Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 125 of 344
Found at i:42337411 original size:93 final size:93
Alignment explanation
Indices: 42337252--42337421 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
42337242 AGGATATTTG
* *
42337252 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
42337317 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
42337345 GGCATCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
*
42337409 GTTGAGTCTGAGT
65 GTTGAGTCCGAGT
42337422 ACACTTATGG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:42355533 original size:34 final size:34
Alignment explanation
Indices: 42355488--42355577 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
42355478 CAAAATGGTC
**
42355488 TGGGCCTTAGCCCA-TATCAGTGGCAATATCAGTG
1 TGGGCCTTAGCCCATTA-CAGTACCAATATCAGTG
* *
42355522 TGGGCCCTAGCCCATTACAGTACCAGTATCAGTG
1 TGGGCCTTAGCCCATTACAGTACCAATATCAGTG
42355556 TGGGCCTTAGCCCAATT-CAGTA
1 TGGGCCTTAGCCC-ATTACAGTA
42355578 TAGTATCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 44 0.90
35 5 0.10
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTACCAATATCAGTG
Found at i:42362088 original size:55 final size:54
Alignment explanation
Indices: 42361957--42362089 Score: 135
Period size: 55 Copynumber: 2.4 Consensus size: 54
42361947 AGGATACCAA
* * ** *
42361957 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGATAAAAGAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGAGAAAAGAATCAT
* ** *
42362011 GTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAG-GAAAAG-ATCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGAGAAAAGAAT--CAT
*
42362066 GTAAGACCACGCCAAGGCATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
42362090 ATGGTGAGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
53 2 0.03
54 30 0.48
55 31 0.49
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (54 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGAGAAAAGAATCAT
Found at i:42362126 original size:53 final size:53
Alignment explanation
Indices: 42361949--42362152 Score: 167
Period size: 53 Copynumber: 3.8 Consensus size: 53
42361939 AGGGTTTAAG
* * * * * * *
42361949 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGATAAAA
1 GATACCATGTAAGACCACGCCAAGACATGGCAATGGTAAG-TTCATAAG-GAAAA
* * * * * * * *
42362004 GA-ATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATAAGGAAAA
1 GATACCATGTAAGACCACGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGAAAA
* * * * *
42362058 GATCCCATGTAAGACCACGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCACGCCAAGACATGGCAATGGTAAGTTCATAAGGAAAA
* *
42362111 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCACGCCAAGACATGGCAATGGTAAGTT
42362153 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
53 45 0.38
54 38 0.32
55 34 0.29
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCACGCCAAGACATGGCAATGGTAAGTTCATAAGGAAAA
Found at i:42367915 original size:53 final size:53
Alignment explanation
Indices: 42367736--42367939 Score: 158
Period size: 53 Copynumber: 3.8 Consensus size: 53
42367726 AGGGTTTAAG
* * * * * * *
42367736 GATACCAAGTAAGACCATGCCAAGGCATAGCATTGGTAAGTT-TTACAAGATAAA
1 GATACCATGTAAAACCATGCCAAGACATGGCAATGGTAAGTTCATA-AGGA-AAA
* * * * * * * *
42367790 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGAAAA
1 GATACCATGTAAAACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGAAAA
* * * * * *
42367845 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAAACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGAAAA
* *
42367898 GATACCATGTAAAACCATGTCAATACATGGCAATGGTAAGTT
1 GATACCATGTAAAACCATGCCAAGACATGGCAATGGTAAGTT
42367940 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 29, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
53 44 0.37
54 33 0.28
55 36 0.31
56 3 0.03
57 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAAACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGAAAA
Found at i:42376278 original size:40 final size:40
Alignment explanation
Indices: 42376223--42376442 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
42376213 TATTCGAATG
*
42376223 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
42376263 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
42376303 ATATCCGGGCT--GTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
42376341 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
42376381 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
42376421 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
42376443 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 37 0.22
39 14 0.08
40 113 0.68
41 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:42376354 original size:78 final size:79
Alignment explanation
Indices: 42376223--42376442 Score: 347
Period size: 78 Copynumber: 2.8 Consensus size: 79
42376213 TATTCGAATG
*
42376223 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCT-AGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
42376288 TTTGTGCTATTGACT
65 TTTGTGCTATTGACT
*
42376303 ATATCCGGGCT-GTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATATCCGGGCTAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
42376367 TTGTGCTATTGACT
66 TTGTGCTATTGACT
* * *
42376381 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCT-AGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
42376443 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
78 76 0.58
79 15 0.11
80 39 0.30
81 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (79 bp):
ATATCCGGGCTAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCTATTGACT
Found at i:42380307 original size:46 final size:46
Alignment explanation
Indices: 42380154--42380321 Score: 153
Period size: 47 Copynumber: 3.6 Consensus size: 46
42380144 ATGGGTAAGG
* * * *
42380154 GCCGATGCCATGTCCCAGACACAGTCTTACACTGGCTCACATCTTAA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTTACATCTCAA
* * *
42380201 GTCGATGCCATGTCCCAAACATGGTCTTACACTAAC-TATCATCTCATA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTTA-CATCTCA-A
** * * *
42380249 GTAGATG-GATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AA
*
42380295 GCCGATG-CATGTCTCAGACATGTCTTA
1 GCCGATGCCATGTCCCAGACATGTCTTA
42380322 TAGTAGCACT
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
46 41 0.41
47 51 0.52
48 7 0.07
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAA
Found at i:42383050 original size:33 final size:34
Alignment explanation
Indices: 42383012--42383092 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
42383002 GCCTAAGCCC
*
42383012 ATTCAGATAACAGTGATACTGTGCCAGAG-CCCTT
1 ATTCAGATAACAGTGA-ACTGGGCCAGAGCCCCTT
* * **
42383046 -TTCAGATTACATTGAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAACTGGGCCAGAGCCCCTT
42383079 ATTCAGATAACAGT
1 ATTCAGATAACAGT
42383093 ATGGCCCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 9 0.24
33 18 0.47
34 11 0.29
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (34 bp):
ATTCAGATAACAGTGAACTGGGCCAGAGCCCCTT
Found at i:42383432 original size:26 final size:26
Alignment explanation
Indices: 42383403--42383455 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
42383393 TCAAACATGC
*
42383403 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGAGGT
* *
42383429 ATTTCGGTACTTTATCTCCTAGAGGT
1 ATTTAGGTAATTTATCTCCTAGAGGT
42383455 A
1 A
42383456 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGAGGT
Found at i:42384728 original size:24 final size:23
Alignment explanation
Indices: 42384695--42384800 Score: 131
Period size: 24 Copynumber: 4.4 Consensus size: 23
42384685 GCCGGCCAAC
42384695 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTT-ATCAGCTCCTAAA
*
42384720 TCCTCTCCTTTATCAGCTCTTAAA
1 TCCTCTCC-TTATCAGCTCCTAAA
42384744 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCT-CCTTATCAGCTCCTAAA
**
42384768 TATTCTCCCTTATCAGCTCCTAAA
1 TCCTCT-CCTTATCAGCTCCTAAA
*
42384792 TCTTCTCCT
1 TCCTCTCCT
42384801 GAAAGCCTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 3 0.04
24 63 0.85
25 8 0.11
ACGTcount: A:0.20, C:0.37, G:0.06, T:0.38
Consensus pattern (23 bp):
TCCTCTCCTTATCAGCTCCTAAA
Found at i:42391220 original size:46 final size:46
Alignment explanation
Indices: 42391153--42391325 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
42391143 TAACCCGCCC
* * *
42391153 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * ** *
42391199 TAAGTGAACTCGAACTCAACTCAACGAGTTCAGATGCCTATTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTCGCATCCA
* *
42391247 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
42391292 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42391326 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 26 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:42391265 original size:93 final size:93
Alignment explanation
Indices: 42391158--42391328 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
42391148 CGCCCTAAGT
* *
42391158 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
42391223 CGAGTTCAGATGCCTATTTACATTTCAC
66 CGAGTTCAGATGCCTATTTACATTTCAC
* *
42391251 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
42391316 CGAGTTCGGATGC
66 CGAGTTCAGATGC
42391329 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCAGATGCCTATTTACATTTCAC
Found at i:42394560 original size:46 final size:46
Alignment explanation
Indices: 42394417--42394560 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 46
42394407 CCCGCCCATA
42394417 AGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * * *
42394466 --CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCG--GATGCTCAACCATCCT
*
42394510 AGTGAACTAGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
42394556 AGTGA
1 AGTGA
42394561 CATGTCACTT
Statistics
Matches: 72, Mismatches: 15, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
44 9 0.12
46 30 0.42
47 29 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:42405456 original size:30 final size:30
Alignment explanation
Indices: 42405422--42405481 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42405412 CTTTAATATG
42405422 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
42405452 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
42405482 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:42406456 original size:46 final size:46
Alignment explanation
Indices: 42406396--42406550 Score: 265
Period size: 46 Copynumber: 3.3 Consensus size: 46
42406386 CACATAAGTT
*
42406396 GATGCCATGTCCCAGACGTGTCTTACACTAGCTTATGTCTCGAGGTC
