Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 39 of 335
Found at i:14319807 original size:15 final size:15
Alignment explanation
Indices: 14319787--14319823 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14319777 AATTAGATAT
* *
14319787 AAAAATTAAAAATTA
1 AAAAATAAAAAAATA
14319802 AAAAATAAAAAAATA
1 AAAAATAAAAAAATA
14319817 AAAAATA
1 AAAAATA
14319824 TTATAATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAAAAAAATA
Found at i:14319813 original size:7 final size:7
Alignment explanation
Indices: 14319785--14319823 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
14319775 AAAATTAGAT
14319785 ATAAAAA
1 ATAAAAA
*
14319792 TTAAAAA
1 ATAAAAA
*
14319799 TTAAAAA
1 ATAAAAA
14319806 ATAAAAAA
1 AT-AAAAA
14319814 ATAAAAA
1 ATAAAAA
14319821 ATA
1 ATA
14319824 TTATAATACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAAAA
Found at i:14320062 original size:20 final size:20
Alignment explanation
Indices: 14320037--14320074 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14320027 TTCATATTAG
*
14320037 ATTAAATTAGTCATTTTACC
1 ATTAAATTAGTAATTTTACC
*
14320057 ATTAAATTGGTAATTTTA
1 ATTAAATTAGTAATTTTA
14320075 ATTTTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTAAATTAGTAATTTTACC
Found at i:14320245 original size:22 final size:22
Alignment explanation
Indices: 14320220--14320279 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
14320210 AAAAAAATCA
14320220 AAATATAACTTTGTTAAATAGT
1 AAATATAACTTTGTTAAATAGT
* * *
14320242 AAATGATAA-ATTCTTAAATTGT
1 AAAT-ATAACTTTGTTAAATAGT
*
14320264 AAATATTAACTCTGTT
1 AAATA-TAACTTTGTT
14320280 GAAACTGGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.03
22 21 0.72
23 7 0.24
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (22 bp):
AAATATAACTTTGTTAAATAGT
Found at i:14321043 original size:50 final size:50
Alignment explanation
Indices: 14320987--14321088 Score: 145
Period size: 50 Copynumber: 2.0 Consensus size: 50
14320977 AATTTAAATT
14320987 TTAAAATATA-AAAAATAAAATAAAATAATTC-TTAAAATTAAAATTTCAAA
1 TTAAAATA-AGAAAAATAAAATAAAATAATTCTTTAAAA-TAAAATTTCAAA
* * *
14321037 TTAAAATAAGAAAAATAGAATGATATAATTCTTTAAAATAAAATTTCAAA
1 TTAAAATAAGAAAAATAAAATAAAATAATTCTTTAAAATAAAATTTCAAA
14321087 TT
1 TT
14321089 CGAGGAGAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
49 1 0.02
50 40 0.85
51 6 0.13
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (50 bp):
TTAAAATAAGAAAAATAAAATAAAATAATTCTTTAAAATAAAATTTCAAA
Found at i:14323823 original size:27 final size:29
Alignment explanation
Indices: 14323765--14323825 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
14323755 ATTTTATTTT
*
14323765 TATTTTTAAAATATTAATATAAAATATTA
1 TATTTTTAAAATATTAATATAAAATATCA
*
14323794 TATTTTTTAAATATT-AT-T-AAATATACA
1 TATTTTTAAAATATTAATATAAAATAT-CA
14323821 TATTT
1 TATTT
14323826 AATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 7 0.24
28 2 0.07
29 14 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TATTTTTAAAATATTAATATAAAATATCA
Found at i:14323891 original size:14 final size:14
Alignment explanation
Indices: 14323874--14323909 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14323864 TTTTAATTTT
14323874 ATTTTAATAATAA-A
1 ATTTTAA-AATAATA
14323888 ATTTTAAAATAATA
1 ATTTTAAAATAATA
14323902 ATTTTAAA
1 ATTTTAAA
14323910 CAATATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTTAAAATAATA
Found at i:14323976 original size:19 final size:19
Alignment explanation
Indices: 14323949--14323985 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14323939 TTAATATTAA
*
14323949 TATTTCAATAATAAATATT
1 TATTACAATAATAAATATT
*
14323968 TATTACAATTATAAATAT
1 TATTACAATAATAAATAT
14323986 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTACAATAATAAATATT
Found at i:14324764 original size:16 final size:18
Alignment explanation
Indices: 14324743--14324792 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
14324733 ATAATTATTT
*
14324743 TAAATTT-TCAAAAAT-G
1 TAAATTTATCAAAAATAA
14324759 TAAATTTAT-AAAAATAA
1 TAAATTTATCAAAAATAA
14324776 TAAATATTATCAAAAAT
1 TAAAT-TTATCAAAAAT
14324793 TTCAAAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 13 0.45
17 6 0.21
18 4 0.14
19 6 0.21
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAATTTATCAAAAATAA
Found at i:14329523 original size:92 final size:92
Alignment explanation
Indices: 14329366--14329533 Score: 291
Period size: 92 Copynumber: 1.8 Consensus size: 92
14329356 AGTTGCTGAA
* * *
14329366 CGGTTCATTGGGTAGGATTTTTTGACCAATTTTATCCCATTGGATACAACATTATAGGATGGGCA
1 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
14329431 AAAACCAAAAAATTTGAGCTGAACATG
66 AAAACCAAAAAATTTGAGCTGAACATG
*
14329458 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATAGAACATTATAGGATGGGCA
1 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
*
14329523 AAATCCAAAAA
66 AAAACCAAAAA
14329534 GTTACTTCGA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (92 bp):
CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
AAAACCAAAAAATTTGAGCTGAACATG
Found at i:14332890 original size:24 final size:24
Alignment explanation
Indices: 14332858--14332908 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
14332848 TAATGATGAC
14332858 TCTCCACGAGATCAGCAAGAGTTA
1 TCTCCACGAGATCAGCAAGAGTTA
14332882 TCTCCACGAGATCAGCAAGAGTTA
1 TCTCCACGAGATCAGCAAGAGTTA
14332906 TCT
1 TCT
14332909 TCCCGCAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (24 bp):
TCTCCACGAGATCAGCAAGAGTTA
Found at i:14341540 original size:42 final size:42
Alignment explanation
Indices: 14341455--14341588 Score: 108
Period size: 49 Copynumber: 3.0 Consensus size: 42
14341445 CTTCGTTTAC
** ** *
14341455 TCGATGTCATAGTTCAACTATGGTCTTACACATCTTCATATA
1 TCGATGTCATAGCCCAACTATGGTCTTACACATAATCACATA
* *
14341497 TCGATGTCATAGCCCAGCTATGGTCTTACATGTAATCACATATCACATA
1 TCGATGTCATAGCCCAACTATGGTCTTAC-----A-CATA-ATCACATA
* * *
14341546 TAGATGCCATAGCCCAACTATGGTCTTACAC-GAATCACATA
1 TCGATGTCATAGCCCAACTATGGTCTTACACATAATCACATA
14341587 TC
1 TC
14341589 TCACTGATGC
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
41 9 0.12
42 27 0.37
43 1 0.01
44 1 0.01
47 1 0.01
48 2 0.03
49 32 0.44
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGTCATAGCCCAACTATGGTCTTACACATAATCACATA
Found at i:14341558 original size:49 final size:47
Alignment explanation
Indices: 14341494--14341619 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 47
14341484 ACATCTTCAT
* *
14341494 ATATCGATGTCATAGCCCAGCTATGGTCTTACATGTAATCACATATCAC
1 ATAT-GATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCAC
* *
14341543 ATATAGATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCTC
1 ATAT-GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
* * * *
14341591 A-CTGATGCCATATCTCAGATATGGTCTTA
1 ATATGATGCCATAGCCCAGCTATGGTCTTA
14341620 TACAGTAGCA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 22 0.33
47 1 0.01
48 13 0.19
49 31 0.46
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (47 bp):
ATATGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCAC
Found at i:14341731 original size:31 final size:31
Alignment explanation
Indices: 14341692--14341867 Score: 244
Period size: 31 Copynumber: 5.7 Consensus size: 31
14341682 TCACTTGTAA
*
14341692 CCGAAGCTACCACTATTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* * *
14341723 CCGGAGCTACCATTTTTCATTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* * *
14341754 TCGGAGCTACCATTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* * *
14341785 CAGAAGCTACCACTTTTCACTTATCAGGCAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* *
