGGGGAAAATA
1 AAAAGTTTAGGGGAAAAATA
*
26197996 AAAAGTTTTGGGGAAAAA
1 AAAAGTTTAGGGGAAAAA
26198014 AATTTTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
AAAAGTTTAGGGGAAAAATA
Found at i:26198019 original size:15 final size:16
Alignment explanation
Indices: 26197995--26198027 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26197985 GGGGGAAAAT
*
26197995 AAAAAGTTTTG-GGGA
1 AAAAAATTTTGAGGGA
26198010 AAAAAATTTTGAGGGA
1 AAAAAATTTTGAGGGA
26198026 AA
1 AA
26198028 GTAAATAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.24
Consensus pattern (16 bp):
AAAAAATTTTGAGGGA
Found at i:26198396 original size:9 final size:9
Alignment explanation
Indices: 26198379--26198415 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26198369 TATAGTTTGA
*
26198379 TATTTGAAT
1 TATTCGAAT
26198388 TATTCGAAT
1 TATTCGAAT
*
26198397 TATTCGAGT
1 TATTCGAAT
26198406 TATTCGAAT
1 TATTCGAAT
26198415 T
1 T
26198416 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26199802 original size:54 final size:54
Alignment explanation
Indices: 26199744--26199849 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
26199734 GTGTCTCCGC
* * *
26199744 CCGTGTAACT-TACTAAGTTGGGCCACACGGCCGTGTCGCAGGCCGTGTGCTACA
1 CCGTGTAACTCT-CTAACTTGGGACACACGACCGTGTCGCAGGCCGTGTGCTACA
* *
26199798 CCGTGTAACTCTCTGACTTGTGACACACGACCGTGTCGCAGGCCGTGTGCTA
1 CCGTGTAACTCTCTAACTTGGGACACACGACCGTGTCGCAGGCCGTGTGCTA
26199850 GGCCATGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 45 0.98
55 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.24
Consensus pattern (54 bp):
CCGTGTAACTCTCTAACTTGGGACACACGACCGTGTCGCAGGCCGTGTGCTACA
Found at i:26199859 original size:54 final size:54
Alignment explanation
Indices: 26199767--26199892 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
26199757 TAAGTTGGGC
* * * * *
26199767 CACACGGCCGTGTCGCAGGCCGTGTGCTACACCGTGTAACTCTCTGACTT-GTGA
1 CACACGACCGTGTCGCAGGCCGTGTGCTACACCATGTAACACACTGACTTAAT-A
**
26199821 CACACGACCGTGTCGCAGGCCGTGTGCTAGGCCATGTAACACACTGACTTAATA
1 CACACGACCGTGTCGCAGGCCGTGTGCTACACCATGTAACACACTGACTTAATA
* *
26199875 CACACGACCATGTGGCAG
1 CACACGACCGTGTCGCAG
26199893 CCCATGTCCC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 61 0.98
55 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (54 bp):
CACACGACCGTGTCGCAGGCCGTGTGCTACACCATGTAACACACTGACTTAATA
Found at i:26206600 original size:21 final size:21
Alignment explanation
Indices: 26206576--26206641 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
26206566 AAAAAGAGGC
26206576 ATCAACATTTATAAGAACATG
1 ATCAACATTTATAAGAACATG
* * *
26206597 ATCAATATATTTTAAG-TCATG
1 ATCAACAT-TTATAAGAACATG
* *
26206618 GT-AAC-TTTATAAAAACATG
1 ATCAACATTTATAAGAACATG
26206637 ATCAA
1 ATCAA
26206642 TATATTTTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 7
0.67 0.18 0.14
Matches are distributed among these distances:
18 5 0.15
19 6 0.18
20 4 0.12
21 12 0.36
22 6 0.18
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (21 bp):
ATCAACATTTATAAGAACATG
Found at i:26206638 original size:40 final size:40
Alignment explanation
Indices: 26206583--26206675 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
26206573 GGCATCAACA
*
26206583 TTTATAAGAACATGATCAATATATTTTAAGTCATGGTAAC
1 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
26206623 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
1 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
26206663 TTTATAAAAACAT
1 TTTATAAAAACAT
26206676 ATTATTAACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (40 bp):
TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
Found at i:26206657 original size:21 final size:21
Alignment explanation
Indices: 26206593--26206657 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
26206583 TTTATAAGAA
26206593 CATGATCAATATATTTTAAGT
1 CATGATCAATATATTTTAAGT
* * * **
26206614 CATGGT-AACT-T-TATAAAAA
1 CATGATCAA-TATATTTTAAGT
26206633 CATGATCAATATATTTTAAGT
1 CATGATCAATATATTTTAAGT
26206654 CATG
1 CATG
26206658 GTAACTTTAT
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
19 10 0.33
20 6 0.20
21 14 0.47
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (21 bp):
CATGATCAATATATTTTAAGT
Found at i:26209916 original size:14 final size:14
Alignment explanation
Indices: 26209893--26209932 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
26209883 ACAGAAAAGT
*
26209893 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
26209907 AAATCATTTTACGG
1 AAAACATTTTACAG
26209921 AAAACATTTTAC
1 AAAACATTTTAC
26209933 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:26209918 original size:34 final size:35
Alignment explanation
Indices: 26209858--26209924 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
26209848 CAAACACCAG
* *
26209858 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
26209893 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
26209925 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:26215631 original size:17 final size:17
Alignment explanation
Indices: 26215611--26215646 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
26215601 TATTAAATTA
*
26215611 AATTAATTAATTTTCTC
1 AATTAAATAATTTTCTC
26215628 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
26215645 AA
1 AA
26215647 CTCAATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:26228962 original size:26 final size:26
Alignment explanation
Indices: 26228932--26228999 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
26228922 ATATTCCACT
*
26228932 ACAAAGGCTTTCTTTCGTATTACGCC
1 ACAAAGGCTTTCTTTCATATTACGCC
* * *
26228958 GCAAAGGCTTTTTTTCATATTATGCC
1 ACAAAGGCTTTCTTTCATATTACGCC
*
26228984 ACAAAGGTTTTCTTTC
1 ACAAAGGCTTTCTTTC
26229000 CTGATGTGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (26 bp):
ACAAAGGCTTTCTTTCATATTACGCC
Found at i:26230177 original size:26 final size:26
Alignment explanation
Indices: 26230147--26230213 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
26230137 ACGAAGTTTT
*
26230147 CCATAAAGGCTTTCTTTCATATTATG
1 CCATAAAGGCTTTCTTTCATATTACG
**
26230173 CCATAAATACTTTCTTTCATATTACG
1 CCATAAAGGCTTTCTTTCATATTACG
26230199 CCACT-AAGGCTTTCT
1 CCA-TAAAGGCTTTCT
26230214 GTCCTGACGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 34 0.97
27 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (26 bp):
CCATAAAGGCTTTCTTTCATATTACG
Found at i:26233453 original size:60 final size:60
Alignment explanation
Indices: 26233335--26233453 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
26233325 AAAAAAACAT
* * * * * *
26233335 TGTTGTATAAATAGATATGTTGCTATATATTATAGATCTTGGTAGTTGTTCTAAAAATAA
1 TGTTGTATAAACAGATATATTGCTATATATTATAGATCTTGATAATTGCTATAAAAATAA
* * * *
26233395 TGTTGTATAAACATATGTATTGTTATATATTATAGATCTTGATAATTGCTATATAAATA
