Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 395 of 444
Found at i:114633699 original size:15 final size:15
Alignment explanation
Indices: 114633676--114633710 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
114633666 AGCCCTTTCG
*
114633676 GTTGATTCCAACAAT
1 GTTGTTTCCAACAAT
114633691 GTTGTTTCCAACAAT
1 GTTGTTTCCAACAAT
114633706 GTTGT
1 GTTGT
114633711 CTTATCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (15 bp):
GTTGTTTCCAACAAT
Found at i:114635867 original size:15 final size:15
Alignment explanation
Indices: 114635847--114635878 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
114635837 CATTTCACTA
*
114635847 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
114635862 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
114635877 TT
1 TT
114635879 TGCATGTATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:114637215 original size:43 final size:44
Alignment explanation
Indices: 114637166--114637336 Score: 185
Period size: 43 Copynumber: 4.0 Consensus size: 44
114637156 GATTACCTAG
*
114637166 ATGTGATTATATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
114637210 -TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAT
1 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * *
114637254 ATG-G-TT-TCGTGTAAGACCATGTCTAGGACATTGGCATCG-AT
1 ATGTGATTAT-ATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
114637295 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATTGTA
114637337 CGAGCTATAT
Statistics
Matches: 107, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
41 5 0.05
42 9 0.08
43 86 0.80
44 4 0.04
45 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (44 bp):
ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:114638764 original size:13 final size:13
Alignment explanation
Indices: 114638746--114638808 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
114638736 AGTTTGGCAA
114638746 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
114638759 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
114638772 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
114638785 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
114638798 TGCTTTTGAAA
1 TGCTTTTGAAA
114638809 TTTTTGGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:114638775 original size:26 final size:26
Alignment explanation
Indices: 114638746--114638808 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
114638736 AGTTTGGCAA
114638746 TGCTTTTGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
* *
114638772 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
114638798 TGCTTTTGAAA
1 TGCTTTTGAAA
114638809 TTTTTGGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.37
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTTTTGAGAAG
Found at i:114639802 original size:48 final size:48
Alignment explanation
Indices: 114639729--114639878 Score: 192
Period size: 48 Copynumber: 3.1 Consensus size: 48
114639719 CTGGGTTATC
** * *
114639729 GGCATCAATATGTGATCTTATGTAAGACCATGTCTGGGATATAGCATT
1 GGCATCAATATACGATCCTATGTAAGACCATGTCTGGGATATGGCATT
* * *
114639777 GGCATCGATCTACGATCCTATGTAAGACCATGTCTGGGACATGGCATT
1 GGCATCAATATACGATCCTATGTAAGACCATGTCTGGGATATGGCATT
** * * *
114639825 GGCATCAATATGTGATCCCATGTAAGACCATATCCGGGATATGGCATT
1 GGCATCAATATACGATCCTATGTAAGACCATGTCTGGGATATGGCATT
114639873 GGCATC
1 GGCATC
114639879 CTATCATGTG
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (48 bp):
GGCATCAATATACGATCCTATGTAAGACCATGTCTGGGATATGGCATT
Found at i:114647669 original size:3 final size:3
Alignment explanation
Indices: 114647661--114647700 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
114647651 GAAATAATTG
114647661 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
114647701 ATTAAAATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:114647773 original size:12 final size:12
Alignment explanation
Indices: 114647756--114647780 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114647746 ACAAACAAGT
114647756 AAAATTGAAAAG
1 AAAATTGAAAAG
114647768 AAAATTGAAAAG
1 AAAATTGAAAAG
114647780 A
1 A
114647781 TCGGACACAA
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAAATTGAAAAG
Found at i:114657826 original size:39 final size:40
Alignment explanation
Indices: 114657688--114657793 Score: 203
Period size: 40 Copynumber: 2.6 Consensus size: 40
114657678 CGGATGATAT
*
114657688 ACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
114657728 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
114657768 ACCGGGCTAAGTCCCGAAGGCATTTG
1 ACCGGGCTAAGTCCCGAAGGCATTTG
114657794 AGCAAGTAGC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:114666003 original size:29 final size:29
Alignment explanation
Indices: 114665902--114665995 Score: 143
Period size: 29 Copynumber: 3.2 Consensus size: 29
114665892 GTGACGAGAT
114665902 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
114665931 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
114665960 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
114665989 CGGCACT
1 TGGCACT
114665996 GGGTGTGCGA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:114673614 original size:29 final size:29
Alignment explanation
Indices: 114673581--114673683 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
114673571 GTGACGAGAT
114673581 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
114673610 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
114673639 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
114673668 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
114673684 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:114676591 original size:39 final size:40
Alignment explanation
Indices: 114676533--114676640 Score: 157
Period size: 40 Copynumber: 2.7 Consensus size: 40
114676523 TATTCGGATG
*
114676533 ATAACCGGGCTAAGTCCCGAAGGCATTTG-GCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * *
114676572 A-ATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
114676612 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
114676641 AGCAAGTAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.02
39 25 0.42
40 33 0.55
41 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:114676654 original size:40 final size:39
Alignment explanation
Indices: 114676533--114676654 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 39
114676523 TATTCGGATG
*
114676533 ATAACCGGGCTAAGTCCCGAAGGCATTTGGCTAGT-GACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGGCAAGTAG-CT
* * *
114676572 A-ATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTA-CT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTG-GCAAG-TAGCT
114676612 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG-GCAAGTAGCT
114676652 ATA
1 ATA
114676655 TCTGGCTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
38 1 0.01
39 27 0.39
40 40 0.57
41 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGGCAAGTAGCT
Found at i:114676673 original size:39 final size:40
Alignment explanation
Indices: 114676533--114676673 Score: 130
Period size: 39 Copynumber: 3.6 Consensus size: 40
114676523 TATTCGGATG
* * *
114676533 ATAACCGGGCTAAGTCCCGAAGGCATTTG-GCTAGTGACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
* * *
114676572 A-ATTCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAA-ATCCCGAAGGCATTTGAGCAAGTTACT
*
114676612 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTA-CT
* * *
114676652 AT-ATCTGGCTAAATTCCGAAGG
1 ATAACCGGGCTAAATCCCGAAGG
114676674 TACTTGGTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
38 1 0.01
39 42 0.50
40 40 0.48
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
Found at i:114678070 original size:26 final size:26
Alignment explanation
Indices: 114678030--114678088 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
114678020 AGGTGTTACA
*
114678030 AAAATTTTGACGATTTTAACCCCGA-T
1 AAAATTTTAACGATTTT-ACCCCGAGT
*
114678056 AAAATTTTAATGATTTTACCCCGAGT
1 AAAATTTTAACGATTTTACCCCGAGT
114678082 AAAATTT
1 AAAATTT
114678089 CGAGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (26 bp):
AAAATTTTAACGATTTTACCCCGAGT
Found at i:114678359 original size:9 final size:10
Alignment explanation
Indices: 114678340--114678368 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
114678330 CATTTATATT
114678340 TTTCTATTCA
1 TTTCTATTCA
114678350 TTTC-ATTCA
1 TTTCTATTCA
114678359 TTTCTATTCA
1 TTTCTATTCA
114678369 AACAAGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:114688270 original size:6 final size:6
Alignment explanation
Indices: 114688259--114688287 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
114688249 TATTTAGAAT
114688259 TTTATA TTTATA TTTATA TTTATA TTTAT
1 TTTATA TTTATA TTTATA TTTATA TTTAT
114688288 TTTCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATA
Found at i:114691831 original size:39 final size:39
Alignment explanation
Indices: 114691777--114691854 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
114691767 TTGATAGACA
114691777 TAGGTTCCACACATTTCTATGTGCTAGCACTATGTCTGG