14341816 CAGAAGCTACCACTTTTCACTGATCAAGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
14341847 CCGAAGCTACCACTTTTCACT
1 CCGAAGCTACCACTTTTCACT
14341868 TGTCATTTGT
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 129 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
CCGAAGCTACCACTTTTCACTGATCAGGTAG
Found at i:14341940 original size:50 final size:50
Alignment explanation
Indices: 14341843--14342019 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
14341833 CACTGATCAA
* * * *
14341843 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
* *
14341894 GTAGTCGAAGCTATTACTTATCACTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
* *
14341944 GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
14341994 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
14342020 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 95 0.81
51 22 0.19
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
Found at i:14346653 original size:3 final size:3
Alignment explanation
Indices: 14346641--14346686 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
14346631 CATCCAAATG
14346641 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14346687 TGTATATCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14365260 original size:3 final size:3
Alignment explanation
Indices: 14365252--14365300 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
14365242 TTTTATTTGT
14365252 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14365300 T
1 T
14365301 ATAACAAGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14365991 original size:21 final size:21
Alignment explanation
Indices: 14365967--14366034 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
14365957 CTTCAACAGA
14365967 CCCAATCACCAAC-CCGACAAC
1 CCCAATCA-CAACTCCGACAAC
* *
14365988 CCCAGTCACAACTCCGACAGC
1 CCCAATCACAACTCCGACAAC
* * *
14366009 ACCAGTTACAACTCCGACAAC
1 CCCAATCACAACTCCGACAAC
14366030 CCCAA
1 CCCAA
14366035 CCCCGACTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.35, C:0.47, G:0.09, T:0.09
Consensus pattern (21 bp):
CCCAATCACAACTCCGACAAC
Found at i:14366618 original size:18 final size:18
Alignment explanation
Indices: 14366592--14366626 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14366582 TACCATGACC
14366592 ATGACCCCACCCTTTCCG
1 ATGACCCCACCCTTTCCG
* *
14366610 ATGAGCCCACCTTTTCC
1 ATGACCCCACCCTTTCC
14366627 CGGAGCAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.46, G:0.11, T:0.26
Consensus pattern (18 bp):
ATGACCCCACCCTTTCCG
Found at i:14369630 original size:4 final size:4
Alignment explanation
Indices: 14369621--14369651 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
14369611 TACATAATAT
*
14369621 TATG TATG TATG TATG TATA TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
14369652 CCAACTCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:14369638 original size:12 final size:12
Alignment explanation
Indices: 14369617--14369651 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14369607 TTTTTACATA
14369617 ATAT-TATGTAT
1 ATATGTATGTAT
*
14369628 GTATGTATGTAT
1 ATATGTATGTAT
14369640 ATATGTATGTAT
1 ATATGTATGTAT
14369652 CCAACTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (12 bp):
ATATGTATGTAT
Found at i:14375024 original size:57 final size:54
Alignment explanation
Indices: 14374963--14375099 Score: 139
Period size: 57 Copynumber: 2.4 Consensus size: 54
14374953 AGCAGCTTTT
* * *
14374963 ACAGCAACAGTATCAGCAACAGCCACAGCTGCTACAAGTGCAACAGCAATATCTTCA
1 ACAGCAACAGTATCAGCAGCAGCCACAGCTGCTAC-A--GCAACAACAATATATTCA
* * * * *
14375020 ACAGCAACAATTACCCTATCAGCAGCCACAGCTGCTGCAGCAACAACAATTTATTCA
1 ACAGCAAC-AGTA-TC-AGCAGCAGCCACAGCTGCTACAGCAACAACAATATATTCA
*
14375077 ACAGCAACAGTATCTGCAGCAGC
1 ACAGCAACAGTATCAGCAGCAGC
14375100 AGCAGCAACA
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
54 7 0.11
55 1 0.02
56 3 0.05
57 31 0.48
58 3 0.05
59 2 0.03
60 18 0.28
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (54 bp):
ACAGCAACAGTATCAGCAGCAGCCACAGCTGCTACAGCAACAACAATATATTCA
Found at i:14376519 original size:70 final size:70
Alignment explanation
Indices: 14376432--14376573 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
14376422 TTAATAATGA
14376432 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
1 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
14376497 CCTGG
66 CCTGG
*
14376502 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAGGAAAATGTCAATTGAAGAGCT
1 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
14376567 CCTGG
66 CCTGG
14376572 AA
1 AA
14376574 CATACTGCAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (70 bp):
AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
CCTGG
Found at i:14379143 original size:2 final size:2
Alignment explanation
Indices: 14379136--14379164 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14379126 AAGAAAAGGA
14379136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14379165 AATCAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14383056 original size:29 final size:29
Alignment explanation
Indices: 14383013--14383072 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
14383003 AATACATTAA
14383013 ATCCAAACAGACCTAAGCAAACCTATCAT
1 ATCCAAACAGACCTAAGCAAACCTATCAT
* * *
14383042 ATCCAAACAGTCCTAGGCACACCTATCAT
1 ATCCAAACAGACCTAAGCAAACCTATCAT
14383071 AT
1 AT
14383073 AAGCTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.20
Consensus pattern (29 bp):
ATCCAAACAGACCTAAGCAAACCTATCAT
Found at i:14387282 original size:12 final size:12
Alignment explanation
Indices: 14387265--14387289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14387255 TAGAATTAAC
14387265 AAAAAAACCCAA
1 AAAAAAACCCAA
14387277 AAAAAAACCCAA
1 AAAAAAACCCAA
14387289 A
1 A
14387290 TATTATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACCCAA
Found at i:14395344 original size:17 final size:17
Alignment explanation
Indices: 14395322--14395362 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
14395312 ATTCTAAAAA
14395322 TTTAAAAAGAA-AAATAT
1 TTTAAAAA-AATAAATAT
*
14395339 TTTAAAAAAATAAATTT
1 TTTAAAAAAATAAATAT
14395356 TTTAAAA
1 TTTAAAA
14395363 TATTCCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TTTAAAAAAATAAATAT
Found at i:14401394 original size:2 final size:2
Alignment explanation
Indices: 14401387--14401446 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
14401377 CTAATATCCC
14401387 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14401429 CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT
14401447 GTGCCTATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14402774 original size:8 final size:8
Alignment explanation
Indices: 14402761--14402786 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14402751 ATTAATAATA
14402761 TATAAAAT
1 TATAAAAT
14402769 TATAAAAT
1 TATAAAAT
14402777 TATAAAAT
1 TATAAAAT
14402785 TA
1 TA
14402787 AATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:14419004 original size:25 final size:25
Alignment explanation
Indices: 14418976--14419023 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14418966 GAGATTTTAG
14418976 AAAAGAGAAAAAAGAAGAGAGAGAA
1 AAAAGAGAAAAAAGAAGAGAGAGAA
* * *
14419001 AAAAGCGAGAAGAGAAGAGAGAG
1 AAAAGAGAAAAAAGAAGAGAGAG
14419024 TGAGAGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (25 bp):
AAAAGAGAAAAAAGAAGAGAGAGAA
Found at i:14419014 original size:16 final size:15
Alignment explanation
Indices: 14418974--14419016 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