1 TGTTGTATAAACAGATATATTGCTATATATTATAGATCTTGATAATTGCTATAAAAATA
26233454 CATATGTTCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (60 bp):
TGTTGTATAAACAGATATATTGCTATATATTATAGATCTTGATAATTGCTATAAAAATAA
Found at i:26233493 original size:22 final size:22
Alignment explanation
Indices: 26233468--26233521 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
26233458 TGTTCTATGT
26233468 TATAAACGAATTTATTTGTGAA
1 TATAAACGAATTTATTTGTGAA
26233490 TATAAACGAATTTATTTGTGAA
1 TATAAACGAATTTATTTGTGAA
*
26233512 TATATACGAA
1 TATAAACGAA
26233522 CCAAACACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (22 bp):
TATAAACGAATTTATTTGTGAA
Found at i:26236101 original size:55 final size:55
Alignment explanation
Indices: 26236032--26236135 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
26236022 TGAAAATTTG
* *
26236032 AAGGCAAATTGATCACATAACTATTAAAGGTGAATTAGGACACCACAGATATCTA
1 AAGGCAAATCGATCACATAACCATTAAAGGTGAATTAGGACACCACAGATATCTA
* * **
26236087 AAGGCAAATCGATCAGATAACCATTAAAGGTGTATTTTGACACCACAGA
1 AAGGCAAATCGATCACATAACCATTAAAGGTGAATTAGGACACCACAGA
26236136 GTAATTGAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (55 bp):
AAGGCAAATCGATCACATAACCATTAAAGGTGAATTAGGACACCACAGATATCTA
Found at i:26237159 original size:36 final size:36
Alignment explanation
Indices: 26237050--26237159 Score: 175
Period size: 36 Copynumber: 3.1 Consensus size: 36
26237040 AAAAAATTCC
*
26237050 ATGACCGCAATAGTCTCCCTTAAGCCCACAATTGCG
1 ATGACCGCAATAGTCTCCCTTAAGCCCGCAATTGCG
* *
26237086 AAGACCGCAATAGTCTCCCTTAAACCCGCAATTGCG
1 ATGACCGCAATAGTCTCCCTTAAGCCCGCAATTGCG
* *
26237122 ATGACCGCAGTAGTCTCCCTTAAGCCTGCAATTGCG
1 ATGACCGCAATAGTCTCCCTTAAGCCCGCAATTGCG
26237158 AT
1 AT
26237160 AAATGTGACA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (36 bp):
ATGACCGCAATAGTCTCCCTTAAGCCCGCAATTGCG
Found at i:26237313 original size:14 final size:14
Alignment explanation
Indices: 26237294--26237344 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
26237284 ATCCAATTCT
26237294 TAAAATAAATATTA
1 TAAAATAAATATTA
*
26237308 TAAAATAAA-ACTGAA
1 TAAAATAAATA-T-TA
*
26237323 GTAAAAAAAATATTA
1 -TAAAATAAATATTA
26237338 TAAAATA
1 TAAAATA
26237345 TATTAAGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 1 0.03
14 16 0.55
15 2 0.07
16 9 0.31
17 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
TAAAATAAATATTA
Found at i:26239431 original size:21 final size:21
Alignment explanation
Indices: 26239406--26239451 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
26239396 ACGAGGCGAC
*
26239406 CTACTCCTC-CTCCGGCGATCT
1 CTACTCC-CACTCCGCCGATCT
*
26239427 CTACTCCCACTCCTCCGATCT
1 CTACTCCCACTCCGCCGATCT
26239448 CTAC
1 CTAC
26239452 GAGGCGACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.13, C:0.50, G:0.09, T:0.28
Consensus pattern (21 bp):
CTACTCCCACTCCGCCGATCT
Found at i:26240726 original size:14 final size:14
Alignment explanation
Indices: 26240703--26240741 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
26240693 TTACAATTTA
26240703 TAAATATTTTATAG
1 TAAATATTTTATAG
*
26240717 TAAATGTTTTATAG
1 TAAATATTTTATAG
**
26240731 TCCATATTTTA
1 TAAATATTTTA
26240742 ATTATAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (14 bp):
TAAATATTTTATAG
Found at i:26243281 original size:28 final size:27
Alignment explanation
Indices: 26243245--26243326 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
26243235 TTTAAACTGC
* *
26243245 GCCACAAAGGCTTTCCTTT-TCAGAGGTA
1 GCCACAAAGG-ATTCCTTTAT-AGAGATA
*
26243273 GCCACAAAGGATTCCTTTATAGAGATT
1 GCCACAAAGGATTCCTTTATAGAGATA
*
26243300 GCCACAAA-GACTTCTTTTAATAGAGAT
1 GCCACAAAGGA-TTCCTTT-ATAGAGAT
26243327 CACCACAGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.04
27 26 0.55
28 19 0.40
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (27 bp):
GCCACAAAGGATTCCTTTATAGAGATA
Found at i:26243287 original size:27 final size:28
Alignment explanation
Indices: 26243245--26243456 Score: 82
Period size: 28 Copynumber: 7.7 Consensus size: 28
26243235 TTTAAACTGC
* *
26243245 GCCACAAAGGCTTTCCTTT-TCAGAGGTA
1 GCCACAAAGGCATTCCTTTAT-AGAGATA
*
26243273 GCCACAAAGG-ATTCCTTTATAGAGATT
1 GCCACAAAGGCATTCCTTTATAGAGATA
* *
26243300 GCCACAAAGAC-TTCTTTTAATAGAGATCA
1 GCCACAAAGGCATTCCTTT-ATAGAGAT-A
* *
26243329 -CCAC--A-GCAACTTCCTTTATAGATATT
1 GCCACAAAGGC-A-TTCCTTTATAGAGATA
* * ** * * *
26243355 GCCTCAAGGGTTTTCCTTAATAAAGATC
1 GCCACAAAGGCATTCCTTTATAGAGATA
** * * *
26243383 GCCACAAA-GTTTTCCTTTAACAAAGATC
1 GCCACAAAGGCATTCCTTT-ATAGAGATA
* * * *
26243411 TCCACAAAGGC-TTCCTTTACAAAGATT
1 GCCACAAAGGCATTCCTTTATAGAGATA
* *
26243438 GCCACAGAGGCATTTCTTT
1 GCCACAAAGGCATTCCTTT
26243457 CCATAAGATT
Statistics
Matches: 142, Mismatches: 28, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 63 0.44
28 75 0.53
29 1 0.01
30 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (28 bp):
GCCACAAAGGCATTCCTTTATAGAGATA
Found at i:26243332 original size:28 final size:27
Alignment explanation
Indices: 26243274--26243333 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
26243264 TCAGAGGTAG
**
26243274 CCACAAAGGATTCCTTTATAGAGATTG
1 CCACAAAGGATTCCTTTATAGAGATCA
*
26243301 CCACAAA-GACTTCTTTTAATAGAGATCA
1 CCACAAAGGA-TTCCTTT-ATAGAGATCA
26243329 CCACA
1 CCACA
26243334 GCAACTTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 13 0.46
28 13 0.46
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (27 bp):
CCACAAAGGATTCCTTTATAGAGATCA
Found at i:26243408 original size:28 final size:28
Alignment explanation
Indices: 26243364--26243443 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
26243354 TGCCTCAAGG
*
26243364 GTTTTCC-TTAATAAAGATCGCCACAAA
1 GTTTTCCTTTAACAAAGATCGCCACAAA
*
26243391 GTTTTCCTTTAACAAAGATCTCCACAAA
1 GTTTTCCTTTAACAAAGATCGCCACAAA
** *
26243419 GGCTTCCTTT-ACAAAGATTGCCACA
1 GTTTTCCTTTAACAAAGATCGCCACA
26243444 GAGGCATTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 20 0.43
28 26 0.57
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
GTTTTCCTTTAACAAAGATCGCCACAAA
Found at i:26244349 original size:18 final size:16
Alignment explanation
Indices: 26244319--26244358 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
26244309 TTTTATATTT
26244319 TAAAATAATTTTTGGG
1 TAAAATAATTTTTGGG
26244335 TAAAATAAATATTTTGGG
1 TAAAAT-AAT-TTTTGGG
*
26244353 TCAAAT
1 TAAAAT
26244359 TAGAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 12 0.57
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (16 bp):
TAAAATAATTTTTGGG
Found at i:26247851 original size:44 final size:43
Alignment explanation
Indices: 26247791--26248582 Score: 223
Period size: 44 Copynumber: 18.5 Consensus size: 43
26247781 TCCACTTTAT
* * *
26247791 TGCAAATTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TATTACTTCAATCCGCTCCAC
* * ** *