1 GATG-CATGTCCCAGACGTGTCTTACACTAGCTTAAGTCTCGAGGTC
*
42406443 GATGCATGTCCCAGACGTGTCTTACACTAGCTTACGTCTCGAGGTC
1 GATGCATGTCCCAGACGTGTCTTACACTAGCTTAAGTCTCGAGGTC
*
42406489 GATGCATGTCCCAGACGTGTCTTACACTGGCTTAAGTCTCGAGGTC
1 GATGCATGTCCCAGACGTGTCTTACACTAGCTTAAGTCTCGAGGTC
*
42406535 GATGCATGTCTCAGAC
1 GATGCATGTCCCAGAC
42406551 ATGTTGATCG
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 100 0.96
47 4 0.04
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACGTGTCTTACACTAGCTTAAGTCTCGAGGTC
Found at i:42406778 original size:13 final size:13
Alignment explanation
Indices: 42406760--42406788 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42406750 GGTTGTTTAT
42406760 TAAACTAATTAAC
1 TAAACTAATTAAC
42406773 TAAACTAATTAAC
1 TAAACTAATTAAC
42406786 TAA
1 TAA
42406789 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:42413787 original size:13 final size:13
Alignment explanation
Indices: 42413769--42413794 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42413759 GGTTGTTTAT
42413769 TAAACTAATTAAC
1 TAAACTAATTAAC
42413782 TAAACTAATTAAC
1 TAAACTAATTAAC
42413795 AAATTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:42415476 original size:30 final size:30
Alignment explanation
Indices: 42415441--42415498 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42415431 AAATTCACAT
* * *
42415441 CTTTGGTAAAATGACCGTTTTTCCCCTAAA
1 CTTTGGCAAAATGACCATTTTACCCCTAAA
42415471 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
42415499 TACTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAAA
Found at i:42421874 original size:43 final size:42
Alignment explanation
Indices: 42421758--42421880 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 42
42421748 GAATTTTCTT
*
42421758 TTACGTGTAAAACCATGTCTTGGAC-TTCGGCATCGTATCTGA
1 TTACGTGTAAAACCATGTCTGGGACGTT-GGCATCGTATCTGA
* * * * * * *
42421800 TTTCGTGTAACACCCTGTCCGGGATAG-TGGCATCGATGTTTGA
1 TTACGTGTAAAACCATGTCTGGGA-CGTTGGCATCG-TATCTGA
* * *
42421843 TTACATGTAAGACCATGTCTGGGACGTTGGCATTGTAT
1 TTACGTGTAAAACCATGTCTGGGACGTTGGCATCGTAT
42421881 ATGTTCTCTG
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
42 29 0.48
43 32 0.52
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAAACCATGTCTGGGACGTTGGCATCGTATCTGA
Found at i:42440637 original size:48 final size:47
Alignment explanation
Indices: 42440491--42440804 Score: 382
Period size: 48 Copynumber: 6.4 Consensus size: 47
42440481 CCTTCGGGAG
* * *
42440491 TTATCACATTTATTACCACTTCCACATCCATCACCATTGGCCATTCGGCC
1 TTATCACATATA-TA-CACTTTCACATTCATCA-CATTGGCCATTCGGCC
42440541 TTATCACATATAT-CACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
42440587 TTATCTCATATATGCA-TGTTCACATTCATCACATTTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACA-TTGGCCATTCGGCC
*
42440635 TTATCACACAT-TACACATGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACAC-T-TTCACATTCATCACATTGGCCATTCGGCC
42440683 TTTATCACATATATATCACACTTTCACATTCTATCACATTGGCCATTCGGCC
1 -TTATCAC--ATATAT-ACACTTTCACATTC-ATCACATTGGCCATTCGGCC
* *
42440735 TTATCACATATATACACTTTCACATTCATCACATCGGCCTATTCATGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCC-ATTC-GGCC
42440784 TTTATCACATATTATTACACT
1 -TTATCACATA-TA-TACACT
42440805 ATTTTTCAAT
Statistics
Matches: 238, Mismatches: 10, Indels: 30
0.86 0.04 0.11
Matches are distributed among these distances:
46 29 0.12
47 46 0.19
48 55 0.23
49 34 0.14
50 21 0.09
51 21 0.09
52 28 0.12
53 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.08, T:0.35
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
Found at i:42440793 original size:148 final size:142
Alignment explanation
Indices: 42440513--42440778 Score: 394
Period size: 148 Copynumber: 1.8 Consensus size: 142
42440503 TTACCACTTC
42440513 CACATCCATCACCATTGGCCATTCGGCCTTATCACATATATCACTTTCACATTCATCACATTGGC
1 CACATCCATCACCATTGGCCATTCGGCCTTATCACATATATCACTTTCACATTCATCACATTGGC
* * *
42440578 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTTGGCCATTCGGCCTTATCACA
66 CATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTCGGCCATTCGGCCTTAT-ACA
42440643 CATTACACATGTT
130 CATTACACATGTT
*
42440656 CACATTCATCA-CATTGGCCATTCGGCCTTTATCACATATATATCACACTTTCACATTCTATCAC
1 CACATCCATCACCATTGGCCATTCGGCC-TTATCAC--ATATAT--CACTTTCACATTC-ATCAC
42440720 ATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACA-TCGGCCTATTC
60 ATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACATTCGGCC-ATTC
42440779 ATGCCTTTAT
Statistics
Matches: 111, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
142 16 0.14
143 17 0.15
145 6 0.05
147 18 0.16
148 53 0.48
149 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (142 bp):
CACATCCATCACCATTGGCCATTCGGCCTTATCACATATATCACTTTCACATTCATCACATTGGC
CATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTCGGCCATTCGGCCTTATACAC
ATTACACATGTT
Found at i:42442123 original size:1 final size:1
Alignment explanation
Indices: 42442117--42442187 Score: 133
Period size: 1 Copynumber: 71.0 Consensus size: 1
42442107 ACATAAATAG
42442117 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
42442182 AGAAAA
1 AAAAAA
42442188 TGTTTAACAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.99, C:0.00, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:42443871 original size:28 final size:27
Alignment explanation
Indices: 42443814--42443965 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
42443804 TAAATTGTGC
* *
42443814 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
42443841 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
42443869 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42443896 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
42443924 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42443951 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42443966 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:42443879 original size:55 final size:55
Alignment explanation
Indices: 42443814--42443965 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
42443804 TAAATTGTGC
* *
42443814 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
42443869 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
42443924 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
42443966 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:42451961 original size:28 final size:27
Alignment explanation
Indices: 42451904--42452055 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
42451894 TAAATTGTGC
* *
42451904 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
42451931 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
42451959 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42451986 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
42452014 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
42452041 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42452056 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:42451969 original size:55 final size:55
Alignment explanation
Indices: 42451904--42452055 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
42451894 TAAATTGTGC
* *
42451904 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
42451959 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
42452014 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
42452056 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:42454102 original size:49 final size:49
Alignment explanation
Indices: 42454020--42454207 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
42454010 TGAGGTCACG
* *
42454020 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* * * * *
42454069 TGCGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA--TTGGTCGCA
* *
42454120 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* *
42454169 TGTGTAGTACTAAGTGCAGGCTACCATGCATACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
42454208 GCTTCGGCTA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 77 0.64
51 43 0.36
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
Found at i:42454188 original size:100 final size:100
Alignment explanation
Indices: 42454015--42454207 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
42454005 TATTGTGAGG
42454015 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGCGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGCGTAGTACT
* * *
42454080 AAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
66 AAGTGCAGGCTACCATGCATACCAGATAACTTTGA
* * *
42454115 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGCGTAGTACT
42454180 AAGTGCAGGCTACCATGCATACCAGATA
66 AAGTGCAGGCTACCATGCATACCAGATA
42454208 GCTTCGGCTA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGCGTAGTACT
AAGTGCAGGCTACCATGCATACCAGATAACTTTGA
Found at i:42456513 original size:21 final size:20
Alignment explanation
Indices: 42456489--42456527 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42456479 TCGCGTTGGT
*
42456489 CACACGGGCGCGTTGCCCTTC
1 CACACAGGCGCG-TGCCCTTC
*
42456510 CACACAGGCGTGTGCCCT
1 CACACAGGCGCGTGCCCT
42456528 GTTTTAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.41, G:0.28, T:0.18
Consensus pattern (20 bp):
CACACAGGCGCGTGCCCTTC
Found at i:42461969 original size:55 final size:55
Alignment explanation
Indices: 42461869--42461985 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
42461859 TGCGATATGG
** *
42461869 CCGTGGTCGAGCCTGCCAAAACAATACGGGCGTGGGACACACCCGTGTGGAAGAA-
1 CCGTGGTCGAGCCTGCCAAAACAATACGGGCGTGCAACACACCCGTCTGGAA-AAC
* * **
42461924 CCGTGGTCGAGCCTGCCAAAACAGTACGGGCGTTCAACATGCCCGTCTGGAAAAC
1 CCGTGGTCGAGCCTGCCAAAACAATACGGGCGTGCAACACACCCGTCTGGAAAAC
42461979 CCGTGGT
1 CCGTGGT
42461986 TGAACCTGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 2 0.04
55 52 0.96
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (55 bp):
CCGTGGTCGAGCCTGCCAAAACAATACGGGCGTGCAACACACCCGTCTGGAAAAC
Found at i:42465456 original size:27 final size:26
Alignment explanation
Indices: 42465421--42465532 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
42465411 AGCATGGCTG
* *
42465421 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
42465447 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
42465475 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
42465502 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
42465529 CCAG
1 CCAG
42465533 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:42465513 original size:54 final size:54
Alignment explanation
Indices: 42465421--42465532 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