1 TAGGTTCCACACATTTCTATGTGCTAGCACTATGTCTGG
114691816 TAGGTTCCACACATTTCTATGTGCTAGCACTATGTCTGG
1 TAGGTTCCACACATTTCTATGTGCTAGCACTATGTCTGG
114691855 AAACTTGGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (39 bp):
TAGGTTCCACACATTTCTATGTGCTAGCACTATGTCTGG
Found at i:114695594 original size:27 final size:26
Alignment explanation
Indices: 114695564--114695665 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 26
114695554 TACAGAAATG
*
114695564 CCCTCGACTTGTAAAATTACTGTTTTA
1 CCCTCGA-TTTTAAAATTACTGTTTTA
* **
114695591 CCCTTGA-TTTACAGAATTACCATTTTA
1 CCCTCGATTTTA-A-AATTACTGTTTTA
*
114695618 CCCTCGATTTATAGAATTA-TCGTTTTA
1 CCCTCGATTT-TAAAATTACT-GTTTTA
*
114695645 CCCTCGATTTCCAAAATTACT
1 CCCTCGATTT-TAAAATTACT
114695666 AAAATATCCT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 49 0.84
28 3 0.05
29 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (26 bp):
CCCTCGATTTTAAAATTACTGTTTTA
Found at i:114695791 original size:27 final size:27
Alignment explanation
Indices: 114695657--114695807 Score: 167
Period size: 27 Copynumber: 5.6 Consensus size: 27
114695647 CTCGATTTCC
* * * **
114695657 AAAATTACTAAAATATCCTTAGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
*
114695684 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * * *
114695711 AAAATTACTAAAATACCCTTGGTTTGA
1 AAAATTACCAAAATACCCCTAGTTTGT
*
114695738 AAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
114695765 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
114695792 GAAATTATTAAAATAC
1 AAAATTACCAAAATAC
114695808 TCTCGATTTG
Statistics
Matches: 105, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:114695823 original size:81 final size:81
Alignment explanation
Indices: 114695643--114695823 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
114695633 ATTATCGTTT
** * * * * **
114695643 TACCCTCGATTTCCAAAATTACTAAAATATCCTTAGTTTACAAAATTACCAAAATACCCCTGGTT
1 TACCCTCGATTTGAAAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTAATT
114695708 TGTAAAATTACTAAAA
66 TGTAAAATTACTAAAA
* * **
114695724 TACCCTTGGTTTGAAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTAATT
1 TACCCTCGATTTGAAAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTAATT
* *
114695789 TGTGAAATTATTAAAA
66 TGTAAAATTACTAAAA
* *
114695805 TACTCTCGATTTGTAAAAT
1 TACCCTCGATTTGAAAAAT
114695824 ATCGAAATAG
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (81 bp):
TACCCTCGATTTGAAAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTAATT
TGTAAAATTACTAAAA
Found at i:114695898 original size:27 final size:27
Alignment explanation
Indices: 114695826--114695907 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
114695816 TGTAAAATAT
* * *
114695826 CGAAATAGCCCTATAGGGAAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
114695853 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
114695880 CGAGATACTCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
114695907 C
1 C
114695908 ATTTTGCCCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:114701357 original size:12 final size:12
Alignment explanation
Indices: 114701340--114701364 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114701330 ATGTAAGTGA
114701340 TCTTGATGATTT
1 TCTTGATGATTT
114701352 TCTTGATGATTT
1 TCTTGATGATTT
114701364 T
1 T
114701365 TACATTTTTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:114710776 original size:16 final size:16
Alignment explanation
Indices: 114710755--114710786 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
114710745 ATTGATTGAA
114710755 ACTAAAATTAACTAAT
1 ACTAAAATTAACTAAT
114710771 ACTAAAATTAACTAAT
1 ACTAAAATTAACTAAT
114710787 TTAATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
ACTAAAATTAACTAAT
Found at i:114712032 original size:17 final size:18
Alignment explanation
Indices: 114711998--114712032 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
114711988 CGATTAAGTC
*
114711998 AGATTTTTTAGCTGAAAA
1 AGATTTTTGAGCTGAAAA
114712016 AGATTTTTGAGCT-AAAA
1 AGATTTTTGAGCTGAAAA
114712033 CTCCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
AGATTTTTGAGCTGAAAA
Found at i:114712922 original size:47 final size:44
Alignment explanation
Indices: 114712758--114713027 Score: 150
Period size: 47 Copynumber: 5.8 Consensus size: 44
114712748 GGGTGATTTG
* * *
114712758 TGAGCCAGTGTAAGACCATGCCTGGGACATGGCATCGACATCCAGACGA
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-AAGA-GA
* * * * * ** *
114712807 -GGGCTAGTGTGAGACATGTCTGGGACATGCTTCAGCCATATTATA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGC-TAAGAGA
* * *
114712852 AGTGCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--A-AGAGA
* * *
114712900 T-AGCCAGTGTAAGACGTGTCTGGGACAAGCATCGGCTAAGAGT
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGA
* * * * *
114712943 TGTGCTACTGTAAGACATGTCTGGGACATGCATCAGCACGTATATATGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATC-G-GC-TA-AGA-GA
*
114712992 -GAGCCAGTATAAGACCATGTCTGGGACATGGCATCG
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
114713028 ACAATTTATT
Statistics
Matches: 170, Mismatches: 37, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
43 5 0.03
44 28 0.16
45 4 0.02
46 37 0.22
47 50 0.29
48 25 0.15
49 16 0.09
50 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (44 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGA
Found at i:114712970 original size:44 final size:46
Alignment explanation
Indices: 114712861--114712976 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 46
114712851 AAGTGCCAGA
*
114712861 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTC-ACAGAGATAGCCACT
* * * * *
114712908 GTAAGACGTGTCTGGGACAAGCATCGG-CT-A-AGAGTTGTGCTACT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGAT-AGCCACT
114712952 GTAAGACATGTCTGGGACATGCATC
1 GTAAGACATGTCTGGGACATGCATC
114712977 AGCACGTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 5 0.08
44 28 0.47
46 2 0.03
47 25 0.42
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATAGCCACT
Found at i:114722509 original size:17 final size:17
Alignment explanation
Indices: 114722489--114722521 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
114722479 TGGAATTGGG
114722489 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
114722506 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
114722522 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:114724779 original size:30 final size:30
Alignment explanation
Indices: 114724743--114724832 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
114724733 TGATGACGCG
114724743 AGCCCATCAACAGTGCCCACACAGTCATCA
1 AGCCCATCAACAGTGCCCACACAGTCATCA
* * *
114724773 AGCCCATCAACAGTGCTCACACAGTCACCG
1 AGCCCATCAACAGTGCCCACACAGTCATCA
*
114724803 GGCCCATCAACAGTGCCCACACAGTCATCA
1 AGCCCATCAACAGTGCCCACACAGTCATCA
114724833 GGCTCAACAC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.31, C:0.40, G:0.16, T:0.13
Consensus pattern (30 bp):
AGCCCATCAACAGTGCCCACACAGTCATCA
Found at i:114725491 original size:39 final size:39
Alignment explanation
Indices: 114725440--114725524 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
114725430 CTTTTTATAA
* *
114725440 TTTTAATAAAATAAATGTTCTTTTAAATTA-GCCAATATT
1 TTTTAATAAAATAAATGTTATTTTAAA-TACGACAATATT
* *
114725479 TTTTATTAAAATAAATGTTATTTTGAATACGACAATA-T
1 TTTTAATAAAATAAATGTTATTTTAAATACGACAATATT
114725517 TTTTAATA
1 TTTTAATA
114725525 TTTTTTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
38 10 0.25
39 30 0.75
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (39 bp):
TTTTAATAAAATAAATGTTATTTTAAATACGACAATATT
Found at i:114725526 original size:9 final size:9
Alignment explanation
Indices: 114725512--114725542 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
114725502 TGAATACGAC
114725512 AATATTTTT
1 AATATTTTT
114725521 AATATTTTT
1 AATATTTTT
*
114725530 TATATTTTT
1 AATATTTTT
114725539 AATA
1 AATA
114725543 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATATTTTT
Found at i:114728807 original size:126 final size:127
Alignment explanation
Indices: 114728579--114728846 Score: 389
Period size: 126 Copynumber: 2.1 Consensus size: 127
114728569 CCAAATAGTA
* *
114728579 ACTACTGTAGCAAAAGAGCGTCCACGAAGGAGCTTTTTTTCCATAATTTTCCTGACAGTGTATCC
1 ACTACTGTAGCAAAAGAGCGTCCACGAAGGAGCTTTTTTTCCATAATTTACCTGACAGTGCATCC
*
114728644 TGCTTGAAGCGTTATGGACAATATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC-AGAT
66 TGCTTGAAGCGTTATGGACAATATTTGTTCAGAAACGTCTTCTCAAAATTATTTTCTCTA-AT
* * * *
114728706 ACTACTGTAGCAAAAGAGCTTCCACG-TGAGAGC-TTTTTTCCGTAATTTAGCTGACAGTGCATC
1 ACTACTGTAGCAAAAGAGCGTCCACGAAG-GAGCTTTTTTTCCATAATTTACCTGACAGTGCATC
* * * *
114728769 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGGAACGTCTTCTCAAAATTATTTTCTCTAAT
65 CTGCTTGAAGCGTTATGGACAATATTTGTTCAGAAACGTCTTCTCAAAATTATTTTCTCTAAT
*
114728832 ACTACTGCAGCAAAA
1 ACTACTGTAGCAAAA
114728847 AAAATAAAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
126 97 0.76
127 30 0.24
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (127 bp):