26247835 TACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTAT-TACTTCAATCCGCTCCAC
* * * * * *
26247879 TGCAACCTCAGGGAGATAAGA-T-TTAATGCGATCCACTCTAC
1 TGCAACTTCAGGGAGATAAGATTATTACTTCAATCCGCTCCAC
* * *
26247920 TGCAACTTTAGAGAGATAAGATCTATTACTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TATTACTTCAATCCGCTCCAC
* * * **
26247964 TACAACTTCAGGGAGATAGGATTATCAGCTTCAATTTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTATTA-CTTCAATCCGCTCCAC
* * * *
26248008 TGCAACCTT-AGGGAGATAAGA-T-TTAATGT-GATCCACTCTAC
1 TGCAA-CTTCAGGGAGATAAGATTATTACT-TCAATCCGCTCCAC
* * * * * ***
26248049 TGCAACTTCAAGGAGAT-TG--TA--GCTTCAA-CTTGTTCTGT
1 TGCAACTTCAGGGAGATAAGATTATTACTTCAATC-CGCTCCAC
* * * * * * * *
26248087 TTCAACTTTA--AAGATAAG--TCTGA-TGT-GATCTC-ATCTAC
1 TGCAACTTCAGGGAGATAAGATTATTACT-TCAATC-CGCTCCAC
* * * * *
26248125 TGCGACTTCAGAGAG-TGAGATCCATCGT-CTT-AATTCGCTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TAT--TACTTCAATCCGCTCCAC
** * *
26248168 TGCAACTTCAGGGAGATAAGATT-TGTGGTTTTCGATCTG-TCCCAC
1 TGCAACTTCAGGGAGATAAGATTAT-T--ACTTCAATCCGCT-CCAC
* * * *
26248213 TGCAACTTCAAGGG-GATAAGATCTGCTTACTT-AGTCTGCTCCGC
1 TGCAACTTC-AGGGAGATAAGAT-T-ATTACTTCAATCCGCTCCAC
* **** * * * *
26248257 TGCAACCTCAGGGAGATAAGA-CCCGA-TGCGATCCACTCTAC
1 TGCAACTTCAGGGAGATAAGATTATTACTTCAATCCGCTCCAC
* * *
26248298 TGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TATTACTTCAATCCGCTCCAC
* * * * *
26248342 TACAACTTCAAGGAGATAGGATTATCAGCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTATTA-CTTCAATCCGCTCCAC
* * * * *
26248386 TCCAACCTCAGGGAGATAAGATT-TGCCATCTTCGATCTG-TCCCAC
1 TGCAACTTCAGGGAGATAAGATTAT--TA-CTTCAATCCGCT-CCAC
* * * * **
26248431 TGCAACTTAAGGGGGATAAGACCTGT-TTAC-TCAGTCTGCTCCGG
1 TGCAACTTCAGGGAGATAAGA--T-TATTACTTCAATCCGCTCCAC
* * * * * *
26248475 TGCAACCTCAGGGAGATAAGACCTA--A-TGCGATCCACTCTAC
1 TGCAACTTCAGGGAGATAAGA-TTATTACTTCAATCCGCTCCAC
* * *
26248516 TGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TATTACTTCAATCCGCTCCAC
* *
26248560 TACAACTTCAGGGAGATAGGATT
1 TGCAACTTCAGGGAGATAAGATT
26248583 TGTGTCTTAA
Statistics
Matches: 534, Mismatches: 159, Indels: 111
0.66 0.20 0.14
Matches are distributed among these distances:
36 4 0.01
37 4 0.01
38 25 0.05
39 7 0.01
40 7 0.01
41 105 0.20
42 8 0.01
43 43 0.08
44 256 0.48
45 64 0.12
46 6 0.01
47 2 0.00
48 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAAGATTATTACTTCAATCCGCTCCAC
Found at i:26247939 original size:129 final size:129
Alignment explanation
Indices: 26247740--26248409 Score: 549
Period size: 129 Copynumber: 5.3 Consensus size: 129
26247730 GTCTTCTCAG
** * * * *
26247740 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCCACTTTATTGCAAATTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGTGATCCACTCTACTGCAACTTCAGAGA
*
26247805 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAA
* *
26247869 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTTAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGTGATCCACTCTACTGCAACTTCAGAGA
26247934 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAA
* *
26247998 TTTGCTCCACTGCAACCTTAGGGAGATAAGATTTAATGTGATCCACTCTACTGCAACTTCA-AG-
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGTGATCCACTCTACTGCAACTTCAGAGA
* * * * *** * * * *
26248061 G---AGAT-T-GTAGCTTCAA-CTTGTTCTGTTTCAACTTTA--AAGATAAG-TCTGAT--G--T
66 GATAAGATCTATTA-CTTTAATC-CGCTCCACTACAACTTCAGGGAGATAGGAT-T-ATCAGCTT
*
26248113 -GA
127 CAA
* * * * * ** * * * *
26248115 TCT-CATCTACTGCGACTTCAGAGAG-TGAGA-TCCATCGTCTTAATTCGCTCCACTGCAACTTC
1 TCTGC-TCCACTGCAACCTCAGGGAGATAAGATTTAAT-G---TGATCCACTCTACTGCAACTTC
* * * *** * * * * *
26248177 AGGGAGATAAGATTTGTGGTTTTCGATCTG-TCCCACTGCAACTTCAAGGG-GATAAGATCTGCT
61 AGAGAGATAAGATCTATTACTTT-AATCCGCT-CCACTACAACTTC-AGGGAGATAGGAT-T-AT
* *
26248240 TA-CTT-AG
121 CAGCTTCAA
* **** *
26248247 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCCGATGCGATCCACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGTGATCCACTCTACTGCAACTTCAGAGA
* *
26248312 GATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTATCAGCTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAA
*
26248376 TCTGCTCCACTCCAACCTCAGGGAGATAAGATTT
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
26248410 GCCATCTTCG
Statistics
Matches: 420, Mismatches: 87, Indels: 68
0.73 0.15 0.12
Matches are distributed among these distances:
115 3 0.01
116 6 0.01
117 18 0.04
118 1 0.00
119 19 0.05
120 3 0.01
121 8 0.02
122 5 0.01
123 17 0.04
124 8 0.02
125 4 0.01
126 11 0.03
127 5 0.01
128 15 0.04
129 234 0.56
130 35 0.08
132 19 0.05
133 6 0.01
134 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (129 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGTGATCCACTCTACTGCAACTTCAGAGA
GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCAA
Found at i:26248539 original size:218 final size:218
Alignment explanation
Indices: 26248161--26248582 Score: 693
Period size: 218 Copynumber: 1.9 Consensus size: 218
26248151 GTCTTAATTC
* * *** *
26248161 GCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGTTTTCGATCTGTCCCACTGCAACTTCAAGG
1 GCTCCACTCCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAAGG
* * *
26248226 GGATAAGATCTGCTTACTTAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCCGATGCGATCC
66 GGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCCAATGCGATCC
*
26248291 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAAGGA
131 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAAGGA
26248356 GATAGGATTATCAGCTTCAATCT
196 GATAGGATTATCAGCTTCAATCT
26248379 GCTCCACTCCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTT-AAGG
1 GCTCCACTCCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAA-G
* * *
26248443 GGGATAAGACCTGTTTACTCAGTCTGCTCCGGTGCAACCTCAGGGAGATAAGACCTAATGCGATC
65 GGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCCAATGCGATC
* *
26248508 CACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGG
130 CACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAAGG
26248573 AGATAGGATT
195 AGATAGGATT
26248583 TGTGTCTTAA
Statistics
Matches: 188, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 2 0.01
218 186 0.99
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (218 bp):
GCTCCACTCCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAAGG
GGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCCAATGCGATCC
ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCACTCCACTACAACTTCAAGGA
GATAGGATTATCAGCTTCAATCT
Found at i:26248708 original size:129 final size:129
Alignment explanation
Indices: 26248568--26249346 Score: 1274
Period size: 129 Copynumber: 6.0 Consensus size: 129
26248558 ACTACAACTT
* * *
26248568 CAGGGAGATAGGATTTGTGTCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
26248633 GATCTGCTCCGCTACTGCTTAGGGGGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