42465411 AGCATGGCTG
* *
42465421 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
42465475 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
42465529 CCAG
1 CCAG
42465533 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:42466983 original size:24 final size:24
Alignment explanation
Indices: 42466966--42467022 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
42466956 TTATCTGCTT
42466966 CTAAATCCTATCCCTTATCAACTC
1 CTAAATCCTATCCCTTATCAACTC
42466990 CTAAATCCTATCCCTTATCAACTC
1 CTAAATCCTATCCCTTATCAACTC
42467014 CTAAATCCT
1 CTAAATCCT
42467023 CTCCTAACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (24 bp):
CTAAATCCTATCCCTTATCAACTC
Found at i:42475272 original size:27 final size:27
Alignment explanation
Indices: 42475242--42475419 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
42475232 ATAATTAGCC
* * * *
42475242 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42475269 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
42475296 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42475324 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42475351 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42475378 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42475405 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42475420 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42475381 original size:82 final size:81
Alignment explanation
Indices: 42475263--42475418 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42475253 TGCTATATAA
* *
42475263 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42475328 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42475345 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42475409 CACTTAGTGC
65 CACTTAGTGC
42475419 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42480162 original size:27 final size:27
Alignment explanation
Indices: 42480131--42480235 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
42480121 CTGCCAGAAT
* *
42480131 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
42480158 AGATAATCGTGGCAGAGCCACCAGA-AT
1 AGATAAT-GTGGCAGAGCCACCAGATAC
42480185 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
42480212 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
42480236 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.74
28 17 0.25
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:42480215 original size:54 final size:54
Alignment explanation
Indices: 42480124--42480235 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
42480114 AGCATGGCTG
*
42480124 CCAGAATAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAATAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
42480178 CCAGAATAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAATAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
42480232 CCAG
1 CCAG
42480236 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAATAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:42489891 original size:93 final size:95
Alignment explanation
Indices: 42489778--42489949 Score: 251
Period size: 93 Copynumber: 1.8 Consensus size: 95
42489768 TTTTGAGAGC
* * *
42489778 CAGTGTAAGACCATGACTGGGACATGGCATCGACATTAAGATGAGAGCTAGTGTAAGA-CATGTC
1 CAGTGTAAGACCATGACTGGGACATGGAATCAAC-TTAAGATGAGAGCCAGTGTAAGACCATGTC
42489842 TGGGA-AT-GCATCGATGACGAGATGATAGT
65 TGGGACATGGCATCGATGACGAGATGATAGT
* * * *
42489871 CAGTGTAAGACCATGTCTGGGACATGGAATCAACTTGAGATGTGAGCCAGTGTAAGACCTTGTCT
1 CAGTGTAAGACCATGACTGGGACATGGAATCAACTTAAGATGAGAGCCAGTGTAAGACCATGTCT
42489936 GGGACATGGCATCG
66 GGGACATGGCATCG
42489950 GCACTTTACC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 20 0.29
93 41 0.59
94 2 0.03
95 6 0.09
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (95 bp):
CAGTGTAAGACCATGACTGGGACATGGAATCAACTTAAGATGAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGATGACGAGATGATAGT
Found at i:42489922 original size:47 final size:47
Alignment explanation
Indices: 42489774--42489948 Score: 191
Period size: 47 Copynumber: 3.7 Consensus size: 47
42489764 CACATTTTGA
* * * *
42489774 GAGCCAGTGTAAGACCATGACTGGGACATGGCATCGACATTAAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTGAGATGT
*
42489822 GAGCTAGTGTAAGA-CATGTCTGGGA-AT-GCATCGATGAC--GAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-A--ACTTGAGATG-T
* *
42489868 -AGTCAGTGTAAGACCATGTCTGGGACATGGAATCAACTTGAGATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGATGT
*
42489914 GAGCCAGTGTAAGACCTTGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
42489949 GGCACTTTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
45 23 0.22
46 14 0.13
47 50 0.47
48 19 0.18
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGATGT
Found at i:42492347 original size:67 final size:67
Alignment explanation
Indices: 42492239--42492369 Score: 217
Period size: 67 Copynumber: 2.0 Consensus size: 67
42492229 CTTAGACATG
*
42492239 CCCGTGTGTCTAGGCCATGTCAAAACAGGGCATACATACTGACTTACTCACACGACCACAAGACC
1 CCCGTGTGTCTAGGCCATGTCAAAACAGGGCATACATACTGACCTACTCACACGACCACAAGACC
42492304 CA
66 CA
* * **
42492306 CCCGTGTGTCTAGGTCATGTCAAAACATGGCATACATACTGACCTACTCACGTGACCACAAGAC
1 CCCGTGTGTCTAGGCCATGTCAAAACAGGGCATACATACTGACCTACTCACACGACCACAAGAC
42492370 ACGCTCGGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (67 bp):
CCCGTGTGTCTAGGCCATGTCAAAACAGGGCATACATACTGACCTACTCACACGACCACAAGACC
CA
Found at i:42494934 original size:17 final size:18
Alignment explanation
Indices: 42494898--42494938 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
42494888 CCTAGAATCT
42494898 CACACGCCCGTGTGGGCC
1 CACACGCCCGTGTGGGCC
*
42494916 CACATGCCCGTGT-GGCC
1 CACACGCCCGTGTGGGCC
42494933 CACACG
1 CACACG
42494939 GCCTAATTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (18 bp):
CACACGCCCGTGTGGGCC
Found at i:42496210 original size:26 final size:27
Alignment explanation
Indices: 42496178--42496350 Score: 165
Period size: 27 Copynumber: 6.4 Consensus size: 27
42496168 CACAACTAAA
42496178 GCTTTTCTTTCATATTTCTCCACAAAG
1 GCTTTTCTTTCATATTTCTCCACAAAG
* * * *
42496205 GCTTTCCTTTTATATTTCTCCAAAAAA
1 GCTTTTCTTTCATATTTCTCCACAAAG
* *
42496232 GCTTTTCATTCATATTTTTTGCCACAAAG
1 GCTTTTCTTTCATA-TTTCT-CCACAAAG
** *
42496261 GCTTTTCATTT-ATATTTCGACAAAAAG
1 GCTTTTC-TTTCATATTTCTCCACAAAG
* * *
42496288 GCTATTCATTCATATCT-TCCACAAAG
1 GCTTTTCTTTCATATTTCTCCACAAAG
*
42496314 G-TTATTCTTTCATA-TTCACCACAAAG
1 GCTT-TTCTTTCATATTTCTCCACAAAG
42496340 GCTTTTCTTTC
1 GCTTTTCTTTC
42496351 CTGACATGTT
Statistics
Matches: 114, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
25 2 0.02
26 34 0.30
27 53 0.46
28 7 0.06
29 16 0.14
30 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.43
Consensus pattern (27 bp):
GCTTTTCTTTCATATTTCTCCACAAAG
Found at i:42496274 original size:56 final size:55
Alignment explanation
Indices: 42496175--42496314 Score: 169
Period size: 56 Copynumber: 2.6 Consensus size: 55
42496165 TCACACAACT
* * **
42496175 AAAGCTTTTCTTTCATA-TTTCTCCACAAAGGCTTTCCTTTTATATTTCTCCAAA
1 AAAGCTTTTCATTCATATTTTCTCCACAAAGGCTTTCCATTTATATTTCGACAAA
* *
42496229 AAAGCTTTTCATTCATATTTTTTGCCACAAAGGCTTTTCATTTATATTTCGACAAA
1 AAAGCTTTTCATTCATATTTTCT-CCACAAAGGCTTTCCATTTATATTTCGACAAA
* * *
42496285 AAGGCTATTCATTCATA-TCT-TCCACAAAGG
1 AAAGCTTTTCATTCATATTTTCTCCACAAAGG
42496315 TTATTCTTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
53 9 0.12
54 17 0.23
55 6 0.08
56 43 0.57
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (55 bp):
AAAGCTTTTCATTCATATTTTCTCCACAAAGGCTTTCCATTTATATTTCGACAAA
Found at i:42501801 original size:16 final size:16
Alignment explanation
Indices: 42501780--42501812 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42501770 CATAATTGAA
*
42501780 TATAATTAAATATAAT
1 TATAATTAAACATAAT
42501796 TATAATTAAACATAAT
1 TATAATTAAACATAAT
42501812 T
1 T
42501813 CACGTGAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATTAAACATAAT
Found at i:42502284 original size:29 final size:29
Alignment explanation
Indices: 42502244--42502427 Score: 183
Period size: 29 Copynumber: 6.3 Consensus size: 29
42502234 ACCGAAACCT
42502244 TTTTCATATTCGATGGTCGTCACCATCCC
1 TTTTCATATTCGATGGTCGTCACCATCCC
***
42502273 TTTTCATATTCGATGGTCAAAACCATCCC
1 TTTTCATATTCGATGGTCGTCACCATCCC
* *
42502302 TTTTCATTAATCGATGGTTGTCACCATCCC
1 TTTTCA-TATTCGATGGTCGTCACCATCCC
*
42502332 TTTTCATAGTT-GATGTTCGTCACCATCCC
1 TTTTCATA-TTCGATGGTCGTCACCATCCC
* * * ** *
42502361 TTTTCATAGTC-AGTAGTTGAAACTATCCC
1 TTTTCATATTCGA-TGGTCGTCACCATCCC
* * *
42502390 TTTTTCATATTCAATAGTTGTCACCATCCC
1 -TTTTCATATTCGATGGTCGTCACCATCCC
42502420 TTTTCATA
1 TTTTCATA
42502428 GTCAATAGTC
Statistics
Matches: 127, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
28 2 0.02
29 76 0.60
30 48 0.38
31 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.40
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGTCACCATCCC
Found at i:42502318 original size:30 final size:30
Alignment explanation
Indices: 42502265--42502338 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
42502255 GATGGTCGTC
*
42502265 ACCATCCCTTTTCA-TATTCGATGGTCAAA
1 ACCATCCCTTTTCATTAATCGATGGTCAAA
****
42502294 ACCATCCCTTTTCATTAATCGATGGTTGTC
1 ACCATCCCTTTTCATTAATCGATGGTCAAA
42502324 ACCATCCCTTTTCAT
1 ACCATCCCTTTTCAT
42502339 AGTTGATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 14 0.36
30 25 0.64
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (30 bp):
ACCATCCCTTTTCATTAATCGATGGTCAAA
Found at i:42502325 original size:59 final size:59
Alignment explanation
Indices: 42502244--42502367 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 59
42502234 ACCGAAACCT
*
42502244 TTTTCA-TATTCGATGGTCGTCACCATCCCTTTTCATA-TTCGATGGTCAAAACCATCCC
1 TTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATAGTT-GATGGTCAAAACCATCCC
* * ***
42502302 TTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGTTGATGTTCGTCACCATCCC
1 TTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCAAAACCATCCC
42502361 TTTTCAT
1 TTTTCAT
42502368 AGTCAGTAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 6 0.10
59 50 0.86
60 2 0.03
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.40
Consensus pattern (59 bp):
TTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCAAAACCATCCC
Found at i:42502393 original size:88 final size:89
Alignment explanation
Indices: 42502244--42502429 Score: 245
Period size: 88 Copynumber: 2.1 Consensus size: 89
42502234 ACCGAAACCT
* *
42502244 TTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCAAAACCATCCC-TTTTC