14418964 GAGAGATTTT
14418974 AGAA-AAGAGAAAAA
1 AGAAGAAGAGAAAAA
14418988 AGAAGAGAGAGAAAAA
1 AGAAGA-AGAGAAAAA
*
14419004 AGCGAGAAGAGAA
1 AG-AAGAAGAGAA
14419017 GAGAGAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 4 0.16
15 1 0.04
16 17 0.68
17 3 0.12
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAGAAAAA
Found at i:14420919 original size:22 final size:22
Alignment explanation
Indices: 14420894--14420936 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14420884 AGCATATGAG
14420894 AAAACTTGGTAAAAAATGTACT
1 AAAACTTGGTAAAAAATGTACT
14420916 AAAACTTGGTAAAAAATGTAC
1 AAAACTTGGTAAAAAATGTAC
14420937 AAGCTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (22 bp):
AAAACTTGGTAAAAAATGTACT
Found at i:14428686 original size:26 final size:26
Alignment explanation
Indices: 14428650--14428759 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
14428640 CATGAAATTC
14428650 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14428676 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14428702 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
14428728 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14428754 TTATCA
1 TTATCA
14428760 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14432944 original size:25 final size:27
Alignment explanation
Indices: 14432907--14432959 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
14432897 TCAAACATGC
14432907 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
14432933 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
14432959 A
1 A
14432960 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:14434483 original size:26 final size:26
Alignment explanation
Indices: 14434447--14434530 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14434437 CATGAAATTC
14434447 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14434473 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14434499 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14434525 TTATCA
1 TTATCA
14434531 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14435441 original size:29 final size:27
Alignment explanation
Indices: 14435387--14435441 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
14435377 GGAAGATGAG
*
14435387 AGGAGAAGAGAATTTTTTTTTTAAAAT
1 AGGAGAAGAGAATTTTTTTTTAAAAAT
14435414 AGGAGAAGAATGAATTTTTTTTTAAAAA
1 AGGAGAAG-A-GAATTTTTTTTTAAAAA
14435442 AAATTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 8 0.32
28 1 0.04
29 16 0.64
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (27 bp):
AGGAGAAGAGAATTTTTTTTTAAAAAT
Found at i:14435870 original size:15 final size:16
Alignment explanation
Indices: 14435850--14435895 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
14435840 TTCTTTATTA
*
14435850 AATATTATTATTTCT-
1 AATATTATTATTTATC
14435865 AATATTATTAATATTATC
1 AATATTATT-AT-TTATC
14435883 AATATTATTATTT
1 AATATTATTATTT
14435896 TTTATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.33
16 4 0.15
17 5 0.19
18 9 0.33
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTATTATTTATC
Found at i:14435876 original size:9 final size:9
Alignment explanation
Indices: 14435844--14435892 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
14435834 TTTTGTTTCT
14435844 TTATTAAATA
1 TTATT-AATA
14435854 TTATT-AT-
1 TTATTAATA
*
14435861 TT-CTAATA
1 TTATTAATA
14435869 TTATTAATA
1 TTATTAATA
*
14435878 TTATCAATA
1 TTATTAATA
14435887 TTATTA
1 TTATTA
14435893 TTTTTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
6 1 0.03
7 4 0.12
8 4 0.12
9 18 0.56
10 5 0.16
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATTAATA
Found at i:14435879 original size:18 final size:18
Alignment explanation
Indices: 14435852--14435892 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14435842 CTTTATTAAA
*
14435852 TATTATTATT-TCTAATAT
1 TATTAATATTATC-AATAT
14435870 TATTAATATTATCAATAT
1 TATTAATATTATCAATAT
14435888 TATTA
1 TATTA
14435893 TTTTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTAATATTATCAATAT
Found at i:14435902 original size:15 final size:15
Alignment explanation
Indices: 14435850--14435904 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
14435840 TTCTTTATTA
*
14435850 AATATTATTATTTCT
1 AATATTATTATTTTT
*
14435865 AATATTATTAATATTATC
1 AATATTATT-AT-TT-TT
14435883 AATATTATTATTTTT
1 AATATTATTATTTTT
*
14435898 TATATTA
1 AATATTA
14435905 ATGTATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 16 0.48
16 4 0.12
17 4 0.12
18 9 0.27
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (15 bp):
AATATTATTATTTTT
Found at i:14435980 original size:12 final size:11
Alignment explanation
Indices: 14435960--14436081 Score: 54
Period size: 12 Copynumber: 10.6 Consensus size: 11
14435950 TTTAATTTCA
14435960 TATTATTATTAT
1 TATTATTA-TAT
* *
14435972 TAGTATTATAA
1 TATTATTATAT
14435983 TATTA-TAT-T
1 TATTATTATAT
14435992 TATTATTAATAT
1 TATTATT-ATAT
*
14436004 TAGTATATATAT
1 TATTAT-TATAT
*
14436016 T-TTATTAT-G
1 TATTATTATAT
14436025 TATGTATATATAT
1 TAT-TAT-TATAT
* *
14436038 AATTTTTATAT
1 TATTATTATAT
** *
14436049 AGTATTATCGTTT
1 --TATTATTATAT
14436062 CTATTATTATATT
1 -TATTATTATA-T
14436075 TATTATT
1 TATTATT
14436082 TTCACTATTA
Statistics
Matches: 80, Mismatches: 19, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
9 6 0.08
10 8 0.10
11 19 0.24
12 37 0.46
13 10 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTATTATAT
Found at i:14435985 original size:23 final size:24
Alignment explanation
Indices: 14435959--14436056 Score: 87
Period size: 26 Copynumber: 4.0 Consensus size: 24
14435949 CTTTAATTTC
14435959 ATAT-TATTATTATTAGTATTATA
1 ATATATATTATTATTAGTATTATA
*
14435982 ATATTATATTTATTATTAATATTAGT-
1 ATA-TATA-TTATTATTAGTATTA-TA
14436008 ATATATATT-TTATTATGTATGTAT-
1 ATATATATTATTATTA-GTAT-TATA
*
14436032 ATATATAATTTTTATATAGTATTAT
1 ATATAT-ATTATTAT-TAGTATTAT
14436057 CGTTTCTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
23 9 0.14
24 13 0.20
25 14 0.22
26 25 0.39
27 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
ATATATATTATTATTAGTATTATA
Found at i:14436276 original size:15 final size:15
Alignment explanation
Indices: 14436205--14436278 Score: 50
Period size: 14 Copynumber: 5.0 Consensus size: 15
14436195 ATTTCTTTAT
14436205 TATTTTT-TAT-TTA
1 TATTTTTATATATTA
* *
14436218 TTATTTTAATACTCTTA
1 -TATTTTTATA-TATTA
*
14436235 TATTATGTATATTATT-
1 TATT-TTTATA-TATTA
14436251 T-TTTTTA-ATATTA
1 TATTTTTATATATTA
14436264 TATTTTTATATATTA
1 TATTTTTATATATTA
14436279 CGTATATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
12 4 0.09
13 2 0.04
14 15 0.32
15 10 0.21
16 6 0.13
17 10 0.21
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (15 bp):
TATTTTTATATATTA
Found at i:14436284 original size:39 final size:41
Alignment explanation
Indices: 14436233--14436316 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
14436223 TTAATACTCT
* * ** *
14436233 TATATTATGTATAT-TATTTTTTTTAATATTATATT-TTTA
1 TATATTACGTATATATATATTTTAAAATATCATATTATTTA
14436272 TATATTACGTATATATATATTTTAAAATATCATATTATTTA
1 TATATTACGTATATATATATTTTAAAATATCATATTATTTA
14436313 TATA
1 TATA
14436317 CTTTATCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 13 0.34
40 17 0.45
41 8 0.21
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (41 bp):
TATATTACGTATATATATATTTTAAAATATCATATTATTTA
Found at i:14438081 original size:13 final size:13
Alignment explanation
Indices: 14438054--14438096 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14438044 AATATTTAAA
