Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 101 of 279
Found at i:32338568 original size:15 final size:14
Alignment explanation
Indices: 32338542--32338577 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
32338532 CCTTTTCTTC
*
32338542 TTTTATTCATTCAT
1 TTTTATTAATTCAT
32338556 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
32338571 TTTTATT
1 TTTTATT
32338578 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:32342591 original size:38 final size:39
Alignment explanation
Indices: 32342549--32342642 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
32342539 CCATCTCCGA
* *
32342549 CCAA-CCTAACACACCA-TGTGGGGATAGAATCGACCCAC
1 CCAACCCT-ACACACCAGTATGGGGATAGAATCAACCCAC
* *
32342587 CCAACCCTACACACCAAGTATGGGGATATAATCAACCCAT
1 CCAACCCTACACACC-AGTATGGGGATAGAATCAACCCAC
32342627 CCAACCCTACACACCA
1 CCAACCCTACACACCA
32342643 CAAGGTACCG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 11 0.22
39 5 0.10
40 33 0.67
ACGTcount: A:0.36, C:0.37, G:0.13, T:0.14
Consensus pattern (39 bp):
CCAACCCTACACACCAGTATGGGGATAGAATCAACCCAC
Found at i:32342625 original size:40 final size:40
Alignment explanation
Indices: 32342567--32342642 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
32342557 ACACACCATG
*
32342567 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* *
32342607 TGGGGATATAATCAACCCATCCAACCCTACACACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
32342643 CAAGGTACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.36, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:32344845 original size:17 final size:18
Alignment explanation
Indices: 32344832--32344956 Score: 93
Period size: 17 Copynumber: 6.9 Consensus size: 18
32344822 TAATCTTCAA
32344832 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
32344851 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
32344868 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
32344887 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
*
32344903 T-ATGATACAATCTTAGA-
1 TGAT-ATGCAATCTTAGAG
*
32344920 T-ATGACTGCAATCTTAGATA
1 TGAT-A-TGCAATCTTAGA-G
*
32344940 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
32344957 AGATATGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 29 0.32
18 22 0.24
19 29 0.32
20 4 0.04
21 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:32344856 original size:19 final size:19
Alignment explanation
Indices: 32344831--32344956 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
32344821 ATAATCTTCA
32344831 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
32344850 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32344869 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32344886 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32344904 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
32344921 ATGA-CTGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
32344939 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
32344957 AGATATGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:32344901 original size:35 final size:35
Alignment explanation
Indices: 32344839--32344956 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
32344829 CAATGATATG
*
32344839 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
32344875 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
32344910 CAATCTTAGATATGACTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
32344947 CAATCTTAGA
1 CAATCTTAGA
32344957 AGATATGATT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.64
36 15 0.19
37 13 0.17
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:32349468 original size:24 final size:24
Alignment explanation
Indices: 32349417--32349474 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
32349407 ACTTATTCGC
** *
32349417 ACACATAGTGCCACGTTTTTTCGA
1 ACACATAGTGCCACGTAATCTCGA
* *
32349441 ACACATAGTGCCATGTAATCTCGT
1 ACACATAGTGCCACGTAATCTCGA
32349465 ACACATAGTG
1 ACACATAGTG
32349475 TCGCATAGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (24 bp):
ACACATAGTGCCACGTAATCTCGA
Found at i:32361233 original size:100 final size:100
Alignment explanation
Indices: 32361060--32361260 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
32361050 TGGGCTACAT
32361060 TCTGGGGCAACACGACGAGTCAGGAAAGAAAGAAAAGGCAATCTACTACCTCAGCAAAAAGTTCA
1 TCTGGGGCAACACGACGAGTCAGGAAAGAAAGAAAAGGCAATCTACTACCTCAGCAAAAAGTTCA
32361125 CTGAATATGAGGCAAAGTATCCGTTCATTGAAAAA
66 CTGAATATGAGGCAAAGTATCCGTTCATTGAAAAA
32361160 TCTGGGGCAACACGACGAGTCAGGAAAGAAAGAAAAGGCAATCTACTACCTCAGCAAAAAGTTCA
1 TCTGGGGCAACACGACGAGTCAGGAAAGAAAGAAAAGGCAATCTACTACCTCAGCAAAAAGTTCA
32361225 CTGAATATGAGGCAAAGTATCCGTTCATTGAAAAA
66 CTGAATATGAGGCAAAGTATCCGTTCATTGAAAAA
32361260 T
1 T
32361261 ACTGTTGTGC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (100 bp):
TCTGGGGCAACACGACGAGTCAGGAAAGAAAGAAAAGGCAATCTACTACCTCAGCAAAAAGTTCA
CTGAATATGAGGCAAAGTATCCGTTCATTGAAAAA
Found at i:32363978 original size:72 final size:72
Alignment explanation
Indices: 32363892--32364204 Score: 403
Period size: 72 Copynumber: 4.3 Consensus size: 72
32363882 GTATTTTGAT
* * *
32363892 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
32363957 TGAGGTA
66 TGAGGTA
* *
32363964 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
32364029 TGAGGTA
66 TGAGGTA
* * * *
32364036 ATTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
32364101 TGAGGT-
66 TGAGGTA
* * * * ** *
32364107 ATTTTCAATTTCTGTTTTTCAAAAAAAAAATCGACTTATATTGCGAGAGGTGAGTTGAGCCTCAG
1 ATTTT-AATTTCT-ATTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
32364172 GACACGCTGAGGTA
59 GACACGCTGAGGTA
*
32364186 ATTTCAATTTCTATTTTCA
1 ATTTTAATTTCTATTTTCA
32364205 NGAGTCTAGA
Statistics
Matches: 214, Mismatches: 19, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
71 4 0.02
72 144 0.67
73 5 0.02
77 5 0.02
78 52 0.24
79 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (72 bp):
ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
TGAGGTA
Found at i:32369423 original size:5 final size:5
Alignment explanation
Indices: 32369393--32369422 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
32369383 ACAGGTGCTC
32369393 TCTTT TCTTT TCTTT TCTTT TCTTT T-TTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
32369423 TAATTACGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TCTTT
Found at i:32372329 original size:22 final size:23
Alignment explanation
Indices: 32372304--32372355 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
32372294 AATTCTATGC
32372304 TAAATTAATAA-AGAT-TAATATA
1 TAAATTAATAATAGATATAAT-TA
32372326 TAAATT-ATAATAGATATAATTA
1 TAAATTAATAATAGATATAATTA
*
32372348 TATATTAA
1 TAAATTAA
32372356 AGATTATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAATTAATAATAGATATAATTA
Found at i:32381197 original size:2 final size:2
Alignment explanation
Indices: 32381190--32381214 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32381180 CAACAATAGA
32381190 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
32381215 TACATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32383066 original size:39 final size:39
Alignment explanation
Indices: 32383022--32383204 Score: 258
Period size: 39 Copynumber: 4.7 Consensus size: 39
32383012 TGTGTGAGAT
* ** *
32383022 TTATATCCGGGCTAAGTCCCGAAGGCATTCATTTTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
32383061 TTATATTCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
32383100 TTATATCCGGGCTATGTCCCGAAGGCATTCTTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
32383139 TTATATCCGGGCTAAATCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
32383178 TTATATCCGGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
32383205 ATTGTTGTGG
Statistics
Matches: 124, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 124 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:32383159 original size:78 final size:78
Alignment explanation
Indices: 32383022--32383204 Score: 305
Period size: 78 Copynumber: 2.3 Consensus size: 78
32383012 TGTGTGAGAT
* * *
32383022 TTATATCCGGGCTAAGTCCCGAAGGCATTCATTTTGATGTTATATTCGGGTTAAGTCCCAAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCATTTTGATGTTATATCCGGGCTAAATCCCAAAGGC
32383087 ATTCGTGCTGGTG
66 ATTCGTGCTGGTG
* *
32383100 TTATATCCGGGCTATGTCCCGAAGGCATTC-TTGTTGGTGTTATATCCGGGCTAAATCCCAAAGG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCATT-TTGATGTTATATCCGGGCTAAATCCCAAAGG
32383164 CATTCGTGCTGGTG
65 CATTCGTGCTGGTG
32383178 TTATATCCGGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
32383205 ATTGTTGTGG
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
77 2 0.02
78 96 0.98
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (78 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCATTTTGATGTTATATCCGGGCTAAATCCCAAAGGC
ATTCGTGCTGGTG
Found at i:32383927 original size:126 final size:126
Alignment explanation
Indices: 32383702--32383955 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 126
32383692 TTAATTTTAA
32383702 ATGATTTCATTACTTAAAACTTACTAAGCATAGAAATGCTTACTTTGTTGCCCTTAATCCTCTGT
1 ATGATTTCATTACTTAAAACTTACTAAGCATAGAAATGCTTACTTTGTTGCCCTTAATCCTCTGT
32383767 TTTATAGATCTCGTTCGTTAGCTACGGTCTCGGGGATCTCAAAGTCGAAGTCGTCCACACT
66 TTTATAGATCTCGTTCGTTAGCTACGGTCTCGGGGATCTCAAAGTCGAAGTCGTCCACACT
*
32383828 ATGATTTCATTACTTAAATCTTACTAAGCATAGAAATGCTTACTTTGTTGCCCTTAATCCTCTGT
1 ATGATTTCATTACTTAAAACTTACTAAGCATAGAAATGCTTACTTTGTTGCCCTTAATCCTCTGT
32383893 TTTATAGATCTCGTTCGTTAGCTACGGTCTCGGGGATCTCAAAGTCGAAGTCGTCCACACT
66 TTTATAGATCTCGTTCGTTAGCTACGGTCTCGGGGATCTCAAAGTCGAAGTCGTCCACACT
32383954 AT
1 AT
32383956 CTAAGCCCAT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (126 bp):
ATGATTTCATTACTTAAAACTTACTAAGCATAGAAATGCTTACTTTGTTGCCCTTAATCCTCTGT
TTTATAGATCTCGTTCGTTAGCTACGGTCTCGGGGATCTCAAAGTCGAAGTCGTCCACACT
Found at i:32389412 original size:15 final size:14
Alignment explanation
Indices: 32389387--32389424 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
32389377 GTTTGTCAGT
32389387 AAAATATTTTTTGA
1 AAAATATTTTTTGA
*
32389401 AAAATAATTTTTGA
1 AAAATATTTTTTGA
32389415 AAAATGATTT
1 AAAAT-ATTT
32389425 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (14 bp):
AAAATATTTTTTGA
Found at i:32390891 original size:32 final size:32
Alignment explanation
Indices: 32390845--32390926 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
32390835 TGTCAATCAT
*
32390845 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAACTTAAAACATAATAAA
* * * *
32390877 TTCAATGTCTAACAAATTTAAAACATAATAAT
1 TTCAATATCCAACAAACTTAAAACATAATAAA
* *
32390909 TTCAAAATCGAACAAACT
1 TTCAATATCCAACAAACT
32390927 AATTTCAATA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAACTTAAAACATAATAAA
Found at i:32395366 original size:16 final size:16
Alignment explanation
Indices: 32395345--32395380 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
32395335 TTATGCAACT
32395345 TTAATTAATCCCATCG
1 TTAATTAATCCCATCG
32395361 TTAATTAATCCCATCG
1 TTAATTAATCCCATCG
32395377 TTAA
1 TTAA
32395381 GTGGAGCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (16 bp):
TTAATTAATCCCATCG
Found at i:32395708 original size:3 final size:3
Alignment explanation
Indices: 32395689--32395899 Score: 406
Period size: 3 Copynumber: 70.7 Consensus size: 3
32395679 TCCTCCCCCC
*
32395689 TCT TC- TCT TCC TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
32395736 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
32395784 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
32395832 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
32395880 TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
32395900 AAATTTTGAA
Statistics
Matches: 205, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
2 2 0.01
3 203 0.99
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:32396418 original size:21 final size:21
Alignment explanation
Indices: 32396384--32396437 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
32396374 CTGAATCAGA
*
32396384 AACCCTTAACCCTT-AACCCC
1 AACCCTTAAACCTTAAACCCC
32396404 TAACACC-TAAACCTTAAACCCC
1 -AAC-CCTTAAACCTTAAACCCC
32396426 AACCCTTAAACC
1 AACCCTTAAACC
32396438 ACACTTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 2 0.07
21 19 0.66
22 8 0.28
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCTTAAACCTTAAACCCC
Found at i:32396465 original size:32 final size:32
Alignment explanation
Indices: 32396406--32396467 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
32396396 TTAACCCCTA
* *
32396406 ACACCTAAACCTTAAACCCCAACCCTTAAACC
1 ACACCTAAACCATAAACCCCAAACCTTAAACC
* * *
32396438 ACACTTAAACCATAATCCCTAAACCTTAAA
1 ACACCTAAACCATAAACCCCAAACCTTAAA
32396468 ATAGTAACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (32 bp):
ACACCTAAACCATAAACCCCAAACCTTAAACC
Found at i:32397089 original size:40 final size:40
Alignment explanation
Indices: 32396993--32397169 Score: 194
Period size: 41 Copynumber: 4.4 Consensus size: 40
32396983 GTTATATGAC
* * *
32396993 TTTTAGCGGTGTTTTACAAAAAGCGCCGCTAATACTCTGG
1 TTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTGG
* * *
32397033 TTTTTATCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 -TTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTGG
* * * **
32397074 TTTTAGCGGCGTTTTACAAAAAACACCGCTATTTCTCTAT
1 TTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTGG
* * *
32397114 TTTTAGCGGCGTTTTAACAAAAAACGCCAG-TATTGCTCCGT
1 TTTTAGCGGCGTTTT-ACAAAAAACGCC-GCTAATGCTCTGG
32397155 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
32397170 TGGTAAAATG
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
40 47 0.40
41 70 0.59
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCTGG
Found at i:32397151 original size:81 final size:81
Alignment explanation
Indices: 32396993--32397169 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
32396983 GTTATATGAC
* * * * * * *
32396993 TTTTAGCGGTGTTTTACAAAAAGCGCCGCTAATACTCTGGTTTTTATCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACAAAAAACACCGCTAATACTCTGATTTTTAGCGGCGTTTTACAAAAAAC
*
32397058 GCCGCTAATGCTCTGG
66 GCCGCTAATGCTCCGG
* *
32397074 TTTTAGCGGCGTTTTACAAAAAACACCGCTATTTCTCT-ATTTTTAGCGGCGTTTTAACAAAAAA
1 TTTTAGCGGCGTTTTACAAAAAACACCGCTAATACTCTGATTTTTAGCGGCGTTTT-ACAAAAAA
* *
32397138 CGCCAG-TATTGCTCCGT
65 CGCC-GCTAATGCTCCGG
32397155 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
32397170 TGGTAAAATG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 15 0.18
81 66 0.80
82 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACAAAAAACACCGCTAATACTCTGATTTTTAGCGGCGTTTTACAAAAAAC
GCCGCTAATGCTCCGG
Found at i:32397410 original size:30 final size:30
Alignment explanation
Indices: 32397374--32397434 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32397364 AGAATAAGTC
32397374 AGCCACATGTGTAGCATCATCCGTTTTGTG
1 AGCCACATGTGTAGCATCATCCGTTTTGTG
32397404 AGCCACATGTGTAGCATCATCCGTTTTGTG
1 AGCCACATGTGTAGCATCATCCGTTTTGTG
32397434 A
1 A
32397435 CAAAATGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (30 bp):
AGCCACATGTGTAGCATCATCCGTTTTGTG
Found at i:32399180 original size:17 final size:17
Alignment explanation
Indices: 32399158--32399197 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
32399148 TGAAATTAAA
32399158 TCTTATTGAGTCTAATT
1 TCTTATTGAGTCTAATT
*
32399175 TCTTATTGAGTCTAGTT
1 TCTTATTGAGTCTAATT
32399192 TCTTAT
1 TCTTAT
32399198 AGAATAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (17 bp):
TCTTATTGAGTCTAATT
Found at i:32400137 original size:50 final size:50
Alignment explanation
Indices: 32400062--32400288 Score: 375
Period size: 50 Copynumber: 4.5 Consensus size: 50
32400052 CCATGGCAAC
32400062 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
32400112 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
32400162 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TGA
*
32400212 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
32400262 CAAGTGAAAAGTGGTAGCTTTGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
32400289 CTGATAAGTG
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
49 2 0.01
50 138 0.83
51 26 0.16
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:32400301 original size:31 final size:31
Alignment explanation
Indices: 32400263--32400350 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 31
32400253 GACAAATGAC
32400263 AAGTGAAAAGTGGTAGCTTTGGCTACCTGAT
1 AAGTGAAAAGTGGTAGCTTTGGCTACCTGAT
*
32400294 AAGTGAAAAGTCGTAGCTTCT-GCTACCTGAT
1 AAGTGAAAAGTGGTAGCTT-TGGCTACCTGAT
* * *
32400325 CAGTGAATAGTGGTAGCTTCGGCTAC
1 AAGTGAAAAGTGGTAGCTTTGGCTAC
32400351 AAGTGACAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
31 49 0.98
32 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAGTGAAAAGTGGTAGCTTTGGCTACCTGAT
Found at i:32400445 original size:47 final size:46
Alignment explanation
Indices: 32400375--32400539 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
32400365 AAGTGATTTC
* *
32400375 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
32400421 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
32400468 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
32400510 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
32400540 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:32400527 original size:42 final size:43
Alignment explanation
Indices: 32400469--32400583 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
32400459 TATGTGATTC
*
32400469 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
32400511 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
32400553 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
32400584 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:32403571 original size:15 final size:16
Alignment explanation
Indices: 32403540--32403572 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32403530 TACTTTGTTT
*
32403540 TTTTTTTCATATATTA
1 TTTTTTTCAAATATTA
32403556 TTTTTTTCAAAT-TTA
1 TTTTTTTCAAATATTA
32403571 TT
1 TT
32403573 CATACATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTTCAAATATTA
Found at i:32408728 original size:52 final size:54
Alignment explanation
Indices: 32408666--32408766 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
32408656 TATGTCCCAA
* *
32408666 TAAATTTCCTTCTTATTGCA-TTGCTATATTTGATTAACTTATTCATTTTGAGT
1 TAAATTTCCTTCTTATTGCATTTGCAATATTTGAATAACTTATTCATTTTGAGT
* *
32408719 TAAA-TTCCTTCTTATTGCATTTGCAATCTTTGAATAATTTATTCATTT
1 TAAATTTCCTTCTTATTGCATTTGCAATATTTGAATAACTTATTCATTT
32408767 CGAACTATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 15 0.35
53 28 0.65
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.52
Consensus pattern (54 bp):
TAAATTTCCTTCTTATTGCATTTGCAATATTTGAATAACTTATTCATTTTGAGT
Found at i:32409507 original size:64 final size:64
Alignment explanation
Indices: 32409434--32409561 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
32409424 TCATTCATAA
*
32409434 CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGCAACCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGCAACCTAATCATTTGACATAAGCAT
* * *
32409498 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGCAACCTAATCATTTGACATAAGCAT
32409562 AGGTACATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGCAACCTAATCATTTGACATAAGCAT
Found at i:32409844 original size:44 final size:44
Alignment explanation
Indices: 32409716--32410063 Score: 184
Period size: 44 Copynumber: 8.0 Consensus size: 44
32409706 ATTGAAAATT
*
32409716 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-C
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATC
* * * * * * * *
32409759 AGTA-AGCCTTAAC-CCCCAAGCAGTAG-GCTAACA-AGCTGAAGATT
1 A-CAGA-TCTTATCTCCCTAAGCAGTAGTG-GAGCAGATC-GAAGATC
* *
32409803 ATAGATCTTATCTCCCTAAGCAGTAGTGGAGCACATCGAAGA-C
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATC
* * * * * * *
32409846 AGTA-AGCCTTAAC-CCCTTAAGAAGTAG-GGTAACAGGTTGGAA-ATC
1 A-CAGA-TCTTATCTCCC-TAAGCAGTAGTGG-AGCA-GATCGAAGATC
32409891 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-C
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATC
* * * * * **
32409934 GGCAAATCTTGTCTCCCTAACCAGTAGTAGAGCAGATTTAAG-TC
1 -ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATC
* * * *
32409978 AC-CATCTTATCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATT
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATC
* ** * *
32410021 ACAGATCTTGTCTCCCTGAAGTTGTAGTGAAACAGATCGAAGA
1 ACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGA
32410064 CGGCGAATCT
Statistics
Matches: 224, Mismatches: 55, Indels: 50
0.68 0.17 0.15
Matches are distributed among these distances:
42 32 0.14
43 45 0.20
44 114 0.51
45 32 0.14
46 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATC
Found at i:32409920 original size:88 final size:86
Alignment explanation
Indices: 32409711--32409933 Score: 338
Period size: 87 Copynumber: 2.6 Consensus size: 86
32409701 AGCAAATTGA
*
32409711 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTAAGCCTTAACCCCC
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCCC
*
32409776 AAGCAGTAGGCTAACAAGCTG
66 AAGAAGTAGGCTAACAAGCTG
* *
32409797 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCACATCGAAGACAGTAAGCCTTAACCCC
1 AA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCC
* * * *
32409862 TTAAGAAGTAGGGTAACAGGTTGG
65 -CAAGAAGTAGGCTAACAAGCT-G
*
32409886 AAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
32409934 GGCAAATCTT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
86 2 0.02
87 59 0.48
88 59 0.48
89 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (86 bp):
AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCCC
AAGAAGTAGGCTAACAAGCTG
Found at i:32409960 original size:88 final size:86
Alignment explanation
Indices: 32409711--32410007 Score: 330
Period size: 88 Copynumber: 3.4 Consensus size: 86
32409701 AGCAAATTGA
* * *
32409711 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGTAAGCCTTAACCCCC
1 AAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCCT
* * *
32409776 AAGCAGTAGGCTAACAAGCTG
66 AAGCAGTAGGGTAACAGGTTG
* * *
32409797 AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCACATCGAAGACAGTAAGCCTTAACCCC
1 AA-ATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCC
*
32409862 TTAAGAAGTAGGGTAACAGGTTGG
65 -TAAGCAGTAGGGTAACAGGTT-G
* * ** **
32409886 AAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTCCC
1 AAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAAC-CCC
* * *
32409951 TAACCAGTA--GTAGAGCAGATTT
65 TAAGCAGTAGGGTA-A-CAGGTTG
* *
32409973 AAGTCAC-CATCTTATCTCCCTAAGCAGTAGTGGAG
1 AAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAG
32410008 TAGGCTGAAG
Statistics
Matches: 182, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
86 32 0.18
87 66 0.36
88 78 0.43
89 6 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (86 bp):
AAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGCCTTAACCCCT
AAGCAGTAGGGTAACAGGTTG
Found at i:32410001 original size:42 final size:44
Alignment explanation
Indices: 32409895--32410092 Score: 134
Period size: 44 Copynumber: 4.5 Consensus size: 44
32409885 GAAATCACAG
* *
32409895 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGACAA
* * ** * *
32409939 ATCTTGTCTCCCTAACCAGTAGTAGAGCAGATTTAAGTC-AC-C
1 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGACAA
* * * ** *
32409981 ATCTTATCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-GAAGACGACAA
* ** * * *
32410025 ATCTTGTCTCCCTGAAGTTGTAGT-GAAACAGATCGAAGACGGCGA
1 ATCTTATCTCCCT-AAGCAGTAGTAG-AGCAGATCGAAGACGACAA
* * *
32410070 ATCTTGTCTCCCGAACCAGTAGT
1 ATCTTATCTCCCTAAGCAGTAGT
32410093 GGAACAAATT
Statistics
Matches: 115, Mismatches: 33, Indels: 12
0.72 0.21 0.08
Matches are distributed among these distances:
42 29 0.25
43 3 0.03
44 53 0.46
45 29 0.25
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGACAA
Found at i:32410073 original size:131 final size:131
Alignment explanation
Indices: 32409891--32410276 Score: 499
Period size: 131 Copynumber: 3.0 Consensus size: 131
32409881 GTTGGAAATC
* ** * *
32409891 ACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTGTCTCCCTAAC
1 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAAC
* * *
32409955 CAGTAGTAGAGCAGATTTAAGTCACCATCTTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
66 CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
32410020 T
131 T
* *
32410021 ACAGATCTTGTCTCCCTGAAGTTGTAGTGAAACAGATCGAAGACGGCGAATCTTGTCTCCCGAAC
1 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAAC
* * *
32410086 CAGTAGTGGAACAAATTTAAGCCACCATCCTATCTCCTTAAGCAGTAGTGGAGTAGGCTGAAGAT
66 CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
32410151 T
131 T
** * * ** * * * *
32410152 GTAGAGCTTGTTTATCTGAAGTTGCAGTGGAACAGATCAAAGACGGTGAATCTTGTCTCCCTAAG
1 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAAC
* * * * *
32410217 CA--ATTGGAGAAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGCAGGTTGAA
66 CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
32410277 ATCAACAGTT
Statistics
Matches: 222, Mismatches: 33, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
129 50 0.23
130 16 0.07
131 156 0.70
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (131 bp):
ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAAC
CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
T
Found at i:32410505 original size:88 final size:88
Alignment explanation
Indices: 32410281--32410794 Score: 673
Period size: 86 Copynumber: 5.9 Consensus size: 88
32410271 GTTGAAATCA
* * * * *
32410281 ACAGTTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGGGGCTACAAATCTCTTCTCCCTAAAA
1 ACAGTTCGTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTGAAA
* *
32410346 TGGCGTTGGAGCGGCTCGAAGCC
66 TGGCATTGGAGCTGCTCGAAGCC
32410369 ACAG--CAG-ATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTGAA
1 ACAGTTC-GTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTGAA
* *
32410431 ATGGCATTGGAGCTACTCGATGCC
65 ATGGCATTGGAGCTGCTCGAAGCC
*
32410455 ACAGTTCGTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCCTCAA
1 ACAGTTCGTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTT-CCCCCTGAA
* * *
32410520 ATTGCGTAGGAGCTGCTCGAAGCC
65 ATGGCATTGGAGCTGCTCGAAGCC
* * * *
32410544 ACAGTTCATACCTCTTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAA
1 ACAGTTCGTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTGAAA
32410609 TGGCA-TGTGAG-TGGCTCGAAGCC
66 TGGCATTG-GAGCT-GCTCGAAGCC
* * * *
32410632 ACAG-TAG-ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTGCAAATCTCTTCTCCCTGAAA
1 ACAGTTCGTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTGAAA
* ** *
32410695 TGGCGTAAGAGCGGCTCGAAGCC
66 TGGCATTGGAGCTGCTCGAAGCC
* * * * *
32410718 ATAGTTCATATCTTCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTAAAA
1 ACAGTTCGTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTGAAA
32410783 TGGCATTGGAGC
66 TGGCATTGGAGC
32410795 AGACTGAAGA
Statistics
Matches: 372, Mismatches: 43, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
86 147 0.40
87 6 0.02
88 140 0.38
89 79 0.21
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (88 bp):
ACAGTTCGTATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCTGAAA
TGGCATTGGAGCTGCTCGAAGCC
Found at i:32410748 original size:263 final size:263
Alignment explanation
Indices: 32410281--32410777 Score: 771
Period size: 263 Copynumber: 1.9 Consensus size: 263
32410271 GTTGAAATCA
* * * * *
32410281 ACAGTTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGGGGCTACAAATCTCTTCTCCCTAAAA
1 ACAGTTCATACCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAA
*
32410346 TGGCGTTGGAGCGGCTCGAAGCCACAGCAGATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCT
66 TGGCATTGGAGCGGCTCGAAGCCACAGCAGATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCT
** * * *
32410411 ACAAATCTCTTCCCCCTGAAATGGCATTGGAGCTACTCGATGCCACAGTTCGTATCTCCTTAAAG
131 ACAAATCTCTTCCCCCTGAAATGGCATAAGAGCGACTCGAAGCCACAGTTCATATCTCCTTAAAG
32410476 TTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCCTCAAATTGCGTAGGAGCTGCTCGAA
196 TTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCCTCAAATTGCGTAGGAGCTGCTCGAA
32410541 GCC
261 GCC
* *
32410544 ACAGTTCATACCTCTTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAA
1 ACAGTTCATACCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAA
* * *
32410609 TGGCA-TGTGAGTGGCTCGAAGCCACAGTAGATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGC
66 TGGCATTG-GAGCGGCTCGAAGCCACAGCAGATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGC
* * * * * * *
32410673 TGCAAATCTCTTCTCCCTGAAATGGCGTAAGAGCGGCTCGAAGCCATAGTTCATATCTTCTTGAA
130 TACAAATCTCTTCCCCCTGAAATGGCATAAGAGCGACTCGAAGCCACAGTTCATATCTCCTTAAA
32410738 GTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCC
195 GTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCC
32410778 TAAAATGGCA
Statistics
Matches: 210, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
262 2 0.01
263 208 0.99
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (263 bp):
ACAGTTCATACCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAA
TGGCATTGGAGCGGCTCGAAGCCACAGCAGATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCT
ACAAATCTCTTCCCCCTGAAATGGCATAAGAGCGACTCGAAGCCACAGTTCATATCTCCTTAAAG
TTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCCCCCCTCAAATTGCGTAGGAGCTGCTCGAA
GCC
Found at i:32410934 original size:44 final size:44
Alignment explanation
Indices: 32410813--32411066 Score: 147
Period size: 44 Copynumber: 5.6 Consensus size: 44
32410803 GATACCAATT
* ** ** **
32410813 TTATCTCCCTGAAGTTACAGTGGAGCAGATCAAAGCCATTAGCC
1 TTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGTTACAAGCC
* * * *
32410857 TTATCTCCCGGAAA-TCACAGTGGAGCAGGTTGAAGTTACAAGTC
1 TTATCTCCC-TAAAGTTACAGTGGAGCAGATTGAAGTTACAAGCC
* *
32410901 TTATCTCCCTAAAGTTACAGTGGGGCAGATTGAAGCTACAAATCACAAACC
1 TTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAG-T-----T-ACAAGCC
** * *
32410952 TTATCTCCCCGAAGTTGCAGTGG-GACA-AGTTGAAGTTACAAGTC
1 TTATCTCCCTAAAGTTACAGTGGAG-CAGA-TTGAAGTTACAAGCC
* * * **
32410996 TTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGAAAGC-AGACC
1 TTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGTTA-CAAG-CC
* * *
32411041 TTATCTCCTTAAAGTTGCAATGGAGC
1 TTATCTCCCTAAAGTTACAGTGGAGC
32411067 TGATCAAGCT
Statistics
Matches: 165, Mismatches: 30, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.02
44 93 0.56
45 32 0.19
50 4 0.02
51 33 0.20
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGTTACAAGCC
Found at i:32411818 original size:21 final size:21
Alignment explanation
Indices: 32411789--32411850 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
32411779 TTTTTTTTAT
*
32411789 TTTGGAATACAAAAAAAGAGA
1 TTTGAAATACAAAAAAAGAGA
32411810 TTTGAAATACAAAAAAA-A-A
1 TTTGAAATACAAAAAAAGAGA
* * *
32411829 ATCGAAATA-ACAAAAAGAGA
1 TTTGAAATACAAAAAAAGAGA
32411849 TT
1 TT
32411851 CATTCGAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 3 0.09
21 16 0.47
ACGTcount: A:0.61, C:0.06, G:0.13, T:0.19
Consensus pattern (21 bp):
TTTGAAATACAAAAAAAGAGA
Found at i:32413286 original size:15 final size:16
Alignment explanation
Indices: 32413255--32413287 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32413245 TACTTTGTTT
*
32413255 TTTTTTTCATATATTA
1 TTTTTTTCAAATATTA
32413271 TTTTTTTCAAAT-TTA
1 TTTTTTTCAAATATTA
32413286 TT
1 TT
32413288 CATACATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTTCAAATATTA
Found at i:32425465 original size:10 final size:10
Alignment explanation
Indices: 32425445--32425500 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
32425435 TCCCTCATAA
32425445 TTTTTGTTATT
1 TTTTTG-TATT
*
32425456 TTTTTATATT
1 TTTTTGTATT
*
32425466 TTTTGGTATT
1 TTTTTGTATT
* * *
32425476 TTCTCGTAAT
1 TTTTTGTATT
32425486 TTTTTGTATT
1 TTTTTGTATT
32425496 TTTTT
1 TTTTT
32425501 AAAATTTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 31 0.86
11 5 0.14
ACGTcount: A:0.12, C:0.04, G:0.09, T:0.75
Consensus pattern (10 bp):
TTTTTGTATT
Found at i:32425506 original size:20 final size:19
Alignment explanation
Indices: 32425445--32425510 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
32425435 TCCCTCATAA
*
32425445 TTTTTGTTATTTTTTTATAT
1 TTTTTG-TATTTTTTTAAAT
*
32425465 TTTTTGGTATTTTCTCGT-AAT
1 TTTTT-GTATTTT-T-TTAAAT
*
32425486 TTTTTGTATTTTTTTAAAA
1 TTTTTGTATTTTTTTAAAT
32425505 TTTTTG
1 TTTTTG
32425511 GAGCTCCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
18 1 0.03
19 9 0.24
20 18 0.47
21 9 0.24
22 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (19 bp):
TTTTTGTATTTTTTTAAAT
Found at i:32426190 original size:20 final size:20
Alignment explanation
Indices: 32426144--32426228 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
32426134 TTTTGAAATT
* *
32426144 ATATAAAAAATTATGAGGATA
1 ATATAAAAAAATATGAGG-GA
*
32426165 AAATAAAAAAATATGAGGGA
1 ATATAAAAAAATATGAGGGA
*
32426185 ATATAAAAAAATAATGA-GAA
1 ATATAAAAAAAT-ATGAGGGA
* *
32426205 ATACT-AAAAAATATAAGGGG
1 ATA-TAAAAAAATATGAGGGA
32426225 ATAT
1 ATAT
32426229 CAAGGGTGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
19 4 0.08
20 28 0.53
21 21 0.40
ACGTcount: A:0.61, C:0.01, G:0.15, T:0.22
Consensus pattern (20 bp):
ATATAAAAAAATATGAGGGA
Found at i:32426193 original size:21 final size:22
Alignment explanation
Indices: 32426143--32426215 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 22
32426133 ATTTTGAAAT
* *
32426143 TATATAAAAAATTATGAGGATAA
1 TATA-AAAAAAATATGAGGAGAA
*
32426166 AAT-AAAAAAATATGAGG-GAA
1 TATAAAAAAAATATGAGGAGAA
32426186 TAT-AAAAAAATAATGA-GA-AA
1 TATAAAAAAAAT-ATGAGGAGAA
32426206 TACTAAAAAA
1 TA-TAAAAAA
32426216 TATAAGGGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 17 0.40
21 18 0.43
22 5 0.12
23 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.12, T:0.22
Consensus pattern (22 bp):
TATAAAAAAAATATGAGGAGAA
Found at i:32431081 original size:94 final size:90
Alignment explanation
Indices: 32430947--32431140 Score: 205
Period size: 94 Copynumber: 2.1 Consensus size: 90
32430937 TGCCATTGTT
* * *
32430947 AGACATGTCTGAGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATGTCTGAGG-CAT
1 AGACATGTTTAAGACATGCATCGGCCACATAATGAGAGCCAATGTAAGA-CATGTCT-AGGACAT
*
32431011 GGCATCGGC-ATTGAGACGAGTGCTAGTGTA
64 -GCATCGGCTA-TGAGA--AGTCCTAGTGTA
* * ** *
32431041 AGACATGTTTAAGACATGCATCGGCCTCGA-GATGTTAGCCAATGTCAGACATGTCTAGGACATG
1 AGACATGTTTAAGACATGCATCGGCCAC-ATAATGAGAGCCAATGTAAGACATGTCTAGGACATG
* *
32431105 CGTCGGCTATGAGATGTCCTAGTGTA
65 CATCGGCTATGAGAAGTCCTAGTGTA
32431131 AGACATGTTT
1 AGACATGTTT
32431141 GGGACATACA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
90 20 0.23
92 15 0.17
93 11 0.13
94 39 0.45
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (90 bp):
AGACATGTTTAAGACATGCATCGGCCACATAATGAGAGCCAATGTAAGACATGTCTAGGACATGC
ATCGGCTATGAGAAGTCCTAGTGTA
Found at i:32432399 original size:15 final size:14
Alignment explanation
Indices: 32432361--32432399 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
32432351 TGTAAAAGTA
*
32432361 AATCTGAGTTATTT
1 AATCTGAGTTATGT
32432375 AATCTGAGTTATGT
1 AATCTGAGTTATGT
*
32432389 ACATCTAAGTT
1 A-ATCTGAGTT
32432400 TATTCTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (14 bp):
AATCTGAGTTATGT
Found at i:32442967 original size:17 final size:19
Alignment explanation
Indices: 32442934--32442973 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
32442924 CATGTGGCCT
*
32442934 GCCCGTGTAGGCCCACAC-
1 GCCCGTGTAGACCCACACA
32442952 GCCCGTGTA-ACCCACACA
1 GCCCGTGTAGACCCACACA
32442970 GCCC
1 GCCC
32442974 AAATTGGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.20, C:0.47, G:0.23, T:0.10
Consensus pattern (19 bp):
GCCCGTGTAGACCCACACA
Found at i:32455488 original size:21 final size:22
Alignment explanation
Indices: 32455459--32455505 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
32455449 CAGAAGGAGT
*
32455459 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
32455481 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
32455502 GAGT
1 GAGT
32455506 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:32459694 original size:22 final size:23
Alignment explanation
Indices: 32459663--32459712 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
32459653 ATTTAATTAA
*
32459663 TTTAGGGTTAGGGTTTTTAAG-G
1 TTTAGAGTTAGGGTTTTTAAGAG
*
32459685 TTTAGAGTTATGGTTTTTAAGAG
1 TTTAGAGTTAGGGTTTTTAAGAG
32459708 TTTAG
1 TTTAG
32459713 GTTTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (23 bp):
TTTAGAGTTAGGGTTTTTAAGAG
Found at i:32459883 original size:20 final size:20
Alignment explanation
Indices: 32459821--32459893 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
32459811 GTTTAGGGTA
32459821 TTAGGGTTAATTGATTAAA-
1 TTAGGGTTAATTGATTAAAT
* **
32459840 TTATGG---ATTGATTTAGGGT
1 TTAGGGTTAATTGA-TTA-AAT
32459859 TTAGGGTTAATTGATTAAAT
1 TTAGGGTTAATTGATTAAAT
32459879 TTAGGGTTAATTGAT
1 TTAGGGTTAATTGAT
32459894 ACATACACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
19 10 0.24
20 16 0.38
21 3 0.07
22 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (20 bp):
TTAGGGTTAATTGATTAAAT
Found at i:32460375 original size:126 final size:126
Alignment explanation
Indices: 32460138--32460519 Score: 638
Period size: 126 Copynumber: 3.0 Consensus size: 126
32460128 TTTCTACAAG
* * * * *
32460138 AATAATTCTAAGCAGACGTTTCTGGACAAATAGTGTCAGAAAATGCTTCAAGCAGGATGCACTAT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGT-TGAAAATGCTTCAAGCAGGATGCACTGT
* * *
32460203 CAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTATTTTGCTACAGTATTTTGTAGAAA
65 CAACAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
*
32460265 AATAATTCTGAGTAGATGTTTCTGAACAAATAGTGTTGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTTGAAAATGCTTCAAGCAGGATGCACTGTC
* * *
32460330 AACAAAATTTCTGGAAAAAGCTCCCACGTGGACGTTCTTTCGCTACAGTAGTTCGTAGAAA
66 AACAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
*
32460391 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTTGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTTGAAAATGCTTCAAGCAGGATGCACTGTC
32460456 AACAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
66 AACAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
32460517 AAT
1 AAT
32460520 GAGACTATAG
Statistics
Matches: 238, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
126 206 0.87
127 32 0.13
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTTGAAAATGCTTCAAGCAGGATGCACTGTC
AACAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
Found at i:32466012 original size:40 final size:39
Alignment explanation
Indices: 32465912--32466013 Score: 91
Period size: 42 Copynumber: 2.5 Consensus size: 39
32465902 ATATTATTTA
*
32465912 TTATATTATTATACATTATTATATATTATATTACATACATT
1 TTATA-TATTATATATT-TTATATATTATATTACATACATT
* *
32465953 TTACTATATATATATTATTTTATATATTAT-CTATCATA-TTGT
1 TTA-TATAT-TATA-TATTTTATATATTATATTA-CATACAT-T
32465995 TTATATCATTATATATTTT
1 TTATAT-ATTATATATTTT
32466014 GTTTATAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
40 6 0.12
41 16 0.31
42 27 0.52
43 3 0.06
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (39 bp):
TTATATATTATATATTTTATATATTATATTACATACATT
Found at i:32466015 original size:21 final size:20
Alignment explanation
Indices: 32465952--32466020 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
32465942 TTACATACAT
*
32465952 TTTACTATA-TATATATTAT-
1 TTTA-TATATTATATATTTTG
*
32465971 TTTATATATTATCTATCATATTG
1 TTTATATATTA--TAT-ATTTTG
32465994 TTTATATCATTATATATTTTG
1 TTTATAT-ATTATATATTTTG
32466015 TTTATA
1 TTTATA
32466021 AATTTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
21 14 0.34
22 6 0.15
23 7 0.17
24 4 0.10
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTATATATTATATATTTTG
Found at i:32466294 original size:15 final size:15
Alignment explanation
Indices: 32466276--32466351 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 15
32466266 TTTTTAAATA
32466276 TATTTATTTTTATTT
1 TATTTATTTTTATTT
*
32466291 TATTTGATTTATATTT
1 TATTT-ATTTTTATTT
* * *
32466307 TATATGTTTATAATTTGCT
1 TATTTATTT-TTA-TT--T
*
32466326 TATTTATTTTTGTTT
1 TATTTATTTTTATTT
32466341 T-TTTATTTTTA
1 TATTTATTTTTA
32466352 ATATTGTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
14 9 0.20
15 10 0.22
16 14 0.30
17 4 0.09
18 1 0.02
19 8 0.17
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.72
Consensus pattern (15 bp):
TATTTATTTTTATTT
Found at i:32466300 original size:16 final size:15
Alignment explanation
Indices: 32466276--32466351 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
32466266 TTTTTAAATA
*
32466276 TATTTATTTTTATTT
1 TATTTATTTATATTT
32466291 TATTTGATTTATATTT
1 TATTT-ATTTATATTT
* * *
32466307 TATATGTTTATAATT
1 TATTTATTTATATTT
**
32466322 TGCTTATTTAT-TTT
1 TATTTATTTATATTT
* *
32466336 TGTTTTTTTAT-TTT
1 TATTTATTTATATTT
32466350 TA
1 TA
32466352 ATATTGTTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
14 15 0.31
15 20 0.42
16 13 0.27
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.72
Consensus pattern (15 bp):
TATTTATTTATATTT
Found at i:32466958 original size:16 final size:15
Alignment explanation
Indices: 32466934--32467009 Score: 53
Period size: 16 Copynumber: 4.9 Consensus size: 15
32466924 TTTTTAAATA
*
32466934 TATTTATTTTTATTT
1 TATTTATTTATATTT
32466949 TATTTGATTTATATTT
1 TATTT-ATTTATATTT
* * *
32466965 TATATGTTTATAATT
1 TATTTATTTATATTT
** *
32466980 TGCTTATTTATTTTT
1 TATTTATTTATATTT
* *
32466995 GTTTTTTTTTATATT
1 -TATTTATTTATATT
32467010 CTTTTGAAGC
Statistics
Matches: 45, Mismatches: 14, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
15 22 0.49
16 23 0.51
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.72
Consensus pattern (15 bp):
TATTTATTTATATTT
Found at i:32469004 original size:48 final size:46
Alignment explanation
Indices: 32468931--32469063 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 46
32468921 TGCAAACATT
* ** *
32468931 ATAAATGAAAAAAAATCAAGCAGTATTGAAATTGTGATTATAA-TTGC
1 ATAAATGAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTGC
*
32468978 ATAAATGAATAAAATATCAAATAGTATTACAAATTTAATTAAATTTGC
1 ATAAATGAA-AAAATATCAAATAGTATT-GAAATTTAATTAAATTTGC
* *
32469026 ATAAATTAAAATAATATCGAATAGTATTGAAAATTTAA
1 ATAAATGAAAA-AATATCAAATAGTATTG-AAATTTAA
32469064 AATTATCACT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
47 13 0.18
48 55 0.75
49 5 0.07
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (46 bp):
ATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTGC
Found at i:32469181 original size:15 final size:15
Alignment explanation
Indices: 32469158--32469189 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32469148 TCGGATTTTT
*
32469158 TTAATTTTAAAAAAA
1 TTAAATTTAAAAAAA
32469173 TTAAATTTAAAAAAA
1 TTAAATTTAAAAAAA
32469188 TT
1 TT
32469190 TTAAACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAATTTAAAAAAA
Found at i:32469212 original size:11 final size:11
Alignment explanation
Indices: 32469198--32469229 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
32469188 TTTTAAACAA
32469198 AGAATTTTGAT
1 AGAATTTTGAT
*
32469209 AGAAATTTGAT
1 AGAATTTTGAT
32469220 AGAATTTTGA
1 AGAATTTTGA
32469230 GAAAATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:32472058 original size:105 final size:105
Alignment explanation
Indices: 32471878--32472072 Score: 282
Period size: 105 Copynumber: 1.9 Consensus size: 105
32471868 TAGGAGAACG
* **
32471878 GATTTATCCAAAAGAGATTAAAGATGTTCTATGAAGGTAACAAACTTATGGTAAGGTCATTGGAC
1 GATTTATCCAAAAGAGATTAAAGATATTCTATGAAGGTAACAAACTTATGACAAGGTCATTGGAC
*
32471943 AAGTACTGATCGAGTAACTTTCGTATCATTCGGGAGAATA
66 AAGTACTGATCAAGTAACTTTCGTATCATTCGGGAGAATA
* * * * *
32471983 GATTTATCCCAAAGAGATTAAGGATATTCTATGAAGGTAACACACTTTTGACAAGGTCATTGGAT
1 GATTTATCCAAAAGAGATTAAAGATATTCTATGAAGGTAACAAACTTATGACAAGGTCATTGGAC
* * *
32472048 GAGTAGTGATCAAGTAGCTTTCGTA
66 AAGTACTGATCAAGTAACTTTCGTA
32472073 ATGGTATGTC
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 78 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (105 bp):
GATTTATCCAAAAGAGATTAAAGATATTCTATGAAGGTAACAAACTTATGACAAGGTCATTGGAC
AAGTACTGATCAAGTAACTTTCGTATCATTCGGGAGAATA
Found at i:32472865 original size:386 final size:386
Alignment explanation
Indices: 32472152--32472924 Score: 1546
Period size: 386 Copynumber: 2.0 Consensus size: 386
32472142 TAATTAATAG
32472152 ACAAAAATTTAGAACTTAATTATAAATCATTTGAGCCCTAATTTCATATATTCAATTGATCCCTC
1 ACAAAAATTTAGAACTTAATTATAAATCATTTGAGCCCTAATTTCATATATTCAATTGATCCCTC
32472217 TGCTAGCTCGTTGAAACTAGAAATGGATCGAATGTTGAATCAAATGAATAGAAATGATAAAGTTA
66 TGCTAGCTCGTTGAAACTAGAAATGGATCGAATGTTGAATCAAATGAATAGAAATGATAAAGTTA
32472282 GAGAAATGGATAACATTCGAAAATGAATGTGATTTTCTCACTAAGTATGAAAATAACCTGAGAAT
131 GAGAAATGGATAACATTCGAAAATGAATGTGATTTTCTCACTAAGTATGAAAATAACCTGAGAAT
32472347 TAATATATGATTTTTTCAATTATTCATTAATTAATTAATTAAAGTTTAAATATGAAATTAAATTA
196 TAATATATGATTTTTTCAATTATTCATTAATTAATTAATTAAAGTTTAAATATGAAATTAAATTA
32472412 ATTGATCATTCTGAATCTGTTGAATGAAGAAAAATTAAATATAATTTCTCATAGATTCATTTACG
261 ATTGATCATTCTGAATCTGTTGAATGAAGAAAAATTAAATATAATTTCTCATAGATTCATTTACG
32472477 GTAAAGTTGTCATGATTTTAACAGAATTAAAATCGAGTTGAGAAAATTATTTAATTGAAAA
326 GTAAAGTTGTCATGATTTTAACAGAATTAAAATCGAGTTGAGAAAATTATTTAATTGAAAA
32472538 ACAAAAATTTAGAACTTAATTATAAATCATTTGAGCCCTAATTTCATATATTCAATTGATCCCTC
1 ACAAAAATTTAGAACTTAATTATAAATCATTTGAGCCCTAATTTCATATATTCAATTGATCCCTC
32472603 TGCTAGCTCGTTGAAACTAGAAATGGATCGAATGTTGAATCAAATGAATAGAAATGATAAAGTTA
66 TGCTAGCTCGTTGAAACTAGAAATGGATCGAATGTTGAATCAAATGAATAGAAATGATAAAGTTA
32472668 GAGAAATGGATAACATTCGAAAATGAATGTGATTTTCTCACTAAGTATGAAAATAACCTGAGAAT
131 GAGAAATGGATAACATTCGAAAATGAATGTGATTTTCTCACTAAGTATGAAAATAACCTGAGAAT
32472733 TAATATATGATTTTTTCAATTATTCATTAATTAATTAATTAAAGTTTAAATATGAAATTAAATTA
196 TAATATATGATTTTTTCAATTATTCATTAATTAATTAATTAAAGTTTAAATATGAAATTAAATTA
32472798 ATTGATCATTCTGAATCTGTTGAATGAAGAAAAATTAAATATAATTTCTCATAGATTCATTTACG
261 ATTGATCATTCTGAATCTGTTGAATGAAGAAAAATTAAATATAATTTCTCATAGATTCATTTACG
32472863 GTAAAGTTGTCATGATTTTAACAGAATTAAAATCGAGTTGAGAAAATTATTTAATTGAAAA
326 GTAAAGTTGTCATGATTTTAACAGAATTAAAATCGAGTTGAGAAAATTATTTAATTGAAAA
32472924 A
1 A
32472925 TTAATTAATT
Statistics
Matches: 387, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
386 387 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (386 bp):
ACAAAAATTTAGAACTTAATTATAAATCATTTGAGCCCTAATTTCATATATTCAATTGATCCCTC
TGCTAGCTCGTTGAAACTAGAAATGGATCGAATGTTGAATCAAATGAATAGAAATGATAAAGTTA
GAGAAATGGATAACATTCGAAAATGAATGTGATTTTCTCACTAAGTATGAAAATAACCTGAGAAT
TAATATATGATTTTTTCAATTATTCATTAATTAATTAATTAAAGTTTAAATATGAAATTAAATTA
ATTGATCATTCTGAATCTGTTGAATGAAGAAAAATTAAATATAATTTCTCATAGATTCATTTACG
GTAAAGTTGTCATGATTTTAACAGAATTAAAATCGAGTTGAGAAAATTATTTAATTGAAAA
Found at i:32472926 original size:16 final size:16
Alignment explanation
Indices: 32472900--32472943 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
32472890 TAAAATCGAG
*
32472900 TTGAGAAAATTATTTAA
1 TTGA-AAAATTAATTAA
32472917 TTGAAAAATTAATTAA
1 TTGAAAAATTAATTAA
32472933 TT--AAAATTAAT
1 TTGAAAAATTAAT
32472944 ATATAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
16 13 0.50
17 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
TTGAAAAATTAATTAA
Found at i:32473520 original size:26 final size:26
Alignment explanation
Indices: 32473469--32473520 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
32473459 TCTAAGTTAA
* *
32473469 TAAAATTTTCTTTGAGTTTTTCTTTT
1 TAAAAATTTCTTTGAGATTTTCTTTT
*
32473495 TAAAAATTTCTCTTGA-ATTTTGTTTT
1 TAAAAATTTCT-TTGAGATTTTCTTTT
32473521 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (26 bp):
TAAAAATTTCTTTGAGATTTTCTTTT
Found at i:32488177 original size:44 final size:43
Alignment explanation
Indices: 32488117--32488413 Score: 174
Period size: 44 Copynumber: 6.8 Consensus size: 43
32488107 AGAATTTCAG
* *
32488117 ATCTTATCTCCATGAGATTACAACGGAGTAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAG-A
* * ** * *
32488161 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTGAA-ATAAAGG
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT--AGA
* * * * *
32488205 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCATC-AG-
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGTAGATTGAAGCTAGA
* * * * ** ** *
32488246 GTCTTATCACCTTGAGGTTACAATGGAGTAGACCGAAGAATTTCAG-
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAG---CT-AGA
* * * *
32488292 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGA
*
32488335 GATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAG-A
* * * *
32488380 ATCCTATCTCTCTGA-AGTTACAGTGGAGTGGATT
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGTAGATT
32488414 AAAATAAAGG
Statistics
Matches: 193, Mismatches: 46, Indels: 28
0.72 0.17 0.10
Matches are distributed among these distances:
41 26 0.13
42 4 0.02
43 3 0.02
44 124 0.64
45 3 0.02
46 33 0.17
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGA
Found at i:32488319 original size:46 final size:46
Alignment explanation
Indices: 32488072--32488373 Score: 150
Period size: 44 Copynumber: 6.8 Consensus size: 46
32488062 ATTATACAGG
* * *
32488072 TCTTATCTCCCTGAGATTACAGTGG-GACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAG-TAGATCGAAGAATTTCAGA
* ** * * *
32488118 TCTTATCTCCATGAGATTACAACGGAGTAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAAT-TTCAGA
* ** * **
32488162 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTG-A-AA-TAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATTTCA-GA
* ** * *
32488206 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGTAGATCGAAGAATTTCAGA
* * * * *
32488247 TCTTATCACCTTGAGGTTACAATGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATTTCAGA
* * * * *
32488293 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAG-AATTTCAGA
* * *
32488337 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAG
32488374 CTAGTAATCC
Statistics
Matches: 190, Mismatches: 51, Indels: 32
0.70 0.19 0.12
Matches are distributed among these distances:
41 25 0.13
42 2 0.01
43 3 0.02
44 92 0.48
45 2 0.01
46 64 0.34
47 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGTAGATCGAAGAATTTCAGA
Found at i:32488372 original size:175 final size:175
Alignment explanation
Indices: 32488068--32488402 Score: 426
Period size: 175 Copynumber: 1.9 Consensus size: 175
32488058 GTTTATTATA
* *
32488068 CAGGTCTTATCTCCCTGAGATTACAGTGGGACAGACCAAAGAATTTCAGATCTTATCTCCATGAG
1 CAGGTCTTATCACCCTGAGATTACAATGGGACAGACCAAAGAATTTCAGATCTTATCTCCATGAG
* * * *
32488133 ATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTGAA
66 ATTACAACGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
* *
32488198 -ATAAAG-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
131 GAT--AGTAATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* * * * *
32488243 CAGGTCTTATCACCTTGAGGTTACAAT-GGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
1 CAGGTCTTATCACCCTGAGATTACAATGGGA-CAGACCAAAGAATTTCAGATCTTATCTCCATGA
* ** * * *
32488307 GGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTG
65 GATTACAACGGAGCAGATTGAAGCCAGTA-ATCCTATCTCCCTGAGATTACAGCGGAGCAGATTG
*
32488371 AAGCTAGTAATCCTATCTCTCTGAAGTTACAG
129 AAGATAGTAATCCTATCTCTCTGAAGTTACAG
32488403 TGGAGTGGAT
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
174 6 0.04
175 129 0.95
176 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
CAGGTCTTATCACCCTGAGATTACAATGGGACAGACCAAAGAATTTCAGATCTTATCTCCATGAG
ATTACAACGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
GATAGTAATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
Found at i:32488851 original size:16 final size:17
Alignment explanation
Indices: 32488826--32488865 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
32488816 GCCCAAATGC
32488826 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
32488841 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
32488858 C-AAGCCCA
1 CAAAGCCCA
32488866 TTACAACAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:32505970 original size:13 final size:13
Alignment explanation
Indices: 32505954--32505991 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
32505944 GGCCAACCCA
*
32505954 ACCCAACCCATTT
1 ACCCAACCCAATT
*
32505967 ACCCAACCTAATT
1 ACCCAACCCAATT
32505980 ACCCAACCCAAT
1 ACCCAACCCAAT
32505992 ACAAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:32506188 original size:28 final size:26
Alignment explanation
Indices: 32506147--32506204 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
32506137 CCCCTAATTG
* *
32506147 AAAATTTCAAATCTCTCAAAACCTTT
1 AAAATTTCAAATCTCCCAAAACCTTC
32506173 AAAATCTTCAAAATCTCCCAAAACCTTC
1 AAAAT-TTC-AAATCTCCCAAAACCTTC
32506201 AAAA
1 AAAA
32506205 GTATCATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.18
27 3 0.11
28 20 0.71
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAATTTCAAATCTCCCAAAACCTTC
Found at i:32507353 original size:17 final size:17
Alignment explanation
Indices: 32507333--32507467 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
32507323 ATTTCAAGAT
32507333 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
32507350 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
32507369 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* * * *
32507387 TTATGCAGTGATTCATATAC
1 TTATGTAATG-TT--TTTAA
*
32507407 TTATGTAATATTTTTAA
1 TTATGTAATGTTTTTAA
* ***
32507424 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
32507443 CTTATTTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
32507461 TTATGTA
1 TTATGTA
32507468 GTGATTCAAA
Statistics
Matches: 81, Mismatches: 28, Indels: 18
0.64 0.22 0.14
Matches are distributed among these distances:
17 34 0.42
18 10 0.12
19 10 0.12
20 27 0.33
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:32507374 original size:37 final size:37
Alignment explanation
Indices: 32507328--32507477 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
32507318 TGTTAATTTC
*
32507328 AAGATTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
32507365 AAGACTTATGTAATGTTTTTAATTATGCAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* * *
32507402 TATACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
32507439 AAGACTTATTTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
32507476 AA
1 AA
32507478 TCGGGTAATT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:32507375 original size:20 final size:19
Alignment explanation
Indices: 32507350--32507475 Score: 66
Period size: 17 Copynumber: 6.8 Consensus size: 19
32507340 ATGTTTTTAA
*
32507350 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCATA-AC
* **
32507370 TTATGTAATG-TTTTTAA-
1 TTATGTAGTGATTCATAAC
*
32507387 TTATGCAGTGATTCATATAC
1 TTATGTAGTGATTCATA-AC
* **
32507407 TTATGTAAT-ATTTTTAA-
1 TTATGTAGTGATTCATAAC
*
32507424 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCATA-AC
* * **
32507444 TTATTTAATG-TTTTTAA-
1 TTATGTAGTGATTCATAAC
32507461 TTATGTAGTGATTCA
1 TTATGTAGTGATTCA
32507476 AATCGGGTAA
Statistics
Matches: 74, Mismatches: 25, Indels: 16
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.32
18 13 0.18
19 13 0.18
20 24 0.32
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (19 bp):
TTATGTAGTGATTCATAAC
Found at i:32507492 original size:9 final size:9
Alignment explanation
Indices: 32507478--32507575 Score: 90
Period size: 9 Copynumber: 11.0 Consensus size: 9
32507468 GTGATTCAAA
32507478 TCGGGTAAT
1 TCGGGTAAT
32507487 TCGGGTAAT
1 TCGGGTAAT
*
32507496 TCGGGCAAT
1 TCGGGTAAT
*
32507505 CCGGGTAAT
1 TCGGGTAAT
*
32507514 TTGGGTAAT
1 TCGGGTAAT
*
32507523 TTGGGTAA-
1 TCGGGTAAT
*
32507531 TCGGTTAAT
1 TCGGGTAAT
**
32507540 TCGTTTAAT
1 TCGGGTAAT
* *
32507549 TCAGGTTAT
1 TCGGGTAAT
**
32507558 TCGTTTAAT
1 TCGGGTAAT
32507567 TCGGGTAAT
1 TCGGGTAAT
32507576 CAAGCATTTT
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
8 6 0.09
9 64 0.91
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (9 bp):
TCGGGTAAT
Found at i:32513033 original size:26 final size:28
Alignment explanation
Indices: 32513003--32513057 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
32512993 AAAGGCATCC
32513003 AAAAAGAAAAA-AAATA-CAAA-AATAGA
1 AAAAAGAAAAAGAAA-AGCAAACAATAGA
32513029 AAAAAGAAAAAGAAAAGCAAACAATAGA
1 AAAAAGAAAAAGAAAAGCAAACAATAGA
32513057 A
1 A
32513058 CAAATGTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 12 0.46
27 7 0.27
28 7 0.27
ACGTcount: A:0.78, C:0.05, G:0.11, T:0.05
Consensus pattern (28 bp):
AAAAAGAAAAAGAAAAGCAAACAATAGA
Found at i:32513601 original size:15 final size:13
Alignment explanation
Indices: 32513580--32513628 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
32513570 TTGAAACCTT
*
32513580 AAAAAAATAGAGA
1 AAAAAAAAAGAGA
*
32513593 AAGAAAAAAGATCGA
1 AAAAAAAAAGA--GA
32513608 AATAAAAAAAGAGA
1 AA-AAAAAAAGAGA
32513622 AAAAAAA
1 AAAAAAA
32513629 TTGAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 14 0.47
14 4 0.13
15 4 0.13
16 8 0.27
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAGAGA
Found at i:32513659 original size:30 final size:29
Alignment explanation
Indices: 32513614--32513671 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
32513604 TCGAAATAAA
32513614 AAAAGAGAAAAAAAATTGAAAAAAAGAAAAT
1 AAAAGAGAAAAAAAATT--AAAAAAGAAAAT
*
32513645 AAAA-AGAAATAAAATTAAAAAAGAAAA
1 AAAAGAGAAAAAAAATTAAAAAAGAAAA
32513672 AGAAAATGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
30 11 0.42
31 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (29 bp):
AAAAGAGAAAAAAAATTAAAAAAGAAAAT
Found at i:32515002 original size:229 final size:229
Alignment explanation
Indices: 32514601--32515046 Score: 883
Period size: 229 Copynumber: 1.9 Consensus size: 229
32514591 TGATTGTTTC
32514601 TTTGGGTTTTCTGTCAAAAATACCAGCCGAACAATATGGCAGCATAATAAATCAGTGATAGTGCC
1 TTTGGGTTTTCTGTCAAAAATACCAGCCGAACAATATGGCAGCATAATAAATCAGTGATAGTGCC
32514666 CTGATGAACAACAAGCGATGATACCTTAAGTATTAAAAAAGAAAGATCATTTAAAAAGATCATTT
66 CTGATGAACAACAAGCGATGATACCTTAAGTATTAAAAAAGAAAGATCATTTAAAAAGATCATTT
32514731 TCATTTTTACATTCATATATTATTCATAACACATCTATTTAGGAGCATTTGATTCATTTCGATCA
131 TCATTTTTACATTCATATATTATTCATAACACATCTATTTAGGAGCATTTGATTCATTTCGATCA
32514796 TAGCATCCTAATTATTTGACATAAGCAACACATT
196 TAGCATCCTAATTATTTGACATAAGCAACACATT
32514830 TTTGGGTTTTCTGTCAAAAATACCAGCCGAACAATATGGCAGCATAATAAATCAGTGATAGTGCC
1 TTTGGGTTTTCTGTCAAAAATACCAGCCGAACAATATGGCAGCATAATAAATCAGTGATAGTGCC
32514895 CTGATGAACAACAAGCGATGATACCTTAAGTATTAAAAAAGAAAGATCATTTAAAAAGATCATTT
66 CTGATGAACAACAAGCGATGATACCTTAAGTATTAAAAAAGAAAGATCATTTAAAAAGATCATTT
32514960 TCATTTTTACATTCATATATTATTCATAACACATCTATTTAGGAGCATTTGATTCATTTCGATCA
131 TCATTTTTACATTCATATATTATTCATAACACATCTATTTAGGAGCATTTGATTCATTTCGATCA
*
32515025 TAGCGTCCTAATTATTTGACAT
196 TAGCATCCTAATTATTTGACAT
32515047 CAGCGTCACA
Statistics
Matches: 216, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 216 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (229 bp):
TTTGGGTTTTCTGTCAAAAATACCAGCCGAACAATATGGCAGCATAATAAATCAGTGATAGTGCC
CTGATGAACAACAAGCGATGATACCTTAAGTATTAAAAAAGAAAGATCATTTAAAAAGATCATTT
TCATTTTTACATTCATATATTATTCATAACACATCTATTTAGGAGCATTTGATTCATTTCGATCA
TAGCATCCTAATTATTTGACATAAGCAACACATT
Found at i:32515365 original size:44 final size:44
Alignment explanation
Indices: 32515274--32515382 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
32515264 AGTCACCAGC
*
32515274 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAATATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATATACAAGT
* * * **
32515318 CTTATCTCCCTGAGGTTGCAGTGGAGTA-ACTGAAGT-TTGAAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAA-TATACAAG-T
*
32515362 CTTATCTCCTTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAG
32515383 CAGAATAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 8 0.15
44 47 0.85
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATATACAAGT
Found at i:32515757 original size:176 final size:175
Alignment explanation
Indices: 32515227--32516331 Score: 1007
Period size: 176 Copynumber: 6.3 Consensus size: 175
32515217 AAAGACAACA
* * * * *
32515227 AATCTTATCTCCATGTACCGGCAATGGAGCAGATTTAAGTCACCAGCCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAA-CCACCAGCCTTATCTCTCTGAGGTAG
* * * * ** * * * * ** *
32515292 C-AGTGGAGCAGGCTCAATATACAAGTCTTATCTCCCTGAGGTTGC-AGTGGAGTA-ACTGAAGT
65 CAAG-AGAGCAGGTTGAAGA-ATGAGTCTTATCTTCCTAAGGTAGCAAG-GAAACAGACTGAAGA
* ** * ** ** * * * *
32515354 TTGAAGATCTTATCTCCTTGAAGTTGCAGCAGAATAAATTGAATATGGTG
127 TTGAAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCG
* *
32515404 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAACCTTATCTCTCTGAGGTAGC
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAACCACCAGCCTTATCTCTCTGAGGTAGC
* ** *
32515469 AAGAGAGCAGGTTGAAGAATGAGTCTTATCTT-TTTGGGTAGCAA-GAAAGCAAACTAGAA-ATT
66 AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAA-CAGACT-GAAGATT
** * ** * * *
32515531 GAAGATCTTATCTCCCTGAAGTTGCAACGGAGCGGATTGAAGATGGTG
129 GAAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCG
* * * * ** *
32515579 AATCTTATCTCCATGTATTGACAATGGAGCAGATTCAAATCACCAGCCTTGCCTCTCTAAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATT-TAACCACCAGCCTTATCTCTCTGAGGTAG
* * * *
32515644 CAAGAGAGCAAGTTGAAGAATGAGTCTTATATTCCTGAGGTAGCAAGGAAACAGACTAAAGATTG
65 CAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGAAGATTG
* * *
32515709 AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTG
130 AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
* * * * **
32515755 AATCTTATCTCCGTGTA-CATGTAATGGAGCAGATTTTAGCCATTAAGCCTTATCTCTCTGAGGT
1 AATCTTATCTCCATGTATC-GGCAATGGAGCAGA-TTTAACCA-CCAGCCTTATCTCTCTGAGGT
** * *
32515819 AGCAAGAGAGCAGGTTG--GTAATTTTTGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAC
63 AGCAAGAGAGCAGGTTGAAG-AA--TGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGAA
* * * *
32515882 GATTAAAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCGGAGATAGCG
125 GATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
* *
32515933 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC-TCAGGCCTTATCTCTCTAAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAA-CCACCA-GCCTTATCTCTCTGAGGTA
* * * * * *
32515997 ACAAGAGAGTAGGTTGAAGATTGAGTCTTATCTTTCTAAGGTAGTAA-GAAAGCAGATTGAAGAT
64 GCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAA-CAGACTGAAGAT
*
32516061 TGAAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCG
128 TGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
* * * * * *
32516109 AATCTTATCTCCATGTACCGACAATGGAGTAGATTTTAGCCACTAAGTCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGA-TTTAACCAC-CAGCCTTATCTCTCTGAGGTA
* * ** *
32516174 GCAAAAGAGCAGGTTG--GCAATTGTAGTTTTATCTTCCTAAGGTAGCAAGGAAGTAGATTGAAG
64 GCAAGAGAGCAGGTTGAAG-AA-TG-AGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGAAG
* * * *
32516237 ATTGAAGATCTGT-T-TCCCTAAGCAATTGTGGAGCAGATTGAGGATGGCG
126 ATTGAAGATCT-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
*
32516286 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTGAGCCACCAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTT-AACCACCAG
32516332 TCCTATTTCC
Statistics
Matches: 768, Mismatches: 130, Indels: 61
0.80 0.14 0.06
Matches are distributed among these distances:
173 2 0.00
174 7 0.01
175 95 0.12
176 259 0.34
177 244 0.32
178 155 0.20
179 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (175 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAACCACCAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGAAGATTGA
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
Found at i:32515991 original size:354 final size:348
Alignment explanation
Indices: 32515400--32516326 Score: 1105
Period size: 354 Copynumber: 2.6 Consensus size: 348
32515390 AATTGAATAT
* *
32515400 GGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCACCAA-CCTTATCTCTCTGA
1 GGTGAATCTTATCTCCATGTA-CCGCAATGGAGCAGATTTTAGCCACTAAGCCTTATCTCTCTGA
* * ** * *
32515463 GGTAGCAAGAGAGCAGGTTGAAGAA--TGAGTCTTATCTT-TTTGGGTAGCAAGAAAGCAAACTA
65 GGTAGCAAGAGAGCAGGTTG--GAATTTTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACT-
* * ** * ** * * *
32515525 GAAATTGAAGATCTTATCTCCCTGAAGTTGCAACGGAGCGGATTGAAGATGGTGAATCTTATCTC
127 GAGATTGAAGATCTTATCTCCC-CAAGCAGTAGTGGAGCAGA-TGGAGATGGCGAATCTTATCTC
* * * * * *
32515590 CATGTATTGACAATGGAGCAGATTCAAATCACCAGCCTTGCCTCTCTAAGGTAGCAAGAGAGCAA
190 CATGTATCGGCAATGGAGCAGATT-TAAGC-CCAGCCTTACCTCTCTAAGGTAACAAGAGAGCAA
*
32515655 GTTGAAGAATGAGTCTTATATTCCTGAGGTAGCAAGGAAA-CAGACTAAAGATTGAAGATCTTAT
253 GTTGAAGAATGAGTCTTATATTCCTAAGGTAGCAA-GAAAGCAGACTAAAGATTGAAGATCTTAT
*
32515719 CTCCCTAAGCAGTAGTGGAGCAAATCGAAGAC
317 CTCCCTAAGCAGTAGTAGAGCAAATCGAAGAC
* * * *
32515751 GGTGAATCTTATCTCCGTGTACATGTAATGGAGCAGATTTTAGCCATTAAGCCTTATCTCTCTGA
1 GGTGAATCTTATCTCCATGTAC-CGCAATGGAGCAGATTTTAGCCACTAAGCCTTATCTCTCTGA
*
32515816 GGTAGCAAGAGAGCAGGTTGGTAATTTTTGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGA
65 GGTAGCAAGAGAGCAGGTTGG-AATTTTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGA
* *
32515881 CGATTAAAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCGGAGATAGCGAATCTTATCTCCA
129 -GATTGAAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGAT-GGAGATGGCGAATCTTATCTCCA
* * *
32515946 TGTATCGGCAATGGAGCAGATTTAAGCCTCAGGCCTTATCTCTCTAAGGTAACAAGAGAGTAGGT
192 TGTATCGGCAATGGAGCAGATTTAAGCC-CA-GCCTTACCTCTCTAAGGTAACAAGAGAGCAAGT
* * * * * *
32516011 TGAAGATTGAGTCTTATCTTTCTAAGGTAGTAAGAAAGCAGATTGAAGATTGAAGATCTTATCTC
255 TGAAGAATGAGTCTTATATTCCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGATCTTATCTC
* *
32516076 CCTAAGCAGTAGTAGAGCAGATCGAAGAT
320 CCTAAGCAGTAGTAGAGCAAATCGAAGAC
* * *
32516105 GGCGAATCTTATCTCCATGTACCGACAATGGAGTAGATTTTAGCCACTAAGTCTTATCTCTCTGA
1 GGTGAATCTTATCTCCATGTACCG-CAATGGAGCAGATTTTAGCCACTAAGCCTTATCTCTCTGA
* * * * *
32516170 GGTAGCAAAAGAGCAGGTTGGCAATTGTAGTTTTATCTTCCTAAGGTAGCAAGGAAGTAGATTGA
65 GGTAGCAAGAGAGCAGGTTGG-AATTTTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTG-
* * * *
32516235 AGATTGAAGATCTGT-T-TCCCTAAGCAATTGTGGAGCAGATTGAGGATGGCGAATCTTATCTCC
128 AGATTGAAGATCT-TATCTCCCCAAGCAGTAGTGGAGCAGATGGA-GATGGCGAATCTTATCTCC
*
32516298 ATGTATCGGCAATGGAGCAGATTTGAGCC
191 ATGTATCGGCAATGGAGCAGATTTAAGCC
32516327 ACCAGTCCTA
Statistics
Matches: 496, Mismatches: 64, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
350 1 0.00
351 38 0.08
352 10 0.02
353 112 0.23
354 297 0.60
355 38 0.08
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (348 bp):
GGTGAATCTTATCTCCATGTACCGCAATGGAGCAGATTTTAGCCACTAAGCCTTATCTCTCTGAG
GTAGCAAGAGAGCAGGTTGGAATTTTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGA
TTGAAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATGGAGATGGCGAATCTTATCTCCATGTA
TCGGCAATGGAGCAGATTTAAGCCCAGCCTTACCTCTCTAAGGTAACAAGAGAGCAAGTTGAAGA
ATGAGTCTTATATTCCTAAGGTAGCAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAG
CAGTAGTAGAGCAAATCGAAGAC
Found at i:32516057 original size:43 final size:45
Alignment explanation
Indices: 32515980--32516081 Score: 127
Period size: 43 Copynumber: 2.3 Consensus size: 45
32515970 AGCCTCAGGC
* * *
32515980 CTTATCTCTCTAAGGTAACAAGAGAGTAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTAAGGTAACAAGAAAGCAGATTGAAGATTGAAGAT
* **
32516023 CTTATCTTTCTAAGGTAGTAAGAAAGCAGATTGAAGATTGAAGAT
1 CTTATCTCTCTAAGGTAACAAGAAAGCAGATTGAAGATTGAAGAT
*
32516068 CTTATCTCCCTAAG
1 CTTATCTCTCTAAG
32516082 CAGTAGTAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 34 0.69
44 2 0.04
45 13 0.27
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTAACAAGAAAGCAGATTGAAGATTGAAGAT
Found at i:32516287 original size:177 final size:175
Alignment explanation
Indices: 32515398--32516328 Score: 1034
Period size: 176 Copynumber: 5.3 Consensus size: 175
32515388 TAAATTGAAT
*
32515398 ATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCACCAA-CCTTATCTCTCT
1 ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA-CAAGCCTTATCTCTCT
* ** * *
32515461 GAGGTAGCAAGAGAGCAGGTTGAAGAA-TGAGTCTTATCTT-TTTGGGTAGCAAGAAAGCAAACT
65 GAGGTAGCAAGAGAGCAGGTTG--GAATTGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGA-T
* ** * ** * *
32515524 AGAA-ATTGAAGATCTTATCTCCCTGAAGTTGCAACGGAGCGGATTGAAG
127 TGAAGATTGAAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAG
* * * ** ** * ** *
32515573 ATGGTGAATCTTATCTCCATGTATTGACAATGGAGCAGATTCAAATCACCAGCCTTGCCTCTCTA
1 ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTG
* * * * * *
32515638 AGGTAGCAAGAGAGCAAGTTGAAGAA-TGAGTCTTATATTCCTGAGGTAGCAAGGAAACAGACTA
66 AGGTAGCAAGAGAGCAGGTTG--GAATTGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGATTG
*
32515702 AAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAG
129 AAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
* * * * * *
32515749 ACGGTGAATCTTATCTCCGTGTA-CATGTAATGGAGCAGATTTTAGCCATTAAGCCTTATCTCTC
1 ATGGCGAATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTTAGCCA-CAAGCCTTATCTCTC
** *
32515813 TGAGGTAGCAAGAGAGCAGGTTGGTAATTTTTGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGAC
64 TGAGGTAGCAAGAGAGCAGGTTGG-AA-TTGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGAT
* * * *
32515878 TGACGATTAAAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCGGAG
127 TGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
* * * * *
32515927 ATAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCTCAGGCCTTATCTCTCTA
1 ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTG
* * * * * *
32515992 AGGTAACAAGAGAGTAGGTTGAAGATTGAGTCTTATCTTTCTAAGGTAGTAAGAAAGCAGATTGA
66 AGGTAGCAAGAGAGCAGGTTGGA-ATTGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGATTGA
*
32516057 AGATTGAAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAG
130 AGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
* * * *
32516103 ATGGCGAATCTTATCTCCATGTACCGACAATGGAGTAGATTTTAGCCACTAAGTCTTATCTCTCT
1 ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC-AAGCCTTATCTCTCT
* * *
32516168 GAGGTAGCAAAAGAGCAGGTTGGCAATTGTAGTTTTATCTTCCTAAGGTAGCAAGGAAGTAGATT
65 GAGGTAGCAAGAGAGCAGGTTGG-AATTG-AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGATT
* * * *
32516233 GAAGATTGAAGATCTGT-T-TCCCTAAGCAATTGTGGAGCAGATTGAGG
128 GAAGATTGAAGATCT-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
*
32516280 ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTGAGCCAC
1 ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
32516329 CAGTCCTATT
Statistics
Matches: 634, Mismatches: 107, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
175 43 0.07
176 225 0.35
177 205 0.32
178 159 0.25
179 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (175 bp):
ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTG
AGGTAGCAAGAGAGCAGGTTGGAATTGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGATTGAA
GATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
Found at i:32519950 original size:241 final size:242
Alignment explanation
Indices: 32519521--32519956 Score: 820
Period size: 241 Copynumber: 1.8 Consensus size: 242
32519511 GTATGAATTA
32519521 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
1 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
*
32519586 TTTTTTTAAATATTTTAAAGATTCAAAGTATTTAGGCTGGAAACCTGACGGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
32519651 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
131 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
32519716 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
196 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
*
32519763 ATTTT-TTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACC
1 ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
*
32519827 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCG
66 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
* *
32519892 AGCTGTAAGATATAATGGATCTTCCTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
131 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
32519957 AACTTACATA
Statistics
Matches: 189, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
241 184 0.97
242 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (242 bp):
ATTTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC
TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAAT
Found at i:32519969 original size:9 final size:9
Alignment explanation
Indices: 32519955--32520013 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
32519945 ATCTTAAAAA
32519955 ATAACTTAC
1 ATAACTTAC
*
32519964 ATAACTCAC
1 ATAACTTAC
32519973 ATAACTTAC
1 ATAACTTAC
*
32519982 ATAATTTAC
1 ATAACTTAC
*
32519991 ATAACTCAC
1 ATAACTTAC
*
32520000 ATAACGTAC
1 ATAACTTAC
32520009 ATAAC
1 ATAAC
32520014 AACTTACGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:32519993 original size:27 final size:27
Alignment explanation
Indices: 32519955--32520013 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
32519945 ATCTTAAAAA
*
32519955 ATAACTTACATAACTCACATAACTTAC
1 ATAACTTACATAACTCACATAACGTAC
*
32519982 ATAATTTACATAACTCACATAACGTAC
1 ATAACTTACATAACTCACATAACGTAC
32520009 ATAAC
1 ATAAC
32520014 AACTTACGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAACTTACATAACTCACATAACGTAC
Found at i:32520571 original size:40 final size:40
Alignment explanation
Indices: 32520526--32520606 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
32520516 CATGGAAGGT
32520526 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTGAGC
1 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTGAGC
32520566 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTGAGC
1 ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTGAGC
32520606 A
1 A
32520607 ATCGTTTCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (40 bp):
ATGTTGCGGGATGCATTTAATATGCACAGTCATGGTGAGC
Found at i:32525254 original size:46 final size:46
Alignment explanation
Indices: 32525187--32525281 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
32525177 ACTTAATAAT
*
32525187 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTTTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
*
32525233 ATTTGATTTATTCTAAATATTTATAATCTTTAATTATAATTGTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
32525279 ATT
1 ATT
32525282 CAATTCATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (46 bp):
ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
Found at i:32526200 original size:43 final size:43
Alignment explanation
Indices: 32526139--32526248 Score: 202
Period size: 43 Copynumber: 2.6 Consensus size: 43
32526129 TAAAAGCGCC
*
32526139 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACATCGCTAAAA
1 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
32526182 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
1 GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
*
32526225 GTCAAGGCTTTTAGCGGCGTTTTT
1 GTCAAGGCTTTTAGCGGCGCTTTT
32526249 TTCAATAAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
GTCAAGGCTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAA
Found at i:32540425 original size:27 final size:26
Alignment explanation
Indices: 32540387--32540439 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
32540377 CGCAGCTCCC
32540387 GCTGAAGGCACTTCCAAATTGCTAAT
1 GCTGAAGGCACTTCCAAATTGCTAAT
*
32540413 NGCTGAAGTCACTTCCAAATTGCTAAT
1 -GCTGAAGGCACTTCCAAATTGCTAAT
32540440 ATACCTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.28
Consensus pattern (26 bp):
GCTGAAGGCACTTCCAAATTGCTAAT
Found at i:32541045 original size:15 final size:15
Alignment explanation
Indices: 32541021--32541050 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32541011 GGAGGGTAAA
*
32541021 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
32541036 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
32541051 GCCAAAAAAG
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:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:32545606 original size:19 final size:19
Alignment explanation
Indices: 32545584--32545620 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
32545574 TGAAGTAGTT
32545584 TTTTTTAAATAATTTATTA
1 TTTTTTAAATAATTTATTA
32545603 TTTTTTAAATAATTTATT
1 TTTTTTAAATAATTTATT
32545621 TAATCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTAAATAATTTATTA
Found at i:32545892 original size:32 final size:32
Alignment explanation
Indices: 32545856--32545920 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
32545846 CCTACAAAAA
32545856 TTACTTAAAATATATTTTAATTTTTAAATTTT
1 TTACTTAAAATATATTTTAATTTTTAAATTTT
32545888 TTACTTAAAATATATTTTAATTTTTAAATTTT
1 TTACTTAAAATATATTTTAATTTTTAAATTTT
32545920 T
1 T
32545921 GTCTCTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (32 bp):
TTACTTAAAATATATTTTAATTTTTAAATTTT
Found at i:32545905 original size:16 final size:16
Alignment explanation
Indices: 32545856--32545906 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
32545846 CCTACAAAAA
32545856 TTACTTAAAATATATT
1 TTACTTAAAATATATT
* *
32545872 TTAATTTTTAAAT-T-TT
1 TT-A-CTTAAAATATATT
32545888 TTACTTAAAATATATT
1 TTACTTAAAATATATT
32545904 TTA
1 TTA
32545907 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
14 6 0.22
15 2 0.07
16 11 0.41
17 2 0.07
18 6 0.22
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
TTACTTAAAATATATT
Found at i:32553432 original size:44 final size:44
Alignment explanation
Indices: 32553369--32553456 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
32553359 TTTATTATTC
*
32553369 TTTCAAAGGAATACATCTAAATTTGGTTTATAGAGTTCCCTACA
1 TTTCAAAGGAATACATCTAAATTTGGTTTATAGAGCTCCCTACA
*
32553413 TTTCAAAGGAATACATCTAAATTTGGTTTATAGTGCTCCCTACA
1 TTTCAAAGGAATACATCTAAATTTGGTTTATAGAGCTCCCTACA
32553457 CAAAATACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (44 bp):
TTTCAAAGGAATACATCTAAATTTGGTTTATAGAGCTCCCTACA
Found at i:32554314 original size:52 final size:52
Alignment explanation
Indices: 32554248--32554352 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
32554238 AGTTGATAAC
32554248 TTTGTTCATTGTTTCCAATGCATGGGATAAGATAAGACAATATTACATACAG
1 TTTGTTCATTGTTTCCAATGCATGGGATAAGATAAGACAATATTACATACAG
32554300 TTTGTTCATTGTTTCCAATGCATGGGATAAGATAAGACAATATTACATACAG
1 TTTGTTCATTGTTTCCAATGCATGGGATAAGATAAGACAATATTACATACAG
32554352 T
1 T
32554353 AATTTTAACG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (52 bp):
TTTGTTCATTGTTTCCAATGCATGGGATAAGATAAGACAATATTACATACAG
Found at i:32554760 original size:48 final size:48
Alignment explanation
Indices: 32554699--32554793 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
32554689 CTGAATATTT
32554699 GCCAAAGCTGAAGAAGGCTTTGGCTCATCAAGGGGTTCAATATCATCA
1 GCCAAAGCTGAAGAAGGCTTTGGCTCATCAAGGGGTTCAATATCATCA
32554747 GCCAAAGCTGAAGAAGGCTTTGGCTCATCAAGGGGTTCAATATCATC
1 GCCAAAGCTGAAGAAGGCTTTGGCTCATCAAGGGGTTCAATATCATC
32554794 CCATCCATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (48 bp):
GCCAAAGCTGAAGAAGGCTTTGGCTCATCAAGGGGTTCAATATCATCA
Found at i:32568338 original size:21 final size:20
Alignment explanation
Indices: 32568306--32568348 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
32568296 TTTTTAATAA
* **
32568306 TTTATTGTAATTTTAGTATT
1 TTTATTCTAATTCCAGTATT
32568326 TTTATTCTAAATTCCAGTATT
1 TTTATTCT-AATTCCAGTATT
32568347 TT
1 TT
32568349 ATGTTGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTATTCTAATTCCAGTATT
Found at i:32572557 original size:72 final size:72
Alignment explanation
Indices: 32572473--32572618 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
32572463 TTAAACACGA
32572473 TTATACCATATGAACTTACTTGAAAAAAATAACAAATGAGATTAACTTTAAGAATTACTCAACAA
1 TTATACCATATGAACTTACTTGAAAAAAATAACAAATGAGATTAACTTTAAGAATTACTCAACAA
32572538 TTTTGGC
66 TTTTGGC
32572545 TTATACCATATGAACTTACTTGAAAAAAATAACAAATGAGATTAACTTTAAGAATTACTCAACAA
1 TTATACCATATGAACTTACTTGAAAAAAATAACAAATGAGATTAACTTTAAGAATTACTCAACAA
32572610 TTTTGGC
66 TTTTGGC
32572617 TT
1 TT
32572619 TTCCCTAATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.33
Consensus pattern (72 bp):
TTATACCATATGAACTTACTTGAAAAAAATAACAAATGAGATTAACTTTAAGAATTACTCAACAA
TTTTGGC
Found at i:32575683 original size:26 final size:26
Alignment explanation
Indices: 32575654--32575761 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
32575644 TGGTACAAAT
32575654 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
32575680 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
32575706 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
32575732 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
32575758 TGAT
1 TGAT
32575762 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:32578754 original size:30 final size:30
Alignment explanation
Indices: 32578720--32578777 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32578710 CACGGACTGG
* *
32578720 CACATGGGCATGTGGCTAGCCCGTGTGGCT
1 CACATGGCCATGTGGCCAGCCCGTGTGGCT
* *
32578750 CACATGGCCGTGTGGCCAGCCTGTGTGG
1 CACATGGCCATGTGGCCAGCCCGTGTGG
32578778 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATGGCCATGTGGCCAGCCCGTGTGGCT
Found at i:32581494 original size:27 final size:27
Alignment explanation
Indices: 32581450--32581511 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
32581440 TTTTATCCCA
32581450 ATAAAA-TTTTGACAATTTTGCCAC-TG
1 ATAAAATTTTTGACAATTTTGCC-CGTG
**
32581476 ATAAAATTTTTGATGATTTTGCCCGTG
1 ATAAAATTTTTGACAATTTTGCCCGTG
*
32581503 GTAAAATTT
1 ATAAAATTT
32581512 CAAGAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (27 bp):
ATAAAATTTTTGACAATTTTGCCCGTG
Found at i:32585620 original size:27 final size:27
Alignment explanation
Indices: 32585579--32585736 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 27
32585569 GGAAGCGTCT
* *
32585579 TGGTGGCTATCCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
32585606 TGGTGGCTCTGCCAC-ATATATCTG-TCC
1 TGGTGGCTCTGCCACAAT-TATCTGAT-C
* * *
32585633 TCGTGGCTATGCCACAATTATCTAATC
1 TGGTGGCTCTGCCACAATTATCTGATC
* *
32585660 TGGTGGCTCTGCCAC-ATATAACTGTTC
1 TGGTGGCTCTGCCACAAT-TATCTGATC
*
32585687 TGGTGGCTCTGCCACAA-TATTTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * *
32585714 TGGTGACTCCGTCACAA-TATCTG
1 TGGTGGCTCTGCCACAATTATCTG
32585737 GCAGCCTCGC
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
26 9 0.08
27 94 0.88
28 4 0.04
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:32585715 original size:54 final size:54
Alignment explanation
Indices: 32585579--32585718 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
32585569 GGAAGCGTCT
* *
32585579 TGGTGGCTATCCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACTGTCC
* * *
32585633 TCGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATAACTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACTGTCC
* *
32585687 TGGTGGCTCTGCCACAA-TATTTGTATCTGGTG
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTG
32585719 ACTCCGTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
53 4 0.05
54 72 0.95
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACTGTCC
Found at i:32591036 original size:26 final size:26
Alignment explanation
Indices: 32591007--32591114 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
32590997 TGGTACAAAT
32591007 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
32591033 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
32591059 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
32591085 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
32591111 TGAT
1 TGAT
32591115 GGACATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:32592775 original size:27 final size:27
Alignment explanation
Indices: 32592735--32592893 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
32592725 AGGAAGCGTC
*
32592735 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
32592762 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
32592788 CCTCGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
32592816 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
32592843 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
32592870 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
32592894 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.10
27 100 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:32592814 original size:54 final size:54
Alignment explanation
Indices: 32592732--32592893 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
32592722 TGGAGGAAGC
32592732 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
32592786 GTCCTCGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
32592840 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
32592893 G
1 G
32592894 GCAGCCTCGC
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 13 0.13
54 87 0.87
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:32592887 original size:81 final size:80
Alignment explanation
Indices: 32592735--32592893 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
32592725 AGGAAGCGTC
* *
32592735 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTCGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTCGTGACTAC
32592800 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
32592816 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTCGTGACT
* *
32592879 CCGTCACAATATCTG
64 ACGCCACAATATCTG
32592894 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 16 0.24
81 52 0.76
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTCGTGACTAC
GCCACAATATCTGAT
Found at i:32593999 original size:44 final size:43
Alignment explanation
Indices: 32593855--32594016 Score: 143
Period size: 44 Copynumber: 3.8 Consensus size: 43
32593845 AACATATACA
* * *
32593855 ATGCCAATGTCCCAGACGTGGTCTTAAATGTAATAAA-A-AATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AA-AAACAGAATCG
* * * **
32593898 ATGCCATTGTCCCAGACAGGGTTTTACACG-AAGTCAG-ATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAAACAGAAT-CG
*
32593940 ATGCCGATGTCCCAGACATGGTCTTACACGAAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAAACAGAA-TCG
* * * *
32593984 ATGTCAATGTCCCAGACGTAGTCTTACATGAAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAA
32594017 TCACATAACG
Statistics
Matches: 94, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 28 0.30
43 29 0.31
44 31 0.33
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAAAACAGAATCG
Found at i:32595312 original size:18 final size:18
Alignment explanation
Indices: 32595289--32595325 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
32595279 ATAATATTTA
32595289 TTTTAATTTTATAAATAT
1 TTTTAATTTTATAAATAT
32595307 TTTTAATTTTATAAATAT
1 TTTTAATTTTATAAATAT
32595325 T
1 T
32595326 AATTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATTTTATAAATAT
Found at i:32599237 original size:86 final size:86
Alignment explanation
Indices: 32599092--32599263 Score: 299
Period size: 86 Copynumber: 2.0 Consensus size: 86
32599082 TTTTATCCAT
* * *
32599092 TTATGTTATTAAAATTGGTCTATGTACGTCAACATAAGGTATACGGGACACGTCACATGTCATTG
1 TTATGTTATTAAAATTGGCCTATGTACGTCAACATAAGGTACACGGGACACGTCACATGTCACTG
32599157 TCTAGTTATTTCGTCAACCAA
66 TCTAGTTATTTCGTCAACCAA
* *
32599178 TTATGTTATTAAAATTGGCCTATGTACGTCAACATGAGGTACACGTGACACGTCACATGTCACTG
1 TTATGTTATTAAAATTGGCCTATGTACGTCAACATAAGGTACACGGGACACGTCACATGTCACTG
32599243 TCTAGTTATTTCGTCAACCAA
66 TCTAGTTATTTCGTCAACCAA
32599264 GCTAATTTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (86 bp):
TTATGTTATTAAAATTGGCCTATGTACGTCAACATAAGGTACACGGGACACGTCACATGTCACTG
TCTAGTTATTTCGTCAACCAA
Found at i:32601974 original size:26 final size:26
Alignment explanation
Indices: 32601942--32602028 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 26
32601932 TTAAAAATCA
32601942 TTTGATAACTTAAATAAAAATGTAAG
1 TTTGATAACTTAAATAAAAATGTAAG
*
32601968 TTTGATAACTTAAA-AATCAAATTTTCTAATAG
1 TTTGATAACTTAAATAA--AAA---TGT-A-AG
*
32602000 TTTGATAACTTAAATGAAAATGTAAG
1 TTTGATAACTTAAATAAAAATGTAAG
32602026 TTT
1 TTT
32602029 ATTGAAGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
25 2 0.04
26 19 0.38
27 4 0.08
28 2 0.04
30 2 0.04
31 4 0.08
32 16 0.32
33 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (26 bp):
TTTGATAACTTAAATAAAAATGTAAG
Found at i:32607774 original size:47 final size:47
Alignment explanation
Indices: 32607721--32607815 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
32607711 CCTTTAACTC
32607721 AAAACAAAAGTTAAAAAAAAAAAGAAAAGAACAATGGCTCTTCTAAA
1 AAAACAAAAGTTAAAAAAAAAAAGAAAAGAACAATGGCTCTTCTAAA
*
32607768 AAAACAAAAGTTAAAAAAACAAAGAAAAGAACAATGGCTCTTCTAAA
1 AAAACAAAAGTTAAAAAAAAAAAGAAAAGAACAATGGCTCTTCTAAA
32607815 A
1 A
32607816 GTAAAGGACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.63, C:0.12, G:0.11, T:0.15
Consensus pattern (47 bp):
AAAACAAAAGTTAAAAAAAAAAAGAAAAGAACAATGGCTCTTCTAAA
Found at i:32609518 original size:10 final size:10
Alignment explanation
Indices: 32609503--32609527 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32609493 GACGGTGCAT
32609503 ATATATACAC
1 ATATATACAC
32609513 ATATATACAC
1 ATATATACAC
32609523 ATATA
1 ATATA
32609528 ACGGTGGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (10 bp):
ATATATACAC
Found at i:32610076 original size:3 final size:3
Alignment explanation
Indices: 32610068--32610111 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
32610058 TTACTTTATG
*
32610068 TTA TTA TTA TTA -TG TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32610112 ATGTGTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 3 0.08
3 34 0.92
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32610080 original size:14 final size:14
Alignment explanation
Indices: 32610063--32610108 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
32610053 TTTCATTACT
32610063 TTATGTTATTATTA
1 TTATGTTATTATTA
32610077 TTATGTTATTATTA
1 TTATGTTATTATTA
*
32610091 TTATATTATTATTA
1 TTATGTTATTATTA
32610105 TTAT
1 TTAT
32610109 TATATGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
TTATGTTATTATTA
Found at i:32610085 original size:11 final size:10
Alignment explanation
Indices: 32610071--32610111 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
32610061 CTTTATGTTA
32610071 TTATTATTAT
1 TTATTATTAT
32610081 GTTATTATTAT
1 -TTATTATTAT
32610092 TATATTATTA-
1 T-TATTATTAT
32610102 TTATTATTAT
1 TTATTATTAT
32610112 ATGTGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.29
10 2 0.07
11 18 0.64
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATTATTAT
Found at i:32610112 original size:17 final size:18
Alignment explanation
Indices: 32610068--32610113 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
32610058 TTACTTTATG
*
32610068 TTATTATTAT-TATGTTA
1 TTATTATTATATATATTA
32610085 TTATTATTATAT-TATTA
1 TTATTATTATATATATTA
32610102 TTATTATTATAT
1 TTATTATTATAT
32610114 GTGTATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTATTATATATATTA
Found at i:32610300 original size:14 final size:15
Alignment explanation
Indices: 32610283--32610323 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
32610273 TTATTATGTA
32610283 TATACTTTTAATAT-
1 TATACTTTTAATATG
*
32610297 TATA-TTTTTATATG
1 TATACTTTTAATATG
*
32610311 TATACTCTTAATA
1 TATACTTTTAATA
32610324 CCATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 8 0.36
14 8 0.36
15 6 0.27
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (15 bp):
TATACTTTTAATATG
Done.