Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 33 of 297
Found at i:11459734 original size:46 final size:44
Alignment explanation
Indices: 11459574--11459750 Score: 158
Period size: 46 Copynumber: 3.9 Consensus size: 44
11459564 TGTAACCCGC
*
11459574 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATTCGCAT
* *
11459620 CCATAAGTGTACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** * * * * *
11459666 ACATCTCTCGAACTTGAACTCAACTCAATGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
*
11459713 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
11459751 GCTCAACCAT
Statistics
Matches: 102, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 2 0.02
46 62 0.61
47 27 0.26
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:11469808 original size:48 final size:48
Alignment explanation
Indices: 11469572--11469815 Score: 425
Period size: 48 Copynumber: 5.0 Consensus size: 48
11469562 CAAGATAAAT
*
11469572 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11469620 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
11469670 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11469718 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAATTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11469766 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
11469814 AT
1 AT
11469816 GTGTGTATAT
Statistics
Matches: 187, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 139 0.74
49 4 0.02
50 44 0.24
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:11469825 original size:98 final size:98
Alignment explanation
Indices: 11469572--11469815 Score: 438
Period size: 98 Copynumber: 2.5 Consensus size: 98
11469562 CAAGATAAAT
*
11469572 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
11469637 AGCCGAATGGCTAATGTGAAATATATATATGAG
66 AGCCGAATGGCTAATGTGAAATATATATATGAG
11469670 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
11469735 AGCCGAATGGCTAATGTG-AAT-TATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATATATATGAG
* *
11469766 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
11469816 GTGTGTATAT
Statistics
Matches: 142, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
96 57 0.40
97 3 0.02
98 82 0.58
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (98 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATATATGAG
Found at i:11470101 original size:37 final size:37
Alignment explanation
Indices: 11469956--11470100 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
11469946 GGAAATATTT
11469956 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
11469993 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
11470030 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
11470067 TCCGGGTAAGACCAGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
11470101 TCATCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:11475020 original size:68 final size:66
Alignment explanation
Indices: 11474911--11475163 Score: 193
Period size: 68 Copynumber: 3.8 Consensus size: 66
11474901 TACAGATGGT
** * * * * *
11474911 ATGTAGCTAGGTCACATGTAT-AGTGCTAAGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 ATGTAGCTAGGTCACATGGGTGA-TACTATGTGTACACCATGTAG-ACAAGAGAGCTAC-AGAGA
11474974 TTATA
63 -TATA
11474979 ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAG-GATAT
1 ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAGAGATAT
11475043 -
66 A
* * * * * * *
11475043 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGGTAC-GAG
1 ATGTAGCTAGGTCACATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAGAG
11475106 ATA-A
62 ATATA
* * *
11475110 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
11475164 GAACTCTATG
Statistics
Matches: 151, Mismatches: 23, Indels: 27
0.75 0.11 0.13
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 22 0.15
65 7 0.05
66 20 0.13
67 33 0.22
68 47 0.31
69 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (66 bp):
ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAGAGATAT
A
Found at i:11478066 original size:27 final size:27
Alignment explanation
Indices: 11478035--11478212 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
11478025 TAAATTGTAC
11478035 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
11478062 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
11478088 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
11478116 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
11478144 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
11478171 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
11478198 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11478213 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:11478149 original size:82 final size:81
Alignment explanation
Indices: 11478036--11478191 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
11478026 AAATTGTACA
* *
11478036 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
11478100 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
11478117 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
11478182 TGCGAGTTGA
65 TGCGAATTGA
11478192 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:11478203 original size:82 final size:81
Alignment explanation
Indices: 11478032--11478212 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
11478022 GATTAAATTG
* *
11478032 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
11478097 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
11478113 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
11478177 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
11478195 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
11478213 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:11480928 original size:48 final size:48
Alignment explanation
Indices: 11480868--11480973 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
11480858 CGACCACAAT
* *
11480868 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
11480916 ATATACATATCTCATACATATTTCACACTAGCCATTCGTCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
11480964 ACATATATAT
1 ATATACATAT
11480974 ATTTATCTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:11486378 original size:29 final size:29
Alignment explanation
Indices: 11486344--11486403 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
11486334 TTTATTCTTT
11486344 TAATGCTTTGATATTATATAAATTGTATC
1 TAATGCTTTGATATTATATAAATTGTATC
11486373 TAATGCTTTGATATTATATAAATTGTATC
1 TAATGCTTTGATATTATATAAATTGTATC
11486402 TA
1 TA
11486404 CATGACTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (29 bp):
TAATGCTTTGATATTATATAAATTGTATC
Found at i:11486416 original size:29 final size:28
Alignment explanation
Indices: 11486344--11486418 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
11486334 TTTATTCTTT
*
11486344 TAATGCTTTGATATTATATAAATTGTATC
1 TAATGCTAT-ATATTATATAAATTGTATC
*
11486373 TAATGCTTTGATATTATATAAATTGTATC
1 TAATGCTAT-ATATTATATAAATTGTATC
11486402 TACATGACTAT-TATTAT
1 TA-ATG-CTATATATTAT
11486419 GTTTAACGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 37 0.86
30 3 0.07
31 3 0.07
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (28 bp):
TAATGCTATATATTATATAAATTGTATC
Found at i:11487494 original size:224 final size:224
Alignment explanation
Indices: 11487104--11487547 Score: 879
Period size: 224 Copynumber: 2.0 Consensus size: 224
11487094 TTATGGGTTA
11487104 TAGTTTATATGCTCAGAATCTTTGATGAGTCTATTTTCTAAATAAACAAACAGGAACATTATTCA
1 TAGTTTATATGCTCAGAATCTTTGATGAGTCTATTTTCTAAATAAACAAACAGGAACATTATTCA
11487169 TATTCTTTATGAGGATGTAATTAATTTTTAGTGAAGAGGGGTCGGAACTGTCGGACAGCAAAAAA
66 TATTCTTTATGAGGATGTAATTAATTTTTAGTGAAGAGGGGTCGGAACTGTCGGACAGCAAAAAA
11487234 GGGGTAACTTTGAAGAATAAACTGTACTTATTAGATAAACTAAATTTTTTTTAAATTTTATGGTA
131 GGGGTAACTTTGAAGAATAAACTGTACTTATTAGATAAACTAAATTTTTTTTAAATTTTATGGTA
11487299 AGAAGATATGTGAGTCTAGTTTCAGAATC
196 AGAAGATATGTGAGTCTAGTTTCAGAATC
11487328 TAGTTTATATGCTCAGAATCTTTGATGAGTCTATTTTCTAAATAAACAAACAGGAACATTATTCA
1 TAGTTTATATGCTCAGAATCTTTGATGAGTCTATTTTCTAAATAAACAAACAGGAACATTATTCA
*
11487393 TATTCTTTATGAGGATGTAATTAATTTTTAGTGAAGAGGGGTTGGAACTGTCGGACAGCAAAAAA
66 TATTCTTTATGAGGATGTAATTAATTTTTAGTGAAGAGGGGTCGGAACTGTCGGACAGCAAAAAA
11487458 GGGGTAACTTTGAAGAATAAACTGTACTTATTAGATAAACTAAATTTTTTTTAAATTTTATGGTA
131 GGGGTAACTTTGAAGAATAAACTGTACTTATTAGATAAACTAAATTTTTTTTAAATTTTATGGTA
11487523 AGAAGATATGTGAGTCTAGTTTCAG
196 AGAAGATATGTGAGTCTAGTTTCAG
11487548 GTAAAATTAA
Statistics
Matches: 219, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 219 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (224 bp):
TAGTTTATATGCTCAGAATCTTTGATGAGTCTATTTTCTAAATAAACAAACAGGAACATTATTCA
TATTCTTTATGAGGATGTAATTAATTTTTAGTGAAGAGGGGTCGGAACTGTCGGACAGCAAAAAA
GGGGTAACTTTGAAGAATAAACTGTACTTATTAGATAAACTAAATTTTTTTTAAATTTTATGGTA
AGAAGATATGTGAGTCTAGTTTCAGAATC
Found at i:11507137 original size:18 final size:19
Alignment explanation
Indices: 11507100--11507156 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
11507090 TATGACAAGC
*
11507100 ATAA-ATTAAAAAAAATTAA
1 ATAATATTAAAAAATA-TAA
*
11507119 A-GATATTAAAAAATATAA
1 ATAATATTAAAAAATATAA
*
11507137 ATTAATTTTAAAAAATATAA
1 A-TAATATTAAAAAATATAA
11507157 TTTTTTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATATTAAAAAATATAA
Found at i:11510700 original size:25 final size:25
Alignment explanation
Indices: 11510672--11510747 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
11510662 AGAAAATAAA
11510672 AACAAAGGTCAAGTCAGTGTTTATC
1 AACAAAGGTCAAGTCAGTGTTTATC
*** **
11510697 AACAAAGGTCAAG--A--AAATAAA
1 AACAAAGGTCAAGTCAGTGTTTATC
11510718 AACAAAGGTCAAGTCAGTGTTTATC
1 AACAAAGGTCAAGTCAGTGTTTATC
11510743 AACAA
1 AACAA
11510748 CATGTCAACC
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
21 15 0.41
23 2 0.05
25 20 0.54
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (25 bp):
AACAAAGGTCAAGTCAGTGTTTATC
Found at i:11512329 original size:65 final size:65
Alignment explanation
Indices: 11512248--11512506 Score: 509
Period size: 65 Copynumber: 4.0 Consensus size: 65
11512238 TTTTAACTAA
11512248 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGTT
1 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGTT
11512313 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGTT
1 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGTT
11512378 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGTT
1 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGTT
*
11512443 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCGATAAATTATAAGTATGT
1 GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGT
11512507 GAAAATATTA
Statistics
Matches: 193, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 193 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.38
Consensus pattern (65 bp):
GAATCTAAGTTTATGTAATAAAATATTTCATACAATAAAAATTATCCATAAATTATAAGTATGTT
Found at i:11516558 original size:18 final size:17
Alignment explanation
Indices: 11516521--11516554 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11516511 AACTATTCTT
*
11516521 TATTTTTGAATTTTAAA
1 TATTTTTCAATTTTAAA
*
11516538 TATTTTTCATTTTTAAA
1 TATTTTTCAATTTTAAA
11516555 ATATAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTTTTCAATTTTAAA
Found at i:11525640 original size:17 final size:18
Alignment explanation
Indices: 11525618--11525654 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11525608 ACGCTTAAAA
*
11525618 AATTATGA-AACGAATAT
1 AATTATGATAACAAATAT
11525635 AATTATGATAACAAATAT
1 AATTATGATAACAAATAT
11525653 AA
1 AA
11525655 AATATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (18 bp):
AATTATGATAACAAATAT
Found at i:11534928 original size:15 final size:14
Alignment explanation
Indices: 11534891--11534933 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
11534881 AAAATTTATC
11534891 AAAGAAAAGAAAGAA
1 AAAGAAAA-AAAGAA
*
11534906 AAAGAAAAAGAGAA
1 AAAGAAAAAAAGAA
*
11534920 AAAGAAAAATAGAA
1 AAAGAAAAAAAGAA
11534934 CACACGGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAAAGAA
Found at i:11540528 original size:48 final size:48
Alignment explanation
Indices: 11540457--11540554 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
11540447 ATAGCGGAAT
* * ** **
11540457 CTTAACCGGCTGAAGTAGCCCAGAAGGGAACTGATGTTCTGCTTTAAC
1 CTTAACCGGCTGAAGCAACCCAGAAGACAACTGATGTTCCACTTTAAC
*
11540505 CTTAACTGGCTGAAGCAACCCAGAAGACAACTGATGTTCCACTTTAAC
1 CTTAACCGGCTGAAGCAACCCAGAAGACAACTGATGTTCCACTTTAAC
11540553 CT
1 CT
11540555 GCTGGCAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (48 bp):
CTTAACCGGCTGAAGCAACCCAGAAGACAACTGATGTTCCACTTTAAC
Found at i:11545012 original size:34 final size:34
Alignment explanation
Indices: 11544962--11545027 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
11544952 GTCTCAGTTA
*
11544962 GGGCCTTAGCCAATTTCAGTAACAGTAACAGTCT
1 GGGCCTGAGCCAATTTCAGTAACAGTAACAGTCT
* *
11544996 GGGCCTGAGCCTATTTCAGTAACAGTATCAGT
1 GGGCCTGAGCCAATTTCAGTAACAGTAACAGT
11545028 GGGGCCTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (34 bp):
GGGCCTGAGCCAATTTCAGTAACAGTAACAGTCT
Found at i:11549310 original size:28 final size:28
Alignment explanation
Indices: 11549278--11549405 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
11549268 ATAGTAAGTC
*
11549278 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
11549306 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
11549335 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
11549363 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
11549392 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11549406 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:11549368 original size:57 final size:57
Alignment explanation
Indices: 11549277--11549405 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
11549267 TATAGTAAGT
*
11549277 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
11549334 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
11549391 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
11549406 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:11551381 original size:48 final size:48
Alignment explanation
Indices: 11551314--11551483 Score: 313
Period size: 48 Copynumber: 3.5 Consensus size: 48
11551304 TACAAGATAA
11551314 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
11551362 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
11551410 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
11551458 ATATGTATATGTGGTAAAGTCGAATG
1 ATATATATATGTGGTAAAGCCGAATG
11551484 AGATATGTAT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:11551519 original size:28 final size:28
Alignment explanation
Indices: 11551453--11551511 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
11551443 TGAAATATGT
* *
11551453 ATGAGATATGTATATGTGGTAAAGTCGA
1 ATGAGATATGTATATGAGGTAAAGCCGA
11551481 ATGAGATATGTATATGAGGTAAAGCCGA
1 ATGAGATATGTATATGAGGTAAAGCCGA
11551509 ATG
1 ATG
11551512 GCTAATGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (28 bp):
ATGAGATATGTATATGAGGTAAAGCCGA
Found at i:11551532 original size:76 final size:76
Alignment explanation
Indices: 11551405--11551559 Score: 265
Period size: 76 Copynumber: 2.0 Consensus size: 76
11551395 TGAAATATGT
* * *
11551405 ATGAGATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGT
1 ATGAGATATATATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGT
*
11551470 GGTAAAGTCGA
66 GGTAAAGCCGA
*
11551481 ATGAGATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGT
1 ATGAGATATATATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGT
11551546 GGTAAAGCCGA
66 GGTAAAGCCGA
11551557 ATG
1 ATG
11551560 GCTAGTGTGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (76 bp):
ATGAGATATATATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGT
GGTAAAGCCGA
Found at i:11551533 original size:48 final size:48
Alignment explanation
Indices: 11551481--11551775 Score: 500
Period size: 48 Copynumber: 6.1 Consensus size: 48
11551471 GTAAAGTCGA
* * *
11551481 ATGAGATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATAT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
11551529 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
* *
11551577 ATGAGAAATGTATATGTTGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
* *
11551625 ATGAGAAATGTATATGTTGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
* *
11551673 ATGAGAAATGTATATGTTGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
11551721 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
*
11551769 AGGAGAT
1 ATGAGAT
11551776 GTGTGTATAT
Statistics
Matches: 239, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 239 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
Found at i:11551577 original size:124 final size:124
Alignment explanation
Indices: 11551357--11551607 Score: 439
Period size: 124 Copynumber: 2.0 Consensus size: 124
11551347 TGAAATATGT
* * *
11551357 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATGT
1 ATGAGATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATATATATGT
* *
11551422 GGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGA
66 GGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
*
11551481 ATGAGATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGT
1 ATGAGATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATATATATGT
*
11551546 GGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAAATGTATATGTTGTAAAGCCGA
66 GGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
11551605 ATG
1 ATG
11551608 GCTAGTGTGA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 120 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (124 bp):
ATGAGATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATATATATGT
GGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
Found at i:11551612 original size:172 final size:172
Alignment explanation
Indices: 11551314--11551655 Score: 594
Period size: 172 Copynumber: 2.0 Consensus size: 172
11551304 TACAAGATAA
* * *
11551314 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
*
11551379 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAGTGT
66 AGCCGAATGGCTAGTGTGAAATATGTATGAGAAATATATATGTGGTAAAGCCGAATGGCTAGTGT
* *
11551444 GAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGAG
131 GAAATATGTATGAGAAATGTATATGTGGTAAAGCCGAATGAG
*
11551486 ATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
1 ATATATATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
* *
11551551 AGCCGAATGGCTAGTGTGAAATATGTATGAGAAATGTATATGTTGTAAAGCCGAATGGCTAGTGT
66 AGCCGAATGGCTAGTGTGAAATATGTATGAGAAATATATATGTGGTAAAGCCGAATGGCTAGTGT
*
11551616 GAAATATGTATGAGAAATGTATATGTTGTAAAGCCGAATG
131 GAAATATGTATGAGAAATGTATATGTGGTAAAGCCGAATG
11551656 GCTAGTGTGA
Statistics
Matches: 160, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 160 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (172 bp):
ATATATATATGAGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAGTGTGAAATATGTATGAGAAATATATATGTGGTAAAGCCGAATGGCTAGTGT
GAAATATGTATGAGAAATGTATATGTGGTAAAGCCGAATGAG
Found at i:11552033 original size:37 final size:37
Alignment explanation
Indices: 11551983--11552069 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
11551973 GATTAAATGT
11551983 TGACTACGTGTGGAG-ATTATGTCCGGGTAAGACCCGA
1 TGACTACGTGTGGAGAATT-TGTCCGGGTAAGACCCGA
11552020 TGACTACGTGTGGAGAATTTGTCCGGGTAAGACCCGA
1 TGACTACGTGTGGAGAATTTGTCCGGGTAAGACCCGA
* *
11552057 TAACTACGCGTGG
1 TGACTACGTGTGG
11552070 GGACTATTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
37 44 0.94
38 3 0.06
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TGACTACGTGTGGAGAATTTGTCCGGGTAAGACCCGA
Found at i:11553275 original size:40 final size:40
Alignment explanation
Indices: 11553218--11553334 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
11553208 NNNNNNNNNN
*
11553218 CCGAAGAGCATTCGTGCTAGTGATATATCTGGGCTAAGTC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
* *
11553258 CCGAAGAGCATTTGTGCTAGTGATATATCCGGGCTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
11553298 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
11553335 ACCTCGAAGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTC
Found at i:11553343 original size:40 final size:40
Alignment explanation
Indices: 11553219--11553354 Score: 179
Period size: 40 Copynumber: 3.4 Consensus size: 40
11553209 NNNNNNNNNC
* *
11553219 CGAAGAGCATTCGTGCTAGTGATATATCTGGGCTAAGTCC-
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA-ACCT
* **
11553259 CGAAGAGCATTTGTGCTAGTGATATATCCGGGCT-AAGTT
1 CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCT
11553298 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCT
1 -CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCT
*
11553339 CGAAG-GCATTCATGCT
1 CGAAGAGCATTCGTGCT
11553355 GGAGTTATGA
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
39 11 0.13
40 70 0.83