1 TTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCCCTTTTTC
* *
42502307 ATTAATCGATGGTTGTCACCATCCC
66 A-TAATCAATAGTTGTCACCATCCC
* ** *
42502332 TTTTCATAGTT-GATGTTCGTCACCATCCCTTTTCATAGTC-AGTAGTTGAAACTATCCCTTTTT
1 TTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAGTCGA-TAGTCAAAACCATCCCTTTTT
*
42502395 CATATTCAATAGTTGTCACCATCCC
65 CATAATCAATAGTTGTCACCATCCC
42502420 TTTTCATAGT
1 TTTTCATAGT
42502430 CAATAGTCGA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
87 1 0.01
88 77 0.90
89 8 0.09
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (89 bp):
TTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCCCTTTTTC
ATAATCAATAGTTGTCACCATCCC
Found at i:42502395 original size:59 final size:57
Alignment explanation
Indices: 42502327--42502464 Score: 181
Period size: 59 Copynumber: 2.4 Consensus size: 57
42502317 GGTTGTCACC
* *
42502327 ATCCC-TTTTCATAGTTGATGTTCGTCACCATCCCTTTTCATAGTCAGTAGTTGAAACT
1 ATCCCTTTTTCATA-TTGATGTT-GTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
*
42502385 ATCCCTTTTTCATATTCAATAGTTGTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
1 ATCCCTTTTTCATATT-GAT-GTTGTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
42502444 AT-CCTTTTTCATTAATTGATG
1 ATCCCTTTTTCA-T-ATTGATG
42502465 GTCCTCGATA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
58 17 0.24
59 48 0.68
60 6 0.08
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (57 bp):
ATCCCTTTTTCATATTGATGTTGTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
Found at i:42502447 original size:29 final size:29
Alignment explanation
Indices: 42502356--42502455 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
42502346 GTTCGTCACC
*
42502356 ATCCCTTTTCATAGTCAGTAGTTGAAACT
1 ATCCCTTTTCATAGTCAATAGTTGAAACT
* ** *
42502385 ATCCCTTTTTCATATTCAATAGTTGTCACC
1 ATCCC-TTTTCATAGTCAATAGTTGAAACT
*
42502415 ATCCCTTTTCATAGTCAATAGTCGAAACT
1 ATCCCTTTTCATAGTCAATAGTTGAAACT
*
42502444 ATCCTTTTTCAT
1 ATCCCTTTTCAT
42502456 TAATTGATGG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 35 0.59
30 24 0.41
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAGTCAATAGTTGAAACT
Found at i:42502453 original size:88 final size:88
Alignment explanation
Indices: 42502265--42502455 Score: 208
Period size: 88 Copynumber: 2.2 Consensus size: 88
42502255 GATGGTCGTC
* * ** * *
42502265 ACCATCCCTTTTCATATTC-GATGGTCAAAACCATCCCTTTTCATTAATCGATGGTTGTCACCAT
1 ACCATCCCTTTTCATAGTCAG-TAGTTGAAACCATCCCTTTTCATTAATCAATAGTTGTCACCAT
** **
42502329 CCCTTTTCATAGTTGATGTTCGTC
65 CCCTTTTCATAGTCAATGTTCGAA
* *
42502353 ACCATCCCTTTTCATAGTCAGTAGTTGAAACTATCCCTTTTTCA-TATTCAATAGTTGTCACCAT
1 ACCATCCCTTTTCATAGTCAGTAGTTGAAACCATCCC-TTTTCATTAATCAATAGTTGTCACCAT
42502417 CCCTTTTCATAGTCAATAG-TCGAA
65 CCCTTTTCATAGTCAAT-GTTCGAA
* *
42502441 ACTATCCTTTTTCAT
1 ACCATCCCTTTTCAT
42502456 TAATTGATGG
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
88 78 0.91
89 8 0.09
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.39
Consensus pattern (88 bp):
ACCATCCCTTTTCATAGTCAGTAGTTGAAACCATCCCTTTTCATTAATCAATAGTTGTCACCATC
CCTTTTCATAGTCAATGTTCGAA
Found at i:42509917 original size:16 final size:16
Alignment explanation
Indices: 42509896--42509926 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42509886 CGGAAACATT
42509896 TTAAAGAAAATATCAC
1 TTAAAGAAAATATCAC
42509912 TTAAAGAAAATATCA
1 TTAAAGAAAATATCA
42509927 ATACCACTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
TTAAAGAAAATATCAC
Found at i:42520546 original size:43 final size:42
Alignment explanation
Indices: 42520392--42520546 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
42520382 CAATGTCATA
* * * *
42520392 TCCCAGATATGATCTTACATGTTATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCACATA-CGATGCCAATG
* * * * *
42520435 TCCCAAACAGGGTCGTACATGAAATC-GATGAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAT--ACGATGCCAATG
** *
42520478 TCCCAGACATGGTCTTACACATAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCAC-ATACGATGCCAATG
42520521 TCCCAGACATGGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACATGTAATC
42520547 TCATCTCGGT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.02
43 84 0.94
44 1 0.01
45 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGTAATCACATACGATGCCAATG
Found at i:42522818 original size:13 final size:14
Alignment explanation
Indices: 42522800--42522830 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
42522790 TATAAAATCA
42522800 CCAAAA-TTAATGT
1 CCAAAATTTAATGT
42522813 CCAAAATTTAATGT
1 CCAAAATTTAATGT
42522827 CCAA
1 CCAA
42522831 TGACCATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CCAAAATTTAATGT
Found at i:42525353 original size:25 final size:25
Alignment explanation
Indices: 42525338--42525390 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
42525328 CTAAAGATCT
*
42525338 GTATGCTCTCACGAGCTATTAATTG
1 GTATGCTCTCACGAGCTATAAATTG
* *
42525363 GTATGTTCTCACGAGCTATAAATCG
1 GTATGCTCTCACGAGCTATAAATTG
42525388 GTA
1 GTA
42525391 ACCCTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATTG
Found at i:42529000 original size:43 final size:43
Alignment explanation
Indices: 42528918--42529047 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 43
42528908 ATATCTTACA
* * * *
42528918 ATGCCAACGTACCAAATGTGGTCTTACATGTA-ATA-ACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AGA-ACACATATCG
* * *
42528961 AT-CCCACTGTCCTAGACAG-GGTCTTACACGAGAACACATATTG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAGAACACATATCG
* *
42529004 ATGCCAACGTCCCAGACGTGGTCTTACATGTGAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAGAACACATATCG
42529047 A
1 A
42529048 AAATCCTATG
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
42 7 0.10
43 57 0.83
44 5 0.07
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAGAACACATATCG
Found at i:42535691 original size:74 final size:75
Alignment explanation
Indices: 42535535--42535696 Score: 193
Period size: 74 Copynumber: 2.2 Consensus size: 75
42535525 TATAATATGA
** * * * *
42535535 AGAACACATAATATAAGTATTAAAGGATGCAAAAGTATTACTGCAAAACATTAAACATAGATGCA
1 AGAACACATAATGCAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGCA
* *
42535600 TTTAATAAAC
66 TTAAACAAAC
* *
42535610 A-AGACACATAATGCAAGT-TTAAAAGATGCAAATGTATTAATGCAAAACAGTAAAGAAAGATGC
1 AGA-ACACATAATGCAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGC
* *
42535673 ATTAAACCAAT
65 ATTAAACAAAC
42535684 AGAACACATAATG
1 AGAACACATAATG
42535697 TTGCAAAACA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
74 58 0.79
75 15 0.21
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (75 bp):
AGAACACATAATGCAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGCA
TTAAACAAAC
Found at i:42535741 original size:48 final size:48
Alignment explanation
Indices: 42535650--42535743 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
42535640 AATGTATTAA
* * * *
42535650 TGCAAAACAGTAAAGAAAGATGCATTAAACCAATAGAACACATAATGT
1 TGCAAAACAGTAAAGAAAGATGCATTAAACAAACACAAAACATAATGT
* * * *
42535698 TGCAAAACATTAAATAAAGATGTATTTAACAAACACAAAACATAAT
1 TGCAAAACAGTAAAGAAAGATGCATTAAACAAACACAAAACATAAT
42535744 TAAAAAAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (48 bp):
TGCAAAACAGTAAAGAAAGATGCATTAAACAAACACAAAACATAATGT
Found at i:42536980 original size:184 final size:183
Alignment explanation
Indices: 42536617--42536980 Score: 433
Period size: 184 Copynumber: 2.0 Consensus size: 183
42536607 TAAACACCAA
* * *
42536617 CTAGGAATGTAGGTCTGCAGCTGTGTCATAGTTCATCAGCTAGGAACGTAGGTCCACGAGCTGTC
1 CTAGGAATGTAGGTCTGCAGCTATGTCATAGTTCATCAGCTAGGAACGTAGGTCCACGAGCTCTA
* * *
42536682 TCAGAGTTGCTAGCTTAACTCAGCTAACTCGAATAAATGGAGGTTGTAAGCATAACTCAGCTAAC
66 TCAGACTAGCGAGCTTAACTCAGCTAACTCGAATAAATGGAGGTTGTAAGCATAACTCAGCTAAC
* * ** * * *
42536747 CTTTAAACATTAGCTGGGAAAGTAAGTTTACGACCTGTGTTGTAGTTCATCAG
131 CTTTAAACATCAGCTAGGAAAGTAAGTCCACGACCTATGTCGAAGTTCATCAG
* * * * ** * *
42536800 CTAGGAATGTAGGTCTGTGAGCTATGTCATAGTTCATCAGTTGGGAACGTATGTCGTCGCGTTCT
1 CTAGGAATGTAGGTCTG-CAGCTATGTCATAGTTCATCAGCTAGGAACGTAGGTCCACGAGCTCT
* *
42536865 ATC-GAACTAGCGAGCTTAACTCAGCTAACTCGAATAAATGGAGGTTGTGAGCATAACTCATCTA
65 ATCAG-ACTAGCGAGCTTAACTCAGCTAACTCGAATAAATGGAGGTTGTAAGCATAACTCAGCTA
* * * ** * *
42536929 ACCTTTAAACATCAGTTATGAACGTTGGTCCCCGAGCTATGTCGAAGTTCAT
129 ACCTTTAAACATCAGCTAGGAAAGTAAGTCCACGACCTATGTCGAAGTTCAT
42536981 TACCTGGGAA
Statistics
Matches: 149, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
183 18 0.12
184 131 0.88
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (183 bp):
CTAGGAATGTAGGTCTGCAGCTATGTCATAGTTCATCAGCTAGGAACGTAGGTCCACGAGCTCTA
TCAGACTAGCGAGCTTAACTCAGCTAACTCGAATAAATGGAGGTTGTAAGCATAACTCAGCTAAC
CTTTAAACATCAGCTAGGAAAGTAAGTCCACGACCTATGTCGAAGTTCATCAG
Found at i:42538102 original size:32 final size:30
Alignment explanation
Indices: 42538037--42538103 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
42538027 GGGGCAAGCT
**
42538037 GTGTGTCACACACGGCCTAGACACATGACC
1 GTGTGTCACACACGGCCTAGACACACAACC
* *
42538067 GTGTGTCACACATGGCCTAGACATACAACC
1 GTGTGTCACACACGGCCTAGACACACAACC
*
42538097 GCGTGTC
1 GTGTGTC
42538104 TACCCATGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.19
Consensus pattern (30 bp):
GTGTGTCACACACGGCCTAGACACACAACC
Found at i:42539048 original size:42 final size:42
Alignment explanation
Indices: 42538937--42539048 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
42538927 TACCATACCA
* *
42538937 ATGCCATATCCCAGATATGGTCTTACTTGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
* * * *
42538979 ATACCAATAGCCTAGCTATGGTCTTACATGA-AGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAGA-TCTCATATCG
*
42539022 ATGCCATATCCCATATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
42539049 CATAATCTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 23 0.40
43 34 0.60
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
Found at i:42546289 original size:39 final size:39
Alignment explanation
Indices: 42546199--42546381 Score: 188
Period size: 39 Copynumber: 4.7 Consensus size: 39
42546189 ACCAGCTCGA
* * * * * *
42546199 AGCCTGTAGGACCTTAA-CCCGGACATATTTCCAACACGT
1 AGCCTGCA-GACCTTAAGTCCGGATATAATTCCAGCACAT
* * *
42546238 AACCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCACAT
*
42546277 AGCTTGCAGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCACAT
** * *
42546316 AGCCTGTGGACCCTAAGTCCGGATATAATTCCAGCACGT
1 AGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCACAT
* * * *