ACTACTGTAGCAAAAGAGCGTCCACGAAGGAGCTTTTTTTCCATAATTTACCTGACAGTGCATCC
TGCTTGAAGCGTTATGGACAATATTTGTTCAGAAACGTCTTCTCAAAATTATTTTCTCTAAT
Found at i:114729049 original size:24 final size:22
Alignment explanation
Indices: 114729013--114729057 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
114729003 TAATTTTTTC
114729013 CTTAAAACACTAAAACCCTAAACT
1 CTTAAAACACT-AAA-CCTAAACT
114729037 CTTAAAAGC-CTAAACCTAAAC
1 CTTAAAA-CACTAAACCTAAAC
114729058 CTAACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 9 0.45
25 1 0.05
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (22 bp):
CTTAAAACACTAAACCTAAACT
Found at i:114731740 original size:3 final size:3
Alignment explanation
Indices: 114731661--114731728 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
114731651 GTTCAGGACC
114731661 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
114731709 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
114731729 TGTTGTATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:114737080 original size:25 final size:25
Alignment explanation
Indices: 114737052--114737107 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
114737042 AATAATAATG
114737052 TATAAATATAATTTTATTGTAAAGA
1 TATAAATATAATTTTATTGTAAAGA
114737077 TATAAATATAATTTTATTGTAAAGA
1 TATAAATATAATTTTATTGTAAAGA
*
114737102 AATAAA
1 TATAAA
114737108 GCATTACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (25 bp):
TATAAATATAATTTTATTGTAAAGA
Found at i:114738744 original size:21 final size:20
Alignment explanation
Indices: 114738694--114738744 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
114738684 GAATTAAGTT
* * *
114738694 AAACAACAAAGAATCAATTC
1 AAACAATAATGAATCAATTA
114738714 AAACAATAATGAATCAATTTA
1 AAACAATAATGAATCAA-TTA
*
114738735 AAATAATAAT
1 AAACAATAAT
114738745 CATGAATCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.61, C:0.12, G:0.04, T:0.24
Consensus pattern (20 bp):
AAACAATAATGAATCAATTA
Found at i:114738782 original size:21 final size:20
Alignment explanation
Indices: 114738758--114738827 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
114738748 GAATCGATTC
114738758 AAAAAAGAAAATAATAAGTTT
1 AAAAAAGAAAATAATAA-TTT
* *
114738779 AAAACAACAACAATGAATCAATTC
1 AAAA-AAGAA-AAT-AAT-AATTT
*
114738803 AAAAAAGAAAAGAATTAATTT
1 AAAAAAGAAAATAA-TAATTT
114738824 AAAA
1 AAAA
114738828 CAACAAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 14 0.36
22 7 0.18
23 7 0.18
24 9 0.23
25 2 0.05
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAAAAGAAAATAATAATTT
Found at i:114738795 original size:45 final size:43
Alignment explanation
Indices: 114738694--114738876 Score: 151
Period size: 45 Copynumber: 4.2 Consensus size: 43
114738684 GAATTAAGTT
* * **
114738694 AAACAAC-AAA-GAATCAATTCAAACAA-TAATGAATCAATTTA
1 AAACAACAAAATGAATCAATTCAAAAAAGAAAAAAAT-AATTTA
* * * * *
114738735 AAATAATAATCATGAATCGATTCAAAAAAGAAAATAATAAGTTTA
1 AAACAACAA-AATGAATCAATTCAAAAAAGAAAAAAATAA-TTTA
*
114738780 AAACAACAACAATGAATCAATTCAAAAAAGAAAAGAATTAATTTA
1 AAACAACAA-AATGAATCAATTCAAAAAAGAAAA-AAATAATTTA
* * * *
114738825 AAACAAC-AAA-CAATCTATTCAAAGAAGAAAAAAATCAATTCA
1 AAACAACAAAATGAATCAATTCAAAAAAGAAAAAAAT-AATTTA
114738867 AAACAACAAA
1 AAACAACAAA
114738877 TTCAGTAACA
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
41 8 0.07
42 31 0.27
43 5 0.04
44 17 0.15
45 49 0.43
46 4 0.04
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.20
Consensus pattern (43 bp):
AAACAACAAAATGAATCAATTCAAAAAAGAAAAAAATAATTTA
Found at i:114738845 original size:42 final size:43
Alignment explanation
Indices: 114738749--114738877 Score: 145
Period size: 42 Copynumber: 3.0 Consensus size: 43
114738739 AATAATCATG
* * *
114738749 AATCGATTCAAAAAAGAAAATAA-TAAGTTTAAAACAACAACAATG
1 AATCAATTCAAAAAAGAAAAAAATTAA-TTTAAAACAAC-A-AATC
*
114738794 AATCAATTCAAAAAAGAAAAGAATTAATTTAAAACAACAAA-C
1 AATCAATTCAAAAAAGAAAAAAATTAATTTAAAACAACAAATC
* * * *
114738836 AATCTATTCAAAGAAGAAAAAAATCAATTCAAAACAACAAAT
1 AATCAATTCAAAAAAGAAAAAAATTAATTTAAAACAACAAAT
114738878 TCAGTAACAA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 36 0.49
43 2 0.03
44 1 0.01
45 32 0.43
46 3 0.04
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (43 bp):
AATCAATTCAAAAAAGAAAAAAATTAATTTAAAACAACAAATC
Found at i:114738865 original size:21 final size:20
Alignment explanation
Indices: 114738794--114738869 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
114738784 AACAACAATG
*
114738794 AATCAATTCAAAAAAGAAAAG
1 AATCAATTC-AAAAAGAAAAA
* * *
114738815 AATTAATTTAAAACA-ACAAAC
1 AATCAATTCAAAA-AGA-AAAA
*
114738836 AATCTATTCAAAGAAGAAAAA
1 AATCAATTCAAA-AAGAAAAA
114738857 AATCAATTCAAAA
1 AATCAATTCAAAA
114738870 CAACAAATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
20 6 0.14
21 35 0.81
22 2 0.05
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.20
Consensus pattern (20 bp):
AATCAATTCAAAAAGAAAAA
Found at i:114742673 original size:21 final size:22
Alignment explanation
Indices: 114742647--114742705 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
114742637 GTTTTAAGAA
*
114742647 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
114742668 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
114742690 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
114742706 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:114742720 original size:26 final size:24
Alignment explanation
Indices: 114742676--114742725 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
114742666 ATTTGTTTTA
*
114742676 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
114742700 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
114742726 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:114744314 original size:18 final size:18
Alignment explanation
Indices: 114744273--114744315 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
114744263 TTTGATAATA
*
114744273 ATATGTAGTTAATTTAGT
1 ATATGTTGTTAATTTAGT
* * *
114744291 AAATGTTGTTTATTTATT
1 ATATGTTGTTAATTTAGT
114744309 ATATGTT
1 ATATGTT
114744316 TGAATTAACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
ATATGTTGTTAATTTAGT
Found at i:114744842 original size:23 final size:23
Alignment explanation
Indices: 114744803--114744857 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
114744793 TAGGATGGAA
* *
114744803 TTCTTATCCATCCGCGAACCCTT
1 TTCTCATCAATCCGCGAACCCTT
*
114744826 TTTTCATCAATCCGCGAACCCTT
1 TTCTCATCAATCCGCGAACCCTT
114744849 TTCTCATCA
1 TTCTCATCA
114744858 GACACAGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.20, C:0.36, G:0.07, T:0.36
Consensus pattern (23 bp):
TTCTCATCAATCCGCGAACCCTT
Found at i:114745251 original size:12 final size:12
Alignment explanation
Indices: 114745236--114745267 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
114745226 GTCGATGCCG
114745236 ATGCCGATACAA
1 ATGCCGATACAA
*
114745248 ATGCTGATACAA
1 ATGCCGATACAA
114745260 ATGCCGAT
1 ATGCCGAT
114745268 GCATGTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (12 bp):
ATGCCGATACAA
Found at i:114746473 original size:16 final size:16
Alignment explanation
Indices: 114746452--114746487 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
114746442 AGCAGAGAAA
114746452 GAAAGAAAGAA-AAAAG
1 GAAAGAAA-AAGAAAAG
114746468 GAAAGAAAAAGAAAAG
1 GAAAGAAAAAGAAAAG
114746484 GAAA
1 GAAA
114746488 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAGAAAAG
Found at i:114749194 original size:71 final size:71
Alignment explanation
Indices: 114749110--114749273 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
114749100 CGATTTGTCT
114749110 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
114749175 CTTTCA
66 CTTTCA
114749181 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
114749246 CTTTCA
66 CTTTCA
114749252 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
114749274 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:114749311 original size:71 final size:70
Alignment explanation
Indices: 114749110--114749307 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
114749100 CGATTTGTCT
* * * *
114749110 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
114749175 CTTTCA
65 CTTTCA
* * * *
114749181 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
114749246 CTTTCA
65 CTTTCA
* *
114749252 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
114749308 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:114756772 original size:71 final size:71
Alignment explanation
Indices: 114756686--114756849 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
114756676 CGATTTGTCT
114756686 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
114756751 CTTTCA
66 CTTTCA
114756757 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
114756822 CTTTCA
66 CTTTCA
114756828 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
114756850 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:114756887 original size:71 final size:70
Alignment explanation
Indices: 114756686--114756883 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
114756676 CGATTTGTCT