* *
26248697 CAGGGATATAGGAC-CGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
26248761 GATTTGCTCCGCTACTACTTAGGGGGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
* * * * * *
26248825 CAGGTATATAGGACTGGTGGCTTAAATCTACTTCTTTACATTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
26248890 GATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTTCC-AACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAA-TTTCCTAACCTATTCCACTGCTGAC
*
26248954 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
26249019 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
* *
26249083 CAGGGATATAGGACTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
26249148 GATTTGCTCCGCTACTGCTTAGGGGGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
* *
26249212 CAGGGATACAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
26249277 GATCTGCTCCGCTATTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
*
26249341 TAGGGA
1 CAGGGA
26249347 GCTAGTGTAA
Statistics
Matches: 605, Mismatches: 42, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
128 127 0.21
129 473 0.78
130 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (129 bp):
CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGAC
Found at i:26250705 original size:24 final size:24
Alignment explanation
Indices: 26250673--26250719 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26250663 CTAAATTTAT
*
26250673 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
26250697 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
26250720 ATTTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:26253178 original size:17 final size:16
Alignment explanation
Indices: 26253156--26253215 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 16
26253146 TTAGCCTCTC
26253156 CATTTTTACTTTTTCAT
1 CATTTTTA-TTTTTCAT
26253173 CATTTTTATTTTTCATTTT
1 CATTTTTATTTTTCA---T
26253192 CACTTTTTCATTTTTCA-
1 CA-TTTTT-ATTTTTCAT
26253209 CATTTTT
1 CATTTTT
26253216 TTGACTCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
16 12 0.32
17 10 0.26
19 3 0.08
20 5 0.13
21 8 0.21
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (16 bp):
CATTTTTATTTTTCAT
Found at i:26253185 original size:7 final size:7
Alignment explanation
Indices: 26253172--26253208 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
26253162 TACTTTTTCA
26253172 TCATTTT
1 TCATTTT
26253179 T-ATTTT
1 TCATTTT
26253185 TCA-TTT
1 TCATTTT
26253191 TCACTTTT
1 TCA-TTTT
26253199 TCATTTT
1 TCATTTT
26253206 TCA
1 TCA
26253209 CATTTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 12 0.44
7 9 0.33
8 6 0.22
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
TCATTTT
Found at i:26253199 original size:15 final size:16
Alignment explanation
Indices: 26253180--26253215 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
26253170 CATCATTTTT
26253180 ATTTTTCA-TTTTCAC
1 ATTTTTCATTTTTCAC
26253195 -TTTTTCATTTTTCAC
1 ATTTTTCATTTTTCAC
26253210 ATTTTT
1 ATTTTT
26253216 TTGACTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 7 0.37
16 5 0.26
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTCATTTTTCAC
Found at i:26253200 original size:14 final size:14
Alignment explanation
Indices: 26253172--26253215 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
26253162 TACTTTTTCA
*
26253172 TCATTTTTA-TTTT
1 TCATTTTCACTTTT
26253185 TCATTTTCACTTTT
1 TCATTTTCACTTTT
26253199 TCATTTTTCACATTTT
1 TCA-TTTTCAC-TTTT
26253215 T
1 T
26253216 TTGACTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.30
14 7 0.26
15 7 0.26
16 5 0.19
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (14 bp):
TCATTTTCACTTTT
Found at i:26259768 original size:9 final size:9
Alignment explanation
Indices: 26259740--26259769 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
26259730 AAAGATGTAA
26259740 TTTTCTTTT
1 TTTTCTTTT
*
26259749 TCTTCTTTT
1 TTTTCTTTT
26259758 TTTTCTTTT
1 TTTTCTTTT
26259767 TTT
1 TTT
26259770 GCTGCCGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:26264748 original size:15 final size:15
Alignment explanation
Indices: 26264728--26264757 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26264718 ATTTGAGTTA
26264728 AAATTAAATTTAATT
1 AAATTAAATTTAATT
*
26264743 AAATTAGATTTAATT
1 AAATTAAATTTAATT
26264758 GTAAAATAAG
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
AAATTAAATTTAATT
Found at i:26265173 original size:19 final size:19
Alignment explanation
Indices: 26265128--26265174 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
26265118 CAAGATTTTT
*
26265128 AATCAAAGGATTTAGAATG
1 AATCAAATGATTTAGAATG
26265147 AATCAAATGATTTAGAATG
1 AATCAAATGATTTAGAATG
26265166 AATCAAATG
1 AATCAAATG
26265175 TAATTGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (19 bp):
AATCAAATGATTTAGAATG
Found at i:26273088 original size:34 final size:34
Alignment explanation
Indices: 26273039--26273128 Score: 146
Period size: 34 Copynumber: 2.6 Consensus size: 34
26273029 GTATATGTTT
* *
26273039 TATATATGGCCGAATTGATTTGTATATGTATACA
1 TATATATTGCTGAATTGATTTGTATATGTATACA
26273073 TATATATTGCTGAATTGATTTGTATATGTATACA
1 TATATATTGCTGAATTGATTTGTATATGTATACA
26273107 TATATATTG-TCGAATTGATTTG
1 TATATATTGCT-GAATTGATTTG
26273129 AGTATTGGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
33 1 0.02
34 52 0.98
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.46
Consensus pattern (34 bp):
TATATATTGCTGAATTGATTTGTATATGTATACA
Found at i:26274579 original size:18 final size:16
Alignment explanation
Indices: 26274549--26274588 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
26274539 TTTTATATTT
26274549 TAAAATAATTTTTGGG
1 TAAAATAATTTTTGGG
26274565 TAAAATAAATATTTTGGG
1 TAAAAT-AAT-TTTTGGG
*
26274583 TCAAAT
1 TAAAAT
26274589 TAGAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 12 0.57
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (16 bp):
TAAAATAATTTTTGGG
Found at i:26278189 original size:14 final size:15
Alignment explanation
Indices: 26278158--26278190 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
26278148 TAAGTGATAT
*
26278158 CATGTTGATTGAAAG
1 CATGGTGATTGAAAG
26278173 CATGGTGATTG-AAG
1 CATGGTGATTGAAAG
26278187 CATG
1 CATG
26278191 AATTTTTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (15 bp):
CATGGTGATTGAAAG
Found at i:26287708 original size:23 final size:23
Alignment explanation
Indices: 26287672--26287728 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
26287662 CACAGAATTG
* * *
26287672 TTTAGAATTGGGTTTGAAAATGA
1 TTTAGATTTAGGTTCGAAAATGA
* *
26287695 TTTAGGTTTAGGTTCGGAAATGA
1 TTTAGATTTAGGTTCGAAAATGA
26287718 TTTAGATTTAG
1 TTTAGATTTAG
26287729 TACGAATTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (23 bp):
TTTAGATTTAGGTTCGAAAATGA