41 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCT
Found at i:11553406 original size:28 final size:28
Alignment explanation
Indices: 11553366--11553493 Score: 159
Period size: 28 Copynumber: 4.5 Consensus size: 28
11553356 GAGTTATGAG
* * *
11553366 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
11553394 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTTCAATCGA
** *
11553422 GCACTATGTGTGCGAGATTGGT-AATTGA
1 GCACTATGTGTGCGAG-TTCTTCAATCGA
*
11553450 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTCAATCGA
*
11553479 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
11553494 AATCAGTCAG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
28 63 0.72
29 24 0.28
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTCAATCGA
Found at i:11553511 original size:85 final size:85
Alignment explanation
Indices: 11553362--11553521 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
11553352 GCTGGAGTTA
* ** *
11553362 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCGAGTTCTTCAATCGAGCACT
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCGAAATCGTCAATCGAGCACT
*
11553427 ATGTGTGCGAGATTGGTAAT
66 ATGTATGCGAGATTGGTAAT
* * * * * *
11553447 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGTCAGT-GGGCAC
1 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCGAAATC-GTCAATCGAGCAC
*
11553511 TGTGTATGCGA
65 TATGTATGCGA
11553522 AGTGTGTTTC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
85 58 0.94
86 4 0.06
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (85 bp):
TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCGAAATCGTCAATCGAGCACT
ATGTATGCGAGATTGGTAAT
Found at i:11557098 original size:48 final size:48
Alignment explanation
Indices: 11557031--11557433 Score: 563
Period size: 48 Copynumber: 8.1 Consensus size: 48
11557021 TACAAGATAA
*
11557031 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11557079 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11557127 ATATGTATATGTGGTAAAGCCGAATGGCCAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11557175 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGATG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA-G
*
11557224 AAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ----A--TAT--G---T--ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
11557285 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
11557333 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* ** *
11557381 ATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
11557429 ATATG
1 ATATG
11557434 GCTAGTGTGA
Statistics
Matches: 324, Mismatches: 17, Indels: 28
0.88 0.05 0.08
Matches are distributed among these distances:
48 269 0.83
49 1 0.00
50 1 0.00
53 2 0.01
55 6 0.02
57 2 0.01
60 1 0.00
61 1 0.00
62 41 0.13
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:11557227 original size:14 final size:14
Alignment explanation
Indices: 11557208--11557235 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11557198 ATGGCTAGTG
11557208 TGAAATATGTATGA
1 TGAAATATGTATGA
11557222 TGAAATATGTATGA
1 TGAAATATGTATGA
11557236 GATATGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
TGAAATATGTATGA
Found at i:11557227 original size:62 final size:62
Alignment explanation
Indices: 11557160--11557283 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
11557150 ATGGCCAGTG
*
11557160 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
1 TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
11557222 TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
1 TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
11557284 GATATGTATA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (62 bp):
TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
Found at i:11557277 original size:31 final size:31
Alignment explanation
Indices: 11557181--11557279 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
11557171 TGAGATATGT
11557181 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
* *** * *
11557212 ATATGTATGATGAAATATGTAT-G--AGATATG-A
1 ATATG--TGGT-AAAGCCGAATGGCTAG-TGTGAA
11557243 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
11557274 ATATGT
1 ATATGT
11557280 ATGAGATATG
Statistics
Matches: 48, Mismatches: 12, Indels: 16
0.63 0.16 0.21
Matches are distributed among these distances:
28 6 0.12
29 4 0.08
30 3 0.06
31 22 0.46
32 3 0.06
33 4 0.08
34 6 0.12
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (31 bp):
ATATGTGGTAAAGCCGAATGGCTAGTGTGAA
Found at i:11557357 original size:158 final size:158
Alignment explanation
Indices: 11557064--11557379 Score: 551
Period size: 158 Copynumber: 2.0 Consensus size: 158
11557054 ATGGCTAATG
*
11557064 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGAT
1 TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGAT
*
11557129 ATGTATATGTGGTAAAGCCGAATGGCCAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAG
66 ATGTATATGTGGTAAAGCCGAATGGCCAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
* *
11557194 CCGAATGGCTAGTGTGAAATATGTATGA
131 CCGAATGGCTAATGTGAAATATATATGA
* * *
11557222 TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
1 TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGAT
*
11557287 ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
66 ATGTATATGTGGTAAAGCCGAATGGCCAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
*
11557352 TCGAATGGCTAATGTGAAATATATATGA
131 CCGAATGGCTAATGTGAAATATATATGA
11557380 GATATGTATA
Statistics
Matches: 149, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
158 149 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (158 bp):
TGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGAT
ATGTATATGTGGTAAAGCCGAATGGCCAATGTGAAATATGTATGAGATATGTATATGTGGTAAAG
CCGAATGGCTAATGTGAAATATATATGA
Found at i:11557397 original size:206 final size:214
Alignment explanation
Indices: 11557037--11557601 Score: 912
Period size: 206 Copynumber: 2.7 Consensus size: 214
11557027 ATAAATATAT
*
11557037 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
* * *
11557102 ATGGCTAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAGTGTGAAATA
66 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
* * *
11557167 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-A-TAT-G-TAT-G-A-TG
131 TGTATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATAGTATAGATATGGCAGTG
11557224 AAATATGTATGAGATATGA
196 AAATATGTATGAGATATGA
11557243 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
* *
11557308 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATA
66 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
*
11557373 TATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTATGAGATATGGCTA
131 TGTATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATA-GTAT-AGATATGGC-A
*
11557438 GTGTGAAATATGTATGAGATATGT
193 --GTGAAATATGTATGAGATATGA
11557462 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
*
11557527 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
66 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
*
11557592 TGTAGGAGAT
131 TGTATGAGAT
11557602 GTGTGTATAT
Statistics
Matches: 330, Mismatches: 16, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
206 163 0.49
207 2 0.01
208 1 0.00
210 3 0.01
212 1 0.00
213 3 0.01
214 1 0.00
216 1 0.00
219 155 0.47
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (214 bp):
ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
TGTATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATAGTATAGATATGGCAGTG
AAATATGTATGAGATATGA
Found at i:11557445 original size:27 final size:27
Alignment explanation
Indices: 11557404--11557460 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
11557394 GTAAAGCCGA
11557404 ATGGCTAGCGGGAAATATGTATGAGAT
1 ATGGCTAGCGGGAAATATGTATGAGAT
* *
11557431 ATGGCTAGTGTGAAATATGTATGAGAT
1 ATGGCTAGCGGGAAATATGTATGAGAT
11557458 ATG
1 ATG
11557461 TATATGTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.05, G:0.32, T:0.30
Consensus pattern (27 bp):
ATGGCTAGCGGGAAATATGTATGAGAT
Found at i:11557446 original size:75 final size:75
Alignment explanation
Indices: 11557356--11557508 Score: 261
Period size: 75 Copynumber: 2.0 Consensus size: 75
11557346 GTAAAGTCGA
11557356 ATGGCTAATGTGAAATATATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATA
1 ATGGCTAATGTGAAATATATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATA
11557421 TGTATGAGAT
66 TGTATGAGAT
* * * * *
11557431 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
1 ATGGCTAATGTGAAATATATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATA
11557496 TGTATGAGAT
66 TGTATGAGAT
11557506 ATG
1 ATG
11557509 TATATGTGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (75 bp):
ATGGCTAATGTGAAATATATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATA
TGTATGAGAT
Found at i:11557454 original size:171 final size:171
Alignment explanation
Indices: 11557260--11557601 Score: 612
Period size: 171 Copynumber: 2.0 Consensus size: 171
11557250 GTAAAGCCGA
11557260 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
*
11557325 TGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTATA
66 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
*
11557390 AGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTATGAGAT
131 AGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTAGGAGAT
*
11557431 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
* *
11557496 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
66 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* * *
11557561 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
131 AGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTAGGAGAT
11557602 GTGTGTATAT
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
171 163 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (171 bp):
ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
AGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTAGGAGAT
Found at i:11557456 original size:123 final size:123
Alignment explanation
Indices: 11557308--11557556 Score: 435
Period size: 123 Copynumber: 2.0 Consensus size: 123
11557298 GTAAAGCCGA
*
11557308 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATA
1 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
11557373 TATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTATGAGAT
66 TATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTATGAGAT
* *