* * * *
114756686 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
114756751 CTTTCA
65 CTTTCA
* * * *
114756757 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
114756822 CTTTCA
65 CTTTCA
* *
114756828 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
114756884 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:114760400 original size:80 final size:80
Alignment explanation
Indices: 114760237--114760405 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
114760227 TCGAATGATG
* *
114760237 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
**
114760302 GTGCGAGTTACTAAA
66 GAACGAGTTACTAAA
** * **
114760317 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GGGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* *
114760380 TTGAATGAG-TAGCTATA
64 TTGAACGAGTTA-CTAAA
114760397 TCC-GGTTAA
1 TCCGGGTTAA
114760406 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 9 0.12
80 59 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:114760401 original size:40 final size:40
Alignment explanation
Indices: 114760237--114760382 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
114760227 TCGAATGATG
* * * *
114760237 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
114760277 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
114760317 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
114760357 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
114760383 AATGAGTAGC
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 87 0.91
41 8 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:114762217 original size:3 final size:3
Alignment explanation
Indices: 114762144--114762191 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
114762134 AATGACAATG
114762144 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114762192 TAACGTAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:114762234 original size:2 final size:2
Alignment explanation
Indices: 114762229--114762263 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
114762219 ATGAATTAAA
114762229 AT AT AT 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 AT AT AT A
114762264 CATACGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:114762430 original size:23 final size:23
Alignment explanation
Indices: 114762404--114762456 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
114762394 GAATAATGTG
*
114762404 ATATTAGAAATATATACATAAAA
1 ATATAAGAAATATATACATAAAA
* *
114762427 ATATAATAAATATATATATAATATA
1 ATATAAGAAATATATACATAA-A-A
114762452 ATATA
1 ATATA
114762457 TACATAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.72
24 1 0.04
25 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAAGAAATATATACATAAAA
Found at i:114762449 original size:11 final size:11
Alignment explanation
Indices: 114762427--114762489 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
114762417 ATACATAAAA
*
114762427 ATATAATAAAT
1 ATATAATATAT
114762438 ATAT-ATATA-
1 ATATAATATAT
114762447 ATATAATATAT
1 ATATAATATAT
*
114762458 ACATAATATAGT
1 ATATAATATA-T
*
114762470 ATTAAAATATAT
1 A-TATAATATAT
114762482 ATATAATA
1 ATATAATA
114762490 CATACACATT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 4 0.09
10 9 0.21
11 19 0.44
12 4 0.09
13 7 0.16
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATAATATAT
Found at i:114762456 original size:16 final size:16
Alignment explanation
Indices: 114762427--114762486 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 16
114762417 ATACATAAAA
114762427 ATATAATA-AATATAT
1 ATATAATATAATATAT
114762442 ATATAATATAATATAT
1 ATATAATATAATATAT
* *
114762458 ACATAATATAGTAT-T
1 ATATAATATAATATAT
114762473 A-A-AATAT-ATATAT
1 ATATAATATAATATAT
114762486 A
1 A
114762487 ATACATACAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.08
13 7 0.17
14 1 0.03
15 10 0.25
16 19 0.47
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
ATATAATATAATATAT
Found at i:114762457 original size:27 final size:27
Alignment explanation
Indices: 114762413--114762489 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 27
114762403 GATATTAGAA
*
114762413 ATATATACATA-AAAATATAATAAATAT
1 ATATATA-ATATAATATATAATAAATAT
114762440 ATATATAATATAATATATACAT-AATAT
1 ATATATAATATAATATATA-ATAAATAT
*
114762467 AGTAT-TAAAATATATATATAATA
1 A-TATATAATATA-ATATATAATA
114762490 CATACACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
26 3 0.07
27 28 0.65
28 12 0.28
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATATAATATAATATATAATAAATAT
Found at i:114762567 original size:2 final size:2
Alignment explanation
Indices: 114762550--114762597 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
114762540 TACTTCATAA
* *
114762550 AT AT AT AC AT AC 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 AT AT AT AT AT AT
114762592 AT AT AT
1 AT AT AT
114762598 GTGTGTGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:114762755 original size:24 final size:24
Alignment explanation
Indices: 114762728--114762783 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
114762718 TAGTAATTAT
* * *
114762728 AATACTAATACTAATAATAAATAC
1 AATAATAATACTAAAAATAAACAC
* *
114762752 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATACTAAAAATAAACAC
114762776 AATAATAA
1 AATAATAA
114762784 CCATGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (24 bp):
AATAATAATACTAAAAATAAACAC
Found at i:114763629 original size:5 final size:5
Alignment explanation
Indices: 114763621--114763656 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
114763611 AATAAAATAA
114763621 AAAAG AAAAG AATAAG AAAAG AATAAG AAAAG AAAA
1 AAAAG AAAAG AA-AAG AAAAG AA-AAG AAAAG AAAA
114763657 AAACCTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:114763639 original size:11 final size:11
Alignment explanation
Indices: 114763623--114763654 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
114763613 TAAAATAAAA
114763623 AAGAAAAGAAT
1 AAGAAAAGAAT
114763634 AAGAAAAGAAT
1 AAGAAAAGAAT
114763645 AAGAAAAGAA
1 AAGAAAAGAA
114763655 AAAAACCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (11 bp):
AAGAAAAGAAT
Found at i:114764384 original size:44 final size:44
Alignment explanation
Indices: 114764321--114765023 Score: 926
Period size: 44 Copynumber: 16.2 Consensus size: 44
114764311 AGGAACACCT
* * *
114764321 ATCTGTTATTTTCGATCTGCTCTCTGCCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
114764365 ATCTGTTATCTTCGATCTGCTCTCTGCCACTAAAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** * *
114764409 ATCTGTTATCTTCGATCTGCCCTCTTCTGCTACAGAGGCGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
114764453 ATCTGTTATCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
114764497 ATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCAAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
114764541 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
114764585 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
114764625 ATCTGTTATCTTCAATCTGTTCTCCGCCGCTACGGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * * *
114764669 ATCTGTTATCTTCAATCTACTCTCTGCCGCTATAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
114764713 ATCTGTTATCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
114764757 ATCTGCTATCTTCGTTCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
114764801 ATCTGTTATCTTCGATTTGCTCTCCGCCACTACAGAGATGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
114764845 ATC----ATCTTCGATCTACTCTCCGCCGCTACAGAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
114764885 ATCTGTTATCTTCGATTTGCTCTCTGCCGCTACAGAGATGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
114764929 ATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
114764973 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
114765013 ATCTATTATCT
1 ATCTGTTATCT
114765024 GTTTCAAGGA
Statistics
Matches: 578, Mismatches: 69, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
40 111 0.19
44 467 0.81
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:114764792 original size:260 final size:260
Alignment explanation
Indices: 114764331--114765016 Score: 1047
Period size: 260 Copynumber: 2.7 Consensus size: 260
114764321 ATCTGTTATT
* * *
114764331 TTCGATCTGCTCTCTGCCACTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCACT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCT
* * * * * **
114764396 AAAGAGACGCCAAATCTGTTATCTTCGATCTGCCCTCTTCTGCTACAGAGGCGCCAAATCTGTTA
66 ACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAAATCTGTTA
* *
114764461 TCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTG
131 TCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCG
* *
114764526 CTACAGAGACGCAAAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGATGCCAAATCATC
196 CTACAGAGACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCATC
* * * *
114764591 TTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCAATCTGTTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCT
* * * *
114764656 ACGGAGACGCCAAATCTGTTATCTTCAATCTACTCTCTGCCGCTATAAAGATGCCAAATCTGTTA