Found at i:26290971 original size:243 final size:243
Alignment explanation
Indices: 26290543--26290998 Score: 795
Period size: 243 Copynumber: 1.9 Consensus size: 243
26290533 TAGTGTGGGG
* * *
26290543 CTAAGCCCTTTCCTGTAACAATAAACGATTGGGCTTGAGCCCATCACAATGCCAGTAATTAGTAG
1 CTAAGCCCTTTCCCGTAACAATAAACGATTAGGCTTGAGCCCATCACAATGCCAGTAATCAGTAG
* *
26290608 GGCCTTTGCCCAATTTCAGTAATAGTATCACTGGGGCCTTGGCCCATAACAGTAATAGATATCAG
66 GGCCTTCGCCCAATTTCAGTAATAGTATCACTGGGGCCTTGGCCCATAACAGTAACAGATATCAG
*
26290673 TCATGCAGTGAACAGTATGTAATATCATTAATCGATGTAGTAACAGTACAAAATCATTAATCAGT
131 TCATGCAGTGAACAGTATGTAATATCATTAATCGATGTAGTAACAGTACAAAATCATTAATCAAT
26290738 GCAGATATGCAGTTAGAAGCCCATCACAATGCCAGTAATCAGTAGGGC
196 GCAGATATGCAGTTAGAAGCCCATCACAATGCCAGTAATCAGTAGGGC
* *
26290786 CTAAGCCCTTTCCCGTAACAGTAAATGATTAGGCTTGAGCCCATCACAATGCCAGTAATCAGTAG
1 CTAAGCCCTTTCCCGTAACAATAAACGATTAGGCTTGAGCCCATCACAATGCCAGTAATCAGTAG
* * *
26290851 GGCCTTCGCCTAATTTCAGTAATAGTATCAGTGGGGCCTTGGCCCATAACAGTAACATATATCAG
66 GGCCTTCGCCCAATTTCAGTAATAGTATCACTGGGGCCTTGGCCCATAACAGTAACAGATATCAG
*
26290916 TCATGTAGTGAACAGTATGTAATATCATTAATCGATGTAGTAACAGTACAAAATCATTAATCAAT
131 TCATGCAGTGAACAGTATGTAATATCATTAATCGATGTAGTAACAGTACAAAATCATTAATCAAT
*
26290981 GCAGATATGTAGTTAGAA
196 GCAGATATGCAGTTAGAA
26290999 ATCCTACCCA
Statistics
Matches: 200, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
243 200 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (243 bp):
CTAAGCCCTTTCCCGTAACAATAAACGATTAGGCTTGAGCCCATCACAATGCCAGTAATCAGTAG
GGCCTTCGCCCAATTTCAGTAATAGTATCACTGGGGCCTTGGCCCATAACAGTAACAGATATCAG
TCATGCAGTGAACAGTATGTAATATCATTAATCGATGTAGTAACAGTACAAAATCATTAATCAAT
GCAGATATGCAGTTAGAAGCCCATCACAATGCCAGTAATCAGTAGGGC
Found at i:26291419 original size:26 final size:27
Alignment explanation
Indices: 26291357--26291553 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
26291347 GGGTATAACA
*
26291357 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
26291384 ATCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
26291411 GTCA-CTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
26291437 GTTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
26291464 GTCA-TTTATCTTATAAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
26291490 GTTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
26291517 GTCA-TTTATCTTATAAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
26291543 GTTATTTTACC
1 GTCATTTTACC
26291554 TATTTTGGGG
Statistics
Matches: 139, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
26 63 0.45
27 76 0.55
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:26291431 original size:53 final size:53
Alignment explanation
Indices: 26291357--26291553 Score: 277
Period size: 53 Copynumber: 3.7 Consensus size: 53
26291347 GGGTATAACA
** * * * * *
26291357 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGGGGGTATTTCG
1 GTCA-TTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATGAGGGTATTTTG
*
26291411 GTCACTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATGAGGGTATTTTG
* *
26291464 GTCATTTATCTTATAAGGGTATTTCGGTTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATGAGGGTATTTTG
* *
26291517 GTCATTTATCTTATAAGGGTATTTCGGTTATTTTACC
1 GTCATTTACCCTATAAGGGTATTTCGGTTATTTTACC
26291554 TATTTTGGGG
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
53 128 0.97
54 4 0.03
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.45
Consensus pattern (53 bp):
GTCATTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATGAGGGTATTTTG
Found at i:26299885 original size:23 final size:23
Alignment explanation
Indices: 26299841--26299885 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
26299831 TATGAGGAGA
*
26299841 AATGGTTTTTGAAGAAATTTTTC
1 AATGGTTTTTCAAGAAATTTTTC
*
26299864 AATGGTTATTTCAAGCAATTTT
1 AATGGTT-TTTCAAGAAATTTT
26299886 ACTTGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.47
Consensus pattern (23 bp):
AATGGTTTTTCAAGAAATTTTTC
Found at i:26302447 original size:41 final size:41
Alignment explanation
Indices: 26302401--26302503 Score: 188
Period size: 41 Copynumber: 2.5 Consensus size: 41
26302391 AGGCTTGTGC
*
26302401 CTAGCAGGCTTAATGTCGGTGAAATATTTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATACGT
*
26302442 CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATACGT
26302483 CTAGCAGGCTTAATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
26302504 TACTGGATCA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATACGT
Found at i:26310624 original size:22 final size:22
Alignment explanation
Indices: 26310597--26310641 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
26310587 TTATTAACAC
26310597 AAATTAAATTAGA-TATAAATTA
1 AAATT-AATTAGATTATAAATTA
*
26310619 AAATTAATTATATTATAAATTA
1 AAATTAATTAGATTATAAATTA
26310641 A
1 A
26310642 TACATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTAATTAGATTATAAATTA
Found at i:26310648 original size:17 final size:17
Alignment explanation
Indices: 26310601--26310648 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
26310591 TAACACAAAT
*
26310601 TAAATTAGATATAAATTA
1 TAAATTA-ATATATATTA
26310619 -AAATTAAT-TATATTA
1 TAAATTAATATATATTA
*
26310634 TAAATTAATACATAT
1 TAAATTAATATATAT
26310649 AATTTTGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATTAATATATATTA
Found at i:26320988 original size:14 final size:14
Alignment explanation
Indices: 26320951--26320991 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
26320941 TTGAAAAGAA
26320951 TTTTCTAGAAAACAC
1 TTTT-TAGAAAACAC
26320966 TTTTT-GAAAA-AC
1 TTTTTAGAAAACAC
26320978 TTGTTTAGAAAACA
1 TT-TTTAGAAAACA
26320992 TTCTTCCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 6 0.26
15 5 0.22
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (14 bp):
TTTTTAGAAAACAC
Found at i:26331184 original size:17 final size:17
Alignment explanation
Indices: 26331162--26331200 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
26331152 AACTCCAACA
* *
26331162 AGCTTCCAACCTGAATG
1 AGCTTCCAACCCGAACG
26331179 AGCTTCCAACCCGAACG
1 AGCTTCCAACCCGAACG
26331196 AGCTT
1 AGCTT
26331201 TCGATTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (17 bp):
AGCTTCCAACCCGAACG
Found at i:26333795 original size:54 final size:55
Alignment explanation
Indices: 26333649--26333802 Score: 168
Period size: 54 Copynumber: 2.8 Consensus size: 55
26333639 GAGACCCTCG
* * *
26333649 ATTTGTGAAATTATCGAAATACTCCTAGTTTACAAAATTACT-AAAATACCCCCA
1 ATTTGTGAAATTATTGAAATACCCCTAGTTTATAAAATTACTGAAAATACCCCCA
* * * * * * **
26333703 GTGTGTAAAATTATTGAAATACCCCCAATTTATAAAATTACTGAAACT-CCCTTA
1 ATTTGTGAAATTATTGAAATACCCCTAGTTTATAAAATTACTGAAAATACCCCCA
* * *
26333757 ATTTGTGAAATTATTGAAATACCCCTAGTTTGTGAAATTACCGAAA
1 ATTTGTGAAATTATTGAAATACCCCTAGTTTATAAAATTACTGAAA
26333803 TATCCCTGTA
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 76 0.95
55 4 0.05
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (55 bp):
ATTTGTGAAATTATTGAAATACCCCTAGTTTATAAAATTACTGAAAATACCCCCA
Found at i:26333809 original size:27 final size:27
Alignment explanation
Indices: 26333650--26333809 Score: 126
Period size: 27 Copynumber: 5.9 Consensus size: 27
26333640 AGACCCTCGA
* *
26333650 TTTGTGAAATTA-TCGAAATACTCCTAG
1 TTTGTAAAATTACT-GAAATACCCCTAG
** * *
26333677 TTTACAAAATTACTAAAATACCCCCAG
1 TTTGTAAAATTACTGAAATACCCCTAG
* * * *
26333704 TGTGTAAAATTATTGAAATACCCCCAA
1 TTTGTAAAATTACTGAAATACCCCTAG
* * *
26333731 TTTATAAAATTACTGAAACT-CCCTTAA
1 TTTGTAAAATTACTGAAA-TACCCCTAG
* *
26333758 TTTGTGAAATTATTGAAATACCCCTAG
1 TTTGTAAAATTACTGAAATACCCCTAG
* * *
26333785 TTTGTGAAATTACCGAAATATCCCT
1 TTTGTAAAATTACTGAAATACCCCT
26333810 GTAGGGTAGG
Statistics
Matches: 105, Mismatches: 25, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 102 0.97
28 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.34
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCCTAG
Found at i:26333823 original size:27 final size:27
Alignment explanation
Indices: 26333793--26333844 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
26333783 AGTTTGTGAA
*
26333793 ATTACCGAAATATCCC-TGTAGGGTAGG
1 ATTACCGAAATA-CCCTTATAGGGTAGG
*
26333820 ATTATCGAAATACCCTTATAGGGTA
1 ATTACCGAAATACCCTTATAGGGTA
26333845 AAATGACCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (27 bp):
ATTACCGAAATACCCTTATAGGGTAGG
Found at i:26334288 original size:28 final size:28
Alignment explanation
Indices: 26334248--26334306 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
26334238 TTGCATACTA
* * *
26334248 TTTCTGTATTGGGCTAAGGCCCACCTTG
1 TTTCTATATTGGGCTAAAGCCCACATTG
26334276 TTTCTATATTGGGCTAAAGCCCACATTG
1 TTTCTATATTGGGCTAAAGCCCACATTG
26334304 TTT
1 TTT
26334307 TGTTCTGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (28 bp):
TTTCTATATTGGGCTAAAGCCCACATTG
Found at i:26340892 original size:68 final size:68
Alignment explanation
Indices: 26340765--26340904 Score: 226
Period size: 68 Copynumber: 2.1 Consensus size: 68
26340755 GTCAGGAGTT
* *
26340765 ATCACACTAGCACAGGTTATCTAATGGCATGAATATCTAGACTCACACAAGCTATGTTCAGTTCA
1 ATCACACTAGCACAGGTTATCTAATGGCATGAATATCTAGACTCACACAAGCTACGTTCAGTCCA
26340830 AGA
66 AGA
* * * *
26340833 ATCATACTATCACAGGTTATCTAATGGCATGTATATCTAGACTCACACACGCTACGTTCAGTCCA
1 ATCACACTAGCACAGGTTATCTAATGGCATGAATATCTAGACTCACACAAGCTACGTTCAGTCCA
26340898 AGA
66 AGA
26340901 ATCA
1 ATCA
26340905 ACAAGCCGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (68 bp):
ATCACACTAGCACAGGTTATCTAATGGCATGAATATCTAGACTCACACAAGCTACGTTCAGTCCA
AGA
Found at i:26342162 original size:17 final size:17
Alignment explanation
Indices: 26342122--26342163 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
26342112 TATAACTCTG
*
26342122 ACAAGCTTCCAACTCGA
1 ACAAGCTTCCAACCCGA
*
26342139 ATAAGCTTCCAACCCGA
1 ACAAGCTTCCAACCCGA
*
26342156 ACGAGCTT
1 ACAAGCTT
26342164 TCGATTCACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.19
Consensus pattern (17 bp):
ACAAGCTTCCAACCCGA
Found at i:26348357 original size:18 final size:18
Alignment explanation
Indices: 26348336--26348377 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
26348326 GTTGGCCTGA
26348336 AATGGG-TCGTGTGGCCCC
1 AATGGGCTCGTG-GGCCCC
26348354 AATGGGCTCGTGGGCCCC
1 AATGGGCTCGTGGGCCCC
26348372 ACATGG
1 A-ATGG
26348378 ATAAAAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.19
Consensus pattern (18 bp):
AATGGGCTCGTGGGCCCC
Found at i:26352040 original size:41 final size:41
Alignment explanation
Indices: 26351871--26352027 Score: 181
Period size: 41 Copynumber: 3.8 Consensus size: 41
26351861 ATGATATTCG
* * * * *
26351871 GGCTTTGTGCCTAGAAGTCTTTATGCCGGTGAATTATAGT-A
1 GGCTTTATGCCTAGAAGGCTTCATGCCGGTGTATCATA-TCA
* * *
26351912 GGCTTTATGTCTAGCAGGCTTCATGCCGGTGTACCATATCA
1 GGCTTTATGCCTAGAAGGCTTCATGCCGGTGTATCATATCA
* * *
26351953 GGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCATATCT
1 GGCTTTATGCCTAGAAGGCTTCATGCCGGTGTATCATATCA
* *
26351994 GGCTTTGTGCCTAGAAGGCTTTATGCCGGTGTAT
1 GGCTTTATGCCTAGAAGGCTTCATGCCGGTGTAT
26352028 TTTAATAAGC
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 98 0.99
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.34
Consensus pattern (41 bp):
GGCTTTATGCCTAGAAGGCTTCATGCCGGTGTATCATATCA
Found at i:26354688 original size:12 final size:12
Alignment explanation
Indices: 26354664--26354698 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
26354654 TTTTTCCTTT
26354664 TTTATACTATATA
1 TTTATA-TATATA
*
26354677 TTTTTATATATA
1 TTTATATATATA
26354689 TTTATATATA
1 TTTATATATA
26354699 GTTTCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATATATA
Found at i:26355872 original size:20 final size:21
Alignment explanation
Indices: 26355847--26355889 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
26355837 AGGAGATAGG
* *
26355847 ATTCGCTGC-CTTTAGCTTTA
1 ATTCGCTCCACTTCAGCTTTA
26355867 ATTCGCTCCACTTCAGCTTTA
1 ATTCGCTCCACTTCAGCTTTA
26355888 AT
1 AT
26355890 GTATTCTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.42
Consensus pattern (21 bp):
ATTCGCTCCACTTCAGCTTTA
Found at i:26356221 original size:132 final size:132
Alignment explanation
Indices: 26355984--26356569 Score: 947
Period size: 132 Copynumber: 4.4 Consensus size: 132
26355974 GTTGTCTTCA
* * * *
26355984 ATCTGCTCCAGTACTGCTTAGGGAGACATGATCTACAATCTTCAACCTACTCCATTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTACACTGCTGCTCAG
* * *
26356049 GGAGATAGGACTGGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAGACAAGAGTCACCATCTT
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
26356114 TG
131 TG
** *
26356116 ATCTGCTTTACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTACACTGCTGCTCAG
*
26356181 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTT
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
26356246 TG
131 TG
* * *
26356248 ATCTGCTCCACTACTGCTTAGGGAGACATGATCTACAATCTTCAACCTATTACACTGCTGGTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTACACTGCTGCTCAG
*
26356313 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCATCTT
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
26356378 TG
131 TG
** * * *
26356380 ATCTGCTCCACTACTATTTAGGGAGACAGAATCTAAAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTACACTGCTGCTCAG
* *
26356445 GGAGATAGGACTGGTGGCTTAAACCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTT
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
26356510 TG
131 TG
* * *
26356512 ATCTGCTCTACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACGTACTTCACTGC
1 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTACACTGC
26356570 AAACTCAGAA
Statistics
Matches: 419, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 419 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTACACTGCTGCTCAG
GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
TG
Found at i:26356765 original size:44 final size:44
Alignment explanation
Indices: 26356706--26356824 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
26356696 ACCTTCAGTT
26356706 TGCTCCACTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGA-TTAGTAACTTCAATC
* * * * ** *
26356750 TGCTCCACTGTAACTTTAGGGGGATAGGATTATTGGCTTTAATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAACTTCAATC
26356794 TGCTCCACTGCAACTTTAGGGAGATAAGATT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATT
26356825 CGCCATCTTC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 2 0.03
44 62 0.97
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (44 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTAACTTCAATC
Found at i:26358060 original size:17 final size:17
Alignment explanation
Indices: 26358028--26358061 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26358018 TGGCCTCTCA
*
26358028 TTTTTCTTTTCCTTTTC
1 TTTTTCTTATCCTTTTC
*
26358045 TTTTTCTTATCTTTTTC
1 TTTTTCTTATCCTTTTC
26358062 CATCATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTTATCCTTTTC
Found at i:26358123 original size:34 final size:32
Alignment explanation
Indices: 26358072--26358144 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 32
26358062 CATCATTTTA
26358072 ATTTTTTCATTTTTTTTGATTATTTTTGAAAT
1 ATTTTTTCATTTTTTTTGATTATTTTTGAAAT
* * *
26358104 CTTTTTTTATTTTGATTTTGATTTTTTTTGAAAT
1 ATTTTTTCATTTT--TTTTGATTATTTTTGAAAT
26358138 ATTTTTT
1 ATTTTTT
26358145 GATCGGATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 11 0.31
34 24 0.69
ACGTcount: A:0.19, C:0.03, G:0.07, T:0.71
Consensus pattern (32 bp):
ATTTTTTCATTTTTTTTGATTATTTTTGAAAT
Found at i:26358134 original size:10 final size:10
Alignment explanation
Indices: 26358073--26358134 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
26358063 ATCATTTTAA
*
26358073 TTTTTTCATT
1 TTTTTTGATT
26358083 TTTTTTGATT
1 TTTTTTGATT
*
26358093 ATTTTTGAAATCT
1 TTTTTTG--AT-T
26358106 TTTTTT-ATT
1 TTTTTTGATT
26358115 TTGATTTTGATT
1 TT--TTTTGATT
26358127 TTTTTTGA
1 TTTTTTGA
26358135 AATATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 3 0.07
10 23 0.53
11 4 0.09
12 7 0.16
13 6 0.14
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.73
Consensus pattern (10 bp):
TTTTTTGATT
Found at i:26364883 original size:14 final size:16
Alignment explanation
Indices: 26364852--26364884 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
26364842 TTTTTTTTCC
26364852 TTTTCTTTATACTATA
1 TTTTCTTTATACTATA
26364868 TTTT-TTTATA-TATA
1 TTTTCTTTATACTATA
26364882 TTT
1 TTT
26364885 ATATAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTTATACTATA
Found at i:26372487 original size:41 final size:41
Alignment explanation
Indices: 26372420--26372568 Score: 129
Period size: 41 Copynumber: 3.6 Consensus size: 41
26372410 ATGATATTCG
* * * **
26372420 GGCTTTGTGCCTAGCAGGATTTATGCCGGTGAATTATAACA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATAACA
* * *
26372461 GGCTTTATGCCTCA-CAGGCTTCATGCCAGTGTACCATATCA
1 GGCTTTATGCCT-AGCAGGCTTCATGCCGGTGAACCATAACA
* * * * * *
26372502 GGCTCTATGCCTAGCAGGCTTCGTGCCGGTGTATCATATCT
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATAACA
* * *
26372543 GGCTTTGTGCCTAGAAGGCTTTATGC
1 GGCTTTATGCCTAGCAGGCTTCATGC
26372569 TAATGTGGTA
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 86 0.98
42 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTTCATGCCGGTGAACCATAACA
Found at i:26399342 original size:28 final size:28
Alignment explanation
Indices: 26399302--26399381 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
26399292 ACGGTACTGA
*
26399302 TACTGTTTTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
*
26399330 TACTGTATTGGGCTAAAGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
26399358 TACTGTATTAGTCTAAGGCCCACA
1 TACTGTATTGGGCTAAGGCCCACA
26399382 CTGTATTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:26404682 original size:28 final size:29
Alignment explanation
Indices: 26404629--26404683 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
26404619 GCTAGTTTAA
26404629 AATATTTACATAAAAAGACAACTAATTTC
1 AATATTTACATAAAAAGACAACTAATTTC
* *
26404658 AATATTTACA-GAAAGGACAACTAATT
1 AATATTTACATAAAAAGACAACTAATT
26404684 ACTGTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (29 bp):
AATATTTACATAAAAAGACAACTAATTTC
Found at i:26416441 original size:7 final size:7
Alignment explanation
Indices: 26416429--26416462 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
26416419 CTGGGATTGT
26416429 TTTGGAC
1 TTTGGAC
26416436 TTTGGAC
1 TTTGGAC
26416443 TTTGGAC
1 TTTGGAC
*
26416450 TTTGCAC
1 TTTGGAC
26416457 TTTGGA
1 TTTGGA
26416463 TTGTTTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (7 bp):
TTTGGAC
Found at i:26422150 original size:18 final size:18
Alignment explanation
Indices: 26422127--26422162 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26422117 TTTCATTTTG
26422127 CACCAACATTCTTATCTA
1 CACCAACATTCTTATCTA
26422145 CACCAACATTCTTATCTA
1 CACCAACATTCTTATCTA
26422163 TTCTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (18 bp):
CACCAACATTCTTATCTA
Found at i:26423836 original size:21 final size:22
Alignment explanation
Indices: 26423812--26423859 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
26423802 ATCATATTGG
*
26423812 GAGAGC-GGATATTTTTCTAAA
1 GAGAGCAGGATATTTTCCTAAA
*
26423833 GAGATCAAGGATATTTTCCTAAA
1 GAGAGC-AGGATATTTTCCTAAA
26423856 GAGA
1 GAGA
26423860 TGTAATGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
23 18 0.78
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (22 bp):
GAGAGCAGGATATTTTCCTAAA
Found at i:26425471 original size:20 final size:20
Alignment explanation
Indices: 26425448--26425493 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
26425438 ACGGGTTTAT
* *
26425448 ACTTCGGTGCCTCTGTTTGC
1 ACTTCGGTGCCTCTGTCTAC
26425468 ACTTCGGTGCCTCTGTCTAC
1 ACTTCGGTGCCTCTGTCTAC
26425488 ACTTCG
1 ACTTCG
26425494 ATGCTTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.33, G:0.22, T:0.37
Consensus pattern (20 bp):
ACTTCGGTGCCTCTGTCTAC
Found at i:26428216 original size:16 final size:16
Alignment explanation
Indices: 26428197--26428227 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26428187 AATTAAAATA
26428197 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
26428213 ATATAACATTTATAA
1 ATATAAAATTTATAA
26428228 AAAAATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:26430302 original size:11 final size:11
Alignment explanation
Indices: 26430286--26430323 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
26430276 TTTTAATCAA
26430286 ATATATATTTT
1 ATATATATTTT
**
26430297 ATATATATTAA
1 ATATATATTTT
26430308 ATATATATTTT
1 ATATATATTTT
26430319 A-ATAT
1 ATATAT
26430324 GAGTCAGGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATATTTT
Found at i:26430307 original size:26 final size:24
Alignment explanation
Indices: 26430260--26430323 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
26430250 ATTATATATT
* *
26430260 AAATATATTTTTTTATTTTTAATC
1 AAATATATTTTTATATTATTAATC
26430284 AAATATATATTTTATATATATTAA--
1 AAATATAT-TTTTATAT-TATTAATC
* *
26430308 ATATATATTTTAATAT
1 AAATATATTTTTATAT
26430324 GAGTCAGGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.21
24 15 0.44
25 7 0.21
26 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATATATTTTTATATTATTAATC
Found at i:26437070 original size:25 final size:25
Alignment explanation
Indices: 26437041--26437093 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
26437031 TTAGACTAAC
26437041 TTAGTTAAGTTATTACCTAATATCA
1 TTAGTTAAGTTATTACCTAATATCA
*
26437066 TTAGTTAAGTTATTAGCTAATATCA
1 TTAGTTAAGTTATTACCTAATATCA
26437091 TTA
1 TTA
26437094 TCGGTGCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (25 bp):
TTAGTTAAGTTATTACCTAATATCA
Found at i:26439684 original size:28 final size:28
Alignment explanation
Indices: 26439652--26439723 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
26439642 ATATTTGCAT
* * *
26439652 TATCTGGTGGCTTGACCATAATATTCTG
1 TATCTAGTAGCTTGACCACAATATTCTG
*
26439680 TATCTAGTAGCTTTACCACAATATTCTG
1 TATCTAGTAGCTTGACCACAATATTCTG
* *
26439708 TATCTTGCAGCTTGAC
1 TATCTAGTAGCTTGAC
26439724 TACATTATCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (28 bp):
TATCTAGTAGCTTGACCACAATATTCTG
Found at i:26439734 original size:21 final size:21
Alignment explanation
Indices: 26439708--26439752 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
26439698 CAATATTCTG
*
26439708 TATCTTGCAG-CTTGACTACAT
1 TATCTT-CAGACTTGACCACAT
*
26439729 TATCTTCTGACTTGACCACAT
1 TATCTTCAGACTTGACCACAT
26439750 TAT
1 TAT
26439753 TGTTATGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TATCTTCAGACTTGACCACAT
Found at i:26440873 original size:15 final size:15
Alignment explanation
Indices: 26440855--26440911 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
26440845 TTCTAATATA
26440855 ATGAAACTTTAAACT
1 ATGAAACTTTAAACT
* *
26440870 ATGAAACTTTAGATT
1 ATGAAACTTTAAACT
* *
26440885 GTGAAACATATAAACT
1 ATGAAAC-TTTAAACT
26440901 ATGAAACTTTA
1 ATGAAACTTTA
26440912 GAGTCTAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
15 22 0.67
16 11 0.33
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (15 bp):
ATGAAACTTTAAACT
Found at i:26440900 original size:31 final size:30
Alignment explanation
Indices: 26440856--26440927 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 30
26440846 TCTAATATAA
*
26440856 TGAAACTTTAAACTATGAAACTTTAGATTG
1 TGAAACTATAAACTATGAAACTTTAGATTG
* *
26440886 TGAAACATATAAACTATGAAACTTTAGAGTC
1 TGAAAC-TATAAACTATGAAACTTTAGATTG
*
26440917 TAAAACTATAA
1 TGAAACTATAA
26440928 TGAAACTGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (30 bp):
TGAAACTATAAACTATGAAACTTTAGATTG
Found at i:26449367 original size:13 final size:13
Alignment explanation
Indices: 26449349--26449416 Score: 68
Period size: 12 Copynumber: 5.3 Consensus size: 13
26449339 GTTCAAGTCC
*
26449349 AAAAAATAAAAATA
1 AAAAAATAAAAA-G
*
26449363 AAAAAAGAAAAAG
1 AAAAAATAAAAAG
* *
26449376 -AAAAATCAAAAT
1 AAAAAATAAAAAG
26449388 AAAAAAT-AAAAG
1 AAAAAATAAAAAG
*
26449400 AAAAAAGAAAAAG
1 AAAAAATAAAAAG
26449413 AAAA
1 AAAA
26449417 GGAGAGGTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
12 19 0.42
13 15 0.33
14 11 0.24
ACGTcount: A:0.84, C:0.01, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAATAAAAAG
Found at i:26451734 original size:123 final size:125
Alignment explanation
Indices: 26451506--26451805 Score: 418
Period size: 123 Copynumber: 2.4 Consensus size: 125
26451496 TGAATATAGC
*
26451506 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAA
1 AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTT--A-TGTAA
26451571 GAAAGCAGATTTAAGCCACAAGTCCTATCTCCCTAGTCAGCAGTGGAGTAAGTTGGAAATTAT
63 GAAAGCAGATTTAAGCCACAAGTCCTATCTCCCTAGTCAGCAGTGGAGTAAGTTGGAAATTAT
* ** *
26451634 AGATCTTGTCTCCCTAAGTAGTAGCGGAGTTGATCGAAGACGGCGAATCTTATC-T-TGTAAGGA
1 AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTATGTAAGAA
* * *
26451697 AGCAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTAT
66 AGCAGATTTAAGCCACAAGTCCTATCTCCCTAGTCAGCAGTGGAGTAAGTTGGAAATTAT
* * *
26451757 AGATCTCGTCT--C----CAGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCT
1 AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCT
26451806 CCCTAAGACT
Statistics
Matches: 157, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
117 31 0.20
121 1 0.01
123 74 0.47
127 1 0.01
128 50 0.32
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (125 bp):
AGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTATGTAAGAA
AGCAGATTTAAGCCACAAGTCCTATCTCCCTAGTCAGCAGTGGAGTAAGTTGGAAATTAT
Found at i:26452214 original size:50 final size:50
Alignment explanation
Indices: 26452160--26452654 Score: 449
Period size: 50 Copynumber: 9.9 Consensus size: 50
26452150 TCCCCGGCGG
* *
26452160 TGCAGTGGAACAGATTAACGCCACAACAGTGAATCTTGCTTCCCCAACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
* * * * * * **
26452210 TGCAGTTAGAA-ATATTAAAGCTACAACAGTGAATCTTACTTCCCAGGCGG
1 TGCAG-TGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
* *
26452260 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGTTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
** * * * * * * *
26452310 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT-ATTTCCCTAGCAG
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGA-CAT
*
26452360 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
** * * * * ** * *
26452410 TGCAGTTAAAAAGATCAAAGCTACAACAGCGAATCTTATTTCCCTGGCGA-
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGAC-AT
* *
26452460 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
* * ** * * *
26452510 TGCAGTTGAATAGATTAAAGCTGCAACAGCGGATCTTACCTT-CCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTT-GCTTCCCCGACAT
* ** * * * * * *
26452560 TACAGTTAAAAAGATTAAAGCTACAACAGTGAATCTTACTTCCCTGATAG
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
***
26452610 TGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCC
1 TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCC
26452655 AAAATTACAG
Statistics
Matches: 345, Mismatches: 92, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
49 14 0.04
50 317 0.92
51 14 0.04
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACAT
Done.