11557431 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
1 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
* * * *
11557496 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
66 TATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTATGAGAT
11557554 ATG
1 ATG
11557557 TATATGTGGT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 119 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (123 bp):
ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
TATATGAGATATGTATAAGTGGTAAAGCCGAATGGCTAGCGGGAAATATGTATGAGAT
Found at i:11557486 original size:48 final size:48
Alignment explanation
Indices: 11557431--11557601 Score: 333
Period size: 48 Copynumber: 3.6 Consensus size: 48
11557421 TGTATGAGAT
11557431 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
11557479 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
11557527 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
*
11557575 ATGGCTAGTGTGAAATATGTAGGAGAT
1 ATGGCTAGTGTGAAATATGTATGAGAT
11557602 GTGTGTATAT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 122 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (48 bp):
ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
Found at i:11557828 original size:111 final size:111
Alignment explanation
Indices: 11557634--11557845 Score: 424
Period size: 111 Copynumber: 1.9 Consensus size: 111
11557624 ACCAAATGTG
11557634 AAAGGTGTGTATTATTAGATATTTGATGAGGCAAATGAATTACAAATTTGACAGTCGATGTGAAT
1 AAAGGTGTGTATTATTAGATATTTGATGAGGCAAATGAATTACAAATTTGACAGTCGATGTGAAT
11557699 GTTGTAACATGTGATTAAATATACATGAAACTTGGAAATATATTCT
66 GTTGTAACATGTGATTAAATATACATGAAACTTGGAAATATATTCT
11557745 AAAGGTGTGTATTATTAGATATTTGATGAGGCAAATGAATTACAAATTTGACAGTCGATGTGAAT
1 AAAGGTGTGTATTATTAGATATTTGATGAGGCAAATGAATTACAAATTTGACAGTCGATGTGAAT
11557810 GTTGTAACATGTGATTAAATATACATGAAACTTGGA
66 GTTGTAACATGTGATTAAATATACATGAAACTTGGA
11557846 GATTATGTCC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (111 bp):
AAAGGTGTGTATTATTAGATATTTGATGAGGCAAATGAATTACAAATTTGACAGTCGATGTGAAT
GTTGTAACATGTGATTAAATATACATGAAACTTGGAAATATATTCT
Found at i:11557892 original size:37 final size:37
Alignment explanation
Indices: 11557842--11557918 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
11557832 ACATGAAACT
* * *
11557842 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCAGGTAAGACCCGATAACTACGCG
11557879 TGGAGAATT-TGTCCAGGTAAGACCCGATAACTACGCG
1 TGGAG-ATTATGTCCAGGTAAGACCCGATAACTACGCG
11557916 TGG
1 TGG
11557919 GGACTATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 33 0.92
38 3 0.08
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (37 bp):
TGGAGATTATGTCCAGGTAAGACCCGATAACTACGCG
Found at i:11562231 original size:25 final size:25
Alignment explanation
Indices: 11562178--11562272 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
11562168 CATTTGAGCA
* *
11562178 CATA-AACGGGAAGCTCTCTCTCAAGC
1 CATATAACAGGAAGCTC-ATCT-AAGC
* * *
11562204 CATATAACAGAAAGCTCATGTGAGC
1 CATATAACAGGAAGCTCATCTAAGC
* * *
11562229 CATGTAACGGGAAGCTTATCTAAGC
1 CATATAACAGGAAGCTCATCTAAGC
**
11562254 TGTATAACAGGAAGCTCAT
1 CATATAACAGGAAGCTCAT
11562273 AAGAGTCATA
Statistics
Matches: 52, Mismatches: 16, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
25 36 0.69
26 6 0.12
27 10 0.19
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (25 bp):
CATATAACAGGAAGCTCATCTAAGC
Found at i:11562238 original size:52 final size:50
Alignment explanation
Indices: 11562160--11562272 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 50
11562150 TTCATATTTG
* * *
11562160 AGAATGCTCATTTGAGCACATAAACGGGAAGCTCTCTCTCAAGCCATATAAC
1 AGAAAGCTCATGTGAGCACATAAACGGGAAGCT-TATCT-AAGCCATATAAC
* **
11562212 AGAAAGCTCATGTGAGC-CATGTAACGGGAAGCTTATCTAAGCTGTATAAC
1 AGAAAGCTCATGTGAGCACAT-AAACGGGAAGCTTATCTAAGCCATATAAC
*
11562262 AGGAAGCTCAT
1 AGAAAGCTCAT
11562273 AAGAGTCATA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 20 0.38
51 7 0.13
52 26 0.49
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (50 bp):
AGAAAGCTCATGTGAGCACATAAACGGGAAGCTTATCTAAGCCATATAAC
Found at i:11563795 original size:69 final size:69
Alignment explanation
Indices: 11563601--11563783 Score: 228
Period size: 69 Copynumber: 2.7 Consensus size: 69
11563591 CTATGTGCTG
* * * * * *
11563601 CCATGTTTATTTTCTTGGTG-GACTTCAAATGTTGCCGTGGCCCTAGTTGTGGTCTTACATAATA
1 CCATGTTTATTATCTTGGTGAG-CTTCATATGTTGCCATAGCCCCAGTTGTGGTCTTACACAATA
11563665 AGATC
65 AGATC
*
11563670 CCATGTTTATTATCCTTGCG-GA-CTTTATATGTTGCCATAGCCCCAGTTGTGGTCTTACACAAT
1 CCATGTTTATTAT-CTTG-GTGAGCTTCATATGTTGCCATAGCCCCAGTTGTGGTCTTACACAAT
*
11563733 ATGATC
64 AAGATC
* *
11563739 CCATGTTTATTGTCTCGGTGAGCTTCATATGTTGCCATAGCCCCA
1 CCATGTTTATTATCTTGGTGAGCTTCATATGTTGCCATAGCCCCA
11563784 ACTATGGTCT
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
67 1 0.01
68 5 0.05
69 86 0.88
70 5 0.05
71 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (69 bp):
CCATGTTTATTATCTTGGTGAGCTTCATATGTTGCCATAGCCCCAGTTGTGGTCTTACACAATAA
GATC
Found at i:11571443 original size:40 final size:41
Alignment explanation
Indices: 11571399--11571566 Score: 207
Period size: 41 Copynumber: 4.1 Consensus size: 41
11571389 GCGTTTTACC
* * *
11571399 AAAAATGCCAC-AAAAACCAGAGCAATAGCGGCG-TTTTAGTA
1 AAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-G-G
* *
11571440 AAAAACGCCGCGAAAAA-CAGAGCATTAGCGGCGCTTTTGG
1 AAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * * *
11571480 CAAAATGCCGCTAAAAACGAGAGCATTAGTGGTGCTTTTGG
1 AAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
11571521 CAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
11571562 AAAAA
1 AAAAA
11571567 ACGCCACTAA
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
40 14 0.13
41 87 0.79
42 9 0.08
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (41 bp):
AAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:11571750 original size:7 final size:7
Alignment explanation
Indices: 11571735--11571788 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
11571725 TTAATTATCA
*
11571735 TTATAGT
1 TTATGGT
11571742 TTATGGT
1 TTATGGT
11571749 TTATGGT
1 TTATGGT
* *
11571756 TTAAGAT
1 TTATGGT
*
11571763 ATATGGT
1 TTATGGT
*
11571770 TTAGGGT
1 TTATGGT
*
11571777 TTAAGGT
1 TTATGGT
11571784 TTATG
1 TTATG
11571789 AGTTAATTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:11571767 original size:21 final size:21
Alignment explanation
Indices: 11571743--11571827 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
11571733 CATTATAGTT
*
11571743 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
11571764 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
11571785 TATGAGTTAATTATGGTTTAAGATA
1 TATG-G-T--TTAGGGTTTAAGATA
*
11571810 TATAGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
11571828 GTTTAGGAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 33 0.63
22 1 0.02
23 2 0.04
24 1 0.02
25 15 0.29
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:11571801 original size:46 final size:46
Alignment explanation
Indices: 11571749--11571840 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
11571739 AGTTTATGGT
* *
11571749 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAA
1 TTATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAA
11571795 TTATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAA
1 TTATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAA
11571841 CTAGTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (46 bp):
TTATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAA
Found at i:11572109 original size:22 final size:22
Alignment explanation
Indices: 11572081--11572144 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
11572071 AAAACAGGTT
11572081 TTAAGGGGATAGAGGTTAGGCG
1 TTAAGGGGATAGAGGTTAGGCG
11572103 TTAAGGGGATA-AGGGTTAGGCG
1 TTAAGGGGATAGA-GGTTAGGCG
* *
11572125 TTAAGGGGATTGGGGTTAGG
1 TTAAGGGGATAGAGGTTAGG
11572145 GGTTTATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.25, C:0.03, G:0.47, T:0.25
Consensus pattern (22 bp):
TTAAGGGGATAGAGGTTAGGCG
Found at i:11572685 original size:76 final size:75
Alignment explanation
Indices: 11572517--11572744 Score: 350
Period size: 76 Copynumber: 3.0 Consensus size: 75
11572507 TGGCTTCCAA
* *
11572517 ATTATAACAAATAAAAATAAAAATGAAAATTAAGAGATTAGTGGCG-TTTTTAAAAAAACGCCAA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAAACGCCAC
11572581 AAAAAACACT
66 AAAAAACACT
* * *
11572591 ATTATAAGAAATAAAAATAAATATGAAAATTAAAAGATTAGTGGCGTTTTTTAAAAAAAACGTCA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTT-AAAAAAACGCCA
11572656 CAAAAAACACT
65 CAAAAAACACT
* ** *
11572667 ATTATAACAAATAAAAATAAATATGTAAATTAAGAGATTAGTGGTATTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAAACGCCAC
11572732 AAAAAAACACT
66 -AAAAAACACT
11572743 AT
1 AT
11572745 GAAAATGACG
Statistics
Matches: 139, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
74 43 0.31
75 16 0.12
76 80 0.58
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.26
Consensus pattern (75 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAAACGCCAC
AAAAAACACT
Found at i:11572897 original size:18 final size:18
Alignment explanation
Indices: 11572874--11572917 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11572864 CCCAAAATAG
* *
11572874 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
11572892 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
11572910 ATTTCCCC
1 ATTTCCCC
11572918 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:11576390 original size:19 final size:19
Alignment explanation
Indices: 11576368--11576408 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11576358 TTTATTGACA
11576368 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
11576386 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
11576405 TTTT
1 TTTT
11576409 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:11576728 original size:43 final size:43
Alignment explanation
Indices: 11576657--11576760 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
11576647 TTTTGAATTT
* * * *
11576657 CATGACCTTTAGTGGTGTTTTTGAGAAAAGCGCCGCTAAAGGC
1 CATGGCCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGC
* *
11576700 CATGGCCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT
1 CATGGCCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGC
*
11576743 CATGGCTTTTAGCGGCGT
1 CATGGCCTTTAGCGGCGT
11576761 CGGAAATAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (43 bp):
CATGGCCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGC
Found at i:11581334 original size:17 final size:17
Alignment explanation
Indices: 11581294--11581354 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
11581284 TCTTTGATGA
*
11581294 ATTGTATCGCTTGAAGG
1 ATTGTATCGCTTGGAGG
* * *
11581311 ATAGTATCGCTTGGTGC
1 ATTGTATCGCTTGGAGG
* * *
11581328 ATTGTATCACCTGGCGG
1 ATTGTATCGCTTGGAGG
11581345 ATTGTATCGC
1 ATTGTATCGC
11581355 CTAGAGGACA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (17 bp):
ATTGTATCGCTTGGAGG
Found at i:11586096 original size:23 final size:23
Alignment explanation
Indices: 11586069--11586116 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
11586059 CTAAATCGCG
11586069 TAAAATGCAAAAGTAGCATCCTA
1 TAAAATGCAAAAGTAGCATCCTA
* *
11586092 TAAAATGCAAAAGTGGCATCTTA
1 TAAAATGCAAAAGTAGCATCCTA
11586115 TA
1 TA
11586117 TGTTAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (23 bp):
TAAAATGCAAAAGTAGCATCCTA
Found at i:11587296 original size:28 final size:28
Alignment explanation
Indices: 11587103--11587279 Score: 230
Period size: 28 Copynumber: 6.3 Consensus size: 28
11587093 CTATATACGA
* *
11587103 CACTTAGTGTGTGAAACATTGAATATGG
1 CACTTAGTGTGTGAGACATTGAGTATGG
*
11587131 CACTTAGTGTGTGAGACATTGAGTATAG
1 CACTTAGTGTGTGAGACATTGAGTATGG
*
11587159 CACTTAGTGTGTGAGACATTGAGAATGG
1 CACTTAGTGTGTGAGACATTGAGTATGG
*
11587187 CACTTAGTTTGTGAGACATTGAGTATGG
1 CACTTAGTGTGTGAGACATTGAGTATGG
* *
11587215 CACTTAGTGTGCGAGACATCGAGCT-TGG
1 CACTTAGTGTGTGAGACATTGAG-TATGG
* ** * *
11587243 CACTTATTGTGCAAGAAATTGGGTATGG
1 CACTTAGTGTGTGAGACATTGAGTATGG
11587271 CACTTAGTG
1 CACTTAGTG
11587280 CGCGAAATAT
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
27 1 0.01
28 129 0.98
29 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGTGAGACATTGAGTATGG
Found at i:11594411 original size:41 final size:39
Alignment explanation
Indices: 11594366--11594484 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 39
11594356 CAATTATAAT
*
11594366 CTTGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTCAG
1 CTTGCACACTAAGTGCCTTT-ATAGCTGAAGCTATCTCAG
* *
11594406 CCTTGCACACTAAGTGCCATATATAGCTGAAGCTAT-TCCG
1 -CTTGCACACTAAGTGCC-TTTATAGCTGAAGCTATCTCAG
*
11594446 ATTCGCACACTAAGTG-CTTTATAAAGCTGAAGCTATCTC
1 CTT-GCACACTAAGTGCCTTTAT--AGCTGAAGCTATCTC
11594485 GATACACACA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
38 4 0.06
39 3 0.04
40 27 0.40
41 32 0.47
42 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (39 bp):
CTTGCACACTAAGTGCCTTTATAGCTGAAGCTATCTCAG
Found at i:11594474 original size:40 final size:40
Alignment explanation
Indices: 11594410--11594502 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
11594400 TCTCAGCCTT
* *
11594410 GCACACTAAGTGCCATATATAGCTGAAGCTAT-TCCGATTC
1 GCACACTAAGTGCCATATAAAGCTGAAGCTATCT-CGATAC
**
11594450 GCACACTAAGTGCTTTATAAAGCTGAAGCTATCTCGATAC
1 GCACACTAAGTGCCATATAAAGCTGAAGCTATCTCGATAC
*
11594490 ACACACTAAGTGC
1 GCACACTAAGTGC
11594503 GAAACATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCATATAAAGCTGAAGCTATCTCGATAC
Found at i:11597915 original size:40 final size:40
Alignment explanation
Indices: 11597871--11598058 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
11597861 GCAAACACAT
* * *
11597871 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
11597911 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
11597951 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11597991 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
11598031 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
11598059 TCCAATGCTC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:11606578 original size:40 final size:40
Alignment explanation
Indices: 11606533--11606956 Score: 758
Period size: 40 Copynumber: 10.6 Consensus size: 40
11606523 ACACATTTGT
* * *
11606533 CTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
11606573 CTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
11606613 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
11606653 CTTCGGGTCTTAGCCCGAATATATCAACTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
11606693 CTTCGGGTCTTAGCCCGGATACATCAACTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
11606733 CTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
11606773 CTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
11606813 CTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
11606853 CTTCGGGTCTTAGCCCGGATACATCAACTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
11606893 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
11606933 CTTCGGGTCTTAGCCCGGATATAT
1 CTTCGGGTCTTAGCCCGGATATAT
11606957 TCCAATGCTC
Statistics
Matches: 371, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 371 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
Found at i:11609952 original size:39 final size:39
Alignment explanation
Indices: 11609840--11610141 Score: 401
Period size: 39 Copynumber: 7.7 Consensus size: 39
11609830 TCGGATGATA
* * * **
11609840 ACCGGGCTAAGTCCTG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACT-AT
* * *
11609880 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTACT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-T
* * *
11609920 TCCGGGCTAAGTTCC-AAGGCATTTGTGCGAGCTACTAAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
* *
11609959 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
11609998 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
11610037 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
11610076 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
11610115 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
11610142 AGCTAGTGGC
Statistics
Matches: 241, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 152 0.63
40 87 0.36
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:11609973 original size:79 final size:79
Alignment explanation
Indices: 11609840--11610141 Score: 414
Period size: 79 Copynumber: 3.8 Consensus size: 79
11609830 TCGGATGATA
* * * ** *
11609840 ACCGGGCTAAGTCCTG-AGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCGAAGGCATT
* * *
11609904 TGTGTGAGCTACTACT
65 TGTGCGAGTTATTA-T
* * * *
11609920 TCCGGGCTAAGTTCC-AAGGCATTTGTGCGAGCTACTAATTCCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCGAAGGCATTT
11609984 GTGCGAGTTATTAT
66 GTGCGAGTTATTAT
*
11609998 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCGAAGGCATTT
11610062 GTGCGAGTTATTAT
66 GTGCGAGTTATTAT
*
11610076 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGTCCCGAAGGCATT
11610140 TG
65 TG
11610142 AGCTAGTGGC
Statistics
Matches: 201, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
78 91 0.45
79 96 0.48
80 14 0.07
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTATTAT
Found at i:11610174 original size:118 final size:117
Alignment explanation
Indices: 11609840--11610174 Score: 342
Period size: 118 Copynumber: 2.8 Consensus size: 117
11609830 TCGGATGATA
* * * ** *
11609840 ACCGGGCTAAGTCCTG-AGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACT-ATACCGGGCTAAGTCCCGAAGGCATT
** *
11609904 T-G-T-GTGAGCTACTACTTCCGGGCTAAGTTCCAAGGCATTTGTGCGAGCTACTAAT
64 TGGCTAGTG-GCTA-TA--TCCGGGCTAAACTCGAAGGCATTTGTGCGAGCTACTAAT
* * *
11609959 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATACCGGGCTAAGTCCCGAAGGCATTTG
* *** * * * *
11610024 TGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTAT
66 -GCTAGTGGCTATATCCGGGCTAA-ACTCGAAGGCATTTGTGCGAGCTACTAAT
11610076 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT-ACCGGGCTAAGTCCCGAAGGCATTT
11610141 GAGCTAGTGGCTATATCC-GGCTAAACTCTGAAGG
65 G-GCTAGTGGCTATATCCGGGCTAAACTC-GAAGG
11610175 TACTTGGTTT
Statistics
Matches: 179, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
117 50 0.28
118 91 0.51
119 29 0.16
120 5 0.03
121 2 0.01
122 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (117 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATACCGGGCTAAGTCCCGAAGGCATTTG
GCTAGTGGCTATATCCGGGCTAAACTCGAAGGCATTTGTGCGAGCTACTAAT
Found at i:11610333 original size:38 final size:38
Alignment explanation
Indices: 11610291--11610366 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
11610281 TTTAAATAAT
11610291 ATTCGCTCAGTAAATTAATGAGCTTCCGGCCTTGGCTA
1 ATTCGCTCAGTAAATTAATGAGCTTCCGGCCTTGGCTA
*
11610329 ATTCGCTCAGTAAATTAATGAGCTTCCTGCCTTGGCTA
1 ATTCGCTCAGTAAATTAATGAGCTTCCGGCCTTGGCTA
11610367 TGTTGATCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (38 bp):
ATTCGCTCAGTAAATTAATGAGCTTCCGGCCTTGGCTA
Found at i:11618247 original size:39 final size:39
Alignment explanation
Indices: 11618113--11618998 Score: 1664
Period size: 39 Copynumber: 22.6 Consensus size: 39
11618103 GTGGCTAATT
* * *
11618113 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
* * *
11618153 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
11618193 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618232 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618271 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618310 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618349 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618388 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618427 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618466 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618505 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618544 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618583 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618622 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618661 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618700 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618739 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618778 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618817 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618856 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
11618895 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
* *
11618934 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT-A
*
11618974 CTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
11618999 AGCTAGTGGC
Statistics
Matches: 839, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
39 741 0.88
40 98 0.12
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
Found at i:11621892 original size:16 final size:16
Alignment explanation
Indices: 11621868--11621913 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
11621858 GTAAATCCTG
11621868 AAATGCCGAAAAGCCA
1 AAATGCCGAAAAGCCA
* **
11621884 AAATACCGAAAAGTTA
1 AAATGCCGAAAAGCCA
11621900 AAATGCCGAAAAGC
1 AAATGCCGAAAAGC
11621914 TGAATGTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.52, C:0.20, G:0.17, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:11626604 original size:79 final size:81
Alignment explanation
Indices: 11626468--11626650 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
11626458 TCGAATGATG
* *
11626468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAAGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCATT
11626532 TGTGCAAGATACTA-A
66 TGTGCAAGATACTATA
* * * ** *
11626547 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAAGCA
* *
11626609 TTTGTGCGAGTTACTATA
64 TTTGTGCAAGATACTATA
* *
11626627 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
11626651 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 30 0.34
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCATT
TGTGCAAGATACTATA
Found at i:11626659 original size:40 final size:40
Alignment explanation
Indices: 11626468--11626652 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
11626458 TCGAATGATG
* * * *
11626468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
11626508 TCCGGACTAAGAT-CCGAAAGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11626548 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11626587 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
11626628 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
11626653 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 32 0.26
40 81 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11626674 original size:79 final size:79
Alignment explanation
Indices: 11626521--11626685 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
11626511 GGACTAAGAT
* * **
11626521 CCGAAAGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
11626586 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
11626600 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
11626663 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
11626679 CCGAAGG
1 CCGAAGG
11626686 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:11627107 original size:24 final size:24
Alignment explanation
Indices: 11627075--11627123 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11627065 AGTCGAAGTC
11627075 GCCCACACTATCAAAGCTCCTTTT
1 GCCCACACTATCAAAGCTCCTTTT
11627099 GCCCACACTATCAAAGCTCCTTTT
1 GCCCACACTATCAAAGCTCCTTTT
11627123 G
1 G
11627124 GTATACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (24 bp):
GCCCACACTATCAAAGCTCCTTTT
Found at i:11629000 original size:16 final size:16
Alignment explanation
Indices: 11628979--11629037 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
11628969 GCAAATCCCG
11628979 AAATGCTGAAAAGCCA
1 AAATGCTGAAAAGCCA
*
11628995 AAATGCTGAAAAGTCA
1 AAATGCTGAAAAGCCA
*
11629011 AAATGC-CAAAATGCCGA
1 AAATGCTGAAAA-GCC-A
11629028 AAA-GCTGAAA
1 AAATGCTGAAA
11629038 GTTTAACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 4 0.11
16 25 0.69
17 7 0.19
ACGTcount: A:0.51, C:0.17, G:0.19, T:0.14
Consensus pattern (16 bp):
AAATGCTGAAAAGCCA
Found at i:11629005 original size:24 final size:25
Alignment explanation
Indices: 11628971--11629037 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
11628961 GTAGATCGGC
* *
11628971 AAATCCCGAAATGCTGAAAA-GCCA
1 AAATGCCGAAAAGCTGAAAATGCCA
* *
11628995 AAATGCTGAAAAG-TCAAAATGCCA
1 AAATGCCGAAAAGCTGAAAATGCCA
11629019 AAATGCCGAAAAGCTGAAA
1 AAATGCCGAAAAGCTGAAA
11629038 GTTTAACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 5 0.14
24 26 0.74
25 4 0.11
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.13
Consensus pattern (25 bp):
AAATGCCGAAAAGCTGAAAATGCCA
Found at i:11629298 original size:28 final size:29
Alignment explanation
Indices: 11629249--11629316 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
11629239 GAAAGCATGT
11629249 ATATGAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTAATTTGGGCCTAATGGGCC
*
11629278 ATATGAATG-AGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTA-ATTTGGGCCTAATGGGCC
*
11629306 ATATGCATGTA
1 ATATGAATGTA
11629317 TGGAGACTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 24 0.69
29 11 0.31
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTAATTTGGGCCTAATGGGCC
Found at i:11632913 original size:55 final size:55
Alignment explanation
Indices: 11632853--11632961 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
11632843 TAGTACTTTT
*
11632853 GGTTCCCTTGGGTACGATATCCCGGTCTTGCCATTACTATACTATTATTCGATAA
1 GGTTCCCTTGGGTACGATATCCCAGTCTTGCCATTACTATACTATTATTCGATAA
* * *
11632908 GGTTCCCTTGGGTATGATATCCCAGTCTTTCCATTACTATACTATTGTTCGATA
1 GGTTCCCTTGGGTACGATATCCCAGTCTTGCCATTACTATACTATTATTCGATA
11632962 GGTGCGCTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (55 bp):
GGTTCCCTTGGGTACGATATCCCAGTCTTGCCATTACTATACTATTATTCGATAA
Found at i:11641320 original size:13 final size:13
Alignment explanation
Indices: 11641302--11641327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11641292 AAATAATCTA
11641302 ACACAGGCGTGTC
1 ACACAGGCGTGTC
11641315 ACACAGGCGTGTC
1 ACACAGGCGTGTC
11641328 CCTACCGAGC
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACAGGCGTGTC
Found at i:11648410 original size:52 final size:52
Alignment explanation
Indices: 11648354--11648457 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
11648344 TCATTTTCTT
*
11648354 TAGACCGAAACTAAAATAAAAAGAAAAACAAATATTAGAAGCTAGGGTTCGG
1 TAGACCGAAACTAAAAAAAAAAGAAAAACAAATATTAGAAGCTAGGGTTCGG
*
11648406 TAGACCGAAACTAAAAAAAAAAGAAAAACAAATATTAGAAGCTAGTGTTCGG
1 TAGACCGAAACTAAAAAAAAAAGAAAAACAAATATTAGAAGCTAGGGTTCGG
11648458 CCATCTTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.17
Consensus pattern (52 bp):
TAGACCGAAACTAAAAAAAAAAGAAAAACAAATATTAGAAGCTAGGGTTCGG
Found at i:11656233 original size:27 final size:26
Alignment explanation
Indices: 11656193--11656279 Score: 129
Period size: 27 Copynumber: 3.3 Consensus size: 26
11656183 AGCATGGCTG
* *
11656193 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
11656219 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
11656246 CTAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
11656273 CCAGAAC
1 CCAGAAC
11656280 CCTTCCTCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 12 0.22
27 43 0.78
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:11656435 original size:25 final size:25
Alignment explanation
Indices: 11656379--11656436 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
11656369 CAAAATTAAC
* **
11656379 CCTAGGGGTATAATGGTAATTTTGCA
1 CCTA-GGGTATAATAGTAATTTCACA
*
11656405 CCTAGGGTATAATAGTAATTTCATA
1 CCTAGGGTATAATAGTAATTTCACA
*
11656430 CTTAGGG
1 CCTAGGG
11656437 GTATTTTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (25 bp):
CCTAGGGTATAATAGTAATTTCACA
Found at i:11677285 original size:44 final size:43
Alignment explanation
Indices: 11677229--11677388 Score: 187
Period size: 44 Copynumber: 3.7 Consensus size: 43
11677219 TGGCAAATTG
*
11677229 TATCTCCCTGAAGTTGCAGTAGAGCAGATTGAGATTACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-ATTACAAATCC
* * * *
11677273 TATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAACTACAAA-CC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAATTACAAATCC
* * * * *
11677316 TTATCTCCCCGAAGTAGCAGTGGAGCAGGTTGAAGTTACAAGTCT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TTACAAATCC
11677361 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
11677389 CTGCAGATGG
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.04
44 89 0.94
45 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATTACAAATCC
Found at i:11677864 original size:15 final size:15
Alignment explanation
Indices: 11677841--11677872 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11677831 AATAAAAATT
11677841 AAACCAAACCCAAAC
1 AAACCAAACCCAAAC
*
11677856 AAACTAAACCCAAAC
1 AAACCAAACCCAAAC
11677871 AA
1 AA
11677873 TTGAGCCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.34, G:0.00, T:0.03
Consensus pattern (15 bp):
AAACCAAACCCAAAC
Found at i:11679097 original size:15 final size:15
Alignment explanation
Indices: 11679077--11679117 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11679067 ATATTTATTT
11679077 TTATTATTATTAATA
1 TTATTATTATTAATA
* *
11679092 TTATTATCATTAGTA
1 TTATTATTATTAATA
*
11679107 TTAGTATTATT
1 TTATTATTATT
11679118 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (15 bp):
TTATTATTATTAATA
Found at i:11680652 original size:24 final size:24
Alignment explanation
Indices: 11680625--11680675 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11680615 ATAGAATACA
*
11680625 CCACAAAGGCAATTACAGAATATG
1 CCACAAAGGCAATTACAAAATATG
**
11680649 CCACAAAGGCGTTTACAAAATATG
1 CCACAAAGGCAATTACAAAATATG
11680673 CCA
1 CCA
11680676 TAAAAGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (24 bp):
CCACAAAGGCAATTACAAAATATG
Found at i:11684283 original size:28 final size:27
Alignment explanation
Indices: 11684210--11684296 Score: 104
Period size: 28 Copynumber: 3.2 Consensus size: 27
11684200 GAGGAAGCGT
*
11684210 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
11684238 TCTGGTGGCCCTCCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAA-TATCTGTA
* *
11684266 TCTGGTGACTCTGTCACAATATCTG-A
1 TCTGGTGGCTCTGCCACAATATCTGTA
11684292 TCTGG
1 TCTGG
11684297 CAACCATGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
26 6 0.12
27 8 0.16
28 37 0.73
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:11692004 original size:27 final size:27
Alignment explanation
Indices: 11691974--11692030 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
11691964 ACTAAAATAT
* *
11691974 CCTAAGTATG-AAAATTACCATTATGCC
1 CCTAAG-ATGCAAAATGACCATTATACC
*
11692001 CCT-AGGTGCAAAATGACCATTATACC
1 CCTAAGATGCAAAATGACCATTATACC
11692027 CCTA
1 CCTA
11692031 GGGTTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 2 0.08
26 20 0.80
27 3 0.12
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (27 bp):
CCTAAGATGCAAAATGACCATTATACC
Found at i:11692175 original size:28 final size:28
Alignment explanation
Indices: 11692135--11692246 Score: 154
Period size: 28 Copynumber: 4.0 Consensus size: 28
11692125 GGAGGAAGCG
11692135 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
11692163 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * * *
11692191 TTCTAGTGGCCCTGCCATAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
11692219 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
11692246 T
1 T
11692247 CTAGAAGCCA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 8 0.11
28 64 0.89
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:11694560 original size:49 final size:49
Alignment explanation
Indices: 11694480--11694723 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 49
11694470 AGCCGAAGCT
* * * *
11694480 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATC
* * * *
11694529 AT-TCGGTACACGTAGTAGGCTGCACTAAGTACTACACACGTGACCTAACC
1 ATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATC
* * * * *
11694579 ATCTGATATACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TC
* * * * *
11694630 ATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAA-C
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATC
* *
11694678 AATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 -ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
11694724 TCACAATAGC
Statistics
Matches: 158, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 75 0.47
50 44 0.28
51 38 0.24
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATC
Found at i:11694707 original size:100 final size:99
Alignment explanation
Indices: 11694480--11694723 Score: 312
Period size: 100 Copynumber: 2.5 Consensus size: 99
11694470 AGCCGAAGCT
* * * * *
11694480 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGTACACATAGT
* * *
11694545 AGGCTGCACTAAGTACTACACACGTGACCTAACC
66 AGCCTGCACTAAGTACTACACACGCGACCTAACA
* * * *
11694579 ATCTGATATACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTA-TCAGGTACGCAT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATTC-GGTACACAT
* *
11694643 AGTAGCCTGCACTTAGTACTACACATGCGA-CTAACA
63 AGTAGCCTGCACTAAGTACTACACACGCGACCTAACA
*
11694679 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
11694724 TCACAATAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 38 0.31
100 50 0.40
101 36 0.29
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGTACACATAGT
AGCCTGCACTAAGTACTACACACGCGACCTAACA
Found at i:11698776 original size:49 final size:47
Alignment explanation
Indices: 11698610--11698904 Score: 394
Period size: 47 Copynumber: 6.1 Consensus size: 47
11698600 TATGAAATGA
11698610 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
11698657 TGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
11698704 TGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
**
11698751 TGATAAAGTGTATATAT-GCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGAT-AAG-GCCTA-ATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* *
11698802 TGATAGGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* * * * * * * *
11698851 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
11698898 TGATAAG
1 TGATAAG
11698905 TCCCGAAGGG
Statistics
Matches: 224, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
47 109 0.49
48 5 0.02
49 94 0.42
50 4 0.02
51 12 0.05
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:11698876 original size:98 final size:97
Alignment explanation
Indices: 11698610--11698904 Score: 372
Period size: 98 Copynumber: 3.1 Consensus size: 97
11698600 TATGAAATGA
11698610 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA-GGCCTAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA-AAGGGCCT-ATG
11698672 GCCGATGTGATGGATGTGAAAGTG--TATATATG
64 GCCGATGTGATGGATGTGAAAGTGTATATATATG
* * * ** *
11698704 TGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATGTGAT-AAAGTGTATATAT
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG-TGAAAGGGCCTAT-G
*
11698768 GCCGATGTGATGAATGTGAAAGTGTATATATATG
64 GCCGATGTGATGGATGTGAAAGTGTATATATATG
* * * *
11698802 TGATAGGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAAAGGGCCTA-TGG
* *
11698867 CCAACGTGATGGATGTGAAAGTGTATA-A-ATG
65 CCGATGTGATGGATGTGAAAGTGTATATATATG
11698898 TGATAAG
1 TGATAAG
11698905 TCCCGAAGGG
Statistics
Matches: 171, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
94 38 0.22
95 4 0.02
96 42 0.25
97 3 0.02
98 83 0.49
99 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (97 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAAAGGGCCTATGGC
CGATGTGATGGATGTGAAAGTGTATATATATG
Found at i:11699079 original size:37 final size:37
Alignment explanation
Indices: 11699023--11699101 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
11699013 CCGAGCTCTA
* * * *
11699023 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
11699060 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
11699097 AAGAC
1 AAGAC
11699102 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:11704377 original size:51 final size:49
Alignment explanation
Indices: 11704200--11704440 Score: 302
Period size: 49 Copynumber: 4.9 Consensus size: 49
11704190 CGAAGCTATT
* * *
11704200 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATC
* * * **
11704249 CGGTACACGTAGTAGGCTGCACTTAGTACTACACACGTGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATC
* *
11704299 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATC
* * * * *
11704350 AGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATC
* *
11704399 TGGTACACGTAGTAGCATGCACTTAGTACTACACACGTGACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
11704441 TCACAATAGC
Statistics
Matches: 161, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.47
50 46 0.29
51 39 0.24
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATC
Found at i:11706958 original size:41 final size:41
Alignment explanation
Indices: 11706881--11706993 Score: 104
Period size: 41 Copynumber: 2.8 Consensus size: 41
11706871 CTGTATTTCG
* ** * ** *
11706881 CACCAGCACAAGGCTTGCTAAACTCAAGGCTTGATTTTATA
1 CACCAGCACAAGGCCTGCTAGGCTCAAAGCCAGATTTAATA
* *
11706922 CACCGGCA-ATAGGCCTGCTAGGCAT-AAAGCCAGATTTAATT
1 CACCAGCACA-AGGCCTGCTAGGC-TCAAAGCCAGATTTAATA
*
11706963 CACCAGCACAAGGCTTGCTAGGCTCAAAGCC
1 CACCAGCACAAGGCCTGCTAGGCTCAAAGCC
11706994 CCAATATCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.04
41 53 0.93
42 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
CACCAGCACAAGGCCTGCTAGGCTCAAAGCCAGATTTAATA
Found at i:11712780 original size:12 final size:12
Alignment explanation
Indices: 11712763--11712800 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
11712753 GAGATATCAG
11712763 ATTTTTTTGAAT
1 ATTTTTTTGAAT
11712775 ATTTTTTTGAAT
1 ATTTTTTTGAAT
*
11712787 ATTTTTCTGAAT
1 ATTTTTTTGAAT
11712799 AT
1 AT
11712801 GTGTTGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (12 bp):
ATTTTTTTGAAT
Found at i:11717200 original size:13 final size:14
Alignment explanation
Indices: 11717174--11717203 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11717164 TCAAAATAAA
11717174 TAATTACATTCAAT
1 TAATTACATTCAAT
11717188 TAATTAC-TTCAAT
1 TAATTACATTCAAT
11717201 TAA
1 TAA
11717204 CATCAAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATTACATTCAAT
Found at i:11718244 original size:10 final size:10
Alignment explanation
Indices: 11718229--11718276 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
11718219 CTTATATACT
11718229 TTAATTAAAC
1 TTAATTAAAC
*
11718239 TTAATTAATC
1 TTAATTAAAC
* *
11718249 CTAATT-AAT
1 TTAATTAAAC
11718258 TTAATTAAAC
1 TTAATTAAAC
11718268 TATAATTAA
1 T-TAATTAA
11718277 CTAATCATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 6 0.20
10 17 0.57
11 7 0.23
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
TTAATTAAAC
Found at i:11749855 original size:43 final size:42
Alignment explanation
Indices: 11749763--11749867 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
11749753 TTTGAGATTT
* * * *
11749763 ACATGTAAGACCTTGTCTGGGACATCGGCATCATATTTGATT
1 ACATGTAAGACCCTGTCTAGGACATCGGCACCATATTTGATA
* * *
11749805 TCGTGTAAGACCCTGTCTAGGATAGT-GGCACCGATATTTGATA
1 ACATGTAAGACCCTGTCTAGGACA-TCGGCACC-ATATTTGATA
11749848 ACATGTAAGACCAC-GTCTAG
1 ACATGTAAGACC-CTGTCTAG
11749868 AATGTTGGCA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 24 0.47
43 26 0.51
44 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
ACATGTAAGACCCTGTCTAGGACATCGGCACCATATTTGATA
Found at i:11751024 original size:26 final size:26
Alignment explanation
Indices: 11750991--11751044 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11750981 ATCAACTTCA
11750991 ATGCCCCACAAAACACTATGACAAAT
1 ATGCCCCACAAAACACTATGACAAAT
11751017 ATGCCCCACAAAACACTATGACAAAT
1 ATGCCCCACAAAACACTATGACAAAT
11751043 AT
1 AT
11751045 TATTCATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.30, G:0.07, T:0.17
Consensus pattern (26 bp):
ATGCCCCACAAAACACTATGACAAAT
Found at i:11757585 original size:29 final size:28
Alignment explanation
Indices: 11757521--11757610 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
11757511 CATCTCATTC
* * **
11757521 ATATGGCCCATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAAATCACCTT
* * *
11757549 CTTTTGGCCTATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTAGGCCCAAATCACC-TT
*
11757579 ATATGGCCCGTTAGGCCCAAATCACCTT
1 ATATGGCCCATTAGGCCCAAATCACCTT
11757607 ATAT
1 ATAT
11757611 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 6 0.12
29 41 0.84
30 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACCTT
Found at i:11759069 original size:16 final size:16
Alignment explanation
Indices: 11759038--11759078 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
11759028 ACAAAGAAAG
*
11759038 TTTGGGATTTCGGGATT
1 TTTGGG-TTTCAGGATT
11759055 TTTGGGTTTCAGGATT
1 TTTGGGTTTCAGGATT
11759071 TTTAGGGT
1 TTT-GGGT
11759079 GTTACAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.49
Consensus pattern (16 bp):
TTTGGGTTTCAGGATT
Found at i:11760917 original size:93 final size:93
Alignment explanation
Indices: 11760758--11761287 Score: 1033
Period size: 93 Copynumber: 5.7 Consensus size: 93
11760748 TTCGAACTCG
11760758 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
11760823 GAGAGATGTAACTACGCATCCGAGCTCA
66 GAGAGATGTAACTACGCATCCGAGCTCA
11760851 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
11760916 GAGAGATGTAACTACGCATCCGAGCTCA
66 GAGAGATGTAACTACGCATCCGAGCTCA
11760944 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
11761009 GAGAGATGTAACTACGCATCCGAGCTCA
66 GAGAGATGTAACTACGCATCCGAGCTCA
11761037 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
11761102 GAGAGATGTAACTACGCATCCGAGCTCA
66 GAGAGATGTAACTACGCATCCGAGCTCA
11761130 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
11761195 GAGAGATGTAACTACGCATCCGAGCTCA
66 GAGAGATGTAACTACGCATCCGAGCTCA
* * *
11761223 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
11761288 ACTTATCGGG
Statistics
Matches: 434, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 434 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
GAGAGATGTAACTACGCATCCGAGCTCA
Found at i:11764210 original size:15 final size:15
Alignment explanation
Indices: 11764160--11764232 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
11764150 TCGTATCTTG
*
11764160 GGTTTCTTTATCCT-
1 GGTTTCTTTATTCTA
*
11764174 GGATCTCTTTATTCTA
1 GG-TTTCTTTATTCTA
*
11764190 GATTTCTTTATTCTA
1 GGTTTCTTTATTCTA
* *
11764205 GGTTTCTCTA-TCTT
1 GGTTTCTTTATTCTA
11764219 GGATTTCTTTATTC
1 GG-TTTCTTTATTC
11764233 GGTTTTCTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
14 7 0.15
15 37 0.79
16 3 0.06
ACGTcount: A:0.14, C:0.18, G:0.12, T:0.56
Consensus pattern (15 bp):
GGTTTCTTTATTCTA
Found at i:11766030 original size:47 final size:47
Alignment explanation
Indices: 11765961--11766084 Score: 203
Period size: 47 Copynumber: 2.6 Consensus size: 47
11765951 GATGCGAATG
* * *
11765961 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGCGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAGGCA
*
11766008 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCAAGAGATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAGGCA
*
11766055 TCCAAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
11766085 CTTATGGATG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (47 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAGGCA
Found at i:11775822 original size:40 final size:39
Alignment explanation
Indices: 11775724--11775986 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
11775714 TCCTCGTTCA
* * * *
11775724 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
11775763 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
11775802 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
11775842 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
11775882 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
11775922 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
11775963 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11775987 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:11775946 original size:120 final size:119
Alignment explanation
Indices: 11775724--11775986 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
11775714 TCCTCGTTCA
* * *
11775724 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
11775789 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
11775842 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
11775907 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
11775963 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
11775987 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:11775995 original size:41 final size:41
Alignment explanation
Indices: 11775918--11775995 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11775908 TTTGTATCTC
* * *
11775918 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11775959 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11775996 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11779278 original size:37 final size:37
Alignment explanation
Indices: 11779228--11779301 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
11779218 GATCCGAAAA
11779228 TACATGGCACTTCTCACCAAACAGATAATGTCGCCAT
1 TACATGGCACTTCTCACCAAACAGATAATGTCGCCAT
11779265 TACATGGCACTTCTCACCAAACAGATAATGTCGCCAT
1 TACATGGCACTTCTCACCAAACAGATAATGTCGCCAT
11779302 ATTTTTAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (37 bp):
TACATGGCACTTCTCACCAAACAGATAATGTCGCCAT
Found at i:11783675 original size:159 final size:159
Alignment explanation
Indices: 11783386--11783703 Score: 591
Period size: 159 Copynumber: 2.0 Consensus size: 159
11783376 AGAGGAGCAG
11783386 TGTAACGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCATAAACAAAGAAT
1 TGTAACGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCATAAACAAAGAAT
11783451 AACACACATTTAGCTAAACGGAATATTTCACAATACGCAATTTACCGATATCAAACTTGCTTCAC
66 AACACACATTTAGCTAAACGGAATATTTCACAATACGCAATTTACCGATATCAAACTTGCTTCAC
11783516 AACATTAACAACCCTTATGTACATACACA
131 AACATTAACAACCCTTATGTACATACACA
* *
11783545 TGTAACGAGTAAGCCATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCATACACAAAGAAT
1 TGTAACGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCATAAACAAAGAAT
* * *
11783610 AGCACACATTTAGCTAAATGGAATATTTCATAATACGCAATTTACCGATATCAAACTTGCTTCAC
66 AACACACATTTAGCTAAACGGAATATTTCACAATACGCAATTTACCGATATCAAACTTGCTTCAC
11783675 AACATTAACAACCCTTATGTACATACACA
131 AACATTAACAACCCTTATGTACATACACA
11783704 ATAGACTAAC
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (159 bp):
TGTAACGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCCAGCATAAACAAAGAAT
AACACACATTTAGCTAAACGGAATATTTCACAATACGCAATTTACCGATATCAAACTTGCTTCAC
AACATTAACAACCCTTATGTACATACACA
Found at i:11783949 original size:39 final size:40
Alignment explanation
Indices: 11783904--11784075 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
11783894 GCTCCTCGTT
* * *
11783904 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
11783944 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
11783983 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
11784023 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
11784063 CAAATGCCTTCGG
1 CAAATGCCTTCGG
11784076 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:11784004 original size:40 final size:39
Alignment explanation
Indices: 11783906--11784128 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
11783896 TCCTCGTTCA
* * * *
11783906 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
11783945 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
11783984 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
11784024 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
11784064 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
11784105 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11784129 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:11784088 original size:80 final size:79
Alignment explanation
Indices: 11783904--11784128 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
11783894 GCTCCTCGTT
* * * * *
11783904 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
11783968 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
11783983 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
11784048 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
11784063 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
11784127 GA
63 GA
11784129 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:11784137 original size:41 final size:41
Alignment explanation
Indices: 11784060--11784137 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11784050 TTTGTATCTC
* * *
11784060 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11784101 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11784138 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11785396 original size:202 final size:200
Alignment explanation
Indices: 11785050--11785449 Score: 773
Period size: 202 Copynumber: 2.0 Consensus size: 200
11785040 TGGCCGAATC
11785050 TCTTCACCTTTCTTCTTCTTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATGAGAAA
1 TCTTCACCTTTCTTCTTCTTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATGAGAAA
11785115 ATTTTTTCTTTGTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATC
66 ATTTTTTCTTTGTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATC
*
11785180 TTCTCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGGGGAAAGAATCAACTACACACTTTTTTT
131 TTCTCCTCTCTTTTCTTTAGCTCACGGCAAT--GGGGGGAAAAGAATCAACTACACACTTTTTTT
11785245 TTGTGTA
194 TTGTGTA
11785252 TCTTCACCTTTCTTCTTCTTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATGAGAAA
1 TCTTCACCTTTCTTCTTCTTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATGAGAAA
11785317 ATTTTTTCTTTGTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATC
66 ATTTTTTCTTTGTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATC
11785382 TTCTCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACTACACACTTTTTTTTT
131 TTCTCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACTACACACTTTTTTTTT
11785447 GTG
196 GTG
11785450 CATTCATCAT
Statistics
Matches: 197, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
200 36 0.18
202 161 0.82
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (200 bp):
TCTTCACCTTTCTTCTTCTTTCCTCCTTAAAATTTTTGGCCAAGGATGAACCAAAGGATGAGAAA
ATTTTTTCTTTGTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAAGGATGAACAAAGATC
TTCTCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACTACACACTTTTTTTTT
GTGTA
Found at i:11786921 original size:20 final size:20
Alignment explanation
Indices: 11786896--11786951 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
11786886 AGATAGGGGC
*
11786896 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGCGGCCTGGG
*
11786916 ACATGCCCGTGCGGCTTGGG
1 ACATGCCCGTGCGGCCTGGG
*
11786936 ACATGCCCGTGGGGCC
1 ACATGCCCGTGCGGCC
11786952 AAGTCGTGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.32, G:0.39, T:0.18
Consensus pattern (20 bp):
ACATGCCCGTGCGGCCTGGG
Found at i:11788848 original size:16 final size:17
Alignment explanation
Indices: 11788827--11788858 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11788817 TAACATATAT
11788827 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
11788843 ATTATTATAATTATTA
1 ATTATTATAATTATTA
11788859 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:11794404 original size:46 final size:44
Alignment explanation
Indices: 11794346--11794472 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 44
11794336 TCACTTGTGT
11794346 GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCCACATTATGA-
1 GAGCTAGTGTAAGACATGTCTTGGACATGCATC-G--ACATTATGAC
* *
11794392 GAGCCAGTGTAAGACCATGT-TTGGGACATGGCATCGACATTGTGAC
1 GAGCTAGTGTAAGA-CATGTCTT-GGACAT-GCATCGACATTATGAC
*
11794438 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GA--GCTAGTGTAAGACATGTCTTGGACATGCATC
11794473 AGCTACGAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
45 8 0.11
46 22 0.31
47 23 0.33
48 17 0.24
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTTGGACATGCATCGACATTATGAC
Done.