14438054 TTTTAAATTAAATTT
1 TTTTAAATT--ATTT
14438069 TTTTAAATTATTT
1 TTTTAAATTATTT
* *
14438082 TTTAAAAATATTT
1 TTTTAAATTATTT
14438095 TT
1 TT
14438097 CCGTAATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 17 0.65
15 9 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAAATTATTT
Found at i:14444313 original size:18 final size:18
Alignment explanation
Indices: 14444290--14444326 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14444280 TTAATTCTAG
14444290 TTATTTGTAATTATAATT
1 TTATTTGTAATTATAATT
* *
14444308 TTATTTGTATTTGTAATT
1 TTATTTGTAATTATAATT
14444326 T
1 T
14444327 CTAGACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TTATTTGTAATTATAATT
Found at i:14454311 original size:14 final size:12
Alignment explanation
Indices: 14454273--14454307 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14454263 TATAACCCTA
14454273 CATATATATATG
1 CATATATATATG
*
14454285 CACATATATATG
1 CATATATATATG
*
14454297 CATTTATATAT
1 CATATATATAT
14454308 ATGCCATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (12 bp):
CATATATATATG
Found at i:14455364 original size:21 final size:21
Alignment explanation
Indices: 14455331--14455372 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14455321 AACATTGGTT
* *
14455331 ATAATATACAAAAATTAATAA
1 ATAAGATACAAAAAATAATAA
*
14455352 ATAAGATATAAAAAATAATAA
1 ATAAGATACAAAAAATAATAA
14455373 TATATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
ATAAGATACAAAAAATAATAA
Found at i:14461206 original size:20 final size:20
Alignment explanation
Indices: 14461181--14461220 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14461171 TAACCCATTA
*
14461181 CTTACTCCCAGAGGCTTACT
1 CTTACTCCCACAGGCTTACT
14461201 CTTACTCCCACAGGCTTACT
1 CTTACTCCCACAGGCTTACT
14461221 TATTCTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.30
Consensus pattern (20 bp):
CTTACTCCCACAGGCTTACT
Found at i:14475159 original size:3 final size:3
Alignment explanation
Indices: 14475151--14475179 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14475141 ACACCAACAT
14475151 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
14475180 ACAACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:14477793 original size:4 final size:4
Alignment explanation
Indices: 14477784--14477808 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14477774 AATATAATGA
14477784 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
14477809 GGACTAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:14480398 original size:38 final size:37
Alignment explanation
Indices: 14480343--14480417 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
14480333 CGATCATGGC
14480343 ATAGTCAAGTGGAACACCCCAAAGGCAAGGAAATATA
1 ATAGTCAAGTGGAACACCCCAAAGGCAAGGAAATATA
14480380 ATAGTCAAGCTGGAACACCCCAAAGGCAAGGAAATATA
1 ATAGTCAAG-TGGAACACCCCAAAGGCAAGGAAATATA
14480418 GGAAATCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 9 0.24
38 28 0.76
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (37 bp):
ATAGTCAAGTGGAACACCCCAAAGGCAAGGAAATATA
Found at i:14487747 original size:39 final size:39
Alignment explanation
Indices: 14487703--14487939 Score: 420
Period size: 39 Copynumber: 6.1 Consensus size: 39
14487693 ATTATATTAT
* *
14487703 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
14487742 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
14487781 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
14487820 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
14487859 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
14487898 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
14487937 CAG
1 CAG
14487940 TGTCTTGCAT
Statistics
Matches: 189, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 189 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:14503937 original size:3 final size:3
Alignment explanation
Indices: 14503931--14503956 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14503921 CTAAGAAGAT
14503931 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
14503957 GATGATGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14508957 original size:3 final size:3
Alignment explanation
Indices: 14508951--14509103 Score: 93
Period size: 3 Copynumber: 52.0 Consensus size: 3
14508941 AAAATACAAC
* * * *
14508951 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
14508994 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
14509038 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14509083 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
14509104 CTATTAAGTT
Statistics
Matches: 114, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
2 11 0.10
3 98 0.86
4 5 0.04
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14508957 original size:22 final size:22
Alignment explanation
Indices: 14508906--14508966 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
14508896 ATAAGTAAAT
* *
14508906 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
14508927 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
14508949 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
14508967 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:14509211 original size:16 final size:16
Alignment explanation
Indices: 14509192--14509223 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14509182 TTATAATAAT
14509192 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
14509208 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
14509224 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:14509357 original size:16 final size:15
Alignment explanation
Indices: 14509328--14509370 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
14509318 TATACGTATG
*
14509328 AAAAATAATGATAGT
1 AAAAATAATAATAGT
14509343 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
14509359 AATAATAATAAT
1 AAAAATAATAAT
14509371 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:14509600 original size:3 final size:3
Alignment explanation
Indices: 14509586--14509627 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
14509576 AAATATACAC
14509586 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14509628 TAGAAATACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14509638 original size:136 final size:136
Alignment explanation
Indices: 14509468--14509763 Score: 592
Period size: 136 Copynumber: 2.2 Consensus size: 136
14509458 CTACCATATT
14509468 ATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTTAAAAAA
1 ATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTTAAAAAA
14509533 CAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACACTAATATATAATA
66 CAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACACTAATATATAATA
14509598 ATAATA
131 ATAATA
14509604 ATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTTAAAAAA
1 ATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTTAAAAAA
14509669 CAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACACTAATATATAATA
66 CAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACACTAATATATAATA
14509734 ATAATA
131 ATAATA
14509740 ATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATAATA
14509764 ATAATAATAA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 160 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (136 bp):
ATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTTAAAAAA
CAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACACTAATATATAATA
ATAATA
Found at i:14509736 original size:3 final size:3
Alignment explanation
Indices: 14509722--14509788 Score: 125
Period size: 3 Copynumber: 22.0 Consensus size: 3
14509712 AAATATACAC
14509722 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14509768 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
14509789 AATGCAGAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14510308 original size:23 final size:21
Alignment explanation
Indices: 14510257--14510313 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
14510247 TAGAAAAAAG
* * *
14510257 AAAAATCCCCTCTTTAATCTC
1 AAAAATCTCTTCTTGAATCTC
14510278 AAAAATCTCTTCTTGAATCTC
1 AAAAATCTCTTCTTGAATCTC
14510299 AAAAAAATCTCTTCT
1 --AAAAATCTCTTCT
14510314 CTCCAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 18 0.58
23 13 0.42
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATCTCTTCTTGAATCTC
Found at i:14512231 original size:2 final size:2
Alignment explanation
Indices: 14512226--14512251 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14512216 AAAAAAAAAA
14512226 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14512252 TATGAAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14516124 original size:2 final size:2
Alignment explanation
Indices: 14516117--14516143 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14516107 GCTTGCTGAT
14516117 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
14516144 GAACTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14523636 original size:35 final size:35
Alignment explanation
Indices: 14523595--14523666 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
14523585 CTTAGTACCA
*
14523595 TTGTTCAACCAGATATGTCAATAAATTACCATTCT
1 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
14523630 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
1 TTGTTCAACCAAATATGTCAATAAATTACCATTCT
14523665 TT
1 TT
14523667 CGATCTCCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (35 bp):
TTGTTCAACCAAATATGTCAATAAATTACCATTCT
Found at i:14528967 original size:29 final size:30
Alignment explanation
Indices: 14528920--14528987 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
14528910 TGGCCCAAGA
* *
14528920 GTAAATACTCAAAATTTGAAGGATTAA-AGC
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGC
* *
14528950 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGC
14528980 GTAAATAT
1 GTAAATAT
14528988 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGC
Found at i:14529280 original size:2 final size:2
Alignment explanation
Indices: 14529273--14529299 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14529263 TTTTATTTAT
14529273 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
14529300 GTAAGGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14531122 original size:46 final size:46
Alignment explanation
Indices: 14531072--14531349 Score: 362
Period size: 46 Copynumber: 6.0 Consensus size: 46
14531062 GTGTGCTCTC
**
14531072 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
** * *
14531118 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
14531164 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
14531210 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
14531256 TGATATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * * *
14531302 TGACA-GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
14531348 TG
1 TG
14531350 TCAAAGATAA
Statistics
Matches: 208, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 2 0.01
46 206 0.99
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:14531229 original size:92 final size:92
Alignment explanation
Indices: 14531072--14531334 Score: 402
Period size: 92 Copynumber: 2.9 Consensus size: 92
14531062 GTGTGCTCTC
** * * *
14531072 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-TGATATGAAATGTGTAAG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CATGACAGGAAATGAGTAAG
14531136 ACCATGGTTGAAAGATACCACGGCAACG
65 ACCATGGTTGAAAGATACCACGGCAACG
* *
14531164 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
*
14531229 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCACGGCAACG
* *
14531256 TGATATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
* *
14531321 CTATAGTTGAAAGA
66 CCATGGTTGAAAGA
14531335 CACTATGGCA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 1 0.01
92 155 0.99
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCACGGCAACG
Found at i:14531651 original size:16 final size:17
Alignment explanation
Indices: 14531630--14531662 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14531620 ATGATGGAGC
14531630 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
14531646 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
14531663 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:14532289 original size:27 final size:27
Alignment explanation
Indices: 14532255--14532310 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
14532245 CTATTTCTTC
* * *
14532255 AATCTAGTTAATATTTAAAAATTTACT
1 AATCTAGTTAACATCTAAAAATTCACT
14532282 AATCTAGTTAACATCTAAAAATTCACT
1 AATCTAGTTAACATCTAAAAATTCACT
14532309 AA
1 AA
14532311 CTTTCTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (27 bp):
AATCTAGTTAACATCTAAAAATTCACT
Found at i:14532533 original size:16 final size:17
Alignment explanation
Indices: 14532512--14532543 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14532502 TATTTACTTT
14532512 TAATTATTA-TATTATA
1 TAATTATTATTATTATA
14532528 TAATTATTATTATTAT
1 TAATTATTATTATTAT
14532544 TATTTACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTATTATTATTATA
Found at i:14533175 original size:31 final size:32
Alignment explanation
Indices: 14533131--14533210 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 32
14533121 TACCTAAACT
*
14533131 TTTTTATCTAATTTGGTATCC-AAACTTGACAC
1 TTTTT-TCTAATTTGGTATCCTAAACTCGACAC
*
14533163 TTTTTTCTAATTTAGTA-CCTAAACTCGACAC
1 TTTTTTCTAATTTGGTATCCTAAACTCGACAC
* *
14533194 TTTTCT-TAAGTTGGTAT
1 TTTTTTCTAATTTGGTAT
14533211 TTAATCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 10 0.24
31 26 0.63
32 5 0.12
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.46
Consensus pattern (32 bp):
TTTTTTCTAATTTGGTATCCTAAACTCGACAC
Found at i:14544331 original size:13 final size:13
Alignment explanation
Indices: 14544313--14544337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14544303 ATAGAACTAA
14544313 AAAAATAAAAAAT
1 AAAAATAAAAAAT
14544326 AAAAATAAAAAA
1 AAAAATAAAAAA
14544338 CCTATTCGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:14544707 original size:22 final size:23
Alignment explanation
Indices: 14544660--14544707 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
14544650 CTTCAGAGTG
* *
14544660 AAAATATTTATATAAAAATTTTT
1 AAAATATTTATATAAAAATCTAT
14544683 AAAA-ATTTAATATAAAAA-CTAT
1 AAAATATTT-ATATAAAAATCTAT
14544705 AAA
1 AAA
14544708 TGATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATTTATATAAAAATCTAT
Found at i:14544833 original size:44 final size:44
Alignment explanation
Indices: 14544773--14544858 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
14544763 GTACATAATA
14544773 TTTTTAGATTTATTGATAATTTTACACTGAATTGAGATTCAATT
1 TTTTTAGATTTATTGATAATTTTACACTGAATTGAGATTCAATT
14544817 TTTTTAGATTTATTGATAATTTTACACTGAATTGAGATTCAA
1 TTTTTAGATTTATTGATAATTTTACACTGAATTGAGATTCAA
14544859 GTGATAGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (44 bp):
TTTTTAGATTTATTGATAATTTTACACTGAATTGAGATTCAATT
Found at i:14546875 original size:36 final size:37
Alignment explanation
Indices: 14546833--14546930 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 37
14546823 TTATTTAGAT
14546833 AATTTATATTTTTAAAATTTTAAATTAATAAAAA-TA
1 AATTTATATTTTTAAAATTTTAAATTAATAAAAATTA
*** * *
14546869 AATTTATA-TTTTAGTCCTTTAAAATTAATAAAAATTT
1 AATTTATATTTTTA-AAATTTTAAATTAATAAAAATTA
14546906 AATTTA-ATTTTTTAAAATTTATAAA
1 AATTTATA-TTTTTAAAATTT-TAAA
14546931 AATAAATTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
35 5 0.10
36 25 0.52
37 10 0.21
38 8 0.17
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (37 bp):
AATTTATATTTTTAAAATTTTAAATTAATAAAAATTA
Found at i:14546938 original size:24 final size:23
Alignment explanation
Indices: 14546911--14546965 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
14546901 AATTTAATTT
*
14546911 AATTTTTTAAAATTTATAAAAATA
1 AATTTTTTAAAA-TAATAAAAATA
* *
14546935 AATTCTATTAAAATAATAAAATTA
1 AATT-TTTTAAAATAATAAAAATA
*
14546959 TATTTTT
1 AATTTTT
14546966 ACTATTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 16 0.64
25 7 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTTTTAAAATAATAAAAATA
Found at i:14547155 original size:15 final size:16
Alignment explanation
Indices: 14547129--14547158 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14547119 ACTTTTTTAT
14547129 TTTATAATAAATAAAA
1 TTTATAATAAATAAAA
14547145 TTTAT-ATAAATAAA
1 TTTATAATAAATAAA
14547159 TTAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATAATAAATAAAA
Found at i:14547182 original size:23 final size:23
Alignment explanation
Indices: 14547138--14547200 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
14547128 TTTTATAATA
* *
14547138 AATAAAATTT-ATATAAATAAATT
1 AATAAAATTTCAAATATATAAA-T
14547161 AATAAAATTTCAAATATA-AAAT
1 AATAAAATTTCAAATATATAAAT
* *
14547183 AGTAAAATATACAAATAT
1 AATAAAAT-TTCAAATAT
14547201 GAGGCACACG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.24
23 21 0.62
24 5 0.15
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAAAATTTCAAATATATAAAT
Found at i:14547188 original size:22 final size:23
Alignment explanation
Indices: 14547154--14547200 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14547144 ATTTATATAA
* *
14547154 ATAAATTAATAAAAT-TTCAAAT
1 ATAAAATAATAAAATATACAAAT
*
14547176 ATAAAATAGTAAAATATACAAAT
1 ATAAAATAATAAAATATACAAAT
14547199 AT
1 AT
14547201 GAGGCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAAATAATAAAATATACAAAT
Found at i:14548688 original size:18 final size:19
Alignment explanation
Indices: 14548660--14548697 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
14548650 ATTTATTTTT
14548660 AATTAATTAATTAAATTTA
1 AATTAATTAATTAAATTTA
*
14548679 AATTAA-TAATTTAATTTA
1 AATTAATTAATTAAATTTA
14548697 A
1 A
14548698 CAAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTAATTAATTAAATTTA
Found at i:14557346 original size:24 final size:24
Alignment explanation
Indices: 14557288--14557346 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
14557278 ATCCCAAATT
**
14557288 AAAGAAAAAAAAAGATAAAGAAAA
1 AAAGAAAATCAAAGATAAAGAAAA
14557312 AAAGAAAATCAAAGATAAAGAAAA
1 AAAGAAAATCAAAGATAAAGAAAA
*
14557336 AAAGAATATCA
1 AAAGAAAATCA
14557347 TCCAAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.08
Consensus pattern (24 bp):
AAAGAAAATCAAAGATAAAGAAAA
Found at i:14557679 original size:9 final size:9
Alignment explanation
Indices: 14557665--14557704 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
14557655 TCTTCATATC
14557665 TTTATTATT
1 TTTATTATT
14557674 TTTATTATT
1 TTTATTATT
*
14557683 TTTATCATTT
1 TTTATTA-TT
*
14557693 TTTATTCTT
1 TTTATTATT
14557702 TTT
1 TTT
14557705 GGGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTATTATT
Found at i:14558951 original size:18 final size:18
Alignment explanation
Indices: 14558911--14558953 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14558901 AGAATTTTAT
*
14558911 ATTTTTTAATTTTTAAAA
1 ATTTATTAATTTTTAAAA
*
14558929 TTTTATTAA-TTTTAAATA
1 ATTTATTAATTTTTAAA-A
14558947 ATTTATT
1 ATTTATT
14558954 TGTTTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTATTAATTTTTAAAA
Found at i:14560985 original size:123 final size:120
Alignment explanation
Indices: 14560838--14561073 Score: 280
Period size: 123 Copynumber: 1.9 Consensus size: 120
14560828 AACCAAACCA
* * *
14560838 AACCACAATTATCAGTTTATGATATTTTAATTTTTATTCTATAC-GATTTCAATTTCAAAAGTAA
1 AACCACAATTATCAATTTATGATATTTCAATTTTTATTCTATACTG-TTACAATTTC--AAG-AA
* *
14560902 AAAATT-GAATAAAATGATTTAATTTATTTTTTATCTAAAAATCAAATTAAATTAAACTG
62 AAAATTAGAATAAAATAATTTAA-TTATTTTTTATCCAAAAATCAAATTAAATTAAACTG
* * **
14560961 AACCATAATTATCAATTTCA-GATATTTCGATTTTTATTCTATACTGTTACAATTTCAAGAATGA
1 AACCACAATTATCAATTT-ATGATATTTCAATTTTTATTCTATACTGTTACAATTTCAAGAAAAA
* * *
14561025 TTTACGAATAAAATAATTTAATTATTTTTTATCCAAAATTTAAATTAAA
65 ATTA-GAATAAAATAATTTAATTATTTTTTATCCAAAAATCAAATTAAA
14561074 CCAAACCGAG
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
120 5 0.05
121 28 0.29
122 15 0.15
123 47 0.48
124 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.43
Consensus pattern (120 bp):
AACCACAATTATCAATTTATGATATTTCAATTTTTATTCTATACTGTTACAATTTCAAGAAAAAA
TTAGAATAAAATAATTTAATTATTTTTTATCCAAAAATCAAATTAAATTAAACTG
Found at i:14570995 original size:53 final size:53
Alignment explanation
Indices: 14570854--14571004 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
14570844 ATAAGTGCGC
* * **
14570854 CCGTTTAAGACCATAGCTGGGTTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGTATAATGTGATAATGTGACT
* *
14570907 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGATATGGCATCGGTATAATGTGATAATGTGACT
*
14570960 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGATATGGCATCGGTAT-A-ATGTGA
14571005 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGATATGGCATCGGTATAATGTGATAATGTGACT
Found at i:14591259 original size:22 final size:22
Alignment explanation
Indices: 14591229--14591272 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14591219 TTTAAAAGAT
*
14591229 TAATAATAAAATTAACTAAAAA
1 TAATAATAAAATTAACAAAAAA
*
14591251 TAATCATAAAATTAACAAAAAA
1 TAATAATAAAATTAACAAAAAA
14591273 AATTGTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (22 bp):
TAATAATAAAATTAACAAAAAA
Found at i:14592810 original size:26 final size:27
Alignment explanation
Indices: 14592764--14592817 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
14592754 ATTAATATAT
*
14592764 TAATAAATAAATTATTGAAGTAA-ATA
1 TAATAAATAAATTATTAAAGTAAGATA
*
14592790 TAATAATTATAATT-TTAAAGTAAGATA
1 TAATAAATA-AATTATTAAAGTAAGATA
14592817 T
1 T
14592818 CTACTGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (27 bp):
TAATAAATAAATTATTAAAGTAAGATA
Found at i:14595610 original size:15 final size:13
Alignment explanation
Indices: 14595582--14595627 Score: 65
Period size: 15 Copynumber: 3.3 Consensus size: 13
14595572 TTATTAGATT
14595582 ATATTATATAAAAA
1 ATATT-TATAAAAA
14595596 ATATTTACGTAAAAA
1 ATATTTA--TAAAAA
14595611 ATATTTATAAAAA
1 ATATTTATAAAAA
14595624 ATAT
1 ATAT
14595628 AAAAATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.40
14 5 0.17
15 13 0.43
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (13 bp):
ATATTTATAAAAA
Found at i:14604193 original size:23 final size:22
Alignment explanation
Indices: 14604121--14604208 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
14604111 TACCTGATCA
*
14604121 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
14604142 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
14604163 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
14604184 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
14604207 GA
1 GA
14604209 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.17
21 27 0.50
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:14604205 original size:44 final size:41
Alignment explanation
Indices: 14604126--14604207 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
14604116 GATCAGAATA
* * *
14604126 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
14604167 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
14604208 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:14604468 original size:28 final size:26
Alignment explanation
Indices: 14604399--14604516 Score: 131
Period size: 23 Copynumber: 4.6 Consensus size: 26
14604389 AAATGTCCAA
14604399 CCAAAACACACCAG---TATAATCCT
1 CCAAAACACACCAGATATATAATCCT
14604422 CCAAAACACACCAG---TATAATCCT
1 CCAAAACACACCAGATATATAATCCT
14604445 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG-AT-ATATAATCCT
* *
14604473 CCCAAACACACTAGAATAATATAATCCAT
1 CCAAAACACACCAG-AT-ATATAATCC-T
14604502 CCAAAACACACCAGA
1 CCAAAACACACCAGA
14604517 ATAGCACAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
23 37 0.45
28 33 0.40
29 13 0.16
ACGTcount: A:0.46, C:0.33, G:0.04, T:0.17
Consensus pattern (26 bp):
CCAAAACACACCAGATATATAATCCT
Found at i:14604481 original size:51 final size:53
Alignment explanation
Indices: 14604413--14604515 Score: 138
Period size: 51 Copynumber: 1.9 Consensus size: 53
14604403 AACACACCAG
14604413 TATAATCCTCCAAAACACACCAG-TATAATCC-TCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGATATAATCCATCCAAAACACACCAGTATCA
* *
14604464 TATAATCCTCCCAAACACACTAGAATAATATAATCCATCCAAAACACACCAG
1 TATAATCCTCCAAAACACACCAG----ATATAATCCATCCAAAACACACCAG
14604516 AATAGCACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
51 21 0.48
56 8 0.18
57 15 0.34
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.19
Consensus pattern (53 bp):
TATAATCCTCCAAAACACACCAGATATAATCCATCCAAAACACACCAGTATCA
Found at i:14608873 original size:25 final size:24
Alignment explanation
Indices: 14608834--14608887 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 24
14608824 TTTGAAATTG
*
14608834 ATAAAAAATATAACTCAGTACAAA
1 ATAAAAAATACAACTCAGTACAAA
14608858 ATAAAACAATACAACTCAGTACAAA
1 ATAAAA-AATACAACTCAGTACAAA
14608883 ATAAA
1 ATAAA
14608888 CTTTGAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.63, C:0.15, G:0.04, T:0.19
Consensus pattern (24 bp):
ATAAAAAATACAACTCAGTACAAA
Found at i:14610674 original size:25 final size:25
Alignment explanation
Indices: 14610590--14610697 Score: 86
Period size: 22 Copynumber: 4.6 Consensus size: 25
14610580 TTATTATGCA
* *
14610590 CTAATGAA-CAGAGAGCACTAAAGTA
1 CTAAT-AATCAGAGAGCACTAACGTG
* *
14610615 CT-AT-A-CAGAGAGCACGAATGTG
1 CTAATAATCAGAGAGCACTAACGTG
* *
14610637 CT-A-AA-CGGAGAGCACTAATGTG
1 CTAATAATCAGAGAGCACTAACGTG
* *
14610659 TTAATAATTAGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTAACGTG
14610684 CTAATAATCAGAGA
1 CTAATAATCAGAGA
14610698 ACGCGCTAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 35 0.51
23 1 0.01
24 4 0.06
25 28 0.41
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAACGTG
Found at i:14611853 original size:19 final size:18
Alignment explanation
Indices: 14611829--14611873 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
14611819 ATGTTTTATT
*
14611829 TAATAATGTATTATAATAA
1 TAATAATGT-TAATAATAA
14611848 TAATAAT-TTAATAATAA
1 TAATAATGTTAATAATAA
14611865 -AATAATGTT
1 TAATAATGTT
14611874 TACTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 1 0.04
19 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAATAATGTTAATAATAA
Found at i:14619932 original size:2 final size:2
Alignment explanation
Indices: 14619925--14619954 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14619915 GAGACTAGTC
14619925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14619955 GTCATGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14627180 original size:22 final size:22
Alignment explanation
Indices: 14627141--14627184 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
14627131 GTTTATAAAT
14627141 TTTTTTATTTATCCTTTTTTTAG
1 TTTTTTATTTAT-CTTTTTTTAG
14627164 TTTTTTATTTGAT-TTTTTTTA
1 TTTTTTATTT-ATCTTTTTTTA
14627185 AATTCATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 10 0.50
24 2 0.10
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTTTATTTATCTTTTTTTAG
Found at i:14627444 original size:46 final size:46
Alignment explanation
Indices: 14627377--14627470 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
14627367 AGGGGGTTAC
14627377 ATAGTCTCATTAGGGACAAATATGGATGAATATATTTGTAGTATAT
1 ATAGTCTCATTAGGGACAAATATGGATGAATATATTTGTAGTATAT
14627423 ATAGTCTCATTAGGGACAAATATGGATGAATATATTTGTAGTATAT
1 ATAGTCTCATTAGGGACAAATATGGATGAATATATTTGTAGTATAT
14627469 AT
1 AT
14627471 TTTGGAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (46 bp):
ATAGTCTCATTAGGGACAAATATGGATGAATATATTTGTAGTATAT
Found at i:14633664 original size:12 final size:11
Alignment explanation
Indices: 14633653--14633716 Score: 62
Period size: 12 Copynumber: 5.9 Consensus size: 11
14633643 TAAGCATTTA
14633653 AATAATTTTTT
1 AATAATTTTTT
*
14633664 AA-AATTTTTA
1 AATAATTTTTT
*
14633674 AAAAATATTTTT
1 AATAAT-TTTTT
*
14633686 TATAATTTATTT
1 AATAATTT-TTT
14633698 AATAA--TTTT
1 AATAATTTTTT
14633707 AATAATTTTT
1 AATAATTTTT
14633717 AATTTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 8 0.19
10 10 0.23
11 10 0.23
12 15 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATAATTTTTT
Found at i:14633673 original size:21 final size:21
Alignment explanation
Indices: 14633649--14633718 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
14633639 CAAATAAGCA
14633649 TTTAAATAATTTTTTAAAATT
1 TTTAAATAATTTTTTAAAATT
* *
14633670 TTTAAAAAATATTTTTTATAATT
1 TTT-AAATA-ATTTTTTAAAATT
*
14633693 TATTTAATAA--TTTTAATAATT
1 T-TTAAATAATTTTTTAA-AATT
14633714 TTTAA
1 TTTAA
14633719 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 8 0.21
21 8 0.21
22 5 0.13
23 16 0.41
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAATAATTTTTTAAAATT
Found at i:14638407 original size:3 final size:3
Alignment explanation
Indices: 14638399--14638425 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14638389 ACATAAAAAG
14638399 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
14638426 GGCGTGCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14639902 original size:14 final size:14
Alignment explanation
Indices: 14639883--14639909 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14639873 TAAATAAAAT
14639883 TTTAAAAACTAAAG
1 TTTAAAAACTAAAG
14639897 TTTAAAAACTAAA
1 TTTAAAAACTAAA
14639910 TATTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (14 bp):
TTTAAAAACTAAAG
Found at i:14640269 original size:19 final size:19
Alignment explanation
Indices: 14640245--14640281 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14640235 GTAATTTTTT
14640245 AAAATTTTAAAAAAATATA
1 AAAATTTTAAAAAAATATA
14640264 AAAATTTTAAAAAAATAT
1 AAAATTTTAAAAAAATAT
14640282 TTAAAAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTTTAAAAAAATATA
Found at i:14640295 original size:31 final size:32
Alignment explanation
Indices: 14640260--14640319 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
14640250 TTTAAAAAAA
*
14640260 TATAAAAATTTTAAAAAA-ATATTTAAAAGGT
1 TATAAAAATTCTAAAAAATATATTTAAAAGGT
*
14640291 TATAAAAATTCTAAAAAATATTTTTAAAA
1 TATAAAAATTCTAAAAAATATATTTAAAA
14640320 CTTTTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (32 bp):
TATAAAAATTCTAAAAAATATATTTAAAAGGT
Found at i:14643541 original size:20 final size:20
Alignment explanation
Indices: 14643504--14643542 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14643494 AATTTTTTTT
*
14643504 TTTTGAGAAATTTTGTTTAA
1 TTTTGAGAAATTTAGTTTAA
14643524 TTTTGA-AAATTTGAGTTTA
1 TTTTGAGAAATTT-AGTTTA
14643543 GAATTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTTGAGAAATTTAGTTTAA
Found at i:14645912 original size:3 final size:3
Alignment explanation
Indices: 14645904--14645937 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
14645894 CATATCTTTA
*
14645904 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14645938 TATAGTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14646959 original size:61 final size:62
Alignment explanation
Indices: 14646860--14647005 Score: 240
Period size: 62 Copynumber: 2.4 Consensus size: 62
14646850 GATAAAATCT
* *
14646860 CTAGAAAGCTTTAAATGGTTTTAAGATCAGTTGAATTGTGAATACT-GGGACAATTAGGGTCC
1 CTAGAAAGCTCT-AATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGGGTCC
* *
14646922 CTAGAAAGCTCTAATGGTTTTAAGATTAGTTGGATTGTGAATACTAGGAACAATTAGGGTCC
1 CTAGAAAGCTCTAATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGGGTCC
14646984 CTAGAAAGCTCTAATGGTTTTA
1 CTAGAAAGCTCTAATGGTTTTA
14647006 TTTATAATTG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
61 31 0.39
62 48 0.61
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (62 bp):
CTAGAAAGCTCTAATGGTTTTAAGATCAGTTGAATTGTGAATACTAGGAACAATTAGGGTCC
Found at i:14655727 original size:29 final size:29
Alignment explanation
Indices: 14655685--14655740 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
14655675 AGTATATGGC
14655685 TTTATAAATTTCGGTACAATTTCACCATT
1 TTTATAAATTTCGGTACAATTTCACCATT
*
14655714 TTTATAAATTTCGGTGCAATTTCACCA
1 TTTATAAATTTCGGTACAATTTCACCA
14655741 CTTAGAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (29 bp):
TTTATAAATTTCGGTACAATTTCACCATT
Found at i:14663335 original size:132 final size:131
Alignment explanation
Indices: 14663181--14663563 Score: 434
Period size: 131 Copynumber: 2.9 Consensus size: 131
14663171 AAACATGAGG
* **
14663181 GAAATTCTAAAGGGGATGTTCGATTATTTTGAACCAATA-G-GAAATTGCAACCCAGCACGATAG
1 GAAATTC-AAAAGGGACCTTCGATTATTTTGAA-CAA-ACGAGAAATTGCAACCCAGCACGATAG
* **
14663244 GGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTT-TGGAGAGTTTTTAGAAA-A
63 GGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTAAAG-GA-TTTTTA-AAAGA
14663307 CATAAGT
125 CATAAGT
*
14663314 GTAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGC
1 GAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGC
* * * * * *
14663379 ACTATTCCGCGAATTGTCGAATATCGAACATCACCTTCGTTTAAAGGATTTTTAAAAGACATAGG
66 ACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTAAAGGATTTTTAAAAGACATAAG
14663444 T
131 T
* * * * * **
14663445 GAAATTCTAAAGGGACCCTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACTTTAGGGC
1 GAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGC
* * * * *
14663510 ACGATTCCTCGAATTGCCAAATATC-AGATATCGCCTTCGTTTTAAAGAATTTTT
66 ACGATTCCCCGAATTGCCAAACATCGA-ACATCACCTTCG-TTTAAAGGATTTTT
14663564 TTTAAAAAAA
Statistics
Matches: 216, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
130 5 0.02
131 105 0.49
132 99 0.46
133 7 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (131 bp):
GAAATTCAAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGC
ACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTAAAGGATTTTTAAAAGACATAAG
T
Found at i:14669171 original size:30 final size:31
Alignment explanation
Indices: 14669114--14669173 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
14669104 TTAACAGGCA
*
14669114 AATGTCTCTAAAATAATAAAAAAAATTAACG
1 AATGCCTCTAAAATAATAAAAAAAATTAACG
*
14669145 AATGCCTCTAAAATAAT-AAGAAAATTAAC
1 AATGCCTCTAAAATAATAAAAAAAATTAAC
14669174 AATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.25
Consensus pattern (31 bp):
AATGCCTCTAAAATAATAAAAAAAATTAACG
Found at i:14682291 original size:23 final size:23
Alignment explanation
Indices: 14682256--14682315 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
14682246 TTTGGTTGAG
* * *
14682256 AAAAAAATCAAAAGGTTTGAAATAC
1 AAAAAAA--AAAAGGTATCAAAAAC
*
14682281 AAAAAAAAAAATGTATCAAAAAC
1 AAAAAAAAAAAGGTATCAAAAAC
*
14682304 AAAAAGAAAAAG
1 AAAAAAAAAAAG
14682316 AAAATTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 22 0.76
25 7 0.24
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (23 bp):
AAAAAAAAAAAGGTATCAAAAAC
Found at i:14683260 original size:3 final size:3
Alignment explanation
Indices: 14683243--14683292 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
14683233 CTCACTTTAT
* *
14683243 TTA TTA TCA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14683291 TT
1 TT
14683293 GTTACTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:14684016 original size:27 final size:25
Alignment explanation
Indices: 14683986--14684055 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
14683976 TTCATTTAAC
14683986 ATATTATTTATTTGAAATTTGCCTTAT
1 ATATTATTTATTTGAAA-TTG-CTTAT
** *
14684013 ATATTATTTTATTCCAAATTGTTTAT
1 ATATTA-TTTATTTGAAATTGCTTAT
*
14684039 ATTTTATTTATGTTGAA
1 ATATTATTTAT-TTGAA
14684056 TTTTTTTCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.14
26 12 0.34
27 9 0.26
28 9 0.26
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (25 bp):
ATATTATTTATTTGAAATTGCTTAT
Found at i:14687130 original size:11 final size:10
Alignment explanation
Indices: 14687114--14687139 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14687104 ACATTGTGTG
14687114 TTTTTTTTTA
1 TTTTTTTTTA
14687124 TTTTTTTTTA
1 TTTTTTTTTA
14687134 TTTTTT
1 TTTTTT
14687140 CACAAGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:14694506 original size:28 final size:29
Alignment explanation
Indices: 14694468--14694537 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
14694458 TTTAAATACC
14694468 TTTTTATAATTTTTTTACAAAAA-A-AATA
1 TTTTTATAATTTTTTTA-AAAAATACAATA
* *
14694496 TTTTTA-AAATTTTTTAAAAAATACAATT
1 TTTTTATAATTTTTTTAAAAAATACAATA
14694524 TTTTTATAATTTTT
1 TTTTTATAATTTTT
14694538 ACAATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.14
27 10 0.28
28 15 0.42
29 6 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTTATAATTTTTTTAAAAAATACAATA
Found at i:14694538 original size:9 final size:9
Alignment explanation
Indices: 14694524--14694579 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
14694514 AAATACAATT
14694524 TTTTTATAA
1 TTTTTATAA
*
14694533 TTTTTACAA
1 TTTTTATAA
* *
14694542 TTTTTTTCA
1 TTTTTATAA
14694551 TTTTTAATAA
1 TTTTT-ATAA
*
14694561 -TATTATTAA
1 TTTTTA-TAA
14694570 TTTTTATAA
1 TTTTTATAA
14694579 T
1 T
14694580 CTTATTGTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
8 1 0.03
9 29 0.81
10 6 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:14694593 original size:19 final size:19
Alignment explanation
Indices: 14694550--14694585 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14694540 AATTTTTTTC
14694550 ATTTTTAATAATATTATTA
1 ATTTTTAATAATATTATTA
*
14694569 ATTTTT-ATAATCTTATT
1 ATTTTTAATAATATTATT
14694586 GTATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTAATAATATTATTA
Found at i:14694673 original size:22 final size:22
Alignment explanation
Indices: 14694630--14694676 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
14694620 TTTTTCTAGA
*
14694630 TTTTATATATATATTATGAATT
1 TTTTATATATATATTATCAATT
*
14694652 TTTTATATATTTATT-TCCAATT
1 TTTTATATATATATTAT-CAATT
14694674 TTT
1 TTT
14694677 ATTTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTATATATATATTATCAATT
Done.