66 ACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAAATCTGTTA
*
114764721 TCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTCGTTCTGCTCTCTGCCG
131 TCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCG
* * *
114764786 CTACAGAGACGCCAAATCTGTTATCTTCGATTTGCTCTCCGCCACTACAGAGATGCTAAATCATC
196 CTACAGAGACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCATC
* * *
114764851 TTCGATCTACTCTCCGCCGCTACAGAGACGTCAAATCTGTTATCTTCGATTTGCTCTCTGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCT
* * *
114764916 ACAGAGATGCTAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGATGCCAAATC----A
66 ACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAAATCTGTTA
*
114764977 TCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
131 TCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
114765017 ATTATCTGTT
Statistics
Matches: 385, Mismatches: 41, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
256 40 0.10
260 345 0.90
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (260 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCT
ACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAAATCTGTTA
TCTTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCG
CTACAGAGACGCAAAATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATCATC
Found at i:114777429 original size:3 final size:3
Alignment explanation
Indices: 114777347--114777403 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
114777337 AATGACAATG
114777347 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
114777395 ATA ATA ATA
1 ATA ATA ATA
114777404 TAACGTAGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:114777875 original size:24 final size:24
Alignment explanation
Indices: 114777808--114777864 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
114777798 TAGTAATTAT
* * * *
114777808 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
114777832 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
114777856 AATAATAAT
1 AATAATAAT
114777865 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:114781779 original size:26 final size:26
Alignment explanation
Indices: 114781738--114781792 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
114781728 TTATCCACTC
*
114781738 TATCTGACGTTGCAAAATCACCAGCA
1 TATCTGACGTTACAAAATCACCAGCA
*
114781764 TATCTGATGTTACAAAATCACCAGCA
1 TATCTGACGTTACAAAATCACCAGCA
114781790 TAT
1 TAT
114781793 TCATCGGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (26 bp):
TATCTGACGTTACAAAATCACCAGCA
Found at i:114782962 original size:16 final size:16
Alignment explanation
Indices: 114782943--114782997 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
114782933 AATGTTATGG
*
114782943 ATTTGGGGATTTCACA
1 ATTTGGGGATTTAACA
*
114782959 ATTTAGAGGATTTAACA
1 ATTT-GGGGATTTAACA
*
114782976 AGTTGGGGATTTTAA-A
1 ATTTGGGGA-TTTAACA
114782992 ATTTGG
1 ATTTGG
114782998 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.38
Consensus pattern (16 bp):
ATTTGGGGATTTAACA
Found at i:114787260 original size:26 final size:25
Alignment explanation
Indices: 114787225--114787287 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
114787215 TAATTGTATG
*
114787225 TTTTAGAATTTATAAAAATATTTTAT
1 TTTTAAAATTTATAAAAATATTTT-T
*
114787251 TTTTAAAATTTTTTAAAAATATTTTT
1 TTTTAAAA-TTTATAAAAATATTTTT
*
114787277 TTTTACAATTT
1 TTTTAAAATTT
114787288 TTTTACATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.09
26 15 0.45
27 15 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTAAAATTTATAAAAATATTTTT
Found at i:114787292 original size:27 final size:27
Alignment explanation
Indices: 114787237--114787290 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
114787227 TTAGAATTTA
114787237 TAAAAATATTTTATTTTTAAAATTTTT
1 TAAAAATATTTTATTTTTAAAATTTTT
*
114787264 TAAAAATATTTT-TTTTTACAATTTTT
1 TAAAAATATTTTATTTTTAAAATTTTT
114787290 T
1 T
114787291 TACATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TAAAAATATTTTATTTTTAAAATTTTT
Found at i:114787416 original size:21 final size:20
Alignment explanation
Indices: 114787384--114787457 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 20
114787374 CTTTTCAAAA
*
114787384 TTTATATTTTTTTCTAGATT
1 TTTATATATTTTTCTAGATT
114787404 TTATATATATTTTTCT-GAATTT
1 TT-TATATATTTTTCTAG-A-TT
*
114787426 TTTATATATTTATT-TACATT
1 TTTATATATTT-TTCTAGATT
114787446 TTTATAT-TTTTT
1 TTTATATATTTTT
114787458 TAATATGTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.04
19 3 0.06
20 12 0.26
21 24 0.51
22 6 0.13
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTATATATTTTTCTAGATT
Found at i:114787472 original size:29 final size:31
Alignment explanation
Indices: 114787405--114787475 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 31
114787395 TTCTAGATTT
* * *
114787405 TATATATATTTTTCTGAATTTTTTATATATT
1 TATATACATTTTTATGAATTTTTTATATATG
* *
114787436 TATTTACATTTTTAT-ATTTTTTTA-ATATG
1 TATATACATTTTTATGAATTTTTTATATATG
114787465 TATATACATTT
1 TATATACATTT
114787476 AATAAAAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 14 0.41
30 8 0.24
31 12 0.35
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (31 bp):
TATATACATTTTTATGAATTTTTTATATATG
Found at i:114794344 original size:64 final size:64
Alignment explanation
Indices: 114794223--114794349 Score: 146
Period size: 64 Copynumber: 2.0 Consensus size: 64
114794213 AGAGCATCCC
* * * ** * * * *
114794223 GATCGGTATTGATCCTGCATGTGTTGCAGATATGTCGCAGCTCTTTGTGGGCATCCTGTTATAT
1 GATCAGTATTGATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCATCCTGATATAT
* * *
114794287 GATCAGTATTGATCCTGCATGTATTGCGGACATACCACAGCTTTTTATGAGCGTCCTGATATA
1 GATCAGTATTGATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCATCCTGATATA
114794350 GGCTCTTTGA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (64 bp):
GATCAGTATTGATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCATCCTGATATAT
Found at i:114794363 original size:25 final size:25
Alignment explanation
Indices: 114794335--114794384 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
114794325 AGCTTTTTAT
114794335 GAGCGTCCTGATATAGGCTCT-TTGA
1 GAGCGTCCTGATAT-GGCTCTCTTGA
*
114794360 GAGCTTCCTGATATGGCTCTCTTGA
1 GAGCGTCCTGATATGGCTCTCTTGA
114794385 ACTTCCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (25 bp):
GAGCGTCCTGATATGGCTCTCTTGA
Found at i:114797355 original size:3 final size:3
Alignment explanation
Indices: 114797347--114797431 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
114797337 TGGGCAGTAA
* * * *
114797347 AAG AAG AAG -AG AAT AAA AAA AAT AAG -AG AAG AA- ATAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG AAG
*
114797389 AAG AAG AAGG AAG AAG AAG AAG AAG AAA AAG AA- AAG AAG AAG A
1 AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
114797432 GGAGAAAAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
2 9 0.13
3 57 0.83
4 3 0.04
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:114797403 original size:16 final size:15
Alignment explanation
Indices: 114797347--114797431 Score: 72
Period size: 14 Copynumber: 5.9 Consensus size: 15
114797337 TGGGCAGTAA
*
114797347 AAGAAGAAG-AGAAT
1 AAGAAGAAGAAGAAG
* * *
114797361 AAAAAAAATAAG-AG
1 AAGAAGAAGAAGAAG
114797375 AAGAA-ATAG-AGAAG
1 AAGAAGA-AGAAGAAG
114797389 AAGAAGAAGGAAGAAG
1 AAGAAGAA-GAAGAAG
*
114797405 AAGAAGAAGAAAAAG
1 AAGAAGAAGAAGAAG
114797420 AA-AAGAAGAAGA
1 AAGAAGAAGAAGA
114797432 GGAGAAAAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
13 3 0.05
14 29 0.51
15 12 0.21
16 13 0.23
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (15 bp):
AAGAAGAAGAAGAAG
Found at i:114797442 original size:14 final size:14
Alignment explanation
Indices: 114797345--114797453 Score: 58
Period size: 14 Copynumber: 7.2 Consensus size: 14
114797335 CCTGGGCAGT
114797345 AAAAGAAGAAGAGAATA
1 AAAAGAAGAAGAG---A
* *
114797362 AAAAAAATAAGAGA
1 AAAAGAAGAAGAGA
*
114797376 AGAAATAGAGAAGAAGA
1 A-AAAGA-AGAAG-AGA
*
114797393 AGAAGGAAGAAGAAGA
1 A-AAAGAAGAAG-AGA
* *
114797409 AGAAGAAAAAGA-A
1 AAAAGAAGAAGAGA
*
114797422 AAGAAGAAGAGGAGA
1 AA-AAGAAGAAGAGA
*
114797437 AAAAGAATAAGAGA
1 AAAAGAAGAAGAGA
114797451 AAA
1 AAA
114797454 TGGAAGGGTC
Statistics
Matches: 73, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
13 2 0.03
14 24 0.33
15 14 0.19
16 14 0.19
17 19 0.26
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.04
Consensus pattern (14 bp):
AAAAGAAGAAGAGA
Found at i:114797459 original size:58 final size:55
Alignment explanation
Indices: 114797347--114797459 Score: 122
Period size: 58 Copynumber: 2.0 Consensus size: 55
114797337 TGGGCAGTAA
* * *
114797347 AAGAAGAAGAGAATAAAAAAAATAAGAGAAGAAATAGAGAAGAAGAAGAAGGAAG
1 AAGAAGAAGAGAAAAAAAAAAAGAAGAGAAGAAATAGAGAAGAAGAAAAAGGAAG
* *
114797402 AAGAAGAAGAAGAAAAAGAAAAGAAGAAGAGGAGAAA-A-AGAATAAGAGAAAATGGAAG
1 AAGAAGAAG-AGAAAAA-AAAA-AAGAAGAGAAGAAATAGAGAAGAAGA-AAAA-GGAAG
114797460 GGTCAAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
55 9 0.19
56 14 0.29
57 8 0.17
58 17 0.35
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (55 bp):
AAGAAGAAGAGAAAAAAAAAAAGAAGAGAAGAAATAGAGAAGAAGAAAAAGGAAG
Found at i:114799215 original size:17 final size:19
Alignment explanation
Indices: 114799189--114799226 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
114799179 TTCGATTATG
*
114799189 TTAAATTTAAATTATT-TT
1 TTAAATTTAAAATATTCTT
114799207 TTAAA-TTAAAATATTCTT
1 TTAAATTTAAAATATTCTT
114799225 TT
1 TT
114799227 TCATTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATTTAAAATATTCTT
Found at i:114806425 original size:55 final size:55
Alignment explanation
Indices: 114806365--114806477 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 55
114806355 CTCGTGTTAA
* *
114806365 TTTAACAAGTTCGA-CCACGAGTGTTCCACACGGGCGTGTCGAATACCCGTGTTGT
1 TTTAACAAGTTC-ACCCACGAGTCTTCCACACGGGCGTGTCGAACACCCGTGTTGT
* **
114806420 TTTAACAAGTTCACCCACGATTCTTCCACACGGGCGTGTCTCACACCCGTGTTGT
1 TTTAACAAGTTCACCCACGAGTCTTCCACACGGGCGTGTCGAACACCCGTGTTGT
114806475 TTT
1 TTT
114806478 GGTAGGCTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 1 0.02
55 51 0.98
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.30
Consensus pattern (55 bp):
TTTAACAAGTTCACCCACGAGTCTTCCACACGGGCGTGTCGAACACCCGTGTTGT
Found at i:114810334 original size:16 final size:16
Alignment explanation
Indices: 114810313--114810352 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
114810303 TCTCAGAATA
114810313 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
114810329 ATAAAGAATACAAAAC
1 ATAAAGAATACAAAAC
114810345 ATAAAGAA
1 ATAAAGAA
114810353 AACCCAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.12
Consensus pattern (16 bp):
ATAAAGAATACAAAAC
Found at i:114817990 original size:40 final size:40
Alignment explanation
Indices: 114817786--114817990 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
114817776 CTGAGTTTAA
** * *
114817786 CCGGATATAGCT-ACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
114817826 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
114817866 CCAGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
114817906 CCGGATTTAGTAACTCGCAAAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
114817946 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
114817986 CCGGA
1 CCGGA
114817991 CATCATTCGA
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 127 0.90
41 10 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:114822208 original size:46 final size:46
Alignment explanation
Indices: 114822150--114822470 Score: 457
Period size: 46 Copynumber: 7.0 Consensus size: 46
114822140 AGTGTGCTCT
114822150 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
114822196 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
114822242 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
114822288 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
114822334 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * ** *
114822380 GTAACAGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGATA-TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
114822427 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
114822471 TCATGTCAAA
Statistics
Matches: 256, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.00
46 214 0.84
47 41 0.16
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:114836652 original size:12 final size:13
Alignment explanation
Indices: 114836616--114836653 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
114836606 AAATATTTGA
114836616 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
114836629 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
114836643 CTTG-TCTTAAT
1 CTTGTTCTTAAT
114836654 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:114837951 original size:18 final size:17
Alignment explanation
Indices: 114837930--114838009 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
114837920 CTGTCCCTTG
*
114837930 TTCCTCATCTGTATCTTC
1 TTCCTCA-CTGCATCTTC
*
114837948 TTCCACGACTGCATCTTAC
1 TTCCTC-ACTGCATCTT-C
*
114837967 -TCCTTACCTGCATCTTC
1 TTCCTCA-CTGCATCTTC
*
114837984 TTCCTCAGCCGCATCTTC
1 TTCCTCA-CTGCATCTTC
114838002 TTCCTCAC
1 TTCCTCAC
114838010 ATACGCCTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
17 3 0.06
18 46 0.90
19 2 0.04
ACGTcount: A:0.14, C:0.40, G:0.07, T:0.39
Consensus pattern (17 bp):
TTCCTCACTGCATCTTC
Found at i:114841659 original size:45 final size:46
Alignment explanation
Indices: 114841598--114841688 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
114841588 AGAAATAATT
114841598 CTCACTATCAAC-TTTTTACTATTACAAAATTCACTATCACTATCA
1 CTCACTATCAACTTTTTTACTATTACAAAATTCACTATCACTATCA
* * *
114841643 CTCACTATCAACTTTTTTCCTGTTACAAAGTTCACTATCACTATCA
1 CTCACTATCAACTTTTTTACTATTACAAAATTCACTATCACTATCA
114841689 TTATCACCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 12 0.29
46 30 0.71
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.38
Consensus pattern (46 bp):
CTCACTATCAACTTTTTTACTATTACAAAATTCACTATCACTATCA
Found at i:114843062 original size:22 final size:22
Alignment explanation
Indices: 114843034--114843119 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
114843024 ATTTTGTATC
114843034 ATAATATATCAGAGCATATCAT
1 ATAATATATCAGAGCATATCAT
* **
114843056 ATAATATATCGGAGCATATTGT
1 ATAATATATCAGAGCATATCAT
*
114843078 ATAACATATC-GAAGCATATCAT
1 ATAATATATCAG-AGCATATCAT
*
114843100 ATAAAATATCAGAGCATATC
1 ATAATATATCAGAGCATATC
114843120 CTACCCCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 1 0.02
22 53 0.96
23 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (22 bp):
ATAATATATCAGAGCATATCAT
Found at i:114844917 original size:27 final size:27
Alignment explanation
Indices: 114844883--114844936 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
114844873 TAACTAACGG
114844883 AATAGTCTTCCCCCTGAAGACCTTAAC
1 AATAGTCTTCCCCCTGAAGACCTTAAC
114844910 AATAGTCTTCCCCCTGAAGACCTTAAC
1 AATAGTCTTCCCCCTGAAGACCTTAAC
114844937 TTCGCAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.33, G:0.11, T:0.26
Consensus pattern (27 bp):
AATAGTCTTCCCCCTGAAGACCTTAAC
Found at i:114851027 original size:28 final size:28
Alignment explanation
Indices: 114850991--114851065 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
114850981 TCAAATATGG
* *
114850991 TACTCAGTGTACGAAATATTGAGAATGA
1 TACTTAGTGTGCGAAATATTGAGAATGA
*
114851019 TACTTAGTGTGCGAGATATTGAGAATGA
1 TACTTAGTGTGCGAAATATTGAGAATGA
* *
114851047 CACTTAGTGTGCAAAATAT
1 TACTTAGTGTGCGAAATAT
114851066 CGAATGATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (28 bp):
TACTTAGTGTGCGAAATATTGAGAATGA
Found at i:114852935 original size:22 final size:23
Alignment explanation
Indices: 114852907--114852951 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
114852897 ACCTGATCAG
*
114852907 AATACGACACGT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
114852929 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
114852952 TCAGTAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:114853169 original size:23 final size:23
Alignment explanation
Indices: 114853143--114853205 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
114853133 AAATGTCCAA
114853143 CCAAAACACACTAGTATAATCCT
1 CCAAAACACACTAGTATAATCCT
*
114853166 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACTAGTATAATCCT
114853189 CCAAAACACACTAGTAT
1 CCAAAACACACTAGTAT
114853206 TATATAATCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.44, C:0.32, G:0.05, T:0.19
Consensus pattern (23 bp):
CCAAAACACACTAGTATAATCCT
Found at i:114853211 original size:28 final size:26
Alignment explanation
Indices: 114853157--114853260 Score: 124
Period size: 28 Copynumber: 3.9 Consensus size: 26
114853147 AACACACTAG
114853157 TATAATCCTCCAAAACACACCAG---
1 TATAATCCTCCAAAACACACCAGATA
*
114853180 TATAATCCTCCAAAACACACTAGTATTA
1 TATAATCCTCCAAAACACACCAG-A-TA
*
114853208 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAG-AT-A
114853236 TATAATCCATCCAAAACACACCAGA
1 TATAATCC-TCCAAAACACACCAGA
114853261 ATAGCACAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
23 22 0.32
27 1 0.01
28 32 0.46
29 14 0.20
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (26 bp):
TATAATCCTCCAAAACACACCAGATA
Found at i:114853235 original size:23 final size:23
Alignment explanation
Indices: 114853119--114853263 Score: 103
Period size: 23 Copynumber: 5.8 Consensus size: 23
114853109 ATGGATTCCA
* *
114853119 TCCAAAACACACCAAAAT-GTCC
1 TCCAAAACACACCAGAATAATCC
* * *
114853141 AACCAAAACACACTAGTATAATCC
1 -TCCAAAACACACCAGAATAATCC
*
114853165 TCCAAAACACACCAGTATAATCC
1 TCCAAAACACACCAGAATAATCC
*
114853188 TCCAAAACACACTAGTATTATATAATCC
1 TCCAAAACACACCAG----A-ATAATCC
*
114853216 TCCCAAACACACCAGAATAATATAATCC
1 TCCAAAACACACCAG----A-ATAATCC
114853244 ATCCAAAACACACCAGAATA
1 -TCCAAAACACACCAGAATA
114853264 GCACAAAGTG
Statistics
Matches: 101, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
23 49 0.49
24 6 0.06
25 1 0.01
28 31 0.31
29 14 0.14
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (23 bp):
TCCAAAACACACCAGAATAATCC
Found at i:114857225 original size:47 final size:45
Alignment explanation
Indices: 114857023--114857341 Score: 295
Period size: 47 Copynumber: 6.8 Consensus size: 45
114857013 GGGATAAGTT
114857023 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCGTCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCGAG
* * * * * *
114857072 GCCGATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTATATACG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC--ATCT-CGAG
* * * * *
114857122 GCTGATGCATGTCCCAAACATGTCTTACACTAGCA-CAACTCTTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTC-GAG
*
114857166 GCCGATGCATGTCCCAGACATATCTTACACTGGCTATCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATC-TCGAG
* * *
114857213 GTCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCGAG
* *
114857259 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCAT-CTCGAG
114857307 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA
114857342 CACAAGAAAT
Statistics
Matches: 228, Mismatches: 29, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.00
44 32 0.14
45 1 0.00
46 29 0.13
47 67 0.29
48 38 0.17
49 49 0.21
50 7 0.03
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCGAG
Found at i:114857311 original size:141 final size:140
Alignment explanation
Indices: 114857023--114857340 Score: 401
Period size: 141 Copynumber: 2.2 Consensus size: 140
114857013 GGGATAAGTT
*
114857023 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCGTCGAGGCCGATGCCATGTCCT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCGTCGAGGCCGATGCCATGTCCC
* * * *
114857088 AGACATGGTCTTATACTAGCTCTCGTATATACGTGCTGATGCATGTCCCAAACATGTCTTACACT
64 AGACATGGTCTTACACTAGCACTCATATATAC-TGCCGATGCATGTCCCAAACATGTCTTACACT
* *
114857153 AGCACAACTCTTA
128 AGCACAAATCGTA
* *
114857166 GCCGATGCATGTCCCAGACATATCTTACACTGGCTATCATCGTCGAGGTCGATG-CATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCGTCGAGGCCGATGCCATGTCCCAG
* * * * *
114857230 ACAT-GTCTTACACTGGCACTCATCTCTA-TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
66 ACATGGTCTTACACTAGCACTCATATATACTGCCGATG-CATGTCCCAAACAT-GTCTTACACTA
*
114857293 GCACTCATAAT-GTG
129 GCA--CA-AATCGTA
114857307 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
114857341 ACACAAGAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
137 7 0.05
138 13 0.08
139 31 0.20
140 13 0.08
141 67 0.44
142 16 0.10
143 7 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (140 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCGTCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCACTCATATATACTGCCGATGCATGTCCCAAACATGTCTTACACTAGC
ACAAATCGTA
Found at i:114857342 original size:94 final size:93
Alignment explanation
Indices: 114857023--114857341 Score: 353
Period size: 94 Copynumber: 3.4 Consensus size: 93
114857013 GGGATAAGTT
* * *
114857023 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCGTCGAGGCCGATGCCATGTCCT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCTATGCCGATGCCATGTCCC
* * * *
114857088 AGACATGGTCTTATACTAGCTCTCGTATATACGT-
62 AGACATGGTCTTACACTGGCACTC--ATA-ATGTG
* * * *
114857122 GCTGATGCATGTCCCAAACATGTCTTACACTAGCA-CAACTCT-TAGCCGATG-CATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTAT-GCCGATGCCATGTCCCAGA
* ** *
114857184 CAT-ATCTTACACTGGCTA-TCATCGTCGAG
65 CATGGTCTTACACTGGC-ACTCATAAT-GTG
*
114857213 GTCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCTATGCCGATGCCATGTCCCAGA
114857278 CATGGTCTTACACTGGCACTCATAATGTG
65 CATGGTCTTACACTGGCACTCATAATGTG
114857307 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCA
114857342 CACAAGAAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 25
0.79 0.11 0.11
Matches are distributed among these distances:
90 3 0.02
91 31 0.17
92 12 0.06
93 26 0.14
94 61 0.33
95 20 0.11
96 1 0.01
97 12 0.06
98 13 0.07
99 6 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTATGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCACTCATAATGTG
Found at i:114858073 original size:12 final size:12
Alignment explanation
Indices: 114858056--114858080 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114858046 CAAAAATTTA
114858056 AAAATCATCAAG
1 AAAATCATCAAG
114858068 AAAATCATCAAG
1 AAAATCATCAAG
114858080 A
1 A
114858081 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:114864382 original size:2 final size:2
Alignment explanation
Indices: 114864375--114864407 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
114864365 ATTTTTATTG
114864375 AT AT 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 AT AT A
114864408 AAAAGATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114865426 original size:3 final size:3
Alignment explanation
Indices: 114865414--114865494 Score: 76
Period size: 3 Copynumber: 27.7 Consensus size: 3
114865404 GCATCTCCAT
* * * * *
114865414 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTA TTC -TC CTC CTC CTC CTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * *
114865460 CTC TTA TTC TTC TTC TTC TTT TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
114865495 TTACTGTTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 4 0.06
3 65 0.94
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:114870334 original size:37 final size:37
Alignment explanation
Indices: 114870289--114870369 Score: 85
Period size: 37 Copynumber: 2.2 Consensus size: 37
114870279 GTGAGCTGTG
* * *
114870289 TGGA-GTTGCGATATTCAATCAGCT-AACTCAAATAAT
1 TGGAGGTTGCAATATTAAATCAG-TGAACCCAAATAAT
* *
114870325 TGGAGGTTGCAATCTTAAATCAGTGAGCCCAAATAAT
1 TGGAGGTTGCAATATTAAATCAGTGAACCCAAATAAT
*
114870362 TAGAGGTT
1 TGGAGGTT
114870370 ACGAGCTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 5 0.14
37 32 0.86
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (37 bp):
TGGAGGTTGCAATATTAAATCAGTGAACCCAAATAAT
Found at i:114870666 original size:138 final size:138
Alignment explanation
Indices: 114870411--114870677 Score: 347
Period size: 138 Copynumber: 1.9 Consensus size: 138
114870401 AGTTAGGAAC
** * *
114870411 GTAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAATGAGCATTTACAATATCAACTAG
1 GTAGGTCCACGAGCTATTTCAGAGGCTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAG
* * * * *
114870476 GAGCGTAGGTTAGCGAGCTATTTTCGAGGCTGTTACCTTATATCAACAAGCCTTTACAATATCAA
66 GAGCATAGGTCAGCGAGCTATTTTCGAAGCTGTAACCTTAAATCAACAAGCCTTTACAATATCAA
114870541 CTGGAAGT
131 CTGGAAGT
* * * *
114870549 GTAGGTCCACGAGCTATTTCGGAGGTTGCAATCTTAAATCAACGAGCCTTTACAATATCAGCT-G
1 GTAGGTCCACGAGCTATTTCAGAGGCTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAG
* * * * * *
114870613 AGAGCATAGGTCCGCGAGCTATTTTTGAAGCTGTAATCTTAAATCAGCGAGCCTTTGCAATATCA
66 -GAGCATAGGTCAGCGAGCTATTTTCGAAGCTGTAACCTTAAATCAACAAGCCTTTACAATATCA
114870678 GTCAGGAGCA
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
137 1 0.01
138 108 0.99
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (138 bp):
GTAGGTCCACGAGCTATTTCAGAGGCTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAG
GAGCATAGGTCAGCGAGCTATTTTCGAAGCTGTAACCTTAAATCAACAAGCCTTTACAATATCAA
CTGGAAGT
Found at i:114870678 original size:69 final size:70
Alignment explanation
Indices: 114870412--114870706 Score: 283
Period size: 69 Copynumber: 4.3 Consensus size: 70
114870402 GTTAGGAACG
* * * * *
114870412 TAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAATGAGCATTTACAATATCAACT-AG
1 TAGGTCCGCGAGCTATTTTAGAGGCTGCAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
*
114870476 GAGCG
66 GAGCA
** * ** * * *
114870481 TAGGTTAGCGAGCTATTTTCGAGGCTGTTACCTTATATCAACAAGCCTTTACAATATCAACTG-G
1 TAGGTCCGCGAGCTATTTTAGAGGCTGCAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
* **
114870545 AAGTG
66 GAGCA
* ** * *
114870550 TAGGTCCACGAGCTATTTCGGAGGTTGCAATCTTAAATCAACGAGCCTTTACAATATCAGCTGA-
1 TAGGTCCGCGAGCTATTTTAGAGGCTGCAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
114870614 GAGCA
66 GAGCA
* * * * * * *
114870619 TAGGTCCGCGAGCTATTTTTGAAGCTGTAATCTTAAATCAGCGAGCCTTTGCAATATC-AGTCAG
1 TAGGTCCGCGAGCTATTTTAGAGGCTGCAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
114870683 GAGCA
66 GAGCA
* *
114870688 TAGGTCCGTGAGCTGTTTT
1 TAGGTCCGCGAGCTATTTT
114870707 GGAGTTGCGA
Statistics
Matches: 182, Mismatches: 41, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
68 2 0.01
69 180 0.99
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (70 bp):
TAGGTCCGCGAGCTATTTTAGAGGCTGCAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
GAGCA
Found at i:114870701 original size:138 final size:138
Alignment explanation
Indices: 114870412--114870714 Score: 333
Period size: 138 Copynumber: 2.2 Consensus size: 138
114870402 GTTAGGAACG
* * * * *
114870412 TAGGTCTGCGAGCTATTTCAGAGGCTGCGATCTTAAATCAATGAGCATTTACAATATCAACTAGG
1 TAGGTCCGCGAGCTATTTCGGAGGTTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAGG
* * * * *
114870477 AGCGTAGGTTAGCGAGCTATTTTCGAGGCTGTTACCTTATATCAACAAGCCTTTACAATATCAAC
66 AGCATAGGTCAGCGAGCTATTTTCGAAGCTGTAACCTTAAATCAACAAGCCTTTACAATATCAAC
* **
114870542 TGGAAGTG
131 AGGAAGCA
* * *
114870550 TAGGTCCACGAGCTATTTCGGAGGTTGCAATCTTAAATCAACGAGCCTTTACAATATCAGCT-GA
1 TAGGTCCGCGAGCTATTTCGGAGGTTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAG-
* * * * * *
114870614 GAGCATAGGTCCGCGAGCTATTTTTGAAGCTGTAATCTTAAATCAGCGAGCCTTTGCAATATCAG
65 GAGCATAGGTCAGCGAGCTATTTTCGAAGCTGTAACCTTAAATCAACAAGCCTTTACAATATCA-
*
114870679 TCAGG-AGCA
129 ACAGGAAGCA
* * *
114870688 TAGGTCCGTGAGCTGTTTTGGA-GTTGC
1 TAGGTCCGCGAGCTATTTCGGAGGTTGC
114870715 GACACCAATT
Statistics
Matches: 136, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
137 6 0.04
138 127 0.93
139 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (138 bp):
TAGGTCCGCGAGCTATTTCGGAGGTTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAGG
AGCATAGGTCAGCGAGCTATTTTCGAAGCTGTAACCTTAAATCAACAAGCCTTTACAATATCAAC
AGGAAGCA
Found at i:114873320 original size:22 final size:22
Alignment explanation
Indices: 114873294--114873343 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
114873284 CGTATGGTAA
114873294 GCCGTGTGAATGATGAGGCCAG
1 GCCGTGTGAATGATGAGGCCAG
114873316 GCCGTGTGAATGATGAGGCCAG
1 GCCGTGTGAATGATGAGGCCAG
114873338 GCCGTG
1 GCCGTG
114873344 CGTGAAGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.42, T:0.18
Consensus pattern (22 bp):
GCCGTGTGAATGATGAGGCCAG
Found at i:114880921 original size:22 final size:22
Alignment explanation
Indices: 114880871--114880931 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
114880861 TAATTCTTTA
114880871 AATTTTT-AAAAT-TT-AAAAT
1 AATTTTTAAAAATATTAAAAAT
* *
114880890 AAATTATAAAAATATTAAAAAT
1 AATTTTTAAAAATATTAAAAAT
*
114880912 GATTTTTAAAAA-ATATAAAA
1 AATTTTTAAAAATAT-TAAAA
114880932 TTTATAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 5 0.15
20 5 0.15
21 4 0.12
22 19 0.58
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTTTTAAAAATATTAAAAAT
Found at i:114880922 original size:21 final size:22
Alignment explanation
Indices: 114880869--114880931 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 22
114880859 ATTAATTCTT
114880869 TAAATTTTTAAAAT-TT-AAAA
1 TAAATTTTTAAAATATTAAAAA
* *
114880889 TAAATTATAAAAATATTAAAAA
1 TAAATTTTTAAAATATTAAAAA
* *
114880911 T-GATTTTTAAAAAATATAAAA
1 TAAATTTTTAAAATAT-TAAAA
114880932 TTTATAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.35
21 12 0.35
22 10 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATTTTTAAAATATTAAAAA
Found at i:114882544 original size:24 final size:24
Alignment explanation
Indices: 114882509--114882566 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
114882499 TTTTTAGAAT
114882509 ATTTTTTATTTTTATAAATTATAA
1 ATTTTTTATTTTTATAAATTATAA
*
114882533 ATTTATTT-TTTTTATAAATTTTAA
1 ATTT-TTTATTTTTATAAATTATAA
114882557 ATATTTTTAT
1 AT-TTTTTAT
114882567 GATATTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTTTTTATTTTTATAAATTATAA
Found at i:114892463 original size:18 final size:17
Alignment explanation
Indices: 114892440--114892496 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
114892430 AGGTGAGAAG
114892440 TAAAAATTTAAGGGAAAA
1 TAAAAATTT-AGGGAAAA
*
114892458 TAAAAAGTTTTGGG-AAA
1 TAAAAA-TTTAGGGAAAA
* *
114892475 TAAAAGTTTGAGGGAAAG
1 TAAAAATTT-AGGGAAAA
114892493 TAAA
1 TAAA
114892497 TAGGGGGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 3 0.09
17 11 0.34
18 15 0.47
19 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (17 bp):
TAAAAATTTAGGGAAAA
Found at i:114892489 original size:17 final size:16
Alignment explanation
Indices: 114892440--114892496 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
114892430 AGGTGAGAAG
*
114892440 TAAAAATTTAAGGGAAAA
1 TAAAAGTTT-AGGG-AAA
*
114892458 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
114892475 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
114892492 GTAAA
1 -TAAA
114892497 TAGGGGGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.24
17 10 0.30
18 8 0.24
19 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:114892804 original size:29 final size:30
Alignment explanation
Indices: 114892746--114892804 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
114892736 ATGGAAGGGA
** * *
114892746 AGTAAAAGTTTTGGGGGGAAAGTGAGAAAG
1 AGTAAAAGTTTTAAGGGAAAAGTGAAAAAG
114892776 AGTAAAAGTTTTAAGGGAAAAGT-AAAAAG
1 AGTAAAAGTTTTAAGGGAAAAGTGAAAAAG
114892805 GTTTGGGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.20
Consensus pattern (30 bp):
AGTAAAAGTTTTAAGGGAAAAGTGAAAAAG
Found at i:114892861 original size:9 final size:9
Alignment explanation
Indices: 114892847--114892883 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
114892837 TATAGTTTGA
114892847 TATTCGAAT
1 TATTCGAAT
114892856 TATTCGAAT
1 TATTCGAAT
*
114892865 TATTCGAGT
1 TATTCGAAT
114892874 TATTCGAAT
1 TATTCGAAT
114892883 T
1 T
114892884 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:114894466 original size:14 final size:14
Alignment explanation
Indices: 114894447--114894477 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
114894437 TTGCATACTG
114894447 ACTTAGTTTCACAA
1 ACTTAGTTTCACAA
114894461 ACTTAGTTTCACAA
1 ACTTAGTTTCACAA
114894475 ACT
1 ACT
114894478 CTCTTTCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (14 bp):
ACTTAGTTTCACAA
Found at i:114895517 original size:20 final size:20
Alignment explanation
Indices: 114895480--114895517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
114895470 GAGCTAATGC
*
114895480 ACACGCCCGTGTGCTTTAGG
1 ACACGCCCGTGTACTTTAGG
*
114895500 ACACGCCCGTGTATTTTA
1 ACACGCCCGTGTACTTTA
114895518 CCCTGTATAA
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:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (20 bp):
ACACGCCCGTGTACTTTAGG
Found at i:114905025 original size:14 final size:15
Alignment explanation
Indices: 114904994--114905025 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
114904984 TTTTTTCTTG
*
114904994 AAAATTGATTTTGAA
1 AAAATTAATTTTGAA
114905009 AAAATTAATTTTGAA
1 AAAATTAATTTTGAA
114905024 AA
1 AA
114905026 GTGTTATGAA
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:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (15 bp):
AAAATTAATTTTGAA
Found at i:114905511 original size:16 final size:18
Alignment explanation
Indices: 114905490--114905523 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
114905480 TAGTAGCTAA
114905490 TAAATTTT-TG-AATTAG
1 TAAATTTTATGCAATTAG
114905506 TAAATTTTATGCAATTAG
1 TAAATTTTATGCAATTAG
114905524 GAGTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (18 bp):
TAAATTTTATGCAATTAG
Found at i:114906529 original size:25 final size:25
Alignment explanation
Indices: 114906481--114906529 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
114906471 ATAATTGATA
* * *
114906481 ATGAAATGGATTAATTTTGTATATT
1 ATGAAATAGATTAATTATGAATATT
*
114906506 ATGAAATATATTAATTATGAATAT
1 ATGAAATAGATTAATTATGAATAT
114906530 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTAATTATGAATATT
Found at i:114906986 original size:43 final size:43
Alignment explanation
Indices: 114906919--114907003 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
114906909 ATGTGATTAT
* * *
114906919 TATTGAAATGGCAAATATGGGAAATGAATATGAGATGAGAAAA
1 TATTGAAATGGCAAAGATGAGAAATGAATATGAAATGAGAAAA
114906962 TATTGAAATGGCAAAGATGAGAAATGAATATGAAATGAGAAA
1 TATTGAAATGGCAAAGATGAGAAATGAATATGAAATGAGAAA
114907004 TGAGAAATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.25, T:0.22
Consensus pattern (43 bp):
TATTGAAATGGCAAAGATGAGAAATGAATATGAAATGAGAAAA
Found at i:114907006 original size:25 final size:27
Alignment explanation
Indices: 114906978--114907035 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
114906968 AATGGCAAAG
114906978 ATGAGAAATG-AATATGAAATGA-GAA
1 ATGAGAAATGAAATATGAAATGATGAA
114907003 ATGAGAAATGAAATATGAAATGATGAA
1 ATGAGAAATGAAATATGAAATGATGAA
114907030 ATGAGA
1 ATGAGA
114907036 TGTGAAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 10 0.32
26 12 0.39
27 9 0.29
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (27 bp):
ATGAGAAATGAAATATGAAATGATGAA
Found at i:114907041 original size:20 final size:20
Alignment explanation
Indices: 114906985--114907042 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
114906975 AAGATGAGAA
*
114906985 ATGAATATGAAATGAGAAATG
1 ATGAA-ATGAAATGTGAAATG
*
114907006 A-GAAATGAAATATGAAATG
1 ATGAAATGAAATGTGAAATG
*
114907025 ATGAAATGAGATGTGAAA
1 ATGAAATGAAATGTGAAA
114907043 CTTAAAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 14 0.44
20 17 0.53
21 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (20 bp):
ATGAAATGAAATGTGAAATG
Found at i:114907050 original size:27 final size:26
Alignment explanation
Indices: 114906978--114907052 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
114906968 AATGGCAAAG
*
114906978 ATGAGAAATG-AATATGAAATGAGAA
1 ATGAGAAATGAAATATAAAATGAGAA
*
114907003 ATGAGAAATGAAATATGAAATGATGAA
1 ATGAGAAATGAAATATAAAATGA-GAA
**
114907030 ATGAGATGTGAAACT-TAAAATGA
1 ATGAGAAATGAAA-TATAAAATGA
114907053 ATTCAAGTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 10 0.23
26 12 0.27
27 21 0.48
28 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.23, T:0.23
Consensus pattern (26 bp):
ATGAGAAATGAAATATAAAATGAGAA
Done.