42546355 ACCCTGCAGACCCTAAATCCAGATATA
1 AGCCTGCAGACCTTAAGTCCGGATATA
42546382 CATCACTGAA
Statistics
Matches: 120, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
38 8 0.07
39 112 0.93
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (39 bp):
AGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:42551994 original size:27 final size:29
Alignment explanation
Indices: 42551964--42552022 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
42551954 ATCGATGCCA
42551964 ACATATA-A-GACATGGTCTTACTCGCAC
1 ACATATACATGACATGGTCTTACTCGCAC
*
42551991 ACATATATCGATGCCATGGTCTTACTCGCAC
1 ACATATA-C-ATGACATGGTCTTACTCGCAC
42552022 A
1 A
42552023 TCACATATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 7 0.26
30 1 0.04
31 19 0.70
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATATACATGACATGGTCTTACTCGCAC
Found at i:42555742 original size:27 final size:27
Alignment explanation
Indices: 42555703--42555990 Score: 292
Period size: 27 Copynumber: 10.7 Consensus size: 27
42555693 CTAGATTGAT
* *
42555703 AAATGACTTTTTTGTCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
42555730 AAATGACAATTTTGCCCTTAT-ATGGTA
1 AAATGACTATTTTGCCCTCATGA-GGTA
*
42555757 AAATGACTATTTTGCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
** * *
42555784 AAATGGTTATTTTCCCCTAATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
42555811 AAATGACTATCTTGCCCTCATGAGGCA
1 AAATGACTATTTTGCCCTCATGAGGTA
* * * *
42555838 AAATTG-TTGTTTTTCCCTCTTGAGGTA
1 AAA-TGACTATTTTGCCCTCATGAGGTA
* * *
42555865 AAATGTCTATTTTTCCCTCATGAGGAA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
42555892 AAATGACTATTTTGCCCTTATAAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* * * *
42555919 AAATGACTGTTTTGCCTTTATGTGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
42555946 AAATGATTGTTTTGCCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
42555973 AAATGATTGTTTTGCCCT
1 AAATGACTATTTTGCCCT
42555991 TATATGGTAA
Statistics
Matches: 219, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.01
27 213 0.97
28 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTCATGAGGTA
Found at i:42555841 original size:81 final size:80
Alignment explanation
Indices: 42555718--42556017 Score: 336
Period size: 81 Copynumber: 3.7 Consensus size: 80
42555708 ACTTTTTTGT
* *
42555718 CCTCATGAGGTAAAATGACAATTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGAGGT
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTATA-GGTAAAATGACTGTTTTGCCCTTATGAGGT
42555783 AAAATGGTTATTTTCC
65 AAAATGGTTATTTTCC
* * * * * *
42555799 CCTAATGAGGTAAAATGACTATCTTGCCCTCATGAGGCAAAATTG-TTGTTTTTCCCTCT-TGAG
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTAT-AGGTAAAA-TGACTGTTTTGCCCT-TATGAG
*
42555862 GTAAAAT-GTCTATTTTTC
63 GTAAAATGGT-TATTTTCC
* * *
42555880 CCTCATGAGGAAAAATGACTATTTTGCCCTTATAAGGTAAAATGACTGTTTTGCCTTTATGTGGT
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTAT-AGGTAAAATGACTGTTTTGCCCTTATGAGGT
* * *
42555945 AAAATGATTGTTTTGC
65 AAAATGGTTATTTTCC
* * * * *
42555961 CCTCATGAGGTAAAATGATTGTTTTGCCCTTATATGGTAAGATGATTGTTTTTCCCT
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTATA-GGTAAAATGACTGTTTTGCCCT
42556018 ATGTGATTTA
Statistics
Matches: 182, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
80 6 0.03
81 171 0.94
82 5 0.03
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (80 bp):
CCTCATGAGGTAAAATGACTATTTTGCCCTTATAGGTAAAATGACTGTTTTGCCCTTATGAGGTA
AAATGGTTATTTTCC
Found at i:42564297 original size:27 final size:26
Alignment explanation
Indices: 42564267--42564417 Score: 140
Period size: 27 Copynumber: 5.6 Consensus size: 26
42564257 AAATTGTACA
*
42564267 GCACTAAGTGTGTGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
42564294 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
42564321 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
42564348 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* * * *
42564376 GCACTAAGTGTGCGATTTTATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTT
42564403 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
42564418 GTTTATTATA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 78 0.75
28 25 0.24
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:42564407 original size:82 final size:81
Alignment explanation
Indices: 42564267--42564417 Score: 205
Period size: 82 Copynumber: 1.9 Consensus size: 81
42564257 AAATTGTACA
* * * *
42564267 GCACTAAGTGTGTGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
42564332 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
42564348 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
42564412 GTGCGA
64 GTGCGA
42564418 GTTTATTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 17 0.28
82 43 0.72
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42564422 original size:27 final size:27
Alignment explanation
Indices: 42564266--42564443 Score: 126
Period size: 27 Copynumber: 6.6 Consensus size: 27
42564256 TAAATTGTAC
* * *
42564266 AGCACTAAGTGTGTGA-TTCGACTATGT
1 AGCACTAAGTGTGCGAGTT-TATTATGT
* ** * *
42564293 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTTATTATGT
* * ** *
42564319 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTTATTATGT
* * *
42564347 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAGT-TTATTATGT
* *
42564375 AGCACTAAGTGTGCGATTTTATTACGT
1 AGCACTAAGTGTGCGAGTTTATTATGT
* *
42564402 GGCACTAAGTGTGCGAGTTTATTATAT
1 AGCACTAAGTGTGCGAGTTTATTATGT
*
42564429 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42564444 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTATTATGT
Found at i:42566474 original size:27 final size:27
Alignment explanation
Indices: 42566438--42566715 Score: 240
Period size: 27 Copynumber: 10.7 Consensus size: 27
42566428 GCTAGTTGCT
*
42566438 AAATGATTGTTTTGCCCTCATGAGGTA
1 AAATGACTGTTTTGCCCTCATGAGGTA
*
42566465 AAATGATTGTTTTGCCCTTC-T-ATGGTA
1 AAATGACTGTTTTGCCC-TCATGA-GGTA
* * *
42566492 AAATAATTGTTTTGCCCTCATGAAGTA
1 AAATGACTGTTTTGCCCTCATGAGGTA
* *
42566519 AAATGACTATTTTTCCCTCATGAGGTA
1 AAATGACTGTTTTGCCCTCATGAGGTA
** * * *
42566546 AAATGGTTTTTTTGCCCTCTTGAGGTT
1 AAATGACTGTTTTGCCCTCATGAGGTA
* *
42566573 AAATGACTATTTTTCCCTCATGAGGTA
1 AAATGACTGTTTTGCCCTCATGAGGTA
* * *
42566600 AAATGACAGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTCATGAGGTA
42566627 AAATGAC----TT-CCCTCATGAGGTA
1 AAATGACTGTTTTGCCCTCATGAGGTA
42566649 AAATGA-----TTGCCCTCATGAGGTA
1 AAATGACTGTTTTGCCCTCATGAGGTA
* * *
42566671 AAATGACTGTTTTTCCTTTAT-ATGGTA
1 AAATGACTGTTTTGCCCTCATGA-GGTA
* *
42566698 AGATGACTATTTTGCCCT
1 AAATGACTGTTTTGCCCT
42566716 ATTTGATGTA
Statistics
Matches: 207, Mismatches: 33, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
21 2 0.01
22 36 0.17
23 2 0.01
26 4 0.02
27 160 0.77
28 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTCATGAGGTA
Found at i:42566546 original size:54 final size:54
Alignment explanation
Indices: 42566438--42566686 Score: 270
Period size: 54 Copynumber: 4.8 Consensus size: 54
42566428 GCTAGTTGCT
* * *
42566438 AAATGATTGTTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTC-T-ATGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTAAAATGACTATTTTTCCC-TCATGA-GGTA
* *
42566492 AAATAATTGTTTTGCCCTCATGAAGTAAAATGACTATTTTTCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTAAAATGACTATTTTTCCCTCATGAGGTA
* * * *
42566546 AAATGGTTTTTTTGCCCTCTTGAGGTTAAATGACTATTTTTCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTAAAATGACTATTTTTCCCTCATGAGGTA
** * *
42566600 AAATGACAGTTTTGCCCTTATGTGGTAAAATGAC-----TTCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTAAAATGACTATTTTTCCCTCATGAGGTA
*
42566649 AAATGA-----TTGCCCTCATGAGGTAAAATGACTGTTTTTCC
1 AAATGATTGTTTTGCCCTCATGAGGTAAAATGACTATTTTTCC
42566687 TTTATATGGT
Statistics
Matches: 167, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
44 21 0.13
49 25 0.15
53 2 0.01
54 118 0.71
55 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (54 bp):
AAATGATTGTTTTGCCCTCATGAGGTAAAATGACTATTTTTCCCTCATGAGGTA
Found at i:42566648 original size:22 final size:23
Alignment explanation
Indices: 42566587--42566678 Score: 116
Period size: 22 Copynumber: 3.9 Consensus size: 23
42566577 GACTATTTTT
42566587 CCCTCATGAGGTAAAATGACAGTTTTG
1 CCCTCATGAGGTAAAATGAC----TTG
* *
42566614 CCCTTATGTGGTAAAATGACTT-
1 CCCTCATGAGGTAAAATGACTTG
42566636 CCCTCATGAGGTAAAATGA-TTG
1 CCCTCATGAGGTAAAATGACTTG
42566658 CCCTCATGAGGTAAAATGACT
1 CCCTCATGAGGTAAAATGACT
42566679 GTTTTTCCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
21 2 0.03
22 36 0.61
23 3 0.05
27 18 0.31
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (23 bp):
CCCTCATGAGGTAAAATGACTTG
Found at i:42568627 original size:39 final size:40
Alignment explanation
Indices: 42568526--42568786 Score: 308
Period size: 39 Copynumber: 6.7 Consensus size: 40
42568516 TTGAATGATG
* *
42568526 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
42568565 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
42568606 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
42568645 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
42568684 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
42568723 TCCGGG-T-TGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
42568760 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42568787 AACGAGTAGC
Statistics
Matches: 200, Mismatches: 12, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
37 2 0.01
38 30 0.15
39 110 0.55
40 45 0.22
41 12 0.06
42 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42576779 original size:78 final size:79
Alignment explanation
Indices: 42576539--42576799 Score: 309
Period size: 77 Copynumber: 3.3 Consensus size: 79
42576529 TTGAATGATG
* * * * *
42576539 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
42576602 TTGTGTGAGATACTAAT
63 TTGTGCGAGATACTAAT
* *
42576619 TCC-GGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
42576682 TGCGAGATACTAAT
66 TGCGAGATACTAAT
* *
42576696 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
42576760 TGCGAGTTACT-AT
66 TGCGAGATACTAAT
* * *
42576773 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
42576800 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 16, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
77 66 0.42
78 63 0.40
79 14 0.09
80 15 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:42576806 original size:40 final size:40
Alignment explanation
Indices: 42576539--42576799 Score: 295
Period size: 40 Copynumber: 6.7 Consensus size: 40
42576529 TTGAATGATG
* * * *
42576539 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
42576579 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42576619 TCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42576657 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
42576696 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42576734 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
42576775 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42576800 AACGAGTAGC
Statistics
Matches: 196, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 64 0.33
39 52 0.27
40 71 0.36
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42591433 original size:40 final size:40
Alignment explanation
Indices: 42591355--42591577 Score: 254
Period size: 40 Copynumber: 5.5 Consensus size: 40
42591345 ACCCAAGTAT
* *
42591355 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
42591394 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
42591434 CTTC-GGACTTAGACCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
42591473 CTTCGGGACTTAGCCCGGGTATAGCAATTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG---TCACTAGCACAAATGC
* * *
42591516 CTTCGAGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* **
42591556 CCTCGATACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
42591578 CATCCGAATA
Statistics
Matches: 159, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 46 0.29
40 76 0.48
41 1 0.01
43 36 0.23
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:42591486 original size:79 final size:79
Alignment explanation
Indices: 42591355--42591577 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 79
42591345 ACCCAAGTAT
* * *
42591355 CTTCGGGATTTAGCCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTC-GGACTTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGA
**
42591418 TCACTAGCATGAATGC
64 TCACTAGCACAAATGC
*
42591434 CTTCGGACTTAGACCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCA
1 CTTCGGACTTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG--
* *
42591499 ATTACTCGCACAAATGC
63 ATCACTAGCACAAATGC
* * * **
42591516 CTTCGAGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGATACTTAGCCCGGATAT
1 CTTCG-GACTTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
42591578 CATCCGAATA
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
78 7 0.06
79 49 0.40
80 1 0.01
82 17 0.14
83 49 0.40
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGATC
ACTAGCACAAATGC
Found at i:42599574 original size:49 final size:49
Alignment explanation
Indices: 42599383--42599574 Score: 208
Period size: 50 Copynumber: 3.9 Consensus size: 49
42599373 ATTGTGAATA
* * * *
42599383 CACGTGTGCAGTACTAAATGCAGGCTACTATGCGTACTCA-A-TGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-TCAGATTG--TT-GGT
* * * *
42599434 CACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATTGT-TGGT
* *
42599484 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATTGTTGGT
* * *
42599533 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT
42599575 AGCTTCGGCT
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
49 40 0.33
50 48 0.40
51 32 0.26
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATTGTTGGT
Found at i:42606051 original size:50 final size:49
Alignment explanation
Indices: 42605976--42606201 Score: 190
Period size: 50 Copynumber: 4.5 Consensus size: 49
42605966 TGAATACACG
* *
42605976 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT-AGTCGCA
* ** * *
42606026 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACCTCG--A-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GA-CT-GTTAGTCGCA
* * * * *
42606077 TGTGTAGTACTAAGTGCAGGCTACTTCGTGTATCAGA-TGGTCAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTA-GTCGCA
* * * * *
42606127 TGTGTAGTTCTAAGTTCAGGCTACTACGTGTACCGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAGTCGCA
*
42606176 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
42606202 TGCGTATCAG
Statistics
Matches: 141, Mismatches: 25, Indels: 21
0.75 0.13 0.11
Matches are distributed among these distances:
46 2 0.01
48 3 0.02
49 28 0.20
50 70 0.50
51 32 0.23
52 2 0.01
53 1 0.01
54 2 0.01
55 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAGTCGCA
Found at i:42608327 original size:13 final size:13
Alignment explanation
Indices: 42608311--42608336 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42608301 ATATGTTTCA
42608311 TGATTGTTTTGGT
1 TGATTGTTTTGGT
42608324 TGATTGTTTTGGT
1 TGATTGTTTTGGT
42608337 ATGGATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:42612494 original size:48 final size:48
Alignment explanation
Indices: 42612434--42612525 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
42612424 CACCACGGTT
* *
42612434 ATACGTGTAACGTGGTGCTAAGTGGATATACCATGATTACACATATTG
1 ATACGTGTAACGTGGTGCTAAGTGAATATACCATGATTAAACATATTG
*
42612482 ATACGTGTAACGTGGTGCTAAGTGAATATACCATGGTTAAACAT
1 ATACGTGTAACGTGGTGCTAAGTGAATATACCATGATTAAACAT
42612526 GTAACATGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (48 bp):
ATACGTGTAACGTGGTGCTAAGTGAATATACCATGATTAAACATATTG
Found at i:42612538 original size:38 final size:37
Alignment explanation
Indices: 42612487--42612628 Score: 131
Period size: 38 Copynumber: 3.5 Consensus size: 37
42612477 TATTGATACG
42612487 TGTAACGTGGTGCTAAGTGAATATACCATGGTTAAACA
1 TGTAACGTGGTGCTAAGTG-ATATACCATGGTTAAACA
* * * *
42612525 TGTAACATGGTGCTAAGTTGATATGCCACGGTTACATATA
1 TGTAACGTGGTGCTAAG-TGATATACCATGGTTA-A-ACA
*
42612565 TTGATTCATTAACGCGGTGCTAAGTGGATATACCATGGTTAAACA
1 -TG------TAACGTGGTGCTAAGT-GATATACCATGGTTAAACA
42612610 TGTAACGTGGTGCTAAGTG
1 TGTAACGTGGTGCTAAGTG
42612629 GACATGTCAC
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
37 1 0.01
38 43 0.52
39 3 0.04
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 26 0.31
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (37 bp):
TGTAACGTGGTGCTAAGTGATATACCATGGTTAAACA
Found at i:42612610 original size:85 final size:86
Alignment explanation
Indices: 42612404--42612648 Score: 330
Period size: 86 Copynumber: 2.9 Consensus size: 86
42612394 GGAATGAAAA
* * * * * *
42612404 AACGTGGTGCTAAGTGGATACACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCATG
1 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
* *
42612469 ATTACACATATTGATACGTGT
66 GTTACACATATTGATACATGT
* * *
42612490 AACGTGGTGCTAAGTGAATATACCATGGTTAAACATGTAACATGGTGCTAAGTTGATATGCCACG
1 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
* *
42612555 GTTACATATATTGATTCAT-T
66 GTTACACATATTGATACATGT
* * *
42612575 AACGCGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGACATGTCACG
1 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
*
42612640 GTTATACAT
66 GTTACACAT
42612649 GTTAATTTGA
Statistics
Matches: 138, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 67 0.49
86 71 0.51
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (86 bp):
AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
GTTACACATATTGATACATGT
Found at i:42612643 original size:38 final size:38
Alignment explanation
Indices: 42612574--42612650 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
42612564 ATTGATTCAT
* *
42612574 TAACGCGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGCGGTGCTAAGTGGACATACCACGGTTAAACATG
* ** *
42612612 TAACGTGGTGCTAAGTGGACATGTCACGGTTATACATG
1 TAACGCGGTGCTAAGTGGACATACCACGGTTAAACATG
42612650 T
1 T
42612651 TAATTTGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (38 bp):
TAACGCGGTGCTAAGTGGACATACCACGGTTAAACATG
Found at i:42615901 original size:15 final size:15
Alignment explanation
Indices: 42615881--42615920 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
42615871 GCTGTAAATG
42615881 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
42615896 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
*
42615911 GGATATCCTT
1 GGATTTCCTT
42615921 TTTCTGGGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:42618692 original size:38 final size:38
Alignment explanation
Indices: 42618636--42618834 Score: 209
Period size: 38 Copynumber: 5.0 Consensus size: 38
42618626 AGAATGAAAA
* *
42618636 AACGTTGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
42618674 AACGTGGTGCTAACTGGATATACCATGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
42618712 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* * *
42618759 AACGTTGTGCTAAGTGGATATCCCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
42618797 AACGTGGTGCTAAGTGGATATGCCACAGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
42618835 TAATTTGAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
38 95 0.71
40 3 0.02
41 2 0.01
44 2 0.01
45 3 0.02
47 29 0.22
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:42620025 original size:19 final size:19
Alignment explanation
Indices: 42620001--42620043 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
42619991 ATTGGTGATG
42620001 TGCATAGGCTTGTTTCCCA
1 TGCATAGGCTTGTTTCCCA
42620020 TGCATAGGCTTGTTTCCCA
1 TGCATAGGCTTGTTTCCCA
42620039 TGCAT
1 TGCAT
42620044 GGTTGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (19 bp):
TGCATAGGCTTGTTTCCCA
Found at i:42625250 original size:16 final size:16
Alignment explanation
Indices: 42625231--42625262 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42625221 CAATTTTTAT
*
42625231 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
42625247 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
42625263 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:42626307 original size:27 final size:28
Alignment explanation
Indices: 42626266--42626334 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
42626256 GATACAGATC
42626266 GTGGCAGA-CCGACCAAAAT-AGAT-ATAT
1 GTGGCAGAGCC-ACCAAAATCAGATAAT-T
*
42626293 GTGGCAGAGCCACC-AGATCAGATAATT
1 GTGGCAGAGCCACCAAAATCAGATAATT
*
42626320 GTGGCATAGCCACCA
1 GTGGCAGAGCCACCA
42626335 GGACGCTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 3 0.08
27 29 0.81
28 4 0.11
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (28 bp):
GTGGCAGAGCCACCAAAATCAGATAATT
Found at i:42626503 original size:28 final size:26
Alignment explanation
Indices: 42626441--42626503 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
42626431 AAAGTACCCC
** * *
42626441 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
42626467 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
42626495 TAGGGGTAT
1 TAGGGGTAT
42626504 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:42643131 original size:27 final size:26
Alignment explanation
Indices: 42643097--42643230 Score: 142
Period size: 27 Copynumber: 5.0 Consensus size: 26
42643087 GCATAGCTGT
** *
42643097 CAGAACAGATATTGTGATAGAGTCAC
1 CAGAACAGATATTGTGGCAGAGCCAC
*
42643123 CAGATACAGATACTGTGGCAGAGCCAC
1 CAGA-ACAGATATTGTGGCAGAGCCAC
* *
42643150 CAGAACAAATATTTGTGGCATAGCCAC
1 CAGAACAGATA-TTGTGGCAGAGCCAC
**
42643177 CAGAACAGATATTTGTGGCATCGCCAC
1 CAGAACAGATA-TTGTGGCAGAGCCAC
* *
42643204 CAGAAACAGATAATGTGGCAAAGCCAC
1 CAG-AACAGATATTGTGGCAGAGCCAC
42643231 TTAACAGAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
26 10 0.11
27 75 0.81
28 8 0.09
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
CAGAACAGATATTGTGGCAGAGCCAC
Found at i:42643417 original size:22 final size:21
Alignment explanation
Indices: 42643389--42643453 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
42643379 GCAAATACGT
42643389 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
42643411 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
42643433 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
42643454 AATAATTGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:42643871 original size:27 final size:27
Alignment explanation
Indices: 42643841--42644017 Score: 219
Period size: 27 Copynumber: 6.6 Consensus size: 27
42643831 GGGGCAAAAT
* * * * *
42643841 GGTAATTTTGCCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42643868 GGTAATCCTACCCTACAGGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
42643895 GATATTTCTACCCTACAAGGGTAATTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42643922 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42643949 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42643976 GATAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42644003 GGTAATTCTAACCTA
1 GGTAATTCTACCCTA
42644018 AATGTAACAC
Statistics
Matches: 127, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42644693 original size:6 final size:6
Alignment explanation
Indices: 42644663--42644861 Score: 151
Period size: 6 Copynumber: 32.3 Consensus size: 6
42644653 AAGAAACATT
* * *
42644663 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
42644711 ATCAG- GTGACAGA ATCAAA ATTAGA ATCAGA ATCAGA ATTCGGTA AT-AGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* *
42644761 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
*
42644810 ATTAGGTA A-CAGA ATCAGA ATCA-A TATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA
42644860 AT
1 AT
42644862 TTCAATGCAA
Statistics
Matches: 155, Mismatches: 19, Indels: 38
0.73 0.09 0.18
Matches are distributed among these distances:
5 12 0.08
6 120 0.77
7 15 0.10
8 7 0.05
9 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:42644726 original size:25 final size:24
Alignment explanation
Indices: 42644663--42644861 Score: 151
Period size: 25 Copynumber: 8.1 Consensus size: 24
42644653 AAGAAACATT
* *
42644663 ATCAGAA-CTAGAATCAAAATGAGA
1 ATCAGAATC-AGAATCAGAATCAGA
*
42644687 ATTAGAATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGAATCAGA
* * *
42644711 ATCAG-GTGACAGAATCAAAATTAGA
1 ATCAGAAT--CAGAATCAGAATCAGA
*
42644736 ATCAGAATCAGAATTCGGTAAT-AGA
1 ATCAGAATCAGAA-TCAG-AATCAGA
*
42644761 ATCAGAATCAGTATCAGGTAA-CAGA
1 ATCAGAATCAGAATCA-G-AATCAGA
*
42644786 ATCAGAATCAGAACCAGAATCAGA
1 ATCAGAATCAGAATCAGAATCAGA
*
42644810 ATTAGGTAA-CAGAATCAGAATCA-A
1 ATCA-G-AATCAGAATCAGAATCAGA
42644834 TATCAGGTAA-CAGAATCAGAATCAGA
1 -ATCA-G-AATCAGAATCAGAATCAGA
42644860 AT
1 AT
42644862 TTCAATGCAA
Statistics
Matches: 145, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
23 3 0.02
24 39 0.27
25 96 0.66
26 7 0.05
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (24 bp):
ATCAGAATCAGAATCAGAATCAGA
Found at i:42644737 original size:31 final size:30
Alignment explanation
Indices: 42644690--42644861 Score: 154
Period size: 31 Copynumber: 5.6 Consensus size: 30
42644680 AATGAGAATT
42644690 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGT-AC
* * * *
42644721 AGAATCAAAATTAGAATCAGAATCAGAATTC
1 AGAATCAGAATCAGAATCAGAATCAG-GTAC
* *
42644752 GGTAAT-AGAATCAGAATCAGTATCAGGTAAC
1 AG-AATCAGAATCAGAATCAGAATCAGGT-AC
* *
42644783 AGAATCAGAATCAGAACCAGAATCAGAATTA-
1 AGAATCAGAATCAGAATCAGAATCAG--GTAC
*
42644814 GGTAA-CAGAATCAGAATCA-ATATCAGGTAAC
1 AG-AATCAGAATCAGAATCAGA-ATCAGGT-AC
42644845 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
42644862 TTCAATGCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
29 1 0.01
30 8 0.07
31 95 0.85
32 7 0.06
33 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAC
Found at i:42644777 original size:37 final size:37
Alignment explanation
Indices: 42644684--42644861 Score: 131
Period size: 37 Copynumber: 4.8 Consensus size: 37
42644674 AATCAAAATG
* *
42644684 AGAATTAGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
42644721 AGAATCAAAATTAGAATCAGAATCAGAATTC-GGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGAA-TCAGGTAAC
*
42644758 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-C
* *
42644795 AGAACCAGAATCAGAATTAGGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-C
42644832 A-ATATCAGGTAA-CAGAATCAGAATCAGAAT
1 AGA-ATCA-G-AATCAGAATCAGAATCAGAAT
42644862 TTCAATGCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.04
37 93 0.79
38 16 0.14
39 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:42644827 original size:62 final size:62
Alignment explanation
Indices: 42644695--42644860 Score: 260
Period size: 62 Copynumber: 2.7 Consensus size: 62
42644685 GAATTAGAAT
* * * * * *
42644695 CAGAATCAGAATCAGAATCAGGTGACAGAATCAAAATTAGAATCAGAATCAGAATTCGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
42644757 TAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
42644819 CAGAATCAGAATCAATATCAGGTAACAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
42644861 TTTCAATGCA
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
Found at i:42645058 original size:31 final size:32
Alignment explanation
Indices: 42645002--42645062 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
42644992 CGAAGTCACC
* *
42645002 AGATATAGATATTGTGGCTAGGCCACCAGAAT
1 AGATATAGATATTGTGGCGAAGCCACCAGAAT
*
42645034 AGATATATATA-TGTGGCGAAGCCACCAGA
1 AGATATAGATATTGTGGCGAAGCCACCAGA
42645063 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (32 bp):
AGATATAGATATTGTGGCGAAGCCACCAGAAT
Found at i:42645126 original size:27 final size:26
Alignment explanation
Indices: 42645078--42645129 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
42645068 GCGAGGTTGC
*
42645078 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
42645104 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
42645130 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:42645404 original size:27 final size:27
Alignment explanation
Indices: 42645374--42645598 Score: 199
Period size: 27 Copynumber: 8.3 Consensus size: 27
42645364 GGGGTAAAAT
* *
42645374 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
42645401 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
42645428 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
42645455 GGT-ATTTCTACCAAACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
42645482 GGTAATTATACCCTAC-AGGAGTATTTT
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * * *
42645509 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
42645536 GGT-ATTTCTACCCTACAGGGGTGTTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
42645563 GGT-ATTTCTACCCTATAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
42645590 GGTAATTTT
1 GGTAATTTT
42645599 GTAAATTGAG
Statistics
Matches: 163, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
26 12 0.07
27 140 0.86
28 11 0.07
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:42645434 original size:54 final size:54
Alignment explanation
Indices: 42645374--42645598 Score: 247
Period size: 54 Copynumber: 4.2 Consensus size: 54
42645364 GGGGTAAAAT
* * * *
42645374 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * ** *
42645428 AGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCAAACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** *
42645482 GGTAATTATACCCTAC-AGGAGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
42645536 GGT-ATTTCTACCCTACAGGGGTGTTTCGGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
42645590 GGTAATTTT
1 GGTAATTTT
42645599 GTAAATTGAG
Statistics
Matches: 141, Mismatches: 26, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
53 5 0.04
54 130 0.92
55 6 0.04
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:42645499 original size:81 final size:81
Alignment explanation
Indices: 42645388--42645596 Score: 301
Period size: 81 Copynumber: 2.6 Consensus size: 81
42645378 ATTTTACCCC
* *
42645388 ACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATT
42645453 TCGGTATTTCTACCAA
66 TCGGTATTTCTACCAA
* * *
42645469 ACAAGGGTATTTCGGTAATTATACCCTACAGGAGTATTTTAGTAATTCTACCCTATAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATT
**
42645534 TCGGTATTTCTACCCT
66 TCGGTATTTCTACCAA
* * * * * *
42645550 ACAGGGGTGTTTCGGTATTTCTACCCTATAGGGGTATTTCGGTAATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATT
42645597 TTGTAAATTG
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 113 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATT
TCGGTATTTCTACCAA
Found at i:42645676 original size:27 final size:27
Alignment explanation
Indices: 42645646--42645705 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
42645636 GGTACTTTGG
*
42645646 TAATTTTACAAGTCGATGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
42645673 TAATTTTACAGGTTGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
42645700 TAATTT
1 TAATTT
42645706 CGCAAATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:42645954 original size:108 final size:108
Alignment explanation
Indices: 42645688--42645955 Score: 419
Period size: 108 Copynumber: 2.5 Consensus size: 108
42645678 TTACAGGTTG
* ** * ** * *
42645688 AGGGTATTTCAATAATTTCGCAAATCAGGGGTATTTTGGTAATTTTCAAAACTATGGGTATTTTG
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
42645753 ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
66 ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
* * *
42645796 AGGGTATTTTAGTAATTTTACAAACCAGGGGCATTTTGGTAATTTTGTAAACCAAGGGTATTTTT
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
*
42645861 TTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
66 ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
*
42645904 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
42645956 TAAAGTATTC
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 145 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (108 bp):
AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
Found at i:42645955 original size:27 final size:27
Alignment explanation
Indices: 42645708--42645948 Score: 295
Period size: 27 Copynumber: 8.9 Consensus size: 27
42645698 AATAATTTCG
*
42645708 CAAATCAGGGGTATTTTGGTAATTTT-
1 CAAACCAGGGGTATTTTGGTAATTTTA
* * *
42645734 CAAAACTATGGGTATTTTGATAATTTTA
1 C-AAACCAGGGGTATTTTGGTAATTTTA
*
42645762 CAAACCAGGGGTATTTTGGTGATTTTA
1 CAAACCAGGGGTATTTTGGTAATTTTA
* * *
42645789 TAAACCAAGGGTATTTTAGTAATTTTA
1 CAAACCAGGGGTATTTTGGTAATTTTA
* *
42645816 CAAACCAGGGGCATTTTGGTAATTTTG
1 CAAACCAGGGGTATTTTGGTAATTTTA
* * **
42645843 TAAACCAAGGGTATTTTTTTAATTTTA
1 CAAACCAGGGGTATTTTGGTAATTTTA
*
42645870 CAAACCAGGGGTATTTTGGTGATTTTA
1 CAAACCAGGGGTATTTTGGTAATTTTA
* * **
42645897 TAAACCAAGGGTATTTTAATAATTTTA
1 CAAACCAGGGGTATTTTGGTAATTTTA
42645924 CAAACCAGGGGTATTTTGGTAATTT
1 CAAACCAGGGGTATTTTGGTAATTT
42645949 GGTAAACTAA
Statistics
Matches: 176, Mismatches: 37, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
26 1 0.01
27 174 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAACCAGGGGTATTTTGGTAATTTTA
Found at i:42645955 original size:54 final size:54
Alignment explanation
Indices: 42645688--42645948 Score: 380
Period size: 54 Copynumber: 4.8 Consensus size: 54
42645678 TTACAGGTTG
* ** * *
42645688 AGGGTATTTCAATAATTTCGCAAATCAGGGGTATTTTGGTAATTTTCA-AAACTA
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTT-ATAAACCA
* * *
42645742 TGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * *
42645796 AGGGTATTTTAGTAATTTTACAAACCAGGGGCATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
** *
42645850 AGGGTATTTTTTTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
42645904 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTT
42645949 GGTAAACTAA
Statistics
Matches: 184, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.01
54 183 0.99
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:42646849 original size:27 final size:27
Alignment explanation
Indices: 42646818--42646919 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
42646808 GGTGTTACAC
42646818 TACAAGGGTATTTCAGTAATTCTACCT
1 TACAAGGGTATTTCAGTAATTCTACCT
*
42646845 TACAAGGGTATTTCGGTAATTCTACCT
1 TACAAGGGTATTTCAGTAATTCTACCT
* * *
42646872 TATAGGGGTATTTCAGTAATTCTACCC
1 TACAAGGGTATTTCAGTAATTCTACCT
* *
42646899 TATAAGGGTATTTTAGTAATT
1 TACAAGGGTATTTCAGTAATT
42646920 TTGTAAATCG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (27 bp):
TACAAGGGTATTTCAGTAATTCTACCT
Found at i:42646933 original size:27 final size:26
Alignment explanation
Indices: 42646903--42646975 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
42646893 CTACCCTATA
*
42646903 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTAATTT-GTAATTTTGTAAATCG
** *
42646930 AGGGTAAAATGATAATTCTGTAAATCG
1 AGGGTAATTTG-TAATTTTGTAAATCG
* *
42646957 GGGGTACTTTGGTAATTTT
1 AGGGTAATTT-GTAATTTT
42646976 ACAAGTCGAC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (26 bp):
AGGGTAATTTGTAATTTTGTAAATCG
Found at i:42649139 original size:43 final size:42
Alignment explanation
Indices: 42649053--42649141 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
42649043 CTCATAGTAC
* * *
42649053 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATACCAATGCCATAGCCCAGATATGGTCTTACACGAGATCT
* * *
42649095 CATATCAATGCCAATAGCTCAGCTATGGTCTTACACGA-AGTCT
1 CATACCAATGCC-ATAGCCCAGATATGGTCTTACACGAGA-TCT
42649138 CATA
1 CATA
42649142 ATATCCCAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
42 12 0.31
43 27 0.69
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CATACCAATGCCATAGCCCAGATATGGTCTTACACGAGATCT
Found at i:42651364 original size:15 final size:15
Alignment explanation
Indices: 42651344--42651373 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42651334 ATATGAAAGA
42651344 TATGTTTTGGATTGG
1 TATGTTTTGGATTGG
*
42651359 TATGTTTTGTATTGG
1 TATGTTTTGGATTGG
42651374 AATTTTTTAT
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:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
TATGTTTTGGATTGG
Found at i:42655978 original size:81 final size:81
Alignment explanation
Indices: 42655756--42656069 Score: 335
Period size: 81 Copynumber: 3.9 Consensus size: 81
42655746 TTAGTTTACC
* *
42655756 AAATCACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAA
*
42655820 AATACCCCTGGTTTGTA
65 AATACCCCTAGTTTGTA
* * * * *
42655837 AAATTACCAAAATACCCTTGGTTTGTAAAAATACTAAAATACCCTTGGTTTATAACATTACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
42655902 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTGTA
* * * *** * **
42655918 AAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACTCTCGACCTGTAAAATTACTGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* *
42655983 ATA-CCCTCGACTTGTA
66 ATACCCCTAG-TTTGTA
* * * * *** * * *
42655999 AAATTACCAAAGTACCCCCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
42656064 ATACCC
66 ATACCC
42656070 TTGTAGGGTA
Statistics
Matches: 193, Mismatches: 37, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
80 5 0.03
81 186 0.96
82 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
ATACCCCTAGTTTGTA
Found at i:42656070 original size:27 final size:27
Alignment explanation
Indices: 42655756--42656070 Score: 278
Period size: 27 Copynumber: 11.7 Consensus size: 27
42655746 TTAGTTTACC
* *
42655756 AAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * **
42655783 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
42655810 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
42655837 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * * *
42655864 AAAATACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
42655891 ACATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
42655918 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
42655945 AAATTACCAAAATACTCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
42655972 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
42655999 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** *
42656026 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
42656053 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
42656071 TGTAGGGTAG
Statistics
Matches: 235, Mismatches: 47, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
27 233 0.99
28 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:42656203 original size:26 final size:27
Alignment explanation
Indices: 42656083--42656206 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
42656073 TAGGGTAGAA
* * *
42656083 TGTAAGGTAGAAATACCGAAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCT
42656110 TGTAGGGTAGAATTACCGAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
* **
42656137 TGTAGGGTAGAATCACTAAAATA-CCT
1 TGTAGGGTAGAATTACCGAAATACCCT
* *
42656163 CTGTAGGGTGGAATTACCGAGATA-CCT
1 -TGTAGGGTAGAATTACCGAAATACCCT
* *
42656190 TGTGGGGTAAAATTACC
1 TGTAGGGTAGAATTACC
42656207 ATTTTGCCCC
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 17 0.21
27 65 0.79
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
TGTAGGGTAGAATTACCGAAATACCCT
Found at i:42656676 original size:22 final size:22
Alignment explanation
Indices: 42656633--42656697 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
42656623 TTAAAGCCTT
* * * *
42656633 CTGATTATGGCTTTATGTCAAC
1 CTGAATATGGCTCTGTGCCAAC
42656655 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTCTGTGCCAAC
* *
42656677 CTGATTATGGCTGTGTGCCAA
1 CTGAATATGGCTCTGTGCCAA
42656698 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGCCAAC
Found at i:42656886 original size:27 final size:27
Alignment explanation
Indices: 42656863--42656957 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 27
42656853 TAAGTGGTTT
*
42656863 TGCCACATTATCTGTTTCTGGTGGCTA
1 TGCCACAATATCTGTTTCTGGTGGCTA
*
42656890 TGCCACAAATATCTG-TTCTGGTGGCTC
1 TGCCAC-AATATCTGTTTCTGGTGGCTA
* *
42656917 TGCCACAATATCTGTATT-TGGTGACTC
1 TGCCACAATATCTGT-TTCTGGTGGCTA
*
42656944 TGTCACAATATCTG
1 TGCCACAATATCTG
42656958 ATAACTGAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.13
27 44 0.72
28 9 0.15
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTTTCTGGTGGCTA
Found at i:42657144 original size:31 final size:31
Alignment explanation
Indices: 42657094--42657203 Score: 139
Period size: 31 Copynumber: 3.5 Consensus size: 31
42657084 TTGCATTCAT
*
42657094 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
42657126 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
42657157 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
42657188 ATTCTAATTCTGATTC
1 ATTCTGATTTTGATTC
42657204 AAGTTCTGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 64 0.91
32 6 0.09
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:42657157 original size:6 final size:6
Alignment explanation
Indices: 42657117--42657203 Score: 61
Period size: 6 Copynumber: 14.2 Consensus size: 6
42657107 ATTCTGTTAC
* * * *
42657117 CTGATA CTGATT TTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
42657166 CTGATT CTG-TCAC CTAATT CTGATT CTAATT CTGATT C
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT C
42657204 AAGTTCTGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
5 3 0.05
6 54 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:42657210 original size:12 final size:12
Alignment explanation
Indices: 42657157--42657213 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
42657147 CCTGATACTG
*
42657157 ATTCTGATTCTG
1 ATTCTGATTCTA
*
42657169 ATTCTG-TCACCTA
1 ATTCTGAT--TCTA
42657182 ATTCTGATTCTA
1 ATTCTGATTCTA
42657194 ATTCTGATTC-A
1 ATTCTGATTCTA
42657205 AGTTCTGAT
1 A-TTCTGAT
42657214 AATGTTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 3 0.08
12 26 0.68
13 8 0.21
14 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:42657921 original size:37 final size:37
Alignment explanation
Indices: 42657871--42657947 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
42657861 AAATTCAATC
42657871 CATTTAATACTTATGCTATTCAATTTAGCCTAAAATT
1 CATTTAATACTTATGCTATTCAATTTAGCCTAAAATT
42657908 CATTTAATACTTATGCTATTCAATTTAGCCTAAAATT
1 CATTTAATACTTATGCTATTCAATTTAGCCTAAAATT
42657945 CAT
1 CAT
42657948 ACTTTTACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (37 bp):
CATTTAATACTTATGCTATTCAATTTAGCCTAAAATT
Done.