Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 88 of 208
Found at i:25859854 original size:18 final size:18
Alignment explanation
Indices: 25859831--25859866 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
25859821 ATTGAATTTT
25859831 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
25859849 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
25859867 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:25859874 original size:18 final size:19
Alignment explanation
Indices: 25859835--25859874 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
25859825 AATTTTAATT
*
25859835 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
25859854 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
25859872 AAT
1 AAT
25859875 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:25860119 original size:38 final size:38
Alignment explanation
Indices: 25860062--25860134 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 38
25860052 TTTGGTTAAG
* *
25860062 ATACTTTGCGGCGCGTTTCA-CAAATGCCGCTAATGAT
1 ATACTTTGCGGCGCGTTTCATCAAACGCCACTAATGAT
**
25860099 ATACTTTAGCGGCGTTTTTCATCAAACGCCACTAAT
1 ATACTTT-GCGGCGCGTTTCATCAAACGCCACTAAT
25860135 TCTAATACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 7 0.23
38 11 0.37
39 12 0.40
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (38 bp):
ATACTTTGCGGCGCGTTTCATCAAACGCCACTAATGAT
Found at i:25860231 original size:113 final size:112
Alignment explanation
Indices: 25859974--25860457 Score: 388
Period size: 114 Copynumber: 4.2 Consensus size: 112
25859964 GGTAAAAGCC
* ** * ** *
25859974 CCGCTAATACTATGC-TTCAGCGGCGTTTTCCCATT-TGCGCCACTAATTCCAGCATACATCAAG
1 CCGCTAATACTATACATT-AGCGGCGTTTT--CATTAAACGCCACTAATTCTAATACACATCAAG
* * * * *
25860037 AACTAAACTCTGTGTTTTGGTTAAGATACTTTGCGGCGCGTTTCA-CAAATG
63 -ACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGC-TTCCACCAAACG
* * *
25860088 CCGCTAATGA-TATACTTTAGCGGCGTTTTTCATCAAACGCCACTAATTCTAATACACCTCAAGA
1 CCGCTAAT-ACTATACATTAGCGGCG-TTTTCATTAAACGCCACTAATTCTAATACACATCAAGA
*
25860152 CCAAACTCTGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAACG
64 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT-CCACCAAACG
* * * * * * *
25860202 CTGCT-ATAACTATCCTTTA-CTGGCGTTTTCCTTAAACGCCACTAATTATATTATACATCAAGA
1 CCGCTAAT-ACTATACATTAGC-GGCGTTTTCATTAAACGCCACTAATTCTAATACACATCAAGA
* * * * ** ****
25860265 CCAACACACTGCGTTTTGATTAAGATGTCTTGCGGCG-TTTAAGGCTTTGCG
64 CCAA-ACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCA--CCAAACG
* * ** *
25860316 CCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCACCACTAATTGAAATATACATCAAGA
1 CCGCTAATACTATACATTAGCGGCGTTTTCATTA-AA-CGCCACTAATTCTAATACACATCAAGA
* * * *
25860381 CCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTTCCACTAAGCG
64 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCACCAAACG
* *
25860430 CTGCTAATACTATACATTACCGGCGTTT
1 CCGCTAATACTATACATTAGCGGCGTTT
25860458 GTTCGTAAGC
Statistics
Matches: 300, Mismatches: 54, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
112 3 0.01
113 81 0.27
114 147 0.49
115 39 0.13
116 30 0.10
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (112 bp):
CCGCTAATACTATACATTAGCGGCGTTTTCATTAAACGCCACTAATTCTAATACACATCAAGACC
AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCACCAAACG
Found at i:25863982 original size:35 final size:35
Alignment explanation
Indices: 25863936--25864007 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
25863926 CAGCGAAGCC
*
25863936 AAAAACAATACCCAAGATGATGGCGTTAACTGACT
1 AAAAACAATACCCAAGATGATGGCATTAACTGACT
25863971 AAAAACAATACCCAAGATGATGGCATTAACTGACT
1 AAAAACAATACCCAAGATGATGGCATTAACTGACT
25864006 AA
1 AA
25864008 GGGTGTTGTT
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:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (35 bp):
AAAAACAATACCCAAGATGATGGCATTAACTGACT
Found at i:25864802 original size:66 final size:65
Alignment explanation
Indices: 25864722--25864887 Score: 185
Period size: 66 Copynumber: 2.6 Consensus size: 65
25864712 ATCCATGTTA
* * * * * *
25864722 AAAAAGAAATGGTGTGGCT-AATTCACTAGGGAAGTTCATTCGTTACACCAAGATTAATTCATGC
1 AAAAAGAAATGGTGTAG-TGAATTCACAAAGGAAGTTCATCCGCTACACCAAGATTAATCCATGC
25864786 C
65 C
* *
25864787 AAACAAGAAATGGTGTAGTGAATTCACAAAGGAAGTTCATCCGCTACATCAGGATTAATCCATGC
1 AAA-AAGAAATGGTGTAGTGAATTCACAAAGGAAGTTCATCCGCTACACCAAGATTAATCCATGC
25864852 C
65 C
* * *
25864853 AAAAA-AAATGATGTAGCGAATTTACTAAA-GAAGTT
1 AAAAAGAAATGGTGTAGTGAATTCAC-AAAGGAAGTT
25864888 AATATGATAA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 23 0.26
65 9 0.10
66 55 0.63
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (65 bp):
AAAAAGAAATGGTGTAGTGAATTCACAAAGGAAGTTCATCCGCTACACCAAGATTAATCCATGCC
Found at i:25865126 original size:66 final size:65
Alignment explanation
Indices: 25864941--25865126 Score: 167
Period size: 64 Copynumber: 2.8 Consensus size: 65
25864931 TGAATTCACT
* * * * * * * *
25864941 AAGGAAGCCCATCCGTTACATTGGTATTAATCTATGCCAAAGAAGAAACAATGTAGCAAATTTAC
1 AAGGAAGCTCATCCGATACATCGGGATTAATC-ATGCAAAAGAAGAAACAATGTAGAAAATTCAA
*
25865006 T
65 A
* * * * * * ***
25865007 ATGGACGTTCATCCGATACATCGGG-TGAACCATGTAAAAGAAGAAATGGTGTAGAAAATTCAAA
1 AAGGAAGCTCATCCGATACATCGGGATTAATCATGCAAAAGAAGAAACAATGTAGAAAATTCAAA
* *
25865071 AAGGAAGCTCATCCGCTACACCGGGATTAATTCATGCAAAAGAAGAAACAATGTAG
1 AAGGAAGCTCATCCGATACATCGGGATTAA-TCATGCAAAAGAAGAAACAATGTAG
25865127 CAATTTCACT
Statistics
Matches: 89, Mismatches: 29, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
64 44 0.49
65 7 0.08
66 38 0.43
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (65 bp):
AAGGAAGCTCATCCGATACATCGGGATTAATCATGCAAAAGAAGAAACAATGTAGAAAATTCAAA
Found at i:25865141 original size:66 final size:65
Alignment explanation
Indices: 25864935--25865143 Score: 197
Period size: 66 Copynumber: 3.2 Consensus size: 65
25864925 ATATAGTGAA
* * * * *
25864935 TTCACTAAGGAAGCCCATCCGTTACATTGGTATTAATCTATGCCAAAGAAGAAACAATGTAGCAA
1 TTCACTAAGGAAGCTCATCCGATACATCGGGATTAATC-ATGCAAAAGAAGAAACAATGTAGC-A
25865000 AT
64 AT
* * * * * * *** * *
25865002 TT-ACTATGGACGTTCATCCGATACATCGGG-TGAACCATGTAAAAGAAGAAATGGTGTAGAAAA
1 TTCACTAAGGAAGCTCATCCGATACATCGGGATTAATCATGCAAAAGAAGAAACAATGTAGCAAT
** * *
25865065 TTCAAAAAGGAAGCTCATCCGCTACACCGGGATTAATTCATGCAAAAGAAGAAACAATGTAGCAA
1 TTCACTAAGGAAGCTCATCCGATACATCGGGATTAA-TCATGCAAAAGAAGAAACAATGTAGCAA
25865130 T
65 T
25865131 TTCACTAAGGAAG
1 TTCACTAAGGAAG
25865144 TACATGTAAT
Statistics
Matches: 106, Mismatches: 33, Indels: 7
0.73 0.23 0.05
Matches are distributed among these distances:
63 4 0.04
64 39 0.37
65 7 0.07
66 54 0.51
67 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (65 bp):
TTCACTAAGGAAGCTCATCCGATACATCGGGATTAATCATGCAAAAGAAGAAACAATGTAGCAAT
Found at i:25868075 original size:22 final size:22
Alignment explanation
Indices: 25868038--25868080 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
25868028 TTATCAAGAT
25868038 AAATATTAGATTAAATTTAATATA
1 AAATATTA-ATTAAA-TTAATATA
25868062 AAATATT-ATTAAATTAATA
1 AAATATTAATTAAATTAATA
25868081 GAATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
24 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATTAATTAAATTAATATA
Found at i:25868117 original size:62 final size:59
Alignment explanation
Indices: 25868009--25868122 Score: 165
Period size: 62 Copynumber: 1.9 Consensus size: 59
25867999 ATCACTTTAA
* * *
25868009 TATTAAATTAATATAATAGTTATCAAGATAAATATTAGATTAAATTTAATATAAAATAT
1 TATTAAATTAATAGAATAGTTATCAAGATAAACATTAAATTAAATTTAATATAAAATAT
*
25868068 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATAT
1 TATTAAATTAATAGAATAGTTA--T-CAAGATAAACATTAAATTAAATTTAATAT
25868123 TAAGATAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
59 20 0.42
61 1 0.02
62 27 0.56
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (59 bp):
TATTAAATTAATAGAATAGTTATCAAGATAAACATTAAATTAAATTTAATATAAAATAT
Found at i:25868164 original size:25 final size:26
Alignment explanation
Indices: 25868116--25868176 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
25868106 TAAATTAAAT
*
25868116 TTAATATTAAGATAATTACTTTAACA
1 TTAATATTAAGATAAATACTTTAACA
*
25868142 TTAA-ATTAAGA-AAATACTATTAAGA
1 TTAATATTAAGATAAATACT-TTAACA
*
25868167 TAAATATTAA
1 TTAATATTAA
25868177 ATTTAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.20
25 15 0.50
26 9 0.30
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (26 bp):
TTAATATTAAGATAAATACTTTAACA
Found at i:25873440 original size:9 final size:9
Alignment explanation
Indices: 25873428--25873477 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
25873418 GACTTGAGGA
25873428 AATTGAGAG
1 AATTGAGAG
*
25873437 AATTAAGAG
1 AATTGAGAG
*
25873446 AGTTGAGAG
1 AATTGAGAG
* *
25873455 ATTTGAAAG
1 AATTGAGAG
25873464 AATTGAGAG
1 AATTGAGAG
25873473 AATTG
1 AATTG
25873478 GATTTGAGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (9 bp):
AATTGAGAG
Found at i:25875692 original size:32 final size:32
Alignment explanation
Indices: 25875656--25875718 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
25875646 TATGGCTTTT
*
25875656 ATATTTTTATAGGATGTAATTATAATATTATA
1 ATATTATTATAGGATGTAATTATAATATTATA
*
25875688 ATATTATTATTGGATGTAATTATAATATTAT
1 ATATTATTATAGGATGTAATTATAATATTAT
25875719 TCTATCTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.51
Consensus pattern (32 bp):
ATATTATTATAGGATGTAATTATAATATTATA
Found at i:25878098 original size:16 final size:16
Alignment explanation
Indices: 25878077--25878112 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
25878067 TTTTACATAA
*
25878077 ATATAAATATTTGTTT
1 ATATAAATATTTGCTT
25878093 ATATAAATATTTGCTT
1 ATATAAATATTTGCTT
25878109 ATAT
1 ATAT
25878113 TAATTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTGCTT
Found at i:25878143 original size:16 final size:16
Alignment explanation
Indices: 25878122--25878152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25878112 TTAATTTGTT
25878122 TTATTTATATATATAA
1 TTATTTATATATATAA
*
25878138 TTATTTATATTTATA
1 TTATTTATATATATA
25878153 TTTGTTCACT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTATATATATAA
Found at i:25878423 original size:83 final size:82
Alignment explanation
Indices: 25878287--25878587 Score: 302
Period size: 83 Copynumber: 3.6 Consensus size: 82
25878277 AAATAAAATC
* * ** * * *
25878287 TGTTTCGGGATTTATTCCTGCCATTCAACAGATTTTATTC-ATTTTTTGA-TTTGTTCCCAAATA
1 TGTTTCAGGATTCATTCCCACCGTTCAACAGATTTTATTCGA--TTTTGATTTTGTTTCCAAACA
25878350 AGAATTAAATTGAATAA-TA
64 AGAATT-AATTGAATAATTA
* * * * * **
25878369 TGTTTCGGGGATTTATTCCCATCGTTTAACAGATTTTATTTGATTTTGATTTTGTTTCCAAACGC
1 TGTTTC-AGGATTCATTCCCACCGTTCAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAA
* *
25878434 GAAATAATTGAATAATTC
65 GAATTAATTGAATAATTA
* * * *
25878452 TATTTCAGGATTCATTCCCGCCGTTCAACAGATTTTATTCGATTGTGATTTTGTTTCTAAACAAT
1 TGTTTCAGGATTCATTCCCACCGTTCAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAA-
* * *
25878517 GATTTAATTAAATAATTT
65 GAATTAATTGAATAATTA
* * *
25878535 TGTTTCAGGATTCATTCCCACCGTTTAACATATTTAATTCGATTTTGATTTTG
1 TGTTTCAGGATTCATTCCCACCGTTCAACAGATTTTATTCGATTTTGATTTTG
25878588 ATTTTGTTTG
Statistics
Matches: 181, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
82 70 0.39
83 110 0.61
84 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (82 bp):
TGTTTCAGGATTCATTCCCACCGTTCAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAG
AATTAATTGAATAATTA
Found at i:25878554 original size:165 final size:164
Alignment explanation
Indices: 25878289--25878587 Score: 379
Period size: 165 Copynumber: 1.8 Consensus size: 164
25878279 ATAAAATCTG
* * * * *
25878289 TTTCGGGATTTATTCCTGCCATTCAACAGATTTTATTCATTTTTTGATTTGTTCCCAAATAAGAA
1 TTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTCA-TTTGTGATTTGTTCCCAAACAAGAA
* * * * * *
25878354 TTAAATTGAATAATATGTTTCGGGGATTTATTCCCATCGTTTAACAGATTTTATTTGATTTTGAT
65 TTAAATTAAATAATATGTTTCGAGGATTCATTCCCACCGTTTAACAGATTTAATTCGATTTTGAT
25878419 TTTGTTTCCAAACGCGAAATAATTGAATAATTCTA
130 TTTGTTTCCAAACGCGAAATAATTGAATAATTCTA
* * *
25878454 TTTCAGGATTCATTCCCGCCGTTCAACAGATTTTATTCGA-TTGTGATTTTGTTTCTAAACAATG
1 TTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTC-ATTTGTGA-TTTGTTCCCAAACAA-G
* * *
25878518 -ATTTAATTAAATAATTTTGTTTC-AGGATTCATTCCCACCGTTTAACATATTTAATTCGATTTT
63 AATTAAATTAAATAA-TATGTTTCGAGGATTCATTCCCACCGTTTAACAGATTTAATTCGATTTT
25878581 GATTTTG
127 GATTTTG
25878588 ATTTTGTTTG
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
164 5 0.04
165 99 0.88
166 9 0.08
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (164 bp):
TTTCAGGATTCATTCCCGCCATTCAACAGATTTTATTCATTTGTGATTTGTTCCCAAACAAGAAT
TAAATTAAATAATATGTTTCGAGGATTCATTCCCACCGTTTAACAGATTTAATTCGATTTTGATT
TTGTTTCCAAACGCGAAATAATTGAATAATTCTA
Found at i:25878668 original size:89 final size:89
Alignment explanation
Indices: 25878407--25878670 Score: 197
Period size: 89 Copynumber: 3.0 Consensus size: 89
25878397 ACAGATTTTA
* * ** ** * * * *
25878407 TTTGATTTTGATTTTGTTTCCAAAC-GCGAAATAATTGAATAATTCTATTTCAGGATTCATTCCC
1 TTTGATTGTGATTTTGTTTCTAAACAATGATTTAATTAAATAATTTTGTTTCAGGATTCAATCCC
* *
25878471 GCCGTTCAACAGATT---TT--A-
66 ACCGTTCAACAAATTGAATTCGAT
* *
25878489 TTCGATTGTGATTTTGTTTCTAAACAATGATTTAATTAAATAATTTTGTTTCAGGATTCATTCCC
1 TTTGATTGTGATTTTGTTTCTAAACAATGATTTAATTAAATAATTTTGTTTCAGGATTCAATCCC
* * *
25878554 ACCGTTTAACATATTTAATTCGAT
66 ACCGTTCAACAAATTGAATTCGAT
* * * *
25878578 TTTGATTTTGATTTTGTTTGC-AAATGAA-GATTTAATTAAATAATTTT-TTTCGGGATTTAATC
1 TTTGATTGTGATTTTGTTT-CTAAA-CAATGATTTAATTAAATAATTTTGTTTCAGGATTCAATC
*** * *
25878640 CTGTCGTTCAACAGAATTGATTTTGAT
64 CCACCGTTCAACA-AATTGAATTCGAT
25878667 TTTG
1 TTTG
25878671 TTTCAGAATT
Statistics
Matches: 145, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
82 22 0.15
83 44 0.30
86 2 0.01
88 22 0.15
89 52 0.36
90 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (89 bp):
TTTGATTGTGATTTTGTTTCTAAACAATGATTTAATTAAATAATTTTGTTTCAGGATTCAATCCC
ACCGTTCAACAAATTGAATTCGAT
Found at i:25883748 original size:22 final size:24
Alignment explanation
Indices: 25883706--25883752 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
25883696 ATTTTTTATT
25883706 TAAATATTGTGTTTTACATAAATA
1 TAAATATTGTGTTTTACATAAATA
*
25883730 TAAATATT-TG-TTTATATAAATA
1 TAAATATTGTGTTTTACATAAATA
25883752 T
1 T
25883753 TTACTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 2 0.09
24 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (24 bp):
TAAATATTGTGTTTTACATAAATA
Found at i:25883760 original size:16 final size:16
Alignment explanation
Indices: 25883727--25883762 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25883717 TTTTACATAA
**
25883727 ATATAAATATTTGTTT
1 ATATAAATATTTACTT
25883743 ATATAAATATTTACTT
1 ATATAAATATTTACTT
25883759 ATAT
1 ATAT
25883763 TAATTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTACTT
Found at i:25883798 original size:6 final size:6
Alignment explanation
Indices: 25883789--25883825 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
25883779 TATATATAAT
25883789 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
25883826 TTGCTAACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:25887422 original size:22 final size:22
Alignment explanation
Indices: 25887396--25887440 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
25887386 ATTATATGTA
25887396 TTAATTCATAATACAA-TTAATT
1 TTAATTCAT-ATACAATTTAATT
* *
25887418 TTAATTTATATTCAATTTAATT
1 TTAATTCATATACAATTTAATT
25887440 T
1 T
25887441 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTCATATACAATTTAATT
Found at i:25889360 original size:20 final size:21
Alignment explanation
Indices: 25889313--25889363 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
25889303 ATAAAGTTTT
25889313 GGTATCGATAAAATTTTAATA
1 GGTATCGATAAAATTTTAATA
* * *
25889334 AGTATCGATATAATTTTCA-A
1 GGTATCGATAAAATTTTAATA
25889354 GGTATCGATA
1 GGTATCGATA
25889364 CTTATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (21 bp):
GGTATCGATAAAATTTTAATA
Found at i:25894294 original size:18 final size:18
Alignment explanation
Indices: 25894263--25894309 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
25894253 AAAAATGCAT
* * *
25894263 ACAAACAAAAATAAACAC
1 ACAAATAAACATAAAAAC
25894281 ACAAATAAACATAAAAAC
1 ACAAATAAACATAAAAAC
*
25894299 AAAAATAAACA
1 ACAAATAAACA
25894310 CACATAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.74, C:0.17, G:0.00, T:0.09
Consensus pattern (18 bp):
ACAAATAAACATAAAAAC
Found at i:25899305 original size:29 final size:29
Alignment explanation
Indices: 25899268--25899376 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 29
25899258 CAATCAGAGA
*
25899268 TAGATAGCCAGTAAGGCATCCACAGATAG
1 TAGATAGCCAGTAAGACATCCACAGATAG
* * * * *
25899297 TAGATAGCCAATAAGGCATCCATAAATAA
1 TAGATAGCCAGTAAGACATCCACAGATAG
* ** *
25899326 TAGATAGCAAGTAAGATGTCCACGGAT-G
1 TAGATAGCCAGTAAGACATCCACAGATAG
*
25899354 ATAGATAGCTAGTAAGACATCCA
1 -TAGATAGCCAGTAAGACATCCA
25899377 TTCATAAATA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.20
Consensus pattern (29 bp):
TAGATAGCCAGTAAGACATCCACAGATAG
Found at i:25899348 original size:58 final size:59
Alignment explanation
Indices: 25899267--25899392 Score: 139
Period size: 58 Copynumber: 2.2 Consensus size: 59
25899257 TCAATCAGAG
* * *
25899267 ATAGATAGCCAGTAAGGCATCCACAGAT-AGTAGATAGCCAATAAGGCATCCATAAAT-A
1 ATAGATAGCAAGTAAGACATCCACAGATGA-TAGATAGCCAATAAGACATCCATAAATAA
** * * * **
25899325 ATAGATAGCAAGTAAGATGTCCACGGATGATAGATAGCTAGTAAGACATCCATTCATAA
1 ATAGATAGCAAGTAAGACATCCACAGATGATAGATAGCCAATAAGACATCCATAAATAA
25899384 ATAGATAGC
1 ATAGATAGC
25899393 CCCGAAGACG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
58 45 0.80
59 11 0.20
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (59 bp):
ATAGATAGCAAGTAAGACATCCACAGATGATAGATAGCCAATAAGACATCCATAAATAA
Found at i:25899591 original size:26 final size:26
Alignment explanation
Indices: 25899562--25899647 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
25899552 GCCACAGAGG
*
25899562 CTCTTTAATAGAATCAGCTAAAAAAA
1 CTCTTTAATAGAATCAGCCAAAAAAA
* * * **
25899588 CTCTTTAATAGGATTAGCCAGAAAGG
1 CTCTTTAATAGAATCAGCCAAAAAAA
* * **
25899614 CTCTTTAATAGAATAAGCCATAAAGG
1 CTCTTTAATAGAATCAGCCAAAAAAA
25899640 CTCTTTAA
1 CTCTTTAA
25899648 CAGGAAATGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (26 bp):
CTCTTTAATAGAATCAGCCAAAAAAA
Found at i:25899644 original size:52 final size:52
Alignment explanation
Indices: 25899549--25899652 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
25899539 TATAACATAG
* * * *
25899549 TTAGCCACAGAGGCTCTTTAATAGAATCAGCTAAAAAAACTCTTTAATAGGA
1 TTAGCCACAAAGGCTCTTTAATAGAATAAGCCAAAAAAACTCTTTAACAGGA
* * **
25899601 TTAGCCAGAAAGGCTCTTTAATAGAATAAGCCATAAAGGCTCTTTAACAGGA
1 TTAGCCACAAAGGCTCTTTAATAGAATAAGCCAAAAAAACTCTTTAACAGGA
25899653 AATGGTGTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (52 bp):
TTAGCCACAAAGGCTCTTTAATAGAATAAGCCAAAAAAACTCTTTAACAGGA
Found at i:25902798 original size:26 final size:26
Alignment explanation
Indices: 25902769--25902825 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
25902759 TTTGTGGCTA
25902769 ATTCTGTCAAAGAGCCTTTGTTGTTG
1 ATTCTGTCAAAGAGCCTTTGTTGTTG
*
25902795 ATTCTGTTAAAGAGCCTTTGTTGTTG
1 ATTCTGTCAAAGAGCCTTTGTTGTTG
25902821 ATTCT
1 ATTCT
25902826 ATTAAAAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (26 bp):
ATTCTGTCAAAGAGCCTTTGTTGTTG
Found at i:25902830 original size:26 final size:26
Alignment explanation
Indices: 25902777--25902837 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
25902767 TAATTCTGTC
*
25902777 AAAGAGCCTTTGTTGTTGATTCTGTT
1 AAAGAGCCTTTGTTGTTGATTCTATT
25902803 AAAGAGCCTTTGTTGTTGATTCTATT
1 AAAGAGCCTTTGTTGTTGATTCTATT
*
25902829 AAAAAGCCT
1 AAAGAGCCT
25902838 CTATGACTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (26 bp):
AAAGAGCCTTTGTTGTTGATTCTATT
Found at i:25922971 original size:50 final size:50
Alignment explanation
Indices: 25922843--25923037 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 50
25922833 ATTTGGGTAA
* * * *
25922843 AGAGATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCATTGAAGTTATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CG-AG--ATG
*
25922899 AGAGG-CCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCC-TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
25922949 AGAGGTCCCCCGTAAGACCATGTTTGAGACATGGCATGGGCACCGATATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
25922999 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTG
25923038 ACAGTACAAG
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
50 72 0.62
51 4 0.03
52 2 0.02
53 1 0.01
55 4 0.03
56 34 0.29
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:25923212 original size:25 final size:25
Alignment explanation
Indices: 25923170--25923231 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
25923160 TATGTTCCAT
*
25923170 GAAAGTTCAGGTAAAAGCATAAATA
1 GAAAATTCAGGTAAAAGCATAAATA
* *
25923195 GCAAATTTAGGTAAAAGCATAAATA
1 GAAAATTCAGGTAAAAGCATAAATA
25923220 GAAAATTCAGGT
1 GAAAATTCAGGT
25923232 GAGTTATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (25 bp):
GAAAATTCAGGTAAAAGCATAAATA
Found at i:25931586 original size:16 final size:16
Alignment explanation
Indices: 25931556--25931585 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25931546 AGTATAGGGG
25931556 CAAAATAGTAATTTTC
1 CAAAATAGTAATTTTC
25931572 CAAAATA-TAATTTT
1 CAAAATAGTAATTTT
25931586 TGTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (16 bp):
CAAAATAGTAATTTTC
Found at i:25932033 original size:24 final size:24
Alignment explanation
Indices: 25932001--25932046 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
25931991 TCCGACCCAC
*
25932001 AGCTTGTGAGAGCATACAGATTAT
1 AGCTCGTGAGAGCATACAGATTAT
*
25932025 AGCTCGTGAGAGCATACTGATT
1 AGCTCGTGAGAGCATACAGATT
25932047 TATGACTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (24 bp):
AGCTCGTGAGAGCATACAGATTAT
Found at i:25941427 original size:17 final size:17
Alignment explanation
Indices: 25941397--25941433 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
25941387 ATGCACTAAC
* *
25941397 ATGAATATGTAATGACA
1 ATGAAAATGCAATGACA
25941414 ATGAAAATGCAATGACA
1 ATGAAAATGCAATGACA
25941431 ATG
1 ATG
25941434 TATACTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:25952966 original size:25 final size:26
Alignment explanation
Indices: 25952917--25952983 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
25952907 ATAAAATACA
**
25952917 TCTTTGCATTCATTTTTGAGCTAA-TAT
1 TCTTT-CATTC-TTTTTGAAATAATTAT
*
25952944 TTTTTCATTCTTTTTGAAATAATTAT
1 TCTTTCATTCTTTTTGAAATAATTAT
25952970 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
25952984 GGATTTTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.29
26 21 0.60
27 4 0.11
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (26 bp):
TCTTTCATTCTTTTTGAAATAATTAT
Found at i:25955384 original size:44 final size:44
Alignment explanation
Indices: 25955252--25955562 Score: 114
Period size: 44 Copynumber: 7.1 Consensus size: 44
25955242 GCAGATCTTA
* *
25955252 CCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTG
1 CCTTCCTGCACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTG
* *** * * * ** * * * *
25955296 CCTCCCTAG-GTTG-CAGCGGAGCAGGTTAAAAATAGCAGATCTTG
1 CCTTCCT-GCACCGAAAGCGAAGCAGATCGAAGACACCAG-CCTTG
*
25955340 CCTTCCTGCACCGAAAGTGAAGCAGATCGAAGACACCAGCCTTG
1 CCTTCCTGCACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTG
* *** * * * ** * * * *
25955384 CCTCCCTAG-GTTG-TAGCGGAGCAGGTTAAAAATAGCAGATCTTG
1 CCTTCCT-GCACCGAAAGCGAAGCAGATCGAAGACACCAG-CCTTG
*
25955428 -CTTGCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
1 CCTT-CCTGCACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTG
* *** * * * ** * * * *
25955472 CCTCCCTAG-GTTG-CAGCGGAGCAGGTTAAAAATAGCAGATCTTG
1 CCTTCCT-GCACCGAAAGCGAAGCAGATCGAAGACACCAG-CCTTG
*
25955516 CCTTCCTGCACCGAAAGTGAAGCAGATCGAAGACACCAGCCTTG
1 CCTTCCTGCACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTG
25955560 CCT
1 CCT
25955563 CCCTAGGTTG
Statistics
Matches: 173, Mismatches: 80, Indels: 28
0.62 0.28 0.10
Matches are distributed among these distances:
43 56 0.32
44 63 0.36
45 54 0.31
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.19
Consensus pattern (44 bp):
CCTTCCTGCACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTG
Found at i:25955744 original size:88 final size:88
Alignment explanation
Indices: 25955157--25955719 Score: 914
Period size: 88 Copynumber: 6.4 Consensus size: 88
25955147 TGAAGATAAT
* * * * *
25955157 AGATCTTTCCTTCCTGCAACGACAACGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
* *
25955222 TAGCGGAGCAAGTT-AAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* *
25955244 AGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
25955309 CAGCGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* *
25955332 AGATCTTGCCTTCCTGCACCGAAAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
*
25955397 TAGCGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
25955420 AGATCTTG-CTTGCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 AGATCTTGCCTT-CCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
25955484 GCAGCGGAGCAGGTTAAAAATAGC
65 GCAGCGGAGCAGGTTAAAAATAGC
* *
25955508 AGATCTTGCCTTCCTGCACCGAAAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
* *
25955573 TAGCGGAGCAGGTTAAAAATAGT
66 CAGCGGAGCAGGTTAAAAATAGC
* * * *
25955596 AGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
25955661 CAGCGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
*
25955684 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATC
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
25955720 AATGACCCAA
Statistics
Matches: 444, Mismatches: 29, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
87 74 0.17
88 367 0.83
89 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTG
CAGCGGAGCAGGTTAAAAATAGC
Found at i:25956276 original size:44 final size:44
Alignment explanation
Indices: 25956185--25956293 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
25956175 CTTATCTCCT
* *
25956185 TGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTTTCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAACCAATAATCCTTTCGCCC
* * *
25956229 TGAAGTTGCAGTGGAGCGGATTAAAACCACA-GAT-CTTATCGCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAACCA-ATAATCCTT-TCGCCC
* *
25956273 TGAAGTTGCAGTAGAGTAGAT
1 TGAAGTTGCAGTGGAGCAGAT
25956294 CACATTGGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 3 0.05
44 51 0.93
45 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTAAAACCAATAATCCTTTCGCCC
Found at i:25956773 original size:21 final size:21
Alignment explanation
Indices: 25956728--25956803 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
25956718 ATCTTCAAGG
*
25956728 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
25956747 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
25956768 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
25956789 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
25956804 GATTTAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:25962909 original size:36 final size:36
Alignment explanation
Indices: 25962806--25962920 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
25962796 CGAGGCTGGG
* *
25962806 CATGC-ACTCCATGCATTCCATACAAAACATGTATTT
1 CATGCAAC-CCATGCATTCCATGCAAAACATGCATTT
*** ** *
25962842 CATGCATTGCATGTGTTCCATGTAAAACATGCATTT
1 CATGCAACCCATGCATTCCATGCAAAACATGCATTT
* * **
25962878 CATGCAACCCATGCATTTCATGCAAACCATGCATCC
1 CATGCAACCCATGCATTCCATGCAAAACATGCATTT
25962914 CATGCAA
1 CATGCAA
25962921 TATGCTGCAT
Statistics
Matches: 60, Mismatches: 18, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (36 bp):
CATGCAACCCATGCATTCCATGCAAAACATGCATTT
Found at i:25962917 original size:18 final size:18
Alignment explanation
Indices: 25962814--25962920 Score: 79
Period size: 18 Copynumber: 5.9 Consensus size: 18
25962804 GGCATGCACT
*
25962814 CCATGCATTCCATACAAA
1 CCATGCATTCCATGCAAA
* * * **
25962832 ACATGTATTTCATGCATT
1 CCATGCATTCCATGCAAA
* ** *
25962850 GCATGTGTTCCATGTAAA
1 CCATGCATTCCATGCAAA
* * *
25962868 ACATGCATTTCATGCAAC
1 CCATGCATTCCATGCAAA
*
25962886 CCATGCATTTCATGCAAA
1 CCATGCATTCCATGCAAA
*
25962904 CCATGCATCCCATGCAA
1 CCATGCATTCCATGCAA
25962921 TATGCTGCAT
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (18 bp):
CCATGCATTCCATGCAAA
Found at i:25975872 original size:31 final size:30
Alignment explanation
Indices: 25975812--25975872 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
25975802 ATTATAAAAT
* *
25975812 AAAAAATTAATTAAAATTACATAAATGAAA
1 AAAAAATTAAATAAAATTACAAAAATGAAA
*
25975842 AAAAATATTAAATAATATT-CAAAAATTGAAA
1 AAAAA-ATTAAATAAAATTACAAAAA-TGAAA
25975873 TTAACCCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (30 bp):
AAAAAATTAAATAAAATTACAAAAATGAAA
Found at i:25987889 original size:13 final size:13
Alignment explanation
Indices: 25987873--25987925 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
25987863 TTTTAAAAAT
*
25987873 ACTTATCAAAAGC
1 ACTTTTCAAAAGC
*
25987886 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
* *
25987899 ACCTTTCAAAAAC
1 ACTTTTCAAAAGC
25987912 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25987925 A
1 A
25987926 TTGTTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.26
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25989365 original size:42 final size:40
Alignment explanation
Indices: 25989319--25989414 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
25989309 ACAACACTGG
25989319 TGGCTTGACCACATATTACTGGC-AGCTTGCCTGTAATTCTGA
1 TGGCTTGACCACA-A-TA-TGGCTAGCTTGCCTGTAATTCTGA
* * * *
25989361 TGGCTTGCCCACAATATTGCTAGCTTGCCTGTAATTTTGG
1 TGGCTTGACCACAATATGGCTAGCTTGCCTGTAATTCTGA
25989401 TGGCTT-ATCCACAA
1 TGGCTTGA-CCACAA
25989415 CACTAGCAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
39 3 0.06
40 31 0.66
41 1 0.02
42 12 0.26
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (40 bp):
TGGCTTGACCACAATATGGCTAGCTTGCCTGTAATTCTGA
Found at i:25989406 original size:20 final size:20
Alignment explanation
Indices: 25989343--25989406 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
25989333 ATTACTGGCA
*
25989343 GCTTGCCTGTAATTCTGATG
1 GCTTGCCTGTAATTTTGATG
*** * * *
25989363 GCTTGCCCACAATATTGCTA
1 GCTTGCCTGTAATTTTGATG
*
25989383 GCTTGCCTGTAATTTTGGTG
1 GCTTGCCTGTAATTTTGATG
25989403 GCTT
1 GCTT
25989407 ATCCACAACA
Statistics
Matches: 31, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
GCTTGCCTGTAATTTTGATG
Found at i:25992533 original size:16 final size:15
Alignment explanation
Indices: 25992501--25992530 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25992491 TATGTGTAAG
25992501 TGTGCATACCAAAAA
1 TGTGCATACCAAAAA
25992516 TGTGCATACCAAAAA
1 TGTGCATACCAAAAA
25992531 ATGAATGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
TGTGCATACCAAAAA
Found at i:26001783 original size:49 final size:50
Alignment explanation
Indices: 26001730--26001869 Score: 138
Period size: 51 Copynumber: 2.8 Consensus size: 50
26001720 GTGGAAGTAG
* *
26001730 TGGCAGTATATCTACAAATCAGTGGTGGATTGTCCACAAAAT-TTATCAA
1 TGGCAGTATATATACAAATCAGTGGTGGCTTGTCCACAAAATGTTATCAA
* * * * * * * *
26001779 TGGCAGTATATTTGCATACCAGTGGTGCCTTGTCCATAAAAATGTTATTAG
1 TGGCAGTATATATACAAATCAGTGGTGGCTTGTCCA-CAAAATGTTATCAA
* * * *
26001830 TTGTAGTTTATATACAAATCAGTGATGGCTTGTCCACAAA
1 TGGCAGTATATATACAAATCAGTGGTGGCTTGTCCACAAA
26001870 TGGTGTTTCG
Statistics
Matches: 70, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
49 30 0.43
50 8 0.11
51 32 0.46
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (50 bp):
TGGCAGTATATATACAAATCAGTGGTGGCTTGTCCACAAAATGTTATCAA
Found at i:26005278 original size:24 final size:24
Alignment explanation
Indices: 26005246--26005319 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 24
26005236 CTGATATAAT
*
26005246 AACCATTTCAATGATATCATTTTC
1 AACCATTTCAATGATATCCTTTTC
* * *
26005270 AACCTTTTCAATGTTGTCCTTTTC
1 AACCATTTCAATGATATCCTTTTC
* * *
26005294 GACCATTTCATTGGTATCCTTTTC
1 AACCATTTCAATGATATCCTTTTC
26005318 AA
1 AA
26005320 ACTTTTCCTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.08, T:0.45
Consensus pattern (24 bp):
AACCATTTCAATGATATCCTTTTC
Found at i:26005829 original size:13 final size:14
Alignment explanation
Indices: 26005807--26005839 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
26005797 ATCCATGAAA
26005807 ACAT-AATTTCTTT
1 ACATAAATTTCTTT
26005820 A-ATAAATTTCTTT
1 ACATAAATTTCTTT
26005833 ACATAAA
1 ACATAAA
26005840 CATCCATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 11 0.61
14 5 0.28
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
ACATAAATTTCTTT
Found at i:26018633 original size:50 final size:50
Alignment explanation
Indices: 26018532--26018668 Score: 139
Period size: 50 Copynumber: 2.7 Consensus size: 50
26018522 TAAGGTTATA
* ** * * *
26018532 AGAGGTCCCACTTAAGACCATGTCTGGGACATGGTGTTGGTATCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
26018582 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** * * * * *
26018632 AGAACTCTCATGTAAGACCATATTTGGGATATGGCAT
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAT
26018669 TTGCAGTACA
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:26032247 original size:25 final size:25
Alignment explanation
Indices: 26032211--26032271 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
26032201 CTCCTAAATT
*
26032211 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
26032236 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
26032261 TTAATTAAATT
1 TTAATTAAATT
26032272 TTTGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:26033166 original size:3 final size:3
Alignment explanation
Indices: 26033158--26033182 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26033148 GATCCCGAAA
26033158 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
26033183 TCCCGTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26046146 original size:27 final size:27
Alignment explanation
Indices: 26046105--26046202 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
26046095 TAGCTGACTA
* * * * *
26046105 CCCATGTCTAGTGTCCCAGCGGAGTTC
1 CCCATGTATAATGTCTCAGAGGACTTC
*
26046132 CCCATGTATAATGTCTCGGAGGACTTC
1 CCCATGTATAATGTCTCAGAGGACTTC
* * *
26046159 CCCATATTTAATGTCTCAGTGGACTTC
1 CCCATGTATAATGTCTCAGAGGACTTC
* * *
26046186 CTCATGTTTAGTGTCTC
1 CCCATGTATAATGTCTC
26046203 GATAGGCTTC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (27 bp):
CCCATGTATAATGTCTCAGAGGACTTC
Found at i:26046389 original size:40 final size:43
Alignment explanation
Indices: 26046287--26046402 Score: 148
Period size: 40 Copynumber: 2.7 Consensus size: 43
26046277 CACATGACGC
* *
26046287 CATAGCATCTTTCAACTATGGTCTTACTCATTTCTATCATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCA--TCTATCATGATGT
* *
26046332 CATAACATATTTTAGCTATGGTCTTACTCAT-T-T-ATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
*
26046372 CATAACATCTTTCAGCTATGGCCTTACTCAT
1 CATAACATCTTTCAGCTATGGTCTTACTCAT
26046403 AATTGGCTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 35 0.55
41 1 0.02
42 1 0.02
43 1 0.02
45 26 0.41
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (43 bp):
CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
Found at i:26050713 original size:62 final size:62
Alignment explanation
Indices: 26050640--26050763 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
26050630 TGCTATAAGC
* *
26050640 AAGTGTCTACATCCATAAACAAGCCTGAAAGCATGATAGGGTCTCTACATGAATAAGTCTCT
1 AAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
*
26050702 AAGTGTGTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
1 AAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
26050764 GCATGAGGAG
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:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (62 bp):
AAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
Found at i:26051267 original size:61 final size:61
Alignment explanation
Indices: 26051121--26051259 Score: 199
Period size: 61 Copynumber: 2.3 Consensus size: 61
26051111 AGTTTTTTTT
*
26051121 TTTGTTACATGTAAGCCCTAGTGGCAAAACCTTTTGTATGTGAAAGCCTTTGTGGCTGTTC
1 TTTGTTACATGTAAGCCCTAGTGGCAAAACCTTTTATATGTGAAAGCCTTTGTGGCTGTTC
* * * * *
26051182 TTTATTACATGTGAGCCCTAGTGGCAAAA-CTTGTTATATGTGGAAGCCTTTTTGGTTGTTC
1 TTTGTTACATGTAAGCCCTAGTGGCAAAACCTT-TTATATGTGAAAGCCTTTGTGGCTGTTC
*
26051243 TTTGTTACATGTCAGCC
1 TTTGTTACATGTAAGCC
26051260 TTTGTGGCTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 3 0.04
61 66 0.96
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (61 bp):
TTTGTTACATGTAAGCCCTAGTGGCAAAACCTTTTATATGTGAAAGCCTTTGTGGCTGTTC
Found at i:26051435 original size:30 final size:30
Alignment explanation
Indices: 26051379--26051456 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
26051369 GTATCTGGTG
*
26051379 GCCCTTGTGGCTATCTAATATTGTATGGAT
1 GCCCTTGTGGCTATCTAATATCGTATGGAT
*
26051409 GCCCTTGTGGCTATCTAAT-TACGTATGGGT
1 GCCCTTGTGGCTATCTAATAT-CGTATGGAT
*
26051439 G-CTTCTGTGGCTATCTAA
1 GCCCT-TGTGGCTATCTAA
26051457 GTCAAGTGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 3 0.07
30 40 0.93
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (30 bp):
GCCCTTGTGGCTATCTAATATCGTATGGAT
Found at i:26058828 original size:277 final size:281
Alignment explanation
Indices: 26058447--26058964 Score: 731
Period size: 277 Copynumber: 1.9 Consensus size: 281
26058437 ACTCTTATTT
* * *
26058447 TTTTCTATTAATATATTATATTATTTTCTCTCTTCCTCTTCAAGTAGAACTTTTGTATTTTTGTT
1 TTTTCTATTAATATATTATATTATTTTCTCTCTTCCTATTCAAGTAGAACTATTATATTTTTGTT
* *
26058512 TATAAAAAAGAATCATGTGAAGCCAAAAAAATAGAACTCATAGATATGTGGTAAC-TCTATCAAA
66 TAT-AAAAAGAACCATGTGAAGCCAAAAAAATAGAACTCATAGATATGTAGTAACGT-TATCAAA
* *
26058576 ATTTAGAGAAATTTATTAGTTACAAATAAATTATAAATTTTGTGAGCACATGAGCTTTTCGATTT
129 ATTTAGACAAATTTATTAGTTAAAAATAAATTATAAATTTTGTGAGCACATGAGCTTTTCGATTT
*
26058641 TTGATATTACGGATAGAATAAAATTCCCCCACCAAAAAATTAAACTTTTATGTTGCCCACCACAT
194 TTGATATTACGGAGAGAATAAAATTCCCCCACCAAAAAATTAAACTTTTATGTTGCCCACCACAT
26058706 ATAAGTCCTAGTAGGACCCTAAG
259 ATAAGTCCTAGTAGGACCCTAAG
* *** *
26058729 TTTTCTATTAATATATTATATT-TTTTCTCTCTTCGTATTCAAGTAGCGGTATTATGTTTTT-TT
1 TTTTCTATTAATATATTATATTATTTTCTCTCTTCCTATTCAAGTAGAACTATTATATTTTTGTT
* * * * *
26058792 TAT-AAAAGAACCATGTGAATCC-AAAAAATAGAACTCATCGGTATGTAGTTACGTTATTAAAAT
66 TATAAAAAGAACCATGTGAAGCCAAAAAAATAGAACTCATAGATATGTAGTAACGTTATCAAAAT
* **
26058855 TTAGACAAATTTATTAGTTAAAAATAAATTCTAAATTTTGTGAGCACATGATTTTTTCGATTTTT
131 TTAGACAAATTTATTAGTTAAAAATAAATTATAAATTTTGTGAGCACATGAGCTTTTCGATTTTT
* * * * ** *
26058920 TATATTATGGAGAGAATTAATTTTTCCCACTAAAAAATTAAACTT
196 GATATTACGGAGAGAATAAAATTCCCCCACCAAAAAATTAAACTT
26058965 CTCATACTAT
Statistics
Matches: 207, Mismatches: 28, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
277 131 0.63
278 18 0.09
280 5 0.02
281 31 0.15
282 22 0.11
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (281 bp):
TTTTCTATTAATATATTATATTATTTTCTCTCTTCCTATTCAAGTAGAACTATTATATTTTTGTT
TATAAAAAGAACCATGTGAAGCCAAAAAAATAGAACTCATAGATATGTAGTAACGTTATCAAAAT
TTAGACAAATTTATTAGTTAAAAATAAATTATAAATTTTGTGAGCACATGAGCTTTTCGATTTTT
GATATTACGGAGAGAATAAAATTCCCCCACCAAAAAATTAAACTTTTATGTTGCCCACCACATAT
AAGTCCTAGTAGGACCCTAAG
Found at i:26063559 original size:30 final size:30
Alignment explanation
Indices: 26063542--26063602 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
26063532 TGTATACAAA
26063542 AAATAAAAATAATAATATATATATAATAAT
1 AAATAAAAATAATAATATATATATAATAAT
* * *
26063572 ATATAAAAATAATATAAAAATATATAA-AAT
1 AAATAAAAATAATA-ATATATATATAATAAT
26063602 A
1 A
26063603 GTTAGGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (30 bp):
AAATAAAAATAATAATATATATATAATAAT
Found at i:26063575 original size:10 final size:10
Alignment explanation
Indices: 26063544--26063600 Score: 71
Period size: 10 Copynumber: 5.6 Consensus size: 10
26063534 TATACAAAAA
26063544 ATAAAAATA-
1 ATAAAAATAT
*
26063553 ATAATATATAT
1 ATAA-AAATAT
*
26063564 ATAATAATAT
1 ATAAAAATAT
26063574 ATAAAAATAAT
1 ATAAAAAT-AT
26063585 ATAAAAATAT
1 ATAAAAATAT
26063595 ATAAAA
1 ATAAAA
26063601 TAGTTAGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.10
10 23 0.56
11 14 0.34
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:26063593 original size:8 final size:9
Alignment explanation
Indices: 26063534--26063673 Score: 56
Period size: 9 Copynumber: 14.9 Consensus size: 9
26063524 GAATATAATG
*
26063534 TATACAAAA
1 TATATAAAA
*
26063543 AATA-AAAA
1 TATATAAAA
26063551 TA-ATAATATA
1 TATATAA-A-A
26063561 TATATAATAA
1 TATATAA-AA
26063571 TATATAAAAA
1 TATAT-AAAA
26063581 TAATATAAAAA
1 T-ATAT-AAAA
26063592 TATATAAAA
1 TATATAAAA
**
26063601 TAGT-TAGGA
1 TA-TATAAAA
*
26063610 TATAT-ATA
1 TATATAAAA
*
26063618 TAGAATAAAA
1 TA-TATAAAA
* *
26063628 TAGATATAA
1 TATATAAAA
26063637 TATAT-AAA
1 TATATAAAA
*
26063645 TAAATTAAATA
1 TATA-TAAA-A
*
26063656 TAATATTAAA
1 T-ATATAAAA
26063666 TATATAAA
1 TATATAAA
26063674 TAAATTAAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
7 1 0.01
8 16 0.16
9 34 0.34
10 25 0.25
11 23 0.23
12 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
TATATAAAA
Found at i:26063639 original size:27 final size:26
Alignment explanation
Indices: 26063541--26063682 Score: 88
Period size: 27 Copynumber: 5.3 Consensus size: 26
26063531 ATGTATACAA
26063541 AAAATAAAAATAATAATATATATATAAT
1 AAAATAAAAATAAT-ATATATATA-AAT
* * *
26063569 AATATATAAAAATAATATAAAAATATAT
1 AA-A-ATAAAAATAATATATATATAAAT
*** **
26063597 AAAATAGTTAGGATATATATATAGAAT
1 AAAATAAAAATAATATATATATA-AAT
* * *
26063624 AAAATAGATATAATATATAAATAAAT
1 AAAATAAAAATAATATATATATAAAT
* * * *
26063650 TAAAT-ATAATATTAAATATATAAAT
1 AAAATAAAAATAATATATATATAAAT
*
26063675 AAATTAAA
1 AAAATAAA
26063683 CCAAAAGAGT
Statistics
Matches: 85, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
25 17 0.20
26 21 0.25
27 22 0.26
28 6 0.07
29 8 0.09
30 11 0.13
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATAAAAATAATATATATATAAAT
Found at i:26063655 original size:17 final size:17
Alignment explanation
Indices: 26063635--26063682 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 17
26063625 AAATAGATAT
26063635 AATATATAAATAAATT-
1 AATATATAAATAAATTA
26063651 AA-ATAT-AAT--ATTA
1 AATATATAAATAAATTA
26063664 AATATATAAATAAATTA
1 AATATATAAATAAATTA
26063681 AA
1 AA
26063683 CCAAAAGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 7 0.26
15 7 0.26
16 2 0.07
17 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:26063673 original size:20 final size:22
Alignment explanation
Indices: 26063567--26063675 Score: 77
Period size: 22 Copynumber: 5.0 Consensus size: 22
26063557 TATATATATA
* *
26063567 ATAATATATAAAAATAATATAAAA
1 ATAATATATAAATA-AAT-TAAAT
* *
26063591 AT-ATATA-AAAT-AGTTAGGAT
1 ATAATATATAAATAAATTA-AAT
* *
26063611 AT-ATATATAGAATAAAATAGAT
1 ATAATATATA-AATAAATTAAAT
26063633 ATAATATATAAATAAATTAAAT
1 ATAATATATAAATAAATTAAAT
*
26063655 ATAATAT-TAAATATA-TAAAT
1 ATAATATATAAATAAATTAAAT
26063675 A
1 A
26063676 AATTAAACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
19 2 0.03
20 16 0.23
21 8 0.11
22 28 0.39
23 15 0.21
24 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (22 bp):
ATAATATATAAATAAATTAAAT
Found at i:26065849 original size:27 final size:27
Alignment explanation
Indices: 26065814--26065871 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
26065804 GCATCATAGT
* *
26065814 TAGT-TGTCGGGACAATAAACATAGGA
1 TAGTCTGTCGAGACAATAAACACAGGA
*
26065840 TAGTCTGTCGAGACAATAAACACGGGA
1 TAGTCTGTCGAGACAATAAACACAGGA
26065867 TAGTC
1 TAGTC
26065872 CATCGGGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (27 bp):
TAGTCTGTCGAGACAATAAACACAGGA
Found at i:26070372 original size:45 final size:45
Alignment explanation
Indices: 26070303--26070388 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
26070293 AGATACTCGA
* *
26070303 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
26070348 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
26070389 TCGATTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:26070457 original size:51 final size:50
Alignment explanation
Indices: 26070390--26070584 Score: 196
Period size: 51 Copynumber: 3.9 Consensus size: 50
26070380 CAATGATGTT
* * *
26070390 CGATTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
26070441 CGATACACGTAGTAGCCTGCACATAGTACTATACACGTGATCGAAACTATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
26070492 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* * * *
26070542 CGGTACACGTAGTAGCCTGCACACAATACTACA-ACGTGACCAT
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
26070585 CACTTTCACT
Statistics
Matches: 117, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 8 0.07
50 33 0.28
51 74 0.63
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:26073192 original size:21 final size:21
Alignment explanation
Indices: 26073168--26073211 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
26073158 TATATATAAA
26073168 AATATATATTTGATTAAAAAT
1 AATATATATTTGATTAAAAAT
26073189 AATATATATTTGATTAAAAAT
1 AATATATATTTGATTAAAAAT
26073210 AA
1 AA
26073212 AAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
AATATATATTTGATTAAAAAT
Found at i:26077458 original size:18 final size:17
Alignment explanation
Indices: 26077431--26077485 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
26077421 TAAAATATGG
*
26077431 AAAATGTAAAGGTATTAT
1 AAAATATAAAGGTA-TAT
*
26077449 AAAATATAAATGTATAT
1 AAAATATAAAGGTATAT
*
26077466 ACATATATAAA--TATAT
1 A-AAATATAAAGGTATAT
26077482 AAAA
1 AAAA
26077486 ACTATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 4 0.12
18 20 0.62
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
AAAATATAAAGGTATAT
Found at i:26077535 original size:156 final size:155
Alignment explanation
Indices: 26077375--26077684 Score: 461
Period size: 156 Copynumber: 2.0 Consensus size: 155
26077365 TGGTGTAAGA
* *
26077375 ATATATATATACATATTATAAAGAATGTATAAAC-ATATATAGATTATAAAATATGGAAAATGTA
1 ATATATATATACAAATTATAAAAAATGTATAAACAATATATAGATTATAAAATATGGAAAATGTA
* *
26077439 -AAGGTATTATAAAATATAAATGTATATACATATATAAATATATAAAAACTATGAAAATAAAATA
66 TAA-ATATTATAAAATATAAATGTATATAC--ATAT--ATATATAAAAACTATAAAAATAAAATA
26077503 AT-A-AT-ATAATAATAAAAGATGTATATG
126 ATAATATGATAATAATAAAAGATGTATATG
*
26077530 -TATATATATACAAATTATAAAAAATGTATAAACATATATATAGATTATATAATATGGAAAATGT
1 ATATATATATACAAATTATAAAAAATGTATAAACA-ATATATAGATTATAAAATATGGAAAATGT
26077594 ATAAATATTATAAAATATAAATGTATATACATATATATATAAAAACTATAAAAATAAAATAATAA
65 ATAAATATTATAAAATATAAATGTATATACATATATATATAAAAACTATAAAAATAAAATAATAA
* *
26077659 TATGATAATAATAATATATGTATATG
130 TATGATAATAATAAAAGATGTATATG
26077685 TATTTAAAAA
Statistics
Matches: 142, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
152 28 0.20
153 1 0.01
154 37 0.26
155 20 0.14
156 54 0.38
157 2 0.01
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (155 bp):
ATATATATATACAAATTATAAAAAATGTATAAACAATATATAGATTATAAAATATGGAAAATGTA
TAAATATTATAAAATATAAATGTATATACATATATATATAAAAACTATAAAAATAAAATAATAAT
ATGATAATAATAAAAGATGTATATG
Found at i:26077590 original size:95 final size:94
Alignment explanation
Indices: 26077456--26077647 Score: 205
Period size: 95 Copynumber: 2.0 Consensus size: 94
26077446 TATAAAATAT
*
26077456 AAATGTATATACATATATAAATATATAAAAACTATGAAAATAAA-ATAATAATATAATAATAAAA
1 AAATGTATAAACATATATAAATATATAAAAACTATGAAAATAAATA-AATAATATAA-AATAAAA
* * *
26077520 GATGTATAT-GTATATATATACAAATTATAAA
64 -ATGTATATAATATATATATAAAAACTATAAA
* ** * *
26077551 AAATGTATAAACATATATATAGAT-TAT-ATAA-TATGGAAAATGTATAAATATTATAAAATATA
1 AAATGTATAAACATATATA-A-ATATATAAAAACTAT-GAAAATAAATAAATAATATAAAATAAA
26077613 AATGTATATACATATATATATAAAAACTATAAA
63 AATGTATATA-ATATATATATAAAAACTATAAA
26077646 AA
1 AA
26077648 TAAAATAATA
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
93 8 0.10
94 9 0.11
95 58 0.71
96 5 0.06
97 2 0.02
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (94 bp):
AAATGTATAAACATATATAAATATATAAAAACTATGAAAATAAATAAATAATATAAAATAAAAAT
GTATATAATATATATATAAAAACTATAAA
Found at i:26077751 original size:3 final size:3
Alignment explanation
Indices: 26077743--26077777 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
26077733 ATGCGTAAGT
26077743 ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A
26077778 AAGTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:26079210 original size:86 final size:83
Alignment explanation
Indices: 26079065--26079594 Score: 446
Period size: 86 Copynumber: 6.3 Consensus size: 83
26079055 TCTCTAGTCT
* * *
26079065 ACTCCACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCT-TTAATGCAACTTCAGAGAGA
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTT-CTGCAACTTCAGAGAGA
*
26079129 TAAGATCTATAATTTTTAATCC
65 TAAGATC--TGA-TTTTAATCC
* * * *
26079151 ACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTACTCTTCTGCAACTTCAGAGAGAT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGAT
26079216 AAGATCTGATTTTAATCC
66 AAGATCTGATTTTAATCC
* * * *
26079234 GCTTCACTGCAACTTCA-GTAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTTAGAGAGAT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGAT
26079298 AAGATCTGATTTTAATCC
66 AAGATCTGATTTTAATCC
* * * * * * * ** *
26079316 GCTCCACTGTAACTTTAGGGAGATAGGA-TTGATTTCTTCTATCTGCTCCACTGCAACTTCAGGG
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGA----TGCGATCTGCTCTTCTGCAACTTCAGAG
*** *
26079380 AGATAAGA-CTGGA-TGCGATCT
62 AGATAAGATCT-GATTTTAATCC
* * * * * *** * * *
26079401 GCTCTACTGCAACTTTAGAGAGATAAGATCT-AATTTTATTCCGCT-TCACTGCAACTTCAGGGA
1 ACTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGCGA-TCTGCTCT-TCTGCAACTTCAGAGA
* ** *
26079464 GATAGGAT-TGATTTCTTCTGTCT
63 GATAAGATCTGA-TT-TT-AATCC
* * * *
26079487 TCTCCACTGCAACTTCAGGGAAATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGAT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGAT
*
26079552 AAGATCTAATTTTAATCC
66 AAGATCTGATTTTAATCC
*
26079570 ACTCCACTACAACTTCAGGGAGATA
1 ACTCCACTGCAACTTCAGGGAGATA
26079595 GGATTGATTT
Statistics
Matches: 361, Mismatches: 64, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
82 83 0.23
83 83 0.23
84 5 0.01
85 61 0.17
86 126 0.35
87 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (83 bp):
ACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGAT
AAGATCTGATTTTAATCC
Found at i:26079372 original size:168 final size:168
Alignment explanation
Indices: 26079069--26079594 Score: 455
Period size: 168 Copynumber: 3.1 Consensus size: 168
26079059 TAGTCTACTC
*
26079069 CACTGCAACTTTAGAGAGATAAGACTGGATGCGATCTGCTTTAATGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTTTAATGCAACTTCAGAGAGATAAGA
*
26079134 TCTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTACTCTTC
66 TC-ATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTACTCTAC
26079199 TGCAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
130 TGCAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
* * *
26079238 CACTGCAACTTCAG-TAGATAAGACTGGATGCGATCTGCTCTT-CTGCAACTTTAGAGAGATAAG
1 CACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCT-TTAATGCAACTTCAGAGAGATAAG
* * * * * * * *
26079301 ATC-TGA-TTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGA-TTGATTTC-TTCTATCTGC
65 ATCATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGA-TGCGATCTA-CT-C
* *** *
26079362 TCCACTGCAACTTCAGGGAGATAAGA-CTGGA-TGCGATCTGC-T
127 T--ACTGCAACTTCAGAGAGATAAGATCT-GATTTTAATCCGCTT
* * *** * * * *
26079404 CTACTGCAACTTTAGAGAGATAAGATCT-AATTTTATTCCGCTTCACTGCAACTTCAGGGAGATA
1 C-ACTGCAACTTCAGAGAGATAAGA-CTGGATGCGA-TCTGCTTTAATGCAACTTCAGAGAGATA
* * ** ** * * * * * *
26079468 GGAT--TGATTTCTTCTGTCTTCTCCACTGCAACTTCAGGGAAATAAGACTGGATGCAATCTGCT
63 AGATCATAATTT-TT-AATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTACT
* * *
26079531 CTACTGCAACTTCAGAGAGATAAGATCTAATTTTAATCCACTC
126 CTACTGCAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
* *
26079574 CACTACAACTTCAGGGAGATA
1 CACTGCAACTTCAGAGAGATA
26079595 GGATTGATTT
Statistics
Matches: 285, Mismatches: 52, Indels: 40
0.76 0.14 0.11
Matches are distributed among these distances:
164 7 0.02
165 37 0.13
166 6 0.02
167 20 0.07
168 107 0.38
169 68 0.24
170 5 0.02
171 29 0.10
172 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (168 bp):
CACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTTTAATGCAACTTCAGAGAGATAAGA
TCATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTACTCTACT
GCAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
Found at i:26079678 original size:126 final size:127
Alignment explanation
Indices: 26079238--26079730 Score: 801
Period size: 127 Copynumber: 3.9 Consensus size: 127
26079228 TAATCCGCTT
* * *
26079238 CACTGCAACTTCA-GTAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTTAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * * *
26079302 TCTGATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGATTGATTTCTTCTATCTGCTC
66 TCTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
*
26079364 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * *
26079429 TCTAATTTTATTCCGCTTCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTC
66 TCTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* *
26079491 CACTGCAACTTCAGGGAAATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* *
26079556 TCTAATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCT-
66 TCTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* **
26079617 CACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTTTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
*
26079682 TCTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTT
66 TCTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTT
26079731 AACCAGTTTG
Statistics
Matches: 341, Mismatches: 25, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
126 119 0.35
127 222 0.65
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (127 bp):
CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
TCTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
Found at i:26079706 original size:253 final size:253
Alignment explanation
Indices: 26079238--26079730 Score: 808
Period size: 253 Copynumber: 1.9 Consensus size: 253
26079228 TAATCCGCTT
* * * * *
26079238 CACTGCAACTTCAGTAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTTAGAGAGATAAGAT
1 CACTGCAACTTCAGGAAATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* * ** *
26079303 CTGATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGATTGATTTCTTCTATCTGCTCCACT
66 CTAATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTATCTGCTCCACT
*
26079368 GCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTA
131 GCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTA
* *
26079433 ATTTTATTCCGCTTCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTC
196 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTC
26079491 CACTGCAACTTCAGGGAAATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCA-GGAAATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
*
26079556 TCTAATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCT-CAC
65 TCTAATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTATCTGCTCCAC
* **
26079620 TGTAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTTTGCAACTTCAGAGAGATAAGATCT
130 TGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
*
26079685 GATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTT
195 AATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTT
26079731 AACCAGTTTG
Statistics
Matches: 221, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
253 120 0.54
254 101 0.46
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (253 bp):
CACTGCAACTTCAGGAAATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTAATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTCTATCTGCTCCACT
GCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTA
ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTC
Found at i:26084453 original size:16 final size:16
Alignment explanation
Indices: 26084428--26084462 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
26084418 TTCTATAATG
26084428 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
*
26084444 AAATGTCATGCAGTCA
1 AAATGCCATGCAGTCA
26084460 AAA
1 AAA
26084463 CAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:26086266 original size:24 final size:23
Alignment explanation
Indices: 26086239--26086285 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
26086229 TGAATAGTGT
26086239 AAGAATATATATATACATAT-TATA
1 AAGAATATATA-A-ACATATATATA
*
26086263 AAGAATGTATAAACATATATATA
1 AAGAATATATAAACATATATATA
26086286 GATTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 5 0.24
24 10 0.48
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (23 bp):
AAGAATATATAAACATATATATA
Found at i:26086381 original size:61 final size:63
Alignment explanation
Indices: 26086266--26086391 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 63
26086256 TATTATAAAG
** *
26086266 AATGTATAAACATATATATAGATTATAAAATATGAAAAATGTATAGATATTATAA-AAT-ATA
1 AATGTATAAACATATATATAGATTATAAAATATGAAAAATAAATAGATAATATAATAATAATA
*
26086327 AATGTATATACATATATA-A-ATATATAAAAACTATG-AAAATAAAATA-ATAATATAATAATAA
1 AATGTATAAACATATATATAGAT-TAT-AAAA-TATGAAAAAT-AAATAGATAATATAATAATAA
26086388 TA
62 TA
26086390 AA
1 AA
26086392 AGATTTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
59 2 0.04
60 4 0.07
61 34 0.62
62 10 0.18
63 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (63 bp):
AATGTATAAACATATATATAGATTATAAAATATGAAAAATAAATAGATAATATAATAATAATA
Found at i:26086548 original size:61 final size:60
Alignment explanation
Indices: 26086419--26086548 Score: 131
Period size: 61 Copynumber: 2.1 Consensus size: 60
26086409 TATACATATT
* ** *
26086419 ATAAAAAATGTATAAACATATATATAGATTATATAATATGGAAAATGTATAAATATTATA
1 ATAATAAATGTATAAACATATATATAGATTATATAATATGGAAAATAAATAAATATGATA
* * *
26086479 AAATATAAATGTATATACATATATATATA-TATA-AACTAT-GAAAATAAAATAATAATATGATA
1 ATA-ATAAATGTATAAACATATATATAGATTATATAA-TATGGAAAAT-AAAT-A-AATATGATA
26086541 ATAATAAA
1 ATAATAAA
26086549 ATATGTATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
59 8 0.14
60 11 0.19
61 28 0.49
62 10 0.18
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (60 bp):
ATAATAAATGTATAAACATATATATAGATTATATAATATGGAAAATAAATAAATATGATA
Found at i:26086558 original size:157 final size:158
Alignment explanation
Indices: 26086244--26086562 Score: 550
Period size: 159 Copynumber: 2.0 Consensus size: 158
26086234 AGTGTAAGAA
*
26086244 TATATATATACATATTATAAAGAATGTATAAACATATATATAGATTATAAAATATGAAAAATGTA
1 TATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATAAAATATGAAAAATGTA
*
26086309 TAGATATTATAAAATATAAATGTATATACATATATAAATATATAAAAACTATGAAAATAAAATAA
66 TAAATATTATAAAATATAAATGTATATACATATAT-AATATATAAAAACTATGAAAATAAAATAA
*
26086374 TAATATAATAATAATAAAAGATTTATATG
130 TAATATAATAATAATAAAAGATGTATATG
* *
26086403 TATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATATAATATGGAAAATGTA
1 TATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATAAAATATGAAAAATGTA
*
26086468 TAAATATTATAAAATATAAATGTATATACATATAT-ATATATATAAACTATGAAAATAAAATAAT
66 TAAATATTATAAAATATAAATGTATATACATATATAATATATAAAAACTATGAAAATAAAATAAT
* *
26086532 AATATGATAATAATAAAATATGTATATG
131 AATATAATAATAATAAAAGATGTATATG
26086560 TAT
1 TAT
26086563 TTAAAAAACA
Statistics
Matches: 152, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
157 56 0.37
159 96 0.63
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (158 bp):
TATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATAAAATATGAAAAATGTA
TAAATATTATAAAATATAAATGTATATACATATATAATATATAAAAACTATGAAAATAAAATAAT
AATATAATAATAATAAAAGATGTATATG
Found at i:26086625 original size:3 final size:3
Alignment explanation
Indices: 26086617--26086669 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
26086607 ATGCGTAAGT
26086617 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
26086663 ATA ATA A
1 ATA ATA A
26086670 AAGTGTAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:26087272 original size:31 final size:31
Alignment explanation
Indices: 26087220--26087283 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
26087210 TATTTGTTTT
* * * *
26087220 AAGAAACAATGAAGAACATAAAAATAGTAAA
1 AAGAAACAAGGAAGAAAATAAAAAAAATAAA
26087251 AAGAAAC-AGGAAGAAAAATAAAAAAAATAAA
1 AAGAAACAAGGAAG-AAAATAAAAAAAATAAA
26087282 AA
1 AA
26087284 TAAAACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.73, C:0.05, G:0.12, T:0.09
Consensus pattern (31 bp):
AAGAAACAAGGAAGAAAATAAAAAAAATAAA
Found at i:26087282 original size:15 final size:16
Alignment explanation
Indices: 26087264--26087296 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
26087254 AAACAGGAAG
26087264 AAAAATAAAA-AAAAT
1 AAAAATAAAACAAAAT
26087279 AAAAATAAAACAAAAT
1 AAAAATAAAACAAAAT
26087295 AA
1 AA
26087297 TCACCTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAATAAAACAAAAT
Found at i:26088713 original size:105 final size:105
Alignment explanation
Indices: 26088531--26088740 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
26088521 GAAATAAAGC
26088531 TCAATCCCTAATACACCCTGTTACAGCTTGGGCCCATAAATCATCCCTACCAAAAGTAGACAGTA
1 TCAATCCCTAATACACCCTGTTACAGCTTGGGCCCATAAATCATCCCTACCAAAAGTAGACAGTA
26088596 GTAGAATAAAAAGGATCTGATGCAGCTATTATATCATAGA
66 GTAGAATAAAAAGGATCTGATGCAGCTATTATATCATAGA
26088636 TCAATCCCTAATACACCCTGTTACAGCTTGGGCCCATAAATCATCCCTACCAAAAGTAGACAGTA
1 TCAATCCCTAATACACCCTGTTACAGCTTGGGCCCATAAATCATCCCTACCAAAAGTAGACAGTA
26088701 GTAGAATAAAAAGGATCTGATGCAGCTATTATATCATAGA
66 GTAGAATAAAAAGGATCTGATGCAGCTATTATATCATAGA
26088741 CCCCGAATGG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (105 bp):
TCAATCCCTAATACACCCTGTTACAGCTTGGGCCCATAAATCATCCCTACCAAAAGTAGACAGTA
GTAGAATAAAAAGGATCTGATGCAGCTATTATATCATAGA
Found at i:26091643 original size:15 final size:16
Alignment explanation
Indices: 26091623--26091660 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
26091613 ATTTTAATAA
26091623 AAAAATTAAAATAT-T
1 AAAAATTAAAATATAT
*
26091638 AAAAATTAGAATATAT
1 AAAAATTAAAATATAT
26091654 AAAAATT
1 AAAAATT
26091661 GTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAATTAAAATATAT
Found at i:26091965 original size:7 final size:8
Alignment explanation
Indices: 26091950--26091982 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
26091940 TAATTTTTAA
26091950 TAAATTTT
1 TAAATTTT
26091958 TAAATTTT
1 TAAATTTT
26091966 TAAA-TTT
1 TAAATTTT
*
26091973 TATATTTT
1 TAAATTTT
26091981 TA
1 TA
26091983 TTATAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TAAATTTT
Found at i:26091979 original size:15 final size:16
Alignment explanation
Indices: 26091950--26091982 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26091940 TAATTTTTAA
26091950 TAAATTTTTAAATTTT
1 TAAATTTTTAAATTTT
*
26091966 TAAA-TTTTATATTTT
1 TAAATTTTTAAATTTT
26091981 TA
1 TA
26091983 TTATAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TAAATTTTTAAATTTT
Found at i:26092242 original size:90 final size:90
Alignment explanation
Indices: 26092082--26092245 Score: 222
Period size: 90 Copynumber: 1.8 Consensus size: 90
26092072 TTTTGAGGGA
* * ** *
26092082 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGACAAAAAAGGGAAGGGTTTAATTG
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTCAAAAAAAAAAGAAGGGATTAATTG
26092147 CTTTTTTTTGAATAAGTTTGAAGTC
66 CTTTTTTTTGAATAAGTTTGAAGTC
* *** *
26092172 CTTTTTTATGCATTTTGAAAGTTCAAGTGTTCAATTGAGTCCAAAAAAAAAAGAGGGGATTAATT
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGT-CAAAAAAAAAAGAAGGGATTAATT
26092237 G-TTTTTTTT
65 GCTTTTTTTT
26092246 AATTAAAGGC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 44 0.70
91 19 0.30
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (90 bp):
CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTCAAAAAAAAAAGAAGGGATTAATTG
CTTTTTTTTGAATAAGTTTGAAGTC
Found at i:26093282 original size:22 final size:22
Alignment explanation
Indices: 26093242--26093283 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26093232 GTAAATACTT
*
26093242 AAAAGTTAAGGATTCAAAGTGG
1 AAAAGTTAAGGACTCAAAGTGG
26093264 AAAAGTTCAAGGACT-AAAGT
1 AAAAGTT-AAGGACTCAAAGT
26093284 TGTAATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.21
Consensus pattern (22 bp):
AAAAGTTAAGGACTCAAAGTGG
Found at i:26094936 original size:34 final size:34
Alignment explanation
Indices: 26094898--26095004 Score: 78
Period size: 34 Copynumber: 3.1 Consensus size: 34
26094888 TCCACTCAAG
*
26094898 ATTAATGTATGTCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
** * * * *
26094932 ATTAAATCCAT-ACATAGTCTATCATCCA-CTCAAG--
1 ATT-AATGTATGACACA--CTATGA-ACATCACAAGTA
*
26094966 ATTAATGTATGCCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
26095000 ATTAA
1 ATTAA
26095005 ATCCATAAAC
Statistics
Matches: 51, Mismatches: 14, Indels: 16
0.63 0.17 0.20
Matches are distributed among these distances:
31 2 0.04
32 10 0.20
33 5 0.10
34 17 0.33
35 5 0.10
36 10 0.20
37 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (34 bp):
ATTAATGTATGACACACTATGAACATCACAAGTA
Found at i:26094982 original size:68 final size:68
Alignment explanation
Indices: 26094873--26095011 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 68
26094863 CGAGTGACGA
*
26094873 ATACATAGTCCATCATCCACTCAAGATTAATGTATGTCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
26094938 TCC
66 TCC
*
26094941 ATACATAGTCTATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
26095006 TCC
66 TCC
26095009 ATA
1 ATA
26095012 AACCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (68 bp):
ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
TCC
Found at i:26101794 original size:24 final size:25
Alignment explanation
Indices: 26101750--26101796 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
26101740 AACTGGGTAC
*
26101750 AGTTTCATTTGAATTTTTACTTTAT
1 AGTTACATTTGAATTTTTACTTTAT
26101775 AGTTACATTTG-ATTTTTACTTT
1 AGTTACATTTGAATTTTTACTTT
26101797 TGGCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (25 bp):
AGTTACATTTGAATTTTTACTTTAT
Found at i:26103378 original size:19 final size:19
Alignment explanation
Indices: 26103354--26103399 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
26103344 CTCTCTTAGG
*
26103354 GTTAGGGTTT-TTAAAGTTT
1 GTTAGGGTTTATT-AACTTT
26103373 GTTA-GGTTTATTAACTTT
1 GTTAGGGTTTATTAACTTT
26103391 GTTAGGGTT
1 GTTAGGGTT
26103400 AGGGTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.26, T:0.52
Consensus pattern (19 bp):
GTTAGGGTTTATTAACTTT
Found at i:26107657 original size:9 final size:9
Alignment explanation
Indices: 26107643--26107698 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
26107633 TTTGGTTAAA
26107643 AATTAACCG
1 AATTAACCG
26107652 AATTAACCG
1 AATTAACCG
* **
26107661 AACTGCCCG
1 AATTAACCG
26107670 AATTAACCG
1 AATTAACCG
*
26107679 AATTACCCG
1 AATTAACCG
26107688 AATTAACCG
1 AATTAACCG
26107697 AA
1 AA
26107699 GTGAATCCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (9 bp):
AATTAACCG
Found at i:26113287 original size:117 final size:118
Alignment explanation
Indices: 26113076--26113301 Score: 427
Period size: 117 Copynumber: 1.9 Consensus size: 118
26113066 ATTATGTGTT
* *
26113076 TGAATCGAAATGAACGAAATGAATAGAATTAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
1 TGAATCGAAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
26113141 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAAA
66 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAAA
26113194 TGAA-CGAAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
1 TGAATCGAAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
26113258 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGG
66 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGG
26113302 AATGATAATG
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
117 102 0.96
118 4 0.04
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.27
Consensus pattern (118 bp):
TGAATCGAAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAAA
Found at i:26113313 original size:57 final size:57
Alignment explanation
Indices: 26113242--26113357 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
26113232 AGAAACATTC
* * *
26113242 AGGAATGATTATGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGT
1 AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGT
26113299 AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGT
1 AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGT
26113356 AG
1 AG
26113358 CTTTTCTCTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (57 bp):
AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGT
Found at i:26113366 original size:46 final size:45
Alignment explanation
Indices: 26113316--26113434 Score: 124
Period size: 39 Copynumber: 2.8 Consensus size: 45
26113306 ATAATGGTTC
*
26113316 TCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGTAGCTTT
1 TCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATAT-GCTTT
* * * * *
26113362 TCTCTGAAATGGAGAAA--CATTCA---GG-AATGATTATGGTTT
1 TCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATATGCTTT
*
26113401 TTTCTGAAATGGAGAAATTGAATCATTTGGAAAT
1 TCTCTGAAATGGAGAAATTGAATCATTTGGAAAT
26113435 GAATTTAGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
39 20 0.34
40 6 0.10
41 6 0.10
44 6 0.10
45 3 0.05
46 17 0.29
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (45 bp):
TCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATATGCTTT
Found at i:26113446 original size:46 final size:46
Alignment explanation
Indices: 26113311--26113446 Score: 144
Period size: 46 Copynumber: 3.1 Consensus size: 46
26113301 GAATGATAAT
* * *
26113311 GGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGTA
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATTTA
* * *
26113357 GCTTTTCTCTGAAATGGAGAAA--CATTCA---GG-AATG-ATTAT-
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATT-TA
*
26113396 GGTTTTTTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATTTA
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATTTA
26113442 GGTTT
1 GGTTT
26113447 CTCATAATGG
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
39 22 0.31
40 4 0.06
41 6 0.08
44 6 0.08
45 5 0.07
46 28 0.39
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (46 bp):
GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATTTA
Found at i:26119520 original size:23 final size:23
Alignment explanation
Indices: 26119489--26119540 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
26119479 AAATGTTTGG
26119489 AAGG-ATCGTCTATTAGTTAGAT
1 AAGGAATCGTCTATTAGTTAGAT
*
26119511 AAGGAATCGTCTGTTAGTTAGAT
1 AAGGAATCGTCTATTAGTTAGAT
26119534 AAGGAAT
1 AAGGAAT
26119541 ATATGAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.33
Consensus pattern (23 bp):
AAGGAATCGTCTATTAGTTAGAT
Found at i:26122429 original size:20 final size:21
Alignment explanation
Indices: 26122406--26122451 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
26122396 AGAAAATTAA
*
26122406 AAAATAAATGA-TAAATAGTC
1 AAAATAAATAACTAAATAGTC
*
26122426 AAAAT-AATAACTAAATAGTG
1 AAAATAAATAACTAAATAGTC
26122446 AAAATA
1 AAAATA
26122452 TAGATTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (21 bp):
AAAATAAATAACTAAATAGTC
Found at i:26131026 original size:19 final size:19
Alignment explanation
Indices: 26130991--26131028 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26130981 ATGTTATTAT
*
26130991 TATTTTAATGTCTATAGAA
1 TATTTTAAGGTCTATAGAA
26131010 TATTATTAAGGTC-ATAGAA
1 TATT-TTAAGGTCTATAGAA
26131029 AAAGATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TATTTTAAGGTCTATAGAA
Found at i:26137046 original size:33 final size:33
Alignment explanation
Indices: 26137017--26137083 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
26137007 GATTATGCAT
26137017 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
* *
26137050 TGAAATGGTGAGTTATGTTCATGTTTTACGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
26137083 T
1 T
26137084 TACTAAGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (33 bp):
TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
Found at i:26138399 original size:3 final size:3
Alignment explanation
Indices: 26138384--26138443 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
26138374 TCTGGCTGCC
*
26138384 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
26138432 GAT GAT GAT GAT
1 GAT GAT GAT GAT
26138444 AAAGGCGCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:26139526 original size:82 final size:81
Alignment explanation
Indices: 26139377--26139546 Score: 198
Period size: 82 Copynumber: 2.1 Consensus size: 81
26139367 TGGTCAAATG
* ** *
26139377 TCGATATTTTATGAATTATTGATACCCTTCTTAAAAAAGATACCAAAATGGCATTTTATTTTTTC
1 TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCA-TTTATTTTTTC
* **
26139442 ACAAACCCTATTAAGTA
65 ACAAAACCTACAAAGTA
* * * *
26139459 TCGATATTTTCTGAAATATCAATACCTTTTCTTAAAAATGATACTAAAATAGCA-TTATTTTTCT
1 TCGATATTTTATGAAATATCAATACC-CTTCTTAAAAAAGATACCAAAATAGCATTTATTTTT-T
*
26139523 CACAAAACTTACAAAGTA
64 CACAAAACCTACAAAGTA
26139541 TCGATA
1 TCGATA
26139547 AAATTGTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
81 8 0.11
82 43 0.58
83 23 0.31
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (81 bp):
TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCATTTATTTTTTCA
CAAAACCTACAAAGTA
Found at i:26143129 original size:34 final size:34
Alignment explanation
Indices: 26143086--26143150 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
26143076 CAGTTCAGTT
*
26143086 GGCCTTAGCCCATTACAGTGACAGTATCAGTGTA
1 GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
26143120 GGCCTTAGCCCATTACAGTGACAGTAACAGT
1 GGCCTTAGCCCATTACAGTGACAGTAACAGT
26143151 TCAAACATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (34 bp):
GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
Found at i:26143460 original size:27 final size:27
Alignment explanation
Indices: 26143427--26143656 Score: 356
Period size: 27 Copynumber: 8.6 Consensus size: 27
26143417 TTAAGCATAT
*
26143427 AGTCATTTTATAACATAGGGGCCTAAC
1 AGTCATTTTATAACATAGGGGCATAAC
26143454 AGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
*
26143481 CGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
26143508 AGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
*
26143535 CGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
*
26143562 AGTTATTTTATAACATAGGGGCATAATC
1 AGTCATTTTATAACATAGGGGCATAA-C
* * * *
26143590 -GTTATTTTATAATATA-AGGCATAAT
1 AGTCATTTTATAACATAGGGGCATAAC
26143615 AGTCATTTTATAACATAGGGGCATAAC
1 AGTCATTTTATAACATAGGGGCATAAC
*
26143642 AATCATTTTATAACA
1 AGTCATTTTATAACA
26143657 GCTTGGGGGT
Statistics
Matches: 186, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
26 21 0.11
27 164 0.88
28 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (27 bp):
AGTCATTTTATAACATAGGGGCATAAC
Found at i:26165215 original size:11 final size:11
Alignment explanation
Indices: 26165199--26165231 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
26165189 AAACCTTTTC
26165199 TCTCTCAAAAT
1 TCTCTCAAAAT
26165210 TCTCTCTAAAA-
1 TCTCTC-AAAAT
26165221 TCTCTCAAAAT
1 TCTCTCAAAAT
26165232 AATTTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.20
11 12 0.60
12 4 0.20
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (11 bp):
TCTCTCAAAAT
Found at i:26166681 original size:18 final size:20
Alignment explanation
Indices: 26166635--26166676 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
26166625 GCCATGGATG
*
26166635 TATTATGCCAATATAATTGA
1 TATTGTGCCAATATAATTGA
26166655 TTGATTGTGCCAATATAATTGA
1 -T-ATTGTGCCAATATAATTGA
26166677 ATGTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (20 bp):
TATTGTGCCAATATAATTGA
Found at i:26174676 original size:22 final size:23
Alignment explanation
Indices: 26174648--26174701 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
26174638 ATTAATGAAT
26174648 AGAGAGCACTA-AAGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
26174670 AGAGAGCAC-AGATGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
26174692 GGAGAGCACT
1 AGAGAGCACT
26174702 GTCGTGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (23 bp):
AGAGAGCACTAGAAGTGCTAAAC
Found at i:26182724 original size:22 final size:22
Alignment explanation
Indices: 26182660--26182726 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
26182650 ATTGTATAGA
**
26182660 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGTT
26182682 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGTT
*
26182704 TCACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGTT
26182726 T
1 T
26182727 GAACAATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGTT
Found at i:26196622 original size:23 final size:23
Alignment explanation
Indices: 26196579--26196622 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
26196569 TAAAAATAGA
* *
26196579 ATTTTATATATAGATATGATTTT
1 ATTTTAAATATAGATAAGATTTT
26196602 ATTTTAAATAT-GATAGAGATT
1 ATTTTAAATATAGATA-AGATT
26196623 AATAATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
ATTTTAAATATAGATAAGATTTT
Found at i:26204124 original size:22 final size:22
Alignment explanation
Indices: 26204093--26204141 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
26204083 TACGTACATT
*
26204093 CCCGTGTGCAACCCCTCACACC
1 CCCGTATGCAACCCCTCACACC
*
26204115 CCCGTATGCAACCCCTCACACG
1 CCCGTATGCAACCCCTCACACC
26204137 CCCGT
1 CCCGT
26204142 GTGAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.53, G:0.14, T:0.14
Consensus pattern (22 bp):
CCCGTATGCAACCCCTCACACC
Found at i:26209780 original size:17 final size:18
Alignment explanation
Indices: 26209748--26209781 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26209738 ATGTATGGTT
*
26209748 CACCCAGGTGGGCCCACG
1 CACCCAAGTGGGCCCACG
26209766 CACCCAAGT-GGCCCAC
1 CACCCAAGTGGGCCCAC
26209782 CCCGCCCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.47, G:0.26, T:0.06
Consensus pattern (18 bp):
CACCCAAGTGGGCCCACG
Found at i:26213813 original size:26 final size:26
Alignment explanation
Indices: 26213780--26213831 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
26213770 GTATGTATGA
26213780 TTTTGATTGGTTTTGATATGAATATT
1 TTTTGATTGGTTTTGATATGAATATT
*
26213806 TTTTGATTGGTTTTGATATGAGTATT
1 TTTTGATTGGTTTTGATATGAATATT
26213832 GAAATGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (26 bp):
TTTTGATTGGTTTTGATATGAATATT
Found at i:26236390 original size:80 final size:81
Alignment explanation
Indices: 26236273--26236446 Score: 235
Period size: 80 Copynumber: 2.2 Consensus size: 81
26236263 ACCCCAAAAT
* *
26236273 AGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCAAAATACCTCCATAGGGTAAAATGA
1 AGGTAAAATGACTAAAATACCCCCATAGGATAAAATGACCAAAATACCCCCATAGGGTAAAATGA
* *
26236338 CTG-AATACCCCTACA
66 CCGAAATACCCCCACA
* * * *
26236353 AGGTAAAATGACTAAAATACTCCCGTAAGG-TAGAATGACCGAAATACCCCCATAGGGTAAAATG
1 AGGTAAAATGACTAAAATACCCCCAT-AGGATAAAATGACCAAAATACCCCCATAGGGTAAAATG
*
26236417 ACCGAAATACCCCCATA
65 ACCGAAATACCCCCACA
*
26236434 GGGTAAAATGACT
1 AGGTAAAATGACT
26236447 GTTATACCCC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 57 0.70
81 25 0.30
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (81 bp):
AGGTAAAATGACTAAAATACCCCCATAGGATAAAATGACCAAAATACCCCCATAGGGTAAAATGA
CCGAAATACCCCCACA
Found at i:26236456 original size:27 final size:27
Alignment explanation
Indices: 26236274--26236445 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
26236264 CCCCAAAATA
*
26236274 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
26236301 GATAAAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
26236328 GGTAAAATGACTG-AATACCCCTACAA
1 GGTAAAATGACCGAAATACCCCCATAG
** * * *
26236354 GGTAAAATGACTAAAATACTCCCGTAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
26236381 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
26236408 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
26236435 GGTAAAATGAC
1 GGTAAAATGAC
26236446 TGTTATACCC
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 21 0.17
27 102 0.83
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:26236894 original size:29 final size:29
Alignment explanation
Indices: 26236852--26236929 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
26236842 AACTGCATAT
*
26236852 CTGCACTAATTAATGATATTGTATTGTTA
1 CTGCACTGATTAATGATATTGTATTGTTA
26236881 CTGCACTGATTAATGATATTGTATTGTTA
1 CTGCACTGATTAATGATATTGTATTGTTA
*
26236910 CTGCA-TCGATTAATAATATT
1 CTGCACT-GATTAATGATATT
26236930 ACATACTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 1 0.02
29 45 0.98
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (29 bp):
CTGCACTGATTAATGATATTGTATTGTTA
Found at i:26238825 original size:21 final size:21
Alignment explanation
Indices: 26238784--26238823 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26238774 CGAAATGCAA
26238784 TCAACCTAAAATGAATTAAAT
1 TCAACCTAAAATGAATTAAAT
* *
26238805 TCAAGCTAAATTG-ATTAAA
1 TCAACCTAAAATGAATTAAA
26238824 ATAACCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (21 bp):
TCAACCTAAAATGAATTAAAT